-- dump date 20120504_154758 -- class Genbank::misc_feature -- table misc_feature_note -- id note 298386000001 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 298386000002 TraA; Region: TraA; cl11503 298386000003 TraE protein; Region: TraE; cl05060 298386000004 TraK protein; Region: TraK; pfam06586 298386000005 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 298386000006 conjugal transfer pilus assembly protein TraB; Provisional; Region: PRK13729 298386000007 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 298386000008 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 298386000009 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 298386000010 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 298386000011 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386000012 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 298386000013 TraU protein; Region: TraU; cl06067 298386000014 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 298386000015 type-F conjugative transfer system mating-pair stabilization protein TraN; Region: TraN_Ftype; TIGR02750 298386000016 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 298386000017 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 298386000018 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 298386000019 type IV conjugative transfer system coupling protein TraD; Region: TraD_Ftype; TIGR02759 298386000020 F sex factor protein N terminal; Region: TraD_N; pfam12615 298386000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386000022 Walker A motif; other site 298386000023 ATP binding site [chemical binding]; other site 298386000024 Walker B motif; other site 298386000025 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 298386000026 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 298386000027 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386000028 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 298386000029 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 298386000030 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 298386000031 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 298386000032 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 298386000033 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 298386000034 P-loop; other site 298386000035 Magnesium ion binding site [ion binding]; other site 298386000036 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 298386000037 Magnesium ion binding site [ion binding]; other site 298386000038 ParB-like nuclease domain; Region: ParBc; cl02129 298386000039 Helix-turn-helix domains; Region: HTH; cl00088 298386000040 ParB family; Region: ParB; pfam08775 298386000041 Endonuclease I; Region: Endonuclease_1; cl01003 298386000042 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 298386000043 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 298386000044 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 298386000045 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 298386000046 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 298386000047 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 298386000048 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 298386000049 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09670 298386000050 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 298386000051 helicase Cas3; Provisional; Region: PRK09694 298386000052 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 298386000053 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386000054 LabA_like proteins; Region: LabA_like; cd06167 298386000055 putative metal binding site [ion binding]; other site 298386000056 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 298386000057 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386000058 Walker A/P-loop; other site 298386000059 ATP binding site [chemical binding]; other site 298386000060 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 298386000061 putative active site [active] 298386000062 putative metal-binding site [ion binding]; other site 298386000063 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 298386000064 Family description; Region: UvrD_C_2; cl15862 298386000065 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 298386000066 S-adenosylmethionine binding site [chemical binding]; other site 298386000067 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386000068 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 298386000069 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 298386000070 catalytic residues [active] 298386000071 catalytic nucleophile [active] 298386000072 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 298386000073 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 298386000074 putative metal binding site [ion binding]; other site 298386000075 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cl14879 298386000076 DDE domain; Region: DDE_Tnp_IS240; pfam13610 298386000077 DDE domain; Region: DDE_Tnp_IS240; pfam13610 298386000078 Integrase core domain; Region: rve; cl01316 298386000079 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 298386000080 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 298386000081 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 298386000082 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 298386000083 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386000084 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 298386000085 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 298386000086 trmE is a tRNA modification GTPase; Region: trmE; cd04164 298386000087 G1 box; other site 298386000088 GTP/Mg2+ binding site [chemical binding]; other site 298386000089 Switch I region; other site 298386000090 G2 box; other site 298386000091 Switch II region; other site 298386000092 G3 box; other site 298386000093 G4 box; other site 298386000094 G5 box; other site 298386000095 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 298386000096 membrane protein insertase; Provisional; Region: PRK01318 298386000097 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 298386000098 Ribonuclease P; Region: Ribonuclease_P; cl00457 298386000099 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 298386000100 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 298386000101 Walker A/P-loop; other site 298386000102 ATP binding site [chemical binding]; other site 298386000103 Q-loop/lid; other site 298386000104 ABC transporter signature motif; other site 298386000105 Walker B; other site 298386000106 D-loop; other site 298386000107 H-loop/switch region; other site 298386000108 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 298386000109 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386000110 dimer interface [polypeptide binding]; other site 298386000111 conserved gate region; other site 298386000112 putative PBP binding loops; other site 298386000113 ABC-ATPase subunit interface; other site 298386000114 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 298386000115 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 298386000116 substrate binding pocket [chemical binding]; other site 298386000117 membrane-bound complex binding site; other site 298386000118 hinge residues; other site 298386000119 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 298386000120 DnaA N-terminal domain; Region: DnaA_N; pfam11638 298386000121 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 298386000122 Walker A motif; other site 298386000123 ATP binding site [chemical binding]; other site 298386000124 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386000125 Walker B motif; other site 298386000126 arginine finger; other site 298386000127 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 298386000128 DnaA box-binding interface [nucleotide binding]; other site 298386000129 DNA polymerase III subunit beta; Validated; Region: PRK05643 298386000130 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 298386000131 putative DNA binding surface [nucleotide binding]; other site 298386000132 dimer interface [polypeptide binding]; other site 298386000133 beta-clamp/clamp loader binding surface; other site 298386000134 beta-clamp/translesion DNA polymerase binding surface; other site 298386000135 recombination protein F; Reviewed; Region: recF; PRK00064 298386000136 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386000137 Walker A/P-loop; other site 298386000138 ATP binding site [chemical binding]; other site 298386000139 Q-loop/lid; other site 298386000140 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386000141 ABC transporter signature motif; other site 298386000142 Walker B; other site 298386000143 D-loop; other site 298386000144 H-loop/switch region; other site 298386000145 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 298386000146 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 298386000147 Mg2+ binding site [ion binding]; other site 298386000148 G-X-G motif; other site 298386000149 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 298386000150 anchoring element; other site 298386000151 dimer interface [polypeptide binding]; other site 298386000152 ATP binding site [chemical binding]; other site 298386000153 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 298386000154 active site 298386000155 putative metal-binding site [ion binding]; other site 298386000156 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 298386000157 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 298386000158 FHIPEP family; Region: FHIPEP; pfam00771 298386000159 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 298386000160 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 298386000161 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 298386000162 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 298386000163 FliP family; Region: FliP; cl00593 298386000164 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 298386000165 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 298386000166 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 298386000167 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386000168 ligand binding site [chemical binding]; other site 298386000169 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 298386000170 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 298386000171 active site 298386000172 phosphorylation site [posttranslational modification] 298386000173 intermolecular recognition site; other site 298386000174 dimerization interface [polypeptide binding]; other site 298386000175 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 298386000176 Walker A motif; other site 298386000177 ATP binding site [chemical binding]; other site 298386000178 Walker B motif; other site 298386000179 arginine finger; other site 298386000180 Helix-turn-helix domains; Region: HTH; cl00088 298386000181 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 298386000182 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 298386000183 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 298386000184 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 298386000185 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 298386000186 MgtE intracellular N domain; Region: MgtE_N; cl15244 298386000187 FliG C-terminal domain; Region: FliG_C; pfam01706 298386000188 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 298386000189 Flagellar assembly protein FliH; Region: FliH; pfam02108 298386000190 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 298386000191 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 298386000192 Walker A motif/ATP binding site; other site 298386000193 Walker B motif; other site 298386000194 FlgN protein; Region: FlgN; cl09176 298386000195 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 298386000196 SAF-like; Region: SAF_2; pfam13144 298386000197 SAF domain; Region: SAF; cl00555 298386000198 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 298386000199 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 298386000200 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 298386000201 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 298386000202 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 298386000203 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 298386000204 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 298386000205 FlgD Ig-like domain; Region: FlgD_ig; cl15790 298386000206 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 298386000207 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 298386000208 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 298386000209 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 298386000210 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 298386000211 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 298386000212 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 298386000213 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 298386000214 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 298386000215 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 298386000216 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 298386000217 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 298386000218 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 298386000219 Rod binding protein; Region: Rod-binding; cl01626 298386000220 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 298386000221 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 298386000222 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 298386000223 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 298386000224 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 298386000225 flagellin; Reviewed; Region: PRK08869 298386000226 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 298386000227 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 298386000228 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 298386000229 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 298386000230 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 298386000231 Flagellar protein FliS; Region: FliS; cl00654 298386000232 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 298386000233 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 298386000234 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 298386000235 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 298386000236 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 298386000237 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 298386000238 DNA binding residues [nucleotide binding] 298386000239 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 298386000240 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 298386000241 hypothetical protein; Validated; Region: PRK06778 298386000242 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 298386000243 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386000244 ligand binding site [chemical binding]; other site 298386000245 StbA protein; Region: StbA; pfam06406 298386000246 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 298386000247 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 298386000248 putative dimer interface [polypeptide binding]; other site 298386000249 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 298386000250 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 298386000251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386000252 homodimer interface [polypeptide binding]; other site 298386000253 catalytic residue [active] 298386000254 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 298386000255 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 298386000256 dimer interface [polypeptide binding]; other site 298386000257 motif 1; other site 298386000258 active site 298386000259 motif 2; other site 298386000260 motif 3; other site 298386000261 putative outer membrane lipoprotein; Provisional; Region: PRK10510 298386000262 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386000263 ligand binding site [chemical binding]; other site 298386000264 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 298386000265 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 298386000266 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 298386000267 CPxP motif; other site 298386000268 Helix-turn-helix domains; Region: HTH; cl00088 298386000269 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386000270 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 298386000271 substrate binding pocket [chemical binding]; other site 298386000272 dimerization interface [polypeptide binding]; other site 298386000273 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 298386000274 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 298386000275 NADP binding site [chemical binding]; other site 298386000276 dimer interface [polypeptide binding]; other site 298386000277 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 298386000278 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 298386000279 dimer interface [polypeptide binding]; other site 298386000280 active site 298386000281 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 298386000282 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 298386000283 substrate binding site [chemical binding]; other site 298386000284 oxyanion hole (OAH) forming residues; other site 298386000285 trimer interface [polypeptide binding]; other site 298386000286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386000287 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 298386000288 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 298386000289 hypothetical protein; Provisional; Region: PRK11568 298386000290 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 298386000291 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 298386000292 Cation transport protein; Region: TrkH; cl10514 298386000293 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 298386000294 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386000295 Integrase core domain; Region: rve; cl01316 298386000296 Helix-turn-helix domains; Region: HTH; cl00088 298386000297 Winged helix-turn helix; Region: HTH_29; pfam13551 298386000298 Winged helix-turn helix; Region: HTH_33; pfam13592 298386000299 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 298386000300 Transposase; Region: DEDD_Tnp_IS110; pfam01548 298386000301 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 298386000302 Integrase core domain; Region: rve; cl01316 298386000303 Helix-turn-helix domains; Region: HTH; cl00088 298386000304 Winged helix-turn helix; Region: HTH_29; pfam13551 298386000305 Winged helix-turn helix; Region: HTH_33; pfam13592 298386000306 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 298386000307 Transposase; Region: DEDD_Tnp_IS110; pfam01548 298386000308 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 298386000309 Helix-turn-helix domains; Region: HTH; cl00088 298386000310 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 298386000311 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 298386000312 putative dimerization interface [polypeptide binding]; other site 298386000313 ketol-acid reductoisomerase; Validated; Region: PRK05225 298386000314 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386000315 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 298386000316 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 298386000317 Membrane fusogenic activity; Region: BMFP; cl01115 298386000318 multidrug efflux protein; Reviewed; Region: PRK09579 298386000319 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 298386000320 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 298386000321 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 298386000322 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 298386000323 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 298386000324 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386000325 Helix-turn-helix domains; Region: HTH; cl00088 298386000326 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 298386000327 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386000328 Family description; Region: UvrD_C_2; cl15862 298386000329 Cytochrome c; Region: Cytochrom_C; cl11414 298386000330 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 298386000331 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 298386000332 Walker A/P-loop; other site 298386000333 ATP binding site [chemical binding]; other site 298386000334 Q-loop/lid; other site 298386000335 ABC transporter signature motif; other site 298386000336 Walker B; other site 298386000337 D-loop; other site 298386000338 H-loop/switch region; other site 298386000339 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 298386000340 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 298386000341 Walker A/P-loop; other site 298386000342 ATP binding site [chemical binding]; other site 298386000343 Q-loop/lid; other site 298386000344 ABC transporter signature motif; other site 298386000345 Walker B; other site 298386000346 D-loop; other site 298386000347 H-loop/switch region; other site 298386000348 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 298386000349 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 298386000350 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 298386000351 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386000352 dimer interface [polypeptide binding]; other site 298386000353 conserved gate region; other site 298386000354 putative PBP binding loops; other site 298386000355 ABC-ATPase subunit interface; other site 298386000356 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 298386000357 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 298386000358 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386000359 dimer interface [polypeptide binding]; other site 298386000360 conserved gate region; other site 298386000361 putative PBP binding loops; other site 298386000362 ABC-ATPase subunit interface; other site 298386000363 CrcB-like protein; Region: CRCB; cl09114 298386000364 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386000365 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 298386000366 Ligand Binding Site [chemical binding]; other site 298386000367 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 298386000368 ThiC-associated domain; Region: ThiC-associated; pfam13667 298386000369 ThiC family; Region: ThiC; cl08031 298386000370 thiamine-phosphate pyrophosphorylase; Reviewed; Region: thiE; PRK12290 298386000371 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 298386000372 thiamine phosphate binding site [chemical binding]; other site 298386000373 active site 298386000374 pyrophosphate binding site [ion binding]; other site 298386000375 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 298386000376 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 298386000377 ATP binding site [chemical binding]; other site 298386000378 substrate interface [chemical binding]; other site 298386000379 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 298386000380 ThiS interaction site; other site 298386000381 putative active site [active] 298386000382 tetramer interface [polypeptide binding]; other site 298386000383 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 298386000384 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 298386000385 FeS/SAM binding site; other site 298386000386 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 298386000387 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 298386000388 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 298386000389 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 298386000390 active site 298386000391 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 298386000392 Helix-turn-helix domains; Region: HTH; cl00088 298386000393 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 298386000394 substrate binding pocket [chemical binding]; other site 298386000395 dimerization interface [polypeptide binding]; other site 298386000396 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 298386000397 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 298386000398 putative substrate translocation pore; other site 298386000399 EamA-like transporter family; Region: EamA; cl01037 298386000400 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 298386000401 DNA recombination protein RmuC; Provisional; Region: PRK10361 298386000402 RmuC family; Region: RmuC; pfam02646 298386000403 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 298386000404 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 298386000405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 298386000406 SCP-2 sterol transfer family; Region: SCP2; cl01225 298386000407 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 298386000408 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 298386000409 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 298386000410 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 298386000411 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 298386000412 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 298386000413 active site 298386000414 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 298386000415 dimer interface [polypeptide binding]; other site 298386000416 allosteric magnesium binding site [ion binding]; other site 298386000417 active site 298386000418 aspartate-rich active site metal binding site; other site 298386000419 Schiff base residues; other site 298386000420 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 298386000421 EamA-like transporter family; Region: EamA; cl01037 298386000422 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 298386000423 Ligand Binding Site [chemical binding]; other site 298386000424 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 298386000425 Ferritin-like domain; Region: Ferritin; pfam00210 298386000426 ferroxidase diiron center [ion binding]; other site 298386000427 Universal stress protein B (UspB); Region: UspB; cl11669 298386000428 Mechanosensitive ion channel; Region: MS_channel; pfam00924 298386000429 HI0933-like protein; Region: HI0933_like; pfam03486 298386000430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386000431 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 298386000432 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386000433 Helix-turn-helix domains; Region: HTH; cl00088 298386000434 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 298386000435 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 298386000436 NAD(P) binding site [chemical binding]; other site 298386000437 catalytic residues [active] 298386000438 DTW domain; Region: DTW; cl01221 298386000439 Predicted membrane protein [Function unknown]; Region: COG3650 298386000440 EVE domain; Region: EVE; cl00728 298386000441 putative hydrolase; Provisional; Region: PRK10976 298386000442 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 298386000443 active site 298386000444 motif I; other site 298386000445 motif II; other site 298386000446 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 298386000447 lysophospholipase L2; Provisional; Region: PRK10749 298386000448 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 298386000449 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 298386000450 LysE type translocator; Region: LysE; cl00565 298386000451 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 298386000452 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 298386000453 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 298386000454 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 298386000455 active site 298386000456 nucleophile elbow; other site 298386000457 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386000458 Helix-turn-helix domains; Region: HTH; cl00088 298386000459 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386000460 dimerization interface [polypeptide binding]; other site 298386000461 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386000462 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 298386000463 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 298386000464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386000465 NAD(P) binding site [chemical binding]; other site 298386000466 active site 298386000467 OpgC protein; Region: OpgC_C; cl00792 298386000468 Acyltransferase family; Region: Acyl_transf_3; pfam01757 298386000469 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 298386000470 YhhN-like protein; Region: YhhN; cl01505 298386000471 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 298386000472 Protein of unknown function (DUF2492); Region: DUF2492; cl11278 298386000473 MarC family integral membrane protein; Region: MarC; cl00919 298386000474 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 298386000475 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 298386000476 S-adenosylmethionine binding site [chemical binding]; other site 298386000477 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 298386000478 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 298386000479 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 298386000480 P loop; other site 298386000481 GTP binding site [chemical binding]; other site 298386000482 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 298386000483 FtsX-like permease family; Region: FtsX; cl15850 298386000484 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 298386000485 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 298386000486 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 298386000487 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 298386000488 DNA binding residues [nucleotide binding] 298386000489 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 298386000490 active site residue [active] 298386000491 intramembrane serine protease GlpG; Provisional; Region: PRK10907 298386000492 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 298386000493 Rhomboid family; Region: Rhomboid; cl11446 298386000494 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 298386000495 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 298386000496 putative substrate translocation pore; other site 298386000497 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 298386000498 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 298386000499 Helix-turn-helix domains; Region: HTH; cl00088 298386000500 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 298386000501 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 298386000502 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 298386000503 UTRA domain; Region: UTRA; cl01230 298386000504 UbiA prenyltransferase family; Region: UbiA; cl00337 298386000505 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 298386000506 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 298386000507 putative acyl-acceptor binding pocket; other site 298386000508 LexA repressor; Validated; Region: PRK00215 298386000509 Helix-turn-helix domains; Region: HTH; cl00088 298386000510 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 298386000511 Catalytic site [active] 298386000512 Leucine carboxyl methyltransferase; Region: LCM; cl01306 298386000513 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 298386000514 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 298386000515 Cytochrome c; Region: Cytochrom_C; cl11414 298386000516 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 298386000517 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 298386000518 Subunit I/III interface [polypeptide binding]; other site 298386000519 D-pathway; other site 298386000520 Subunit I/VIIc interface [polypeptide binding]; other site 298386000521 Subunit I/IV interface [polypeptide binding]; other site 298386000522 Subunit I/II interface [polypeptide binding]; other site 298386000523 Low-spin heme (heme a) binding site [chemical binding]; other site 298386000524 Subunit I/VIIa interface [polypeptide binding]; other site 298386000525 Subunit I/VIa interface [polypeptide binding]; other site 298386000526 Dimer interface; other site 298386000527 Putative water exit pathway; other site 298386000528 Binuclear center (heme a3/CuB) [ion binding]; other site 298386000529 K-pathway; other site 298386000530 Subunit I/Vb interface [polypeptide binding]; other site 298386000531 Putative proton exit pathway; other site 298386000532 Subunit I/VIb interface; other site 298386000533 Subunit I/VIc interface [polypeptide binding]; other site 298386000534 Electron transfer pathway; other site 298386000535 Subunit I/VIIIb interface [polypeptide binding]; other site 298386000536 Subunit I/VIIb interface [polypeptide binding]; other site 298386000537 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 298386000538 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 298386000539 Subunit III/VIIa interface [polypeptide binding]; other site 298386000540 Phospholipid binding site [chemical binding]; other site 298386000541 Subunit I/III interface [polypeptide binding]; other site 298386000542 Subunit III/VIb interface [polypeptide binding]; other site 298386000543 Subunit III/VIa interface; other site 298386000544 Subunit III/Vb interface [polypeptide binding]; other site 298386000545 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 298386000546 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cl00338 298386000547 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 298386000548 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 298386000549 UbiA prenyltransferase family; Region: UbiA; cl00337 298386000550 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 298386000551 MatE; Region: MatE; cl10513 298386000552 MatE; Region: MatE; cl10513 298386000553 3D domain; Region: 3D; cl01439 298386000554 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 298386000555 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 298386000556 NifU-like domain; Region: NifU; cl00484 298386000557 DNA utilization protein GntX; Provisional; Region: PRK11595 298386000558 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 298386000559 active site 298386000560 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 298386000561 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 298386000562 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 298386000563 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 298386000564 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 298386000565 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 298386000566 RNA binding site [nucleotide binding]; other site 298386000567 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 298386000568 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 298386000569 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 298386000570 osmolarity response regulator; Provisional; Region: ompR; PRK09468 298386000571 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 298386000572 active site 298386000573 phosphorylation site [posttranslational modification] 298386000574 intermolecular recognition site; other site 298386000575 dimerization interface [polypeptide binding]; other site 298386000576 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 298386000577 DNA binding site [nucleotide binding] 298386000578 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 298386000579 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386000580 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 298386000581 dimer interface [polypeptide binding]; other site 298386000582 phosphorylation site [posttranslational modification] 298386000583 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 298386000584 ATP binding site [chemical binding]; other site 298386000585 Mg2+ binding site [ion binding]; other site 298386000586 G-X-G motif; other site 298386000587 xanthine permease; Region: pbuX; TIGR03173 298386000588 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 298386000589 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 298386000590 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 298386000591 ssDNA binding site; other site 298386000592 generic binding surface II; other site 298386000593 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 298386000594 ATP binding site [chemical binding]; other site 298386000595 putative Mg++ binding site [ion binding]; other site 298386000596 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 298386000597 nucleotide binding region [chemical binding]; other site 298386000598 ATP-binding site [chemical binding]; other site 298386000599 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 298386000600 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 298386000601 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 298386000602 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 298386000603 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 298386000604 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 298386000605 synthetase active site [active] 298386000606 NTP binding site [chemical binding]; other site 298386000607 metal binding site [ion binding]; metal-binding site 298386000608 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 298386000609 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 298386000610 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 298386000611 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 298386000612 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 298386000613 catalytic site [active] 298386000614 G-X2-G-X-G-K; other site 298386000615 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 298386000616 HipA N-terminal domain; Region: Couple_hipA; cl11853 298386000617 HipA-like N-terminal domain; Region: HipA_N; pfam07805 298386000618 HipA-like C-terminal domain; Region: HipA_C; pfam07804 298386000619 SEC-C motif; Region: SEC-C; pfam02810 298386000620 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 298386000621 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 298386000622 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 298386000623 Protein of unknown function (DUF524); Region: DUF524; pfam04411 298386000624 hypothetical protein; Provisional; Region: PRK11820 298386000625 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 298386000626 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 298386000627 ribonuclease PH; Reviewed; Region: rph; PRK00173 298386000628 Ribonuclease PH; Region: RNase_PH_bact; cd11362 298386000629 hexamer interface [polypeptide binding]; other site 298386000630 active site 298386000631 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 298386000632 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 298386000633 active site 298386000634 division inhibitor protein; Provisional; Region: slmA; PRK09480 298386000635 Helix-turn-helix domains; Region: HTH; cl00088 298386000636 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 298386000637 Flavoprotein; Region: Flavoprotein; cl08021 298386000638 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 298386000639 hypothetical protein; Reviewed; Region: PRK00024 298386000640 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 298386000641 MPN+ (JAMM) motif; other site 298386000642 Zinc-binding site [ion binding]; other site 298386000643 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 298386000644 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 298386000645 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 298386000646 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 298386000647 DNA binding site [nucleotide binding] 298386000648 catalytic residue [active] 298386000649 H2TH interface [polypeptide binding]; other site 298386000650 putative catalytic residues [active] 298386000651 turnover-facilitating residue; other site 298386000652 intercalation triad [nucleotide binding]; other site 298386000653 8OG recognition residue [nucleotide binding]; other site 298386000654 putative reading head residues; other site 298386000655 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 298386000656 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 298386000657 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 298386000658 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 298386000659 putative NAD(P) binding site [chemical binding]; other site 298386000660 active site 298386000661 putative substrate binding site [chemical binding]; other site 298386000662 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 298386000663 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 298386000664 active site 298386000665 (T/H)XGH motif; other site 298386000666 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 298386000667 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 298386000668 putative active site [active] 298386000669 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 298386000670 ATP binding site [chemical binding]; other site 298386000671 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 298386000672 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 298386000673 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 298386000674 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 298386000675 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 298386000676 putative metal binding site; other site 298386000677 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 298386000678 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 298386000679 putative ADP-binding pocket [chemical binding]; other site 298386000680 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 298386000681 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 298386000682 O-Antigen ligase; Region: Wzy_C; cl04850 298386000683 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 298386000684 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 298386000685 putative acyl-acceptor binding pocket; other site 298386000686 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 298386000687 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 298386000688 NADP binding site [chemical binding]; other site 298386000689 homopentamer interface [polypeptide binding]; other site 298386000690 substrate binding site [chemical binding]; other site 298386000691 active site 298386000692 Helix-turn-helix domains; Region: HTH; cl00088 298386000693 Bacterial transcriptional repressor; Region: TetR; pfam13972 298386000694 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 298386000695 NodB motif; other site 298386000696 putative active site [active] 298386000697 putative catalytic site [active] 298386000698 Zn binding site [ion binding]; other site 298386000699 AmiB activator; Provisional; Region: PRK11637 298386000700 Sulfatase; Region: Sulfatase; cl10460 298386000701 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 298386000702 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 298386000703 active site residue [active] 298386000704 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 298386000705 SecA binding site; other site 298386000706 Preprotein binding site; other site 298386000707 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 298386000708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386000709 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 298386000710 serine acetyltransferase; Provisional; Region: cysE; PRK11132 298386000711 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 298386000712 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 298386000713 trimer interface [polypeptide binding]; other site 298386000714 active site 298386000715 substrate binding site [chemical binding]; other site 298386000716 CoA binding site [chemical binding]; other site 298386000717 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 298386000718 two-component sensor protein; Provisional; Region: cpxA; PRK09470 298386000719 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386000720 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 298386000721 dimer interface [polypeptide binding]; other site 298386000722 phosphorylation site [posttranslational modification] 298386000723 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 298386000724 ATP binding site [chemical binding]; other site 298386000725 Mg2+ binding site [ion binding]; other site 298386000726 G-X-G motif; other site 298386000727 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 298386000728 active site 298386000729 dimerization interface [polypeptide binding]; other site 298386000730 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 298386000731 DNA binding site [nucleotide binding] 298386000732 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 298386000733 active site 298386000734 phosphorylation site [posttranslational modification] 298386000735 intermolecular recognition site; other site 298386000736 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 298386000737 dimer interface [polypeptide binding]; other site 298386000738 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 298386000739 active site 298386000740 ADP/pyrophosphate binding site [chemical binding]; other site 298386000741 dimerization interface [polypeptide binding]; other site 298386000742 allosteric effector site; other site 298386000743 fructose-1,6-bisphosphate binding site; other site 298386000744 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 298386000745 substrate binding site [chemical binding]; other site 298386000746 dimer interface [polypeptide binding]; other site 298386000747 catalytic triad [active] 298386000748 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 298386000749 putative substrate binding pocket [chemical binding]; other site 298386000750 trimer interface [polypeptide binding]; other site 298386000751 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 298386000752 ferredoxin-NADP reductase; Provisional; Region: PRK10926 298386000753 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 298386000754 FAD binding pocket [chemical binding]; other site 298386000755 FAD binding motif [chemical binding]; other site 298386000756 phosphate binding motif [ion binding]; other site 298386000757 beta-alpha-beta structure motif; other site 298386000758 NAD binding pocket [chemical binding]; other site 298386000759 Predicted transcriptional regulator [Transcription]; Region: COG2345 298386000760 Helix-turn-helix domains; Region: HTH; cl00088 298386000761 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 298386000762 putative active site [active] 298386000763 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 298386000764 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 298386000765 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386000766 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 298386000767 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 298386000768 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_C39C; cd02419 298386000769 putative active site [active] 298386000770 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 298386000771 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 298386000772 Walker A/P-loop; other site 298386000773 ATP binding site [chemical binding]; other site 298386000774 Q-loop/lid; other site 298386000775 ABC transporter signature motif; other site 298386000776 Walker B; other site 298386000777 D-loop; other site 298386000778 H-loop/switch region; other site 298386000779 glycerol kinase; Provisional; Region: glpK; PRK00047 298386000780 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 298386000781 N- and C-terminal domain interface [polypeptide binding]; other site 298386000782 active site 298386000783 MgATP binding site [chemical binding]; other site 298386000784 catalytic site [active] 298386000785 metal binding site [ion binding]; metal-binding site 298386000786 glycerol binding site [chemical binding]; other site 298386000787 homotetramer interface [polypeptide binding]; other site 298386000788 homodimer interface [polypeptide binding]; other site 298386000789 FBP binding site [chemical binding]; other site 298386000790 protein IIAGlc interface [polypeptide binding]; other site 298386000791 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 298386000792 amphipathic channel; other site 298386000793 Asn-Pro-Ala signature motifs; other site 298386000794 Protein of unknown function (DUF904); Region: DUF904; cl11531 298386000795 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 298386000796 UbiA prenyltransferase family; Region: UbiA; cl00337 298386000797 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 298386000798 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 298386000799 Walker A motif; other site 298386000800 ATP binding site [chemical binding]; other site 298386000801 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386000802 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 298386000803 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 298386000804 active site 298386000805 HslU subunit interaction site [polypeptide binding]; other site 298386000806 Sporulation related domain; Region: SPOR; cl10051 298386000807 Sporulation related domain; Region: SPOR; cl10051 298386000808 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 298386000809 DNA binding site [nucleotide binding] 298386000810 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 298386000811 domain linker motif; other site 298386000812 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 298386000813 dimerization interface [polypeptide binding]; other site 298386000814 ligand binding site [chemical binding]; other site 298386000815 primosome assembly protein PriA; Validated; Region: PRK05580 298386000816 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 298386000817 ATP binding site [chemical binding]; other site 298386000818 putative Mg++ binding site [ion binding]; other site 298386000819 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386000820 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 298386000821 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 298386000822 Malic enzyme, N-terminal domain; Region: malic; pfam00390 298386000823 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 298386000824 putative NAD(P) binding site [chemical binding]; other site 298386000825 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence. MetJ...; Region: Met_repressor_MetJ; cd00490 298386000826 dimerization interface [polypeptide binding]; other site 298386000827 DNA binding site [nucleotide binding] 298386000828 corepressor binding sites; other site 298386000829 cystathionine gamma-synthase; Provisional; Region: PRK08861 298386000830 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 298386000831 homodimer interface [polypeptide binding]; other site 298386000832 substrate-cofactor binding pocket; other site 298386000833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386000834 catalytic residue [active] 298386000835 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 298386000836 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 298386000837 nucleotide binding site [chemical binding]; other site 298386000838 substrate binding site [chemical binding]; other site 298386000839 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386000840 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 298386000841 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 298386000842 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 298386000843 FAD binding site [chemical binding]; other site 298386000844 Helix-turn-helix domains; Region: HTH; cl00088 298386000845 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 298386000846 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 298386000847 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 298386000848 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 298386000849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386000850 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 298386000851 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 298386000852 nucleotide binding site [chemical binding]; other site 298386000853 substrate binding site [chemical binding]; other site 298386000854 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 298386000855 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 298386000856 ANP binding site [chemical binding]; other site 298386000857 Substrate Binding Site II [chemical binding]; other site 298386000858 Substrate Binding Site I [chemical binding]; other site 298386000859 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 298386000860 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 298386000861 active sites [active] 298386000862 tetramer interface [polypeptide binding]; other site 298386000863 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386000864 Protein of unknown function (DUF3624); Region: DUF3624; pfam12292 298386000865 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 298386000866 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386000867 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 298386000868 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 298386000869 catalytic triad [active] 298386000870 dimer interface [polypeptide binding]; other site 298386000871 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 298386000872 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 298386000873 Helix-turn-helix domains; Region: HTH; cl00088 298386000874 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 298386000875 dimerization interface [polypeptide binding]; other site 298386000876 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 298386000877 Transglycosylase; Region: Transgly; cl07896 298386000878 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 298386000879 Competence protein A; Region: Competence_A; pfam11104 298386000880 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 298386000881 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 298386000882 Pilus assembly protein, PilO; Region: PilO; cl01234 298386000883 Pilus assembly protein, PilP; Region: PilP; cl01235 298386000884 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 298386000885 Secretin and TonB N terminus short domain; Region: STN; cl06624 298386000886 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 298386000887 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 298386000888 shikimate kinase; Reviewed; Region: aroK; PRK00131 298386000889 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 298386000890 ADP binding site [chemical binding]; other site 298386000891 magnesium binding site [ion binding]; other site 298386000892 putative shikimate binding site; other site 298386000893 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 298386000894 active site 298386000895 dimer interface [polypeptide binding]; other site 298386000896 metal binding site [ion binding]; metal-binding site 298386000897 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386000898 AAA domain; Region: AAA_22; pfam13401 298386000899 Sporulation related domain; Region: SPOR; cl10051 298386000900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386000901 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 298386000902 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 298386000903 substrate binding site [chemical binding]; other site 298386000904 hexamer interface [polypeptide binding]; other site 298386000905 metal binding site [ion binding]; metal-binding site 298386000906 phosphoglycolate phosphatase; Provisional; Region: PRK13222 298386000907 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 298386000908 motif II; other site 298386000909 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 298386000910 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 298386000911 active site 298386000912 HIGH motif; other site 298386000913 dimer interface [polypeptide binding]; other site 298386000914 KMSKS motif; other site 298386000915 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 298386000916 generic binding surface I; other site 298386000917 generic binding surface II; other site 298386000918 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 298386000919 putative catalytic site [active] 298386000920 putative metal binding site [ion binding]; other site 298386000921 putative phosphate binding site [ion binding]; other site 298386000922 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 298386000923 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 298386000924 glutamine binding [chemical binding]; other site 298386000925 catalytic triad [active] 298386000926 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 298386000927 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 298386000928 inhibitor-cofactor binding pocket; inhibition site 298386000929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386000930 catalytic residue [active] 298386000931 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 298386000932 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 298386000933 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 298386000934 NAD(P) binding site [chemical binding]; other site 298386000935 catalytic residues [active] 298386000936 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 298386000937 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 298386000938 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 298386000939 ligand binding site [chemical binding]; other site 298386000940 flexible hinge region; other site 298386000941 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 298386000942 putative switch regulator; other site 298386000943 non-specific DNA interactions [nucleotide binding]; other site 298386000944 DNA binding site [nucleotide binding] 298386000945 sequence specific DNA binding site [nucleotide binding]; other site 298386000946 putative cAMP binding site [chemical binding]; other site 298386000947 OsmC-like protein; Region: OsmC; cl00767 298386000948 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386000949 active site 298386000950 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 298386000951 putative hydrolase; Provisional; Region: PRK10985 298386000952 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 298386000953 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386000954 DNA-binding site [nucleotide binding]; DNA binding site 298386000955 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 298386000956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386000957 homodimer interface [polypeptide binding]; other site 298386000958 catalytic residue [active] 298386000959 LysE type translocator; Region: LysE; cl00565 298386000960 Protein of unknown function (DUF2390); Region: DUF2390; cl02376 298386000961 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 298386000962 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 298386000963 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 298386000964 ABC transporter; Region: ABC_tran_2; pfam12848 298386000965 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 298386000966 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386000967 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 298386000968 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 298386000969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386000970 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 298386000971 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 298386000972 SlyX; Region: SlyX; cl01090 298386000973 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 298386000974 structural tetrad; other site 298386000975 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 298386000976 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 298386000977 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 298386000978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 298386000979 YheO-like PAS domain; Region: PAS_6; pfam08348 298386000980 Helix-turn-helix domains; Region: HTH; cl00088 298386000981 DsrE/DsrF-like family; Region: DrsE; cl00672 298386000982 DsrE/DsrF-like family; Region: DrsE; cl00672 298386000983 DsrE/DsrF-like family; Region: DrsE; cl00672 298386000984 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 298386000985 S17 interaction site [polypeptide binding]; other site 298386000986 S8 interaction site; other site 298386000987 16S rRNA interaction site [nucleotide binding]; other site 298386000988 streptomycin interaction site [chemical binding]; other site 298386000989 23S rRNA interaction site [nucleotide binding]; other site 298386000990 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 298386000991 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 298386000992 elongation factor G; Reviewed; Region: PRK00007 298386000993 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 298386000994 G1 box; other site 298386000995 putative GEF interaction site [polypeptide binding]; other site 298386000996 GTP/Mg2+ binding site [chemical binding]; other site 298386000997 Switch I region; other site 298386000998 G2 box; other site 298386000999 G3 box; other site 298386001000 Switch II region; other site 298386001001 G4 box; other site 298386001002 G5 box; other site 298386001003 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 298386001004 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 298386001005 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 298386001006 elongation factor Tu; Reviewed; Region: PRK00049 298386001007 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 298386001008 G1 box; other site 298386001009 GEF interaction site [polypeptide binding]; other site 298386001010 GTP/Mg2+ binding site [chemical binding]; other site 298386001011 Switch I region; other site 298386001012 G2 box; other site 298386001013 G3 box; other site 298386001014 Switch II region; other site 298386001015 G4 box; other site 298386001016 G5 box; other site 298386001017 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 298386001018 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 298386001019 Antibiotic Binding Site [chemical binding]; other site 298386001020 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 298386001021 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 298386001022 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 298386001023 heme binding site [chemical binding]; other site 298386001024 ferroxidase pore; other site 298386001025 ferroxidase diiron center [ion binding]; other site 298386001026 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 298386001027 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 298386001028 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 298386001029 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 298386001030 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 298386001031 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 298386001032 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 298386001033 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 298386001034 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 298386001035 putative translocon binding site; other site 298386001036 protein-rRNA interface [nucleotide binding]; other site 298386001037 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 298386001038 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 298386001039 G-X-X-G motif; other site 298386001040 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 298386001041 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 298386001042 23S rRNA interface [nucleotide binding]; other site 298386001043 5S rRNA interface [nucleotide binding]; other site 298386001044 putative antibiotic binding site [chemical binding]; other site 298386001045 L25 interface [polypeptide binding]; other site 298386001046 L27 interface [polypeptide binding]; other site 298386001047 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 298386001048 putative translocon interaction site; other site 298386001049 23S rRNA interface [nucleotide binding]; other site 298386001050 signal recognition particle (SRP54) interaction site; other site 298386001051 L23 interface [polypeptide binding]; other site 298386001052 trigger factor interaction site; other site 298386001053 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 298386001054 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 298386001055 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 298386001056 KOW motif; Region: KOW; cl00354 298386001057 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 298386001058 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 298386001059 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 298386001060 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 298386001061 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 298386001062 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 298386001063 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 298386001064 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 298386001065 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 298386001066 5S rRNA interface [nucleotide binding]; other site 298386001067 L5 interface [polypeptide binding]; other site 298386001068 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 298386001069 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 298386001070 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 298386001071 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 298386001072 23S rRNA binding site [nucleotide binding]; other site 298386001073 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 298386001074 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 298386001075 SecY translocase; Region: SecY; pfam00344 298386001076 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 298386001077 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 298386001078 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 298386001079 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 298386001080 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 298386001081 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 298386001082 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 298386001083 RNA binding surface [nucleotide binding]; other site 298386001084 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 298386001085 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 298386001086 alphaNTD homodimer interface [polypeptide binding]; other site 298386001087 alphaNTD - beta interaction site [polypeptide binding]; other site 298386001088 alphaNTD - beta' interaction site [polypeptide binding]; other site 298386001089 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 298386001090 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 298386001091 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 298386001092 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 298386001093 AAA domain; Region: AAA_31; pfam13614 298386001094 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 298386001095 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 298386001096 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 298386001097 SLBB domain; Region: SLBB; pfam10531 298386001098 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 298386001099 SLBB domain; Region: SLBB; pfam10531 298386001100 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 298386001101 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 298386001102 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 298386001103 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 298386001104 SLBB domain; Region: SLBB; pfam10531 298386001105 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386001106 ligand binding site [chemical binding]; other site 298386001107 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 298386001108 anti sigma factor interaction site; other site 298386001109 regulatory phosphorylation site [posttranslational modification]; other site 298386001110 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 298386001111 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 298386001112 DXD motif; other site 298386001113 Bacterial sugar transferase; Region: Bac_transf; cl00939 298386001114 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 298386001115 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 298386001116 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 298386001117 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: GT1_like_1; cd04950 298386001118 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 298386001119 putative homodimer interface [polypeptide binding]; other site 298386001120 O-Antigen ligase; Region: Wzy_C; cl04850 298386001121 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386001122 Integrase core domain; Region: rve; cl01316 298386001123 Helix-turn-helix domains; Region: HTH; cl00088 298386001124 Winged helix-turn helix; Region: HTH_29; pfam13551 298386001125 Winged helix-turn helix; Region: HTH_33; pfam13592 298386001126 Integrase core domain; Region: rve; cl01316 298386001127 homoserine O-succinyltransferase; Provisional; Region: PRK05368 298386001128 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 298386001129 proposed active site lysine [active] 298386001130 conserved cys residue [active] 298386001131 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 298386001132 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 298386001133 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 298386001134 FtsX-like permease family; Region: FtsX; cl15850 298386001135 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 298386001136 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 298386001137 Walker A/P-loop; other site 298386001138 ATP binding site [chemical binding]; other site 298386001139 Q-loop/lid; other site 298386001140 ABC transporter signature motif; other site 298386001141 Walker B; other site 298386001142 D-loop; other site 298386001143 H-loop/switch region; other site 298386001144 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 298386001145 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 298386001146 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl01158 298386001147 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 298386001148 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 298386001149 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 298386001150 Surface antigen; Region: Bac_surface_Ag; cl03097 298386001151 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 298386001152 AsmA-like C-terminal region; Region: AsmA_2; cl15864 298386001153 Family of unknown function (DUF490); Region: DUF490; pfam04357 298386001154 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 298386001155 dimerization interface [polypeptide binding]; other site 298386001156 putative active site pocket [active] 298386001157 putative catalytic residue [active] 298386001158 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 298386001159 active site residue [active] 298386001160 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 298386001161 dimer interface [polypeptide binding]; other site 298386001162 substrate binding site [chemical binding]; other site 298386001163 metal binding sites [ion binding]; metal-binding site 298386001164 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 298386001165 AMP binding site [chemical binding]; other site 298386001166 metal binding site [ion binding]; metal-binding site 298386001167 active site 298386001168 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 298386001169 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 298386001170 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 298386001171 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 298386001172 aromatic acid decarboxylase; Validated; Region: PRK05920 298386001173 Flavoprotein; Region: Flavoprotein; cl08021 298386001174 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 298386001175 Ligand Binding Site [chemical binding]; other site 298386001176 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386001177 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386001178 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 298386001179 NMT1-like family; Region: NMT1_2; cl15260 298386001180 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 298386001181 arginine repressor; Provisional; Region: PRK05066 298386001182 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 298386001183 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 298386001184 malate dehydrogenase; Provisional; Region: PRK05086 298386001185 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 298386001186 NAD binding site [chemical binding]; other site 298386001187 dimerization interface [polypeptide binding]; other site 298386001188 Substrate binding site [chemical binding]; other site 298386001189 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386001190 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 298386001191 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 298386001192 substrate binding pocket [chemical binding]; other site 298386001193 chain length determination region; other site 298386001194 substrate-Mg2+ binding site; other site 298386001195 catalytic residues [active] 298386001196 aspartate-rich region 1; other site 298386001197 active site lid residues [active] 298386001198 aspartate-rich region 2; other site 298386001199 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 298386001200 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 298386001201 EamA-like transporter family; Region: EamA; cl01037 298386001202 GTPase CgtA; Reviewed; Region: obgE; PRK12298 298386001203 GTP1/OBG; Region: GTP1_OBG; pfam01018 298386001204 Obg GTPase; Region: Obg; cd01898 298386001205 G1 box; other site 298386001206 GTP/Mg2+ binding site [chemical binding]; other site 298386001207 Switch I region; other site 298386001208 G2 box; other site 298386001209 G3 box; other site 298386001210 Switch II region; other site 298386001211 G4 box; other site 298386001212 G5 box; other site 298386001213 Uncharacterized conserved protein [Function unknown]; Region: COG2966 298386001214 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 298386001215 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 298386001216 folate binding site [chemical binding]; other site 298386001217 NADP+ binding site [chemical binding]; other site 298386001218 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 298386001219 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 298386001220 active site 298386001221 metal binding site [ion binding]; metal-binding site 298386001222 Protein of unknown function (DUF525); Region: DUF525; cl01119 298386001223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386001224 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 298386001225 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 298386001226 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 298386001227 SurA N-terminal domain; Region: SurA_N_3; cl07813 298386001228 PPIC-type PPIASE domain; Region: Rotamase; cl08278 298386001229 PPIC-type PPIASE domain; Region: Rotamase; cl08278 298386001230 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 298386001231 OstA-like protein; Region: OstA; cl00844 298386001232 Organic solvent tolerance protein; Region: OstA_C; pfam04453 298386001233 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 298386001234 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 298386001235 putative metal binding site [ion binding]; other site 298386001236 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 298386001237 HSP70 interaction site [polypeptide binding]; other site 298386001238 glycerate dehydrogenase; Provisional; Region: PRK06932 298386001239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386001240 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 298386001241 active site 298386001242 ATP-dependent helicase HepA; Validated; Region: PRK04914 298386001243 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 298386001244 ATP binding site [chemical binding]; other site 298386001245 putative Mg++ binding site [ion binding]; other site 298386001246 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 298386001247 nucleotide binding region [chemical binding]; other site 298386001248 ATP-binding site [chemical binding]; other site 298386001249 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 298386001250 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 298386001251 putative active site [active] 298386001252 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386001253 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 298386001254 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386001255 Walker A/P-loop; other site 298386001256 ATP binding site [chemical binding]; other site 298386001257 Q-loop/lid; other site 298386001258 ABC transporter signature motif; other site 298386001259 Walker B; other site 298386001260 D-loop; other site 298386001261 H-loop/switch region; other site 298386001262 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 298386001263 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386001264 dimer interface [polypeptide binding]; other site 298386001265 conserved gate region; other site 298386001266 putative PBP binding loops; other site 298386001267 ABC-ATPase subunit interface; other site 298386001268 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386001269 dimer interface [polypeptide binding]; other site 298386001270 conserved gate region; other site 298386001271 putative PBP binding loops; other site 298386001272 ABC-ATPase subunit interface; other site 298386001273 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 298386001274 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 298386001275 Protein of unknown function, DUF547; Region: DUF547; pfam04784 298386001276 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 298386001277 substrate binding site [chemical binding]; other site 298386001278 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 298386001279 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 298386001280 substrate binding site [chemical binding]; other site 298386001281 ligand binding site [chemical binding]; other site 298386001282 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 298386001283 tartrate dehydrogenase; Provisional; Region: PRK08194 298386001284 2-isopropylmalate synthase; Validated; Region: PRK00915 298386001285 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 298386001286 active site 298386001287 catalytic residues [active] 298386001288 metal binding site [ion binding]; metal-binding site 298386001289 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 298386001290 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386001291 Helix-turn-helix domains; Region: HTH; cl00088 298386001292 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 298386001293 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 298386001294 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 298386001295 Protein export membrane protein; Region: SecD_SecF; cl14618 298386001296 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 298386001297 Helix-turn-helix domains; Region: HTH; cl00088 298386001298 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 298386001299 putative substrate binding pocket [chemical binding]; other site 298386001300 putative dimerization interface [polypeptide binding]; other site 298386001301 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 298386001302 AMP-binding enzyme; Region: AMP-binding; cl15778 298386001303 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 298386001304 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 298386001305 PYR/PP interface [polypeptide binding]; other site 298386001306 dimer interface [polypeptide binding]; other site 298386001307 TPP binding site [chemical binding]; other site 298386001308 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 298386001309 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 298386001310 TPP-binding site [chemical binding]; other site 298386001311 dimer interface [polypeptide binding]; other site 298386001312 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 298386001313 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 298386001314 putative valine binding site [chemical binding]; other site 298386001315 dimer interface [polypeptide binding]; other site 298386001316 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 298386001317 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386001318 DNA-binding site [nucleotide binding]; DNA binding site 298386001319 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 298386001320 FCD domain; Region: FCD; cl11656 298386001321 pyruvate kinase; Provisional; Region: PRK09206 298386001322 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; cd00288 298386001323 domain interfaces; other site 298386001324 active site 298386001325 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 298386001326 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 298386001327 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 298386001328 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 298386001329 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 298386001330 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 298386001331 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 298386001332 DNA binding residues [nucleotide binding] 298386001333 DNA primase; Validated; Region: dnaG; PRK05667 298386001334 CHC2 zinc finger; Region: zf-CHC2; cl15369 298386001335 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 298386001336 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 298386001337 active site 298386001338 metal binding site [ion binding]; metal-binding site 298386001339 interdomain interaction site; other site 298386001340 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 298386001341 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 298386001342 GatB domain; Region: GatB_Yqey; cl11497 298386001343 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 298386001344 UGMP family protein; Validated; Region: PRK09604 298386001345 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 298386001346 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 298386001347 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 298386001348 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 298386001349 homooctamer interface [polypeptide binding]; other site 298386001350 active site 298386001351 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 298386001352 catalytic center binding site [active] 298386001353 ATP binding site [chemical binding]; other site 298386001354 Bacitracin resistance protein BacA; Region: BacA; cl00858 298386001355 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 298386001356 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 298386001357 active site 298386001358 NTP binding site [chemical binding]; other site 298386001359 metal binding triad [ion binding]; metal-binding site 298386001360 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 298386001361 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 298386001362 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 298386001363 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 298386001364 Walker A motif; other site 298386001365 ATP binding site [chemical binding]; other site 298386001366 Walker B motif; other site 298386001367 arginine finger; other site 298386001368 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 298386001369 SH3 domain-containing protein; Provisional; Region: PRK10884 298386001370 Bacterial SH3 domain; Region: SH3_3; cl02551 298386001371 Phosphate transporter family; Region: PHO4; cl00396 298386001372 Phosphate transporter family; Region: PHO4; cl00396 298386001373 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 298386001374 Uncharacterized conserved protein [Function unknown]; Region: COG3025 298386001375 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 298386001376 putative active site [active] 298386001377 putative metal binding residues [ion binding]; other site 298386001378 signature motif; other site 298386001379 putative triphosphate binding site [ion binding]; other site 298386001380 CHAD domain; Region: CHAD; cl10506 298386001381 Ion channel; Region: Ion_trans_2; cl11596 298386001382 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 298386001383 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386001384 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386001385 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386001386 dimer interface [polypeptide binding]; other site 298386001387 putative CheW interface [polypeptide binding]; other site 298386001388 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 298386001389 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 298386001390 metal binding triad; other site 298386001391 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 298386001392 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 298386001393 metal binding triad; other site 298386001394 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 298386001395 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 298386001396 putative ribose interaction site [chemical binding]; other site 298386001397 putative ADP binding site [chemical binding]; other site 298386001398 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 298386001399 active site 298386001400 nucleotide binding site [chemical binding]; other site 298386001401 HIGH motif; other site 298386001402 KMSKS motif; other site 298386001403 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 298386001404 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 298386001405 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 298386001406 dimer interface [polypeptide binding]; other site 298386001407 ADP-ribose binding site [chemical binding]; other site 298386001408 active site 298386001409 nudix motif; other site 298386001410 metal binding site [ion binding]; metal-binding site 298386001411 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 298386001412 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 298386001413 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 298386001414 active site 298386001415 metal binding site [ion binding]; metal-binding site 298386001416 hexamer interface [polypeptide binding]; other site 298386001417 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 298386001418 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 298386001419 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 298386001420 ATP binding site [chemical binding]; other site 298386001421 Mg2+ binding site [ion binding]; other site 298386001422 G-X-G motif; other site 298386001423 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 298386001424 anchoring element; other site 298386001425 dimer interface [polypeptide binding]; other site 298386001426 ATP binding site [chemical binding]; other site 298386001427 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 298386001428 active site 298386001429 metal binding site [ion binding]; metal-binding site 298386001430 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 298386001431 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 298386001432 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 298386001433 CAP-like domain; other site 298386001434 active site 298386001435 primary dimer interface [polypeptide binding]; other site 298386001436 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 298386001437 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 298386001438 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 298386001439 putative symporter YagG; Provisional; Region: PRK09669 298386001440 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 298386001441 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 298386001442 active site 298386001443 catalytic residues [active] 298386001444 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 298386001445 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 298386001446 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386001447 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 298386001448 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 298386001449 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 298386001450 Fibronectin type III-like domain; Region: Fn3-like; cl15273 298386001451 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 298386001452 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 298386001453 putative ligand binding site [chemical binding]; other site 298386001454 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 298386001455 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 298386001456 Walker A/P-loop; other site 298386001457 ATP binding site [chemical binding]; other site 298386001458 Q-loop/lid; other site 298386001459 ABC transporter signature motif; other site 298386001460 Walker B; other site 298386001461 D-loop; other site 298386001462 H-loop/switch region; other site 298386001463 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 298386001464 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 298386001465 TM-ABC transporter signature motif; other site 298386001466 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 298386001467 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 298386001468 putative dimerization interface [polypeptide binding]; other site 298386001469 putative ligand binding site [chemical binding]; other site 298386001470 xylulokinase; Provisional; Region: PRK15027 298386001471 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 298386001472 N- and C-terminal domain interface [polypeptide binding]; other site 298386001473 active site 298386001474 catalytic site [active] 298386001475 metal binding site [ion binding]; metal-binding site 298386001476 xylulose binding site [chemical binding]; other site 298386001477 putative ATP binding site [chemical binding]; other site 298386001478 homodimer interface [polypeptide binding]; other site 298386001479 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 298386001480 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 298386001481 putative acyl-acceptor binding pocket; other site 298386001482 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 298386001483 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 298386001484 active site 298386001485 metal binding site [ion binding]; metal-binding site 298386001486 nudix motif; other site 298386001487 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 298386001488 homotrimer interaction site [polypeptide binding]; other site 298386001489 putative active site [active] 298386001490 arginine repressor; Provisional; Region: PRK05066 298386001491 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 298386001492 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 298386001493 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 298386001494 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 298386001495 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 298386001496 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 298386001497 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 298386001498 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386001499 ornithine carbamoyltransferase; Validated; Region: PRK02102 298386001500 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 298386001501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386001502 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 298386001503 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 298386001504 putative substrate binding site [chemical binding]; other site 298386001505 nucleotide binding site [chemical binding]; other site 298386001506 nucleotide binding site [chemical binding]; other site 298386001507 homodimer interface [polypeptide binding]; other site 298386001508 Amidinotransferase; Region: Amidinotransf; cl12043 298386001509 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386001510 RNase E inhibitor protein; Provisional; Region: PRK11191 298386001511 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 298386001512 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 298386001513 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 298386001514 Helix-turn-helix domains; Region: HTH; cl00088 298386001515 Predicted acetyltransferase [General function prediction only]; Region: COG3153 298386001516 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386001517 Coenzyme A binding pocket [chemical binding]; other site 298386001518 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 298386001519 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 298386001520 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 298386001521 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 298386001522 HIGH motif; other site 298386001523 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 298386001524 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 298386001525 active site 298386001526 KMSKS motif; other site 298386001527 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 298386001528 tRNA binding surface [nucleotide binding]; other site 298386001529 anticodon binding site; other site 298386001530 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 298386001531 multifunctional aminopeptidase A; Provisional; Region: PRK00913 298386001532 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 298386001533 interface (dimer of trimers) [polypeptide binding]; other site 298386001534 Substrate-binding/catalytic site; other site 298386001535 Zn-binding sites [ion binding]; other site 298386001536 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 298386001537 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 298386001538 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 298386001539 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 298386001540 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 298386001541 RDD family; Region: RDD; cl00746 298386001542 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 298386001543 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 298386001544 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 298386001545 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386001546 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 298386001547 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 298386001548 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 298386001549 NAD binding site [chemical binding]; other site 298386001550 sugar binding site [chemical binding]; other site 298386001551 divalent metal binding site [ion binding]; other site 298386001552 tetramer (dimer of dimers) interface [polypeptide binding]; other site 298386001553 dimer interface [polypeptide binding]; other site 298386001554 YdjC-like protein; Region: YdjC; cl01344 298386001555 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 298386001556 DNA binding site [nucleotide binding] 298386001557 domain linker motif; other site 298386001558 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 298386001559 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 298386001560 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 298386001561 putative metal binding site [ion binding]; other site 298386001562 Integrase core domain; Region: rve; cl01316 298386001563 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 298386001564 Transposase; Region: DEDD_Tnp_IS110; pfam01548 298386001565 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 298386001566 Integrase core domain; Region: rve; cl01316 298386001567 Helix-turn-helix domains; Region: HTH; cl00088 298386001568 Winged helix-turn helix; Region: HTH_29; pfam13551 298386001569 Winged helix-turn helix; Region: HTH_33; pfam13592 298386001570 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386001571 Helix-turn-helix domains; Region: HTH; cl00088 298386001572 Helix-turn-helix domains; Region: HTH; cl00088 298386001573 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 298386001574 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 298386001575 active site 298386001576 substrate binding site [chemical binding]; other site 298386001577 metal binding site [ion binding]; metal-binding site 298386001578 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 298386001579 Putative carbohydrate binding domain; Region: CBM_X; cl05621 298386001580 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 298386001581 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 298386001582 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 298386001583 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 298386001584 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 298386001585 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 298386001586 active site 298386001587 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 298386001588 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 298386001589 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 298386001590 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 298386001591 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 298386001592 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 298386001593 Walker A/P-loop; other site 298386001594 ATP binding site [chemical binding]; other site 298386001595 Q-loop/lid; other site 298386001596 ABC transporter signature motif; other site 298386001597 Walker B; other site 298386001598 D-loop; other site 298386001599 H-loop/switch region; other site 298386001600 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 298386001601 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 298386001602 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 298386001603 Walker A/P-loop; other site 298386001604 ATP binding site [chemical binding]; other site 298386001605 Q-loop/lid; other site 298386001606 ABC transporter signature motif; other site 298386001607 Walker B; other site 298386001608 D-loop; other site 298386001609 H-loop/switch region; other site 298386001610 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 298386001611 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386001612 dimer interface [polypeptide binding]; other site 298386001613 conserved gate region; other site 298386001614 putative PBP binding loops; other site 298386001615 ABC-ATPase subunit interface; other site 298386001616 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 298386001617 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 298386001618 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 298386001619 substrate binding site [chemical binding]; other site 298386001620 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 298386001621 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 298386001622 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386001623 dimerization interface [polypeptide binding]; other site 298386001624 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 298386001625 dimer interface [polypeptide binding]; other site 298386001626 phosphorylation site [posttranslational modification] 298386001627 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 298386001628 ATP binding site [chemical binding]; other site 298386001629 Mg2+ binding site [ion binding]; other site 298386001630 G-X-G motif; other site 298386001631 Response regulator receiver domain; Region: Response_reg; pfam00072 298386001632 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 298386001633 active site 298386001634 phosphorylation site [posttranslational modification] 298386001635 intermolecular recognition site; other site 298386001636 dimerization interface [polypeptide binding]; other site 298386001637 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 298386001638 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 298386001639 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 298386001640 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 298386001641 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 298386001642 S-adenosylmethionine binding site [chemical binding]; other site 298386001643 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 298386001644 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 298386001645 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 298386001646 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 298386001647 inhibitor-cofactor binding pocket; inhibition site 298386001648 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386001649 catalytic residue [active] 298386001650 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 298386001651 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 298386001652 Cl- selectivity filter; other site 298386001653 Cl- binding residues [ion binding]; other site 298386001654 pore gating glutamate residue; other site 298386001655 dimer interface [polypeptide binding]; other site 298386001656 H+/Cl- coupling transport residue; other site 298386001657 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 298386001658 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 298386001659 putative peptidase; Provisional; Region: PRK11649 298386001660 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 298386001661 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 298386001662 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 298386001663 active site 298386001664 HIGH motif; other site 298386001665 dimer interface [polypeptide binding]; other site 298386001666 KMSKS motif; other site 298386001667 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 298386001668 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 298386001669 hypothetical protein; Provisional; Region: PRK10578 298386001670 UPF0126 domain; Region: UPF0126; pfam03458 298386001671 UPF0126 domain; Region: UPF0126; pfam03458 298386001672 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 298386001673 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 298386001674 cobalamin binding residues [chemical binding]; other site 298386001675 putative BtuC binding residues; other site 298386001676 dimer interface [polypeptide binding]; other site 298386001677 CobD/Cbib protein; Region: CobD_Cbib; cl00561 298386001678 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 298386001679 5'-methylthioadenosine nucleosidase; Region: PLN02584 298386001680 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 298386001681 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386001682 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 298386001683 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 298386001684 active site 298386001685 dimer interface [polypeptide binding]; other site 298386001686 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 298386001687 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 298386001688 active site 298386001689 FMN binding site [chemical binding]; other site 298386001690 substrate binding site [chemical binding]; other site 298386001691 3Fe-4S cluster binding site [ion binding]; other site 298386001692 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 298386001693 domain interface; other site 298386001694 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 298386001695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386001696 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 298386001697 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 298386001698 active site 298386001699 dimer interface [polypeptide binding]; other site 298386001700 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 298386001701 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 298386001702 active site 298386001703 FMN binding site [chemical binding]; other site 298386001704 substrate binding site [chemical binding]; other site 298386001705 3Fe-4S cluster binding site [ion binding]; other site 298386001706 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 298386001707 domain interface; other site 298386001708 radical SAM protein, TIGR01212 family; Region: TIGR01212 298386001709 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 298386001710 FeS/SAM binding site; other site 298386001711 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 298386001712 PAS fold; Region: PAS_4; pfam08448 298386001713 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 298386001714 putative active site [active] 298386001715 heme pocket [chemical binding]; other site 298386001716 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386001717 metal binding site [ion binding]; metal-binding site 298386001718 active site 298386001719 I-site; other site 298386001720 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 298386001721 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 298386001722 putative active site [active] 298386001723 heme pocket [chemical binding]; other site 298386001724 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 298386001725 dimer interface [polypeptide binding]; other site 298386001726 phosphorylation site [posttranslational modification] 298386001727 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 298386001728 ATP binding site [chemical binding]; other site 298386001729 Mg2+ binding site [ion binding]; other site 298386001730 G-X-G motif; other site 298386001731 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 298386001732 active site 298386001733 phosphorylation site [posttranslational modification] 298386001734 intermolecular recognition site; other site 298386001735 dimerization interface [polypeptide binding]; other site 298386001736 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 298386001737 putative binding surface; other site 298386001738 active site 298386001739 two-component response regulator; Provisional; Region: PRK11173 298386001740 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 298386001741 active site 298386001742 phosphorylation site [posttranslational modification] 298386001743 intermolecular recognition site; other site 298386001744 dimerization interface [polypeptide binding]; other site 298386001745 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 298386001746 DNA binding site [nucleotide binding] 298386001747 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 298386001748 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 298386001749 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 298386001750 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 298386001751 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 298386001752 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 298386001753 putative catalytic residues [active] 298386001754 putative nucleotide binding site [chemical binding]; other site 298386001755 putative aspartate binding site [chemical binding]; other site 298386001756 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 298386001757 dimer interface [polypeptide binding]; other site 298386001758 putative threonine allosteric regulatory site; other site 298386001759 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 298386001760 putative threonine allosteric regulatory site; other site 298386001761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386001762 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 298386001763 homoserine kinase; Provisional; Region: PRK01212 298386001764 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 298386001765 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 298386001766 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 298386001767 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386001768 catalytic residue [active] 298386001769 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 298386001770 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 298386001771 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 298386001772 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 298386001773 DNA interaction; other site 298386001774 Metal-binding active site; metal-binding site 298386001775 AP (apurinic/apyrimidinic) site pocket; other site 298386001776 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 298386001777 ligand binding site [chemical binding]; other site 298386001778 active site 298386001779 UGI interface [polypeptide binding]; other site 298386001780 catalytic site [active] 298386001781 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 298386001782 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 298386001783 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 298386001784 Protein of unknown function (DUF328); Region: DUF328; cl01143 298386001785 helicase 45; Provisional; Region: PTZ00424 298386001786 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 298386001787 ATP binding site [chemical binding]; other site 298386001788 Mg++ binding site [ion binding]; other site 298386001789 motif III; other site 298386001790 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 298386001791 nucleotide binding region [chemical binding]; other site 298386001792 ATP-binding site [chemical binding]; other site 298386001793 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 298386001794 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 298386001795 S-adenosylmethionine binding site [chemical binding]; other site 298386001796 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 298386001797 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386001798 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 298386001799 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 298386001800 active site 298386001801 Int/Topo IB signature motif; other site 298386001802 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 298386001803 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 298386001804 dimerization domain [polypeptide binding]; other site 298386001805 dimer interface [polypeptide binding]; other site 298386001806 catalytic residues [active] 298386001807 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 298386001808 DHH family; Region: DHH; pfam01368 298386001809 DHHA1 domain; Region: DHHA1; pfam02272 298386001810 peptide chain release factor 2; Validated; Region: prfB; PRK00578 298386001811 RF-1 domain; Region: RF-1; cl02875 298386001812 RF-1 domain; Region: RF-1; cl02875 298386001813 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 298386001814 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 298386001815 dimer interface [polypeptide binding]; other site 298386001816 putative anticodon binding site; other site 298386001817 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 298386001818 motif 1; other site 298386001819 active site 298386001820 motif 2; other site 298386001821 motif 3; other site 298386001822 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 298386001823 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 298386001824 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 298386001825 Walker A motif; other site 298386001826 ATP binding site [chemical binding]; other site 298386001827 Walker B motif; other site 298386001828 arginine finger; other site 298386001829 Helix-turn-helix domains; Region: HTH; cl00088 298386001830 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 298386001831 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 298386001832 active site 298386001833 catalytic tetrad [active] 298386001834 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 298386001835 putative DNA-binding cleft [nucleotide binding]; other site 298386001836 putative DNA clevage site; other site 298386001837 molecular lever; other site 298386001838 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 298386001839 putative active site [active] 298386001840 Ap4A binding site [chemical binding]; other site 298386001841 nudix motif; other site 298386001842 putative metal binding site [ion binding]; other site 298386001843 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 298386001844 GAF domain; Region: GAF; cl15785 298386001845 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 298386001846 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 298386001847 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 298386001848 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 298386001849 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 298386001850 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 298386001851 dimerization interface [polypeptide binding]; other site 298386001852 active site 298386001853 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 298386001854 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 298386001855 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 298386001856 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 298386001857 Helix-turn-helix domains; Region: HTH; cl00088 298386001858 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 298386001859 putative dimerization interface [polypeptide binding]; other site 298386001860 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 298386001861 dimerization interface [polypeptide binding]; other site 298386001862 putative DNA binding site [nucleotide binding]; other site 298386001863 putative Zn2+ binding site [ion binding]; other site 298386001864 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 298386001865 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 298386001866 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 298386001867 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 298386001868 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 298386001869 active site 298386001870 Riboflavin kinase; Region: Flavokinase; cl03312 298386001871 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 298386001872 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 298386001873 active site 298386001874 HIGH motif; other site 298386001875 nucleotide binding site [chemical binding]; other site 298386001876 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 298386001877 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 298386001878 active site 298386001879 KMSKS motif; other site 298386001880 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 298386001881 tRNA binding surface [nucleotide binding]; other site 298386001882 anticodon binding site; other site 298386001883 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 298386001884 lipoprotein signal peptidase; Provisional; Region: PRK14787 298386001885 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 298386001886 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 298386001887 LytB protein; Region: LYTB; cl00507 298386001888 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 298386001889 dihydrodipicolinate reductase; Provisional; Region: PRK00048 298386001890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386001891 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 298386001892 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 298386001893 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 298386001894 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 298386001895 catalytic site [active] 298386001896 subunit interface [polypeptide binding]; other site 298386001897 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 298386001898 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 298386001899 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386001900 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 298386001901 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 298386001902 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386001903 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 298386001904 IMP binding site; other site 298386001905 dimer interface [polypeptide binding]; other site 298386001906 interdomain contacts; other site 298386001907 partial ornithine binding site; other site 298386001908 Divalent cation transporter; Region: MgtE; cl00786 298386001909 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 298386001910 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 298386001911 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 298386001912 trimer interface [polypeptide binding]; other site 298386001913 eyelet of channel; other site 298386001914 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 298386001915 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 298386001916 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 298386001917 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 298386001918 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 298386001919 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 298386001920 S-adenosylmethionine binding site [chemical binding]; other site 298386001921 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 298386001922 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 298386001923 Walker A motif; other site 298386001924 ATP binding site [chemical binding]; other site 298386001925 Walker B motif; other site 298386001926 arginine finger; other site 298386001927 Peptidase family M41; Region: Peptidase_M41; pfam01434 298386001928 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 298386001929 dihydropteroate synthase; Region: DHPS; TIGR01496 298386001930 substrate binding pocket [chemical binding]; other site 298386001931 dimer interface [polypeptide binding]; other site 298386001932 inhibitor binding site; inhibition site 298386001933 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 298386001934 active site 298386001935 substrate binding site [chemical binding]; other site 298386001936 metal binding site [ion binding]; metal-binding site 298386001937 Preprotein translocase SecG subunit; Region: SecG; cl09123 298386001938 ribosome maturation protein RimP; Reviewed; Region: PRK00092 298386001939 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 298386001940 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 298386001941 Sm1 motif; other site 298386001942 predicted subunit interaction site [polypeptide binding]; other site 298386001943 RNA binding pocket [nucleotide binding]; other site 298386001944 Sm2 motif; other site 298386001945 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 298386001946 NusA N-terminal domain; Region: NusA_N; pfam08529 298386001947 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 298386001948 RNA binding site [nucleotide binding]; other site 298386001949 homodimer interface [polypeptide binding]; other site 298386001950 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 298386001951 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 298386001952 G-X-X-G motif; other site 298386001953 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 298386001954 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 298386001955 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 298386001956 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 298386001957 MAEBL; Provisional; Region: PTZ00121 298386001958 translation initiation factor IF-2; Region: IF-2; TIGR00487 298386001959 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 298386001960 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 298386001961 G1 box; other site 298386001962 putative GEF interaction site [polypeptide binding]; other site 298386001963 GTP/Mg2+ binding site [chemical binding]; other site 298386001964 Switch I region; other site 298386001965 G2 box; other site 298386001966 G3 box; other site 298386001967 Switch II region; other site 298386001968 G4 box; other site 298386001969 G5 box; other site 298386001970 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 298386001971 Translation-initiation factor 2; Region: IF-2; pfam11987 298386001972 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 298386001973 Ribosome-binding factor A; Region: RBFA; cl00542 298386001974 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 298386001975 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 298386001976 RNA binding site [nucleotide binding]; other site 298386001977 active site 298386001978 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 298386001979 16S/18S rRNA binding site [nucleotide binding]; other site 298386001980 S13e-L30e interaction site [polypeptide binding]; other site 298386001981 25S rRNA binding site [nucleotide binding]; other site 298386001982 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 298386001983 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 298386001984 RNase E interface [polypeptide binding]; other site 298386001985 trimer interface [polypeptide binding]; other site 298386001986 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 298386001987 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 298386001988 RNase E interface [polypeptide binding]; other site 298386001989 trimer interface [polypeptide binding]; other site 298386001990 active site 298386001991 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 298386001992 putative nucleic acid binding region [nucleotide binding]; other site 298386001993 G-X-X-G motif; other site 298386001994 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 298386001995 RNA binding site [nucleotide binding]; other site 298386001996 domain interface; other site 298386001997 lipoprotein NlpI; Provisional; Region: PRK11189 298386001998 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 298386001999 binding surface 298386002000 TPR motif; other site 298386002001 Peptidase family U32; Region: Peptidase_U32; cl03113 298386002002 Peptidase family U32; Region: Peptidase_U32; cl03113 298386002003 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 298386002004 PAS fold; Region: PAS_4; pfam08448 298386002005 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386002006 metal binding site [ion binding]; metal-binding site 298386002007 active site 298386002008 I-site; other site 298386002009 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 298386002010 SCP-2 sterol transfer family; Region: SCP2; cl01225 298386002011 Predicted acetyltransferase [General function prediction only]; Region: COG3153 298386002012 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386002013 Coenzyme A binding pocket [chemical binding]; other site 298386002014 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 298386002015 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 298386002016 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386002017 Coenzyme A binding pocket [chemical binding]; other site 298386002018 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 298386002019 G1 box; other site 298386002020 putative GEF interaction site [polypeptide binding]; other site 298386002021 GTP/Mg2+ binding site [chemical binding]; other site 298386002022 Switch I region; other site 298386002023 G2 box; other site 298386002024 G3 box; other site 298386002025 Switch II region; other site 298386002026 G4 box; other site 298386002027 G5 box; other site 298386002028 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 298386002029 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 298386002030 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 298386002031 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 298386002032 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 298386002033 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 298386002034 active site 298386002035 catalytic site [active] 298386002036 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 298386002037 active site 298386002038 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 298386002039 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 298386002040 Nucleoside recognition; Region: Gate; cl00486 298386002041 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 298386002042 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 298386002043 intersubunit interface [polypeptide binding]; other site 298386002044 active site 298386002045 catalytic residue [active] 298386002046 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 298386002047 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 298386002048 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 298386002049 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 298386002050 Sulfatase; Region: Sulfatase; cl10460 298386002051 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 298386002052 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 298386002053 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 298386002054 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 298386002055 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 298386002056 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 298386002057 motif II; other site 298386002058 PilZ domain; Region: PilZ; cl01260 298386002059 PilZ domain; Region: PilZ; cl01260 298386002060 DNA repair protein RadA; Provisional; Region: PRK11823 298386002061 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386002062 Walker A motif; other site 298386002063 ATP binding site [chemical binding]; other site 298386002064 Walker B motif; other site 298386002065 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 298386002066 hypothetical protein; Validated; Region: PRK09039 298386002067 Peptidase family M23; Region: Peptidase_M23; pfam01551 298386002068 PilZ domain; Region: PilZ; cl01260 298386002069 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 298386002070 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386002071 Walker A/P-loop; other site 298386002072 ATP binding site [chemical binding]; other site 298386002073 Q-loop/lid; other site 298386002074 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 298386002075 ABC transporter signature motif; other site 298386002076 Walker B; other site 298386002077 D-loop; other site 298386002078 ABC transporter; Region: ABC_tran_2; pfam12848 298386002079 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 298386002080 lytic murein transglycosylase; Provisional; Region: PRK11619 298386002081 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 298386002082 N-acetyl-D-glucosamine binding site [chemical binding]; other site 298386002083 catalytic residue [active] 298386002084 Helix-turn-helix domains; Region: HTH; cl00088 298386002085 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 298386002086 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 298386002087 non-specific DNA binding site [nucleotide binding]; other site 298386002088 salt bridge; other site 298386002089 sequence-specific DNA binding site [nucleotide binding]; other site 298386002090 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 298386002091 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 298386002092 active site 298386002093 phosphorylation site [posttranslational modification] 298386002094 intermolecular recognition site; other site 298386002095 dimerization interface [polypeptide binding]; other site 298386002096 LytTr DNA-binding domain; Region: LytTR; cl04498 298386002097 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 298386002098 Histidine kinase; Region: His_kinase; pfam06580 298386002099 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 298386002100 ATP binding site [chemical binding]; other site 298386002101 Mg2+ binding site [ion binding]; other site 298386002102 G-X-G motif; other site 298386002103 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 298386002104 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 298386002105 FtsX-like permease family; Region: FtsX; cl15850 298386002106 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 298386002107 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 298386002108 Walker A/P-loop; other site 298386002109 ATP binding site [chemical binding]; other site 298386002110 Q-loop/lid; other site 298386002111 ABC transporter signature motif; other site 298386002112 Walker B; other site 298386002113 D-loop; other site 298386002114 H-loop/switch region; other site 298386002115 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 298386002116 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 298386002117 Peptidase family M23; Region: Peptidase_M23; pfam01551 298386002118 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 298386002119 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 298386002120 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 298386002121 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 298386002122 active site 298386002123 ATP binding site [chemical binding]; other site 298386002124 substrate binding site [chemical binding]; other site 298386002125 activation loop (A-loop); other site 298386002126 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 298386002127 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 298386002128 phosphopeptide binding site; other site 298386002129 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 298386002130 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 298386002131 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 298386002132 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 298386002133 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386002134 ligand binding site [chemical binding]; other site 298386002135 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 298386002136 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 298386002137 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 298386002138 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 298386002139 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 298386002140 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 298386002141 Protein phosphatase 2C; Region: PP2C; pfam00481 298386002142 active site 298386002143 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 298386002144 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 298386002145 Protein of unknown function (DUF770); Region: DUF770; cl01402 298386002146 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 298386002147 Protein of unknown function (DUF877); Region: DUF877; pfam05943 298386002148 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 298386002149 Protein of unknown function (DUF877); Region: DUF877; pfam05943 298386002150 ImpE protein; Region: ImpE; pfam07024 298386002151 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 298386002152 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 298386002153 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 298386002154 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 298386002155 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 298386002156 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 298386002157 Walker A motif; other site 298386002158 ATP binding site [chemical binding]; other site 298386002159 Walker B motif; other site 298386002160 arginine finger; other site 298386002161 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 298386002162 Walker A motif; other site 298386002163 ATP binding site [chemical binding]; other site 298386002164 Walker B motif; other site 298386002165 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 298386002166 Protein of unknown function (DUF796); Region: DUF796; cl01226 298386002167 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 298386002168 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 298386002169 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 298386002170 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 298386002171 PAAR motif; Region: PAAR_motif; cl15808 298386002172 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 298386002173 RHS Repeat; Region: RHS_repeat; cl11982 298386002174 RHS Repeat; Region: RHS_repeat; cl11982 298386002175 RHS Repeat; Region: RHS_repeat; cl11982 298386002176 RHS Repeat; Region: RHS_repeat; cl11982 298386002177 RHS protein; Region: RHS; pfam03527 298386002178 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 298386002179 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 298386002180 RHS protein; Region: RHS; pfam03527 298386002181 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 298386002182 Response regulator receiver domain; Region: Response_reg; pfam00072 298386002183 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 298386002184 active site 298386002185 phosphorylation site [posttranslational modification] 298386002186 intermolecular recognition site; other site 298386002187 dimerization interface [polypeptide binding]; other site 298386002188 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 298386002189 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 298386002190 dimer interface [polypeptide binding]; other site 298386002191 phosphorylation site [posttranslational modification] 298386002192 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 298386002193 ATP binding site [chemical binding]; other site 298386002194 Mg2+ binding site [ion binding]; other site 298386002195 G-X-G motif; other site 298386002196 Response regulator receiver domain; Region: Response_reg; pfam00072 298386002197 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 298386002198 active site 298386002199 phosphorylation site [posttranslational modification] 298386002200 intermolecular recognition site; other site 298386002201 dimerization interface [polypeptide binding]; other site 298386002202 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 298386002203 S-adenosylmethionine binding site [chemical binding]; other site 298386002204 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 298386002205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386002206 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386002207 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386002208 Family description; Region: UvrD_C_2; cl15862 298386002209 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 298386002210 SmpB-tmRNA interface; other site 298386002211 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 298386002212 putative coenzyme Q binding site [chemical binding]; other site 298386002213 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 298386002214 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 298386002215 recombination and repair protein; Provisional; Region: PRK10869 298386002216 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 298386002217 Walker A/P-loop; other site 298386002218 ATP binding site [chemical binding]; other site 298386002219 Q-loop/lid; other site 298386002220 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 298386002221 Q-loop/lid; other site 298386002222 ABC transporter signature motif; other site 298386002223 Walker B; other site 298386002224 D-loop; other site 298386002225 H-loop/switch region; other site 298386002226 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 298386002227 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 298386002228 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 298386002229 dimer interface [polypeptide binding]; other site 298386002230 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 298386002231 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 298386002232 chaperone protein DnaJ; Provisional; Region: PRK10767 298386002233 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 298386002234 HSP70 interaction site [polypeptide binding]; other site 298386002235 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 298386002236 substrate binding site [polypeptide binding]; other site 298386002237 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 298386002238 Zn binding sites [ion binding]; other site 298386002239 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 298386002240 dimer interface [polypeptide binding]; other site 298386002241 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 298386002242 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 298386002243 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 298386002244 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 298386002245 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 298386002246 Integrase core domain; Region: rve; cl01316 298386002247 Helix-turn-helix domains; Region: HTH; cl00088 298386002248 Winged helix-turn helix; Region: HTH_29; pfam13551 298386002249 Winged helix-turn helix; Region: HTH_33; pfam13592 298386002250 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 298386002251 Helix-turn-helix domains; Region: HTH; cl00088 298386002252 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 298386002253 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 298386002254 ferredoxin; Validated; Region: PRK07118 298386002255 putative protease; Provisional; Region: PRK15452 298386002256 Peptidase family U32; Region: Peptidase_U32; cl03113 298386002257 Putative exonuclease, RdgC; Region: RdgC; cl01122 298386002258 exonuclease subunit SbcD; Provisional; Region: PRK10966 298386002259 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 298386002260 active site 298386002261 metal binding site [ion binding]; metal-binding site 298386002262 DNA binding site [nucleotide binding] 298386002263 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 298386002264 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386002265 AAA domain; Region: AAA_23; pfam13476 298386002266 Walker A/P-loop; other site 298386002267 ATP binding site [chemical binding]; other site 298386002268 Q-loop/lid; other site 298386002269 ABC transporter signature motif; other site 298386002270 exonuclease subunit SbcC; Provisional; Region: PRK10246 298386002271 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386002272 ABC transporter signature motif; other site 298386002273 Walker B; other site 298386002274 D-loop; other site 298386002275 H-loop/switch region; other site 298386002276 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 298386002277 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 298386002278 active site 298386002279 phosphorylation site [posttranslational modification] 298386002280 intermolecular recognition site; other site 298386002281 dimerization interface [polypeptide binding]; other site 298386002282 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 298386002283 DNA binding site [nucleotide binding] 298386002284 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 298386002285 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 298386002286 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 298386002287 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 298386002288 dimer interface [polypeptide binding]; other site 298386002289 phosphorylation site [posttranslational modification] 298386002290 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 298386002291 ATP binding site [chemical binding]; other site 298386002292 Mg2+ binding site [ion binding]; other site 298386002293 G-X-G motif; other site 298386002294 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 298386002295 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 298386002296 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 298386002297 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 298386002298 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 298386002299 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 298386002300 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 298386002301 domain interface [polypeptide binding]; other site 298386002302 active site 298386002303 catalytic site [active] 298386002304 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 298386002305 domain interface [polypeptide binding]; other site 298386002306 active site 298386002307 catalytic site [active] 298386002308 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 298386002309 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 298386002310 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 298386002311 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 298386002312 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386002313 conserved gate region; other site 298386002314 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386002315 putative PBP binding loops; other site 298386002316 dimer interface [polypeptide binding]; other site 298386002317 ABC-ATPase subunit interface; other site 298386002318 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 298386002319 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386002320 dimer interface [polypeptide binding]; other site 298386002321 conserved gate region; other site 298386002322 putative PBP binding loops; other site 298386002323 ABC-ATPase subunit interface; other site 298386002324 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 298386002325 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 298386002326 Walker A/P-loop; other site 298386002327 ATP binding site [chemical binding]; other site 298386002328 Q-loop/lid; other site 298386002329 ABC transporter signature motif; other site 298386002330 Walker B; other site 298386002331 D-loop; other site 298386002332 H-loop/switch region; other site 298386002333 transcriptional regulator PhoU; Provisional; Region: PRK11115 298386002334 PhoU domain; Region: PhoU; pfam01895 298386002335 PhoU domain; Region: PhoU; pfam01895 298386002336 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 298386002337 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 298386002338 CutC family; Region: CutC; cl01218 298386002339 peroxidase; Provisional; Region: PRK15000 298386002340 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 298386002341 dimer interface [polypeptide binding]; other site 298386002342 decamer (pentamer of dimers) interface [polypeptide binding]; other site 298386002343 catalytic triad [active] 298386002344 peroxidatic and resolving cysteines [active] 298386002345 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 298386002346 Helix-turn-helix domains; Region: HTH; cl00088 298386002347 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 298386002348 dimerization interface [polypeptide binding]; other site 298386002349 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 298386002350 malate synthase A; Region: malate_syn_A; TIGR01344 298386002351 active site 298386002352 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 298386002353 tetramer interface [polypeptide binding]; other site 298386002354 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 298386002355 active site 298386002356 Mg2+/Mn2+ binding site [ion binding]; other site 298386002357 Protein of unknown function, DUF479; Region: DUF479; cl01203 298386002358 FOG: CBS domain [General function prediction only]; Region: COG0517 298386002359 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 298386002360 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; cd00190 298386002361 cleavage site 298386002362 active site 298386002363 substrate binding sites [chemical binding]; other site 298386002364 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 298386002365 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 298386002366 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 298386002367 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 298386002368 Preprotein translocase subunit; Region: YajC; cl00806 298386002369 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 298386002370 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 298386002371 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 298386002372 Protein export membrane protein; Region: SecD_SecF; cl14618 298386002373 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 298386002374 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 298386002375 Protein export membrane protein; Region: SecD_SecF; cl14618 298386002376 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 298386002377 active site 298386002378 dimerization interface [polypeptide binding]; other site 298386002379 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 298386002380 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 298386002381 Helix-turn-helix domains; Region: HTH; cl00088 298386002382 Rrf2 family protein; Region: rrf2_super; TIGR00738 298386002383 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 298386002384 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 298386002385 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386002386 catalytic residue [active] 298386002387 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 298386002388 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 298386002389 trimerization site [polypeptide binding]; other site 298386002390 active site 298386002391 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 298386002392 co-chaperone HscB; Provisional; Region: hscB; PRK05014 298386002393 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 298386002394 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 298386002395 chaperone protein HscA; Provisional; Region: hscA; PRK05183 298386002396 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 298386002397 catalytic loop [active] 298386002398 iron binding site [ion binding]; other site 298386002399 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 298386002400 aminopeptidase B; Provisional; Region: PRK05015 298386002401 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 298386002402 interface (dimer of trimers) [polypeptide binding]; other site 298386002403 Substrate-binding/catalytic site; other site 298386002404 Zn-binding sites [ion binding]; other site 298386002405 aminopeptidase B; Provisional; Region: PRK05015 298386002406 Peptidase; Region: DUF3663; pfam12404 298386002407 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 298386002408 interface (dimer of trimers) [polypeptide binding]; other site 298386002409 Substrate-binding/catalytic site; other site 298386002410 Zn-binding sites [ion binding]; other site 298386002411 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 298386002412 active site 298386002413 multimer interface [polypeptide binding]; other site 298386002414 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 298386002415 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 298386002416 FeS/SAM binding site; other site 298386002417 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 298386002418 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 298386002419 binding surface 298386002420 TPR motif; other site 298386002421 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 298386002422 binding surface 298386002423 TPR motif; other site 298386002424 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 298386002425 cytoskeletal protein RodZ; Provisional; Region: PRK10856 298386002426 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 298386002427 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 298386002428 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 298386002429 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 298386002430 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 298386002431 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 298386002432 dimer interface [polypeptide binding]; other site 298386002433 motif 1; other site 298386002434 active site 298386002435 motif 2; other site 298386002436 motif 3; other site 298386002437 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 298386002438 anticodon binding site; other site 298386002439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 298386002440 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 298386002441 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 298386002442 Trp docking motif [polypeptide binding]; other site 298386002443 GTP-binding protein Der; Reviewed; Region: PRK00093 298386002444 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 298386002445 G1 box; other site 298386002446 GTP/Mg2+ binding site [chemical binding]; other site 298386002447 Switch I region; other site 298386002448 G2 box; other site 298386002449 Switch II region; other site 298386002450 G3 box; other site 298386002451 G4 box; other site 298386002452 G5 box; other site 298386002453 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 298386002454 G1 box; other site 298386002455 GTP/Mg2+ binding site [chemical binding]; other site 298386002456 Switch I region; other site 298386002457 G2 box; other site 298386002458 G3 box; other site 298386002459 Switch II region; other site 298386002460 G4 box; other site 298386002461 G5 box; other site 298386002462 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 298386002463 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 298386002464 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386002465 dimer interface [polypeptide binding]; other site 298386002466 putative CheW interface [polypeptide binding]; other site 298386002467 Response regulator receiver domain; Region: Response_reg; pfam00072 298386002468 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 298386002469 active site 298386002470 phosphorylation site [posttranslational modification] 298386002471 intermolecular recognition site; other site 298386002472 dimerization interface [polypeptide binding]; other site 298386002473 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 298386002474 anti sigma factor interaction site; other site 298386002475 regulatory phosphorylation site [posttranslational modification]; other site 298386002476 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 298386002477 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 298386002478 putative binding surface; other site 298386002479 active site 298386002480 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 298386002481 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 298386002482 ATP binding site [chemical binding]; other site 298386002483 Mg2+ binding site [ion binding]; other site 298386002484 G-X-G motif; other site 298386002485 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 298386002486 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386002487 dimerization interface [polypeptide binding]; other site 298386002488 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386002489 dimer interface [polypeptide binding]; other site 298386002490 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 298386002491 putative CheW interface [polypeptide binding]; other site 298386002492 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 298386002493 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 298386002494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386002495 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 298386002496 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 298386002497 active site 298386002498 phosphorylation site [posttranslational modification] 298386002499 intermolecular recognition site; other site 298386002500 dimerization interface [polypeptide binding]; other site 298386002501 CheB methylesterase; Region: CheB_methylest; pfam01339 298386002502 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 298386002503 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 298386002504 generic binding surface II; other site 298386002505 generic binding surface I; other site 298386002506 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 298386002507 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 298386002508 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; cd04601 298386002509 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 298386002510 active site 298386002511 GMP synthase; Reviewed; Region: guaA; PRK00074 298386002512 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 298386002513 AMP/PPi binding site [chemical binding]; other site 298386002514 candidate oxyanion hole; other site 298386002515 catalytic triad [active] 298386002516 potential glutamine specificity residues [chemical binding]; other site 298386002517 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 298386002518 ATP Binding subdomain [chemical binding]; other site 298386002519 Ligand Binding sites [chemical binding]; other site 298386002520 Dimerization subdomain; other site 298386002521 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 298386002522 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386002523 Predicted esterase [General function prediction only]; Region: COG0627 298386002524 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 298386002525 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 298386002526 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 298386002527 substrate binding site [chemical binding]; other site 298386002528 catalytic Zn binding site [ion binding]; other site 298386002529 NAD binding site [chemical binding]; other site 298386002530 structural Zn binding site [ion binding]; other site 298386002531 dimer interface [polypeptide binding]; other site 298386002532 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 298386002533 nucleoside/Zn binding site; other site 298386002534 dimer interface [polypeptide binding]; other site 298386002535 catalytic motif [active] 298386002536 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 298386002537 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 298386002538 substrate binding pocket [chemical binding]; other site 298386002539 membrane-bound complex binding site; other site 298386002540 hinge residues; other site 298386002541 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 298386002542 N-acetyl-D-glucosamine binding site [chemical binding]; other site 298386002543 catalytic residue [active] 298386002544 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 298386002545 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 298386002546 dimerization interface [polypeptide binding]; other site 298386002547 ATP binding site [chemical binding]; other site 298386002548 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 298386002549 dimerization interface [polypeptide binding]; other site 298386002550 ATP binding site [chemical binding]; other site 298386002551 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 298386002552 putative active site [active] 298386002553 catalytic triad [active] 298386002554 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386002555 Transposase; Region: DEDD_Tnp_IS110; pfam01548 298386002556 Nitrogen regulatory protein P-II; Region: P-II; cl00412 298386002557 Nitrogen regulatory protein P-II; Region: P-II; smart00938 298386002558 Uncharacterized conserved protein [Function unknown]; Region: COG1284 298386002559 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 298386002560 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 298386002561 dimer interface [polypeptide binding]; other site 298386002562 active site 298386002563 glycine-pyridoxal phosphate binding site [chemical binding]; other site 298386002564 folate binding site [chemical binding]; other site 298386002565 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 298386002566 ATP cone domain; Region: ATP-cone; pfam03477 298386002567 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 298386002568 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 298386002569 catalytic motif [active] 298386002570 Zn binding site [ion binding]; other site 298386002571 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 298386002572 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 298386002573 Lumazine binding domain; Region: Lum_binding; pfam00677 298386002574 Lumazine binding domain; Region: Lum_binding; pfam00677 298386002575 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 298386002576 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 298386002577 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; cl00522 298386002578 dimerization interface [polypeptide binding]; other site 298386002579 active site 298386002580 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 298386002581 homopentamer interface [polypeptide binding]; other site 298386002582 active site 298386002583 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 298386002584 putative RNA binding site [nucleotide binding]; other site 298386002585 thiamine monophosphate kinase; Provisional; Region: PRK05731 298386002586 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 298386002587 ATP binding site [chemical binding]; other site 298386002588 dimerization interface [polypeptide binding]; other site 298386002589 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 298386002590 tetramer interfaces [polypeptide binding]; other site 298386002591 binuclear metal-binding site [ion binding]; other site 298386002592 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 298386002593 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 298386002594 TPP-binding site; other site 298386002595 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 298386002596 PYR/PP interface [polypeptide binding]; other site 298386002597 dimer interface [polypeptide binding]; other site 298386002598 TPP binding site [chemical binding]; other site 298386002599 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 298386002600 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 298386002601 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 298386002602 substrate binding pocket [chemical binding]; other site 298386002603 chain length determination region; other site 298386002604 substrate-Mg2+ binding site; other site 298386002605 catalytic residues [active] 298386002606 aspartate-rich region 1; other site 298386002607 active site lid residues [active] 298386002608 aspartate-rich region 2; other site 298386002609 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 298386002610 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 298386002611 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 298386002612 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 298386002613 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 298386002614 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386002615 ligand binding site [chemical binding]; other site 298386002616 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 298386002617 THUMP domain; Region: THUMP; cl12076 298386002618 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 298386002619 Ligand Binding Site [chemical binding]; other site 298386002620 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 298386002621 active site residue [active] 298386002622 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 298386002623 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 298386002624 conserved cys residue [active] 298386002625 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 298386002626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386002627 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 298386002628 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 298386002629 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 298386002630 muropeptide transporter; Validated; Region: ampG; PRK11010 298386002631 AmpG-related permease; Region: 2A0125; TIGR00901 298386002632 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 298386002633 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 298386002634 active site 298386002635 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 298386002636 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 298386002637 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 298386002638 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 298386002639 S-adenosylmethionine binding site [chemical binding]; other site 298386002640 BolA-like protein; Region: BolA; cl00386 298386002641 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 298386002642 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 298386002643 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 298386002644 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 298386002645 E3 interaction surface; other site 298386002646 lipoyl attachment site [posttranslational modification]; other site 298386002647 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 298386002648 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 298386002649 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 298386002650 FMN-binding domain; Region: FMN_bind; cl01081 298386002651 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 298386002652 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 298386002653 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 298386002654 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 298386002655 FAD binding pocket [chemical binding]; other site 298386002656 FAD binding motif [chemical binding]; other site 298386002657 phosphate binding motif [ion binding]; other site 298386002658 beta-alpha-beta structure motif; other site 298386002659 NAD binding pocket [chemical binding]; other site 298386002660 ApbE family; Region: ApbE; cl00643 298386002661 Protein of unknown function (DUF539); Region: DUF539; cl01129 298386002662 response regulator PleD; Reviewed; Region: pleD; PRK09581 298386002663 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 298386002664 active site 298386002665 phosphorylation site [posttranslational modification] 298386002666 intermolecular recognition site; other site 298386002667 dimerization interface [polypeptide binding]; other site 298386002668 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 298386002669 active site 298386002670 phosphorylation site [posttranslational modification] 298386002671 intermolecular recognition site; other site 298386002672 dimerization interface [polypeptide binding]; other site 298386002673 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386002674 metal binding site [ion binding]; metal-binding site 298386002675 active site 298386002676 I-site; other site 298386002677 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 298386002678 active site 298386002679 DNA polymerase IV; Validated; Region: PRK02406 298386002680 DNA binding site [nucleotide binding] 298386002681 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 298386002682 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 298386002683 metal binding site [ion binding]; metal-binding site 298386002684 dimer interface [polypeptide binding]; other site 298386002685 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 298386002686 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386002687 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 298386002688 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 298386002689 active site 298386002690 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 298386002691 Transcriptional regulator Crl; Region: Crl; cl11653 298386002692 gamma-glutamyl kinase; Provisional; Region: PRK05429 298386002693 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 298386002694 nucleotide binding site [chemical binding]; other site 298386002695 homotetrameric interface [polypeptide binding]; other site 298386002696 putative phosphate binding site [ion binding]; other site 298386002697 putative allosteric binding site; other site 298386002698 PUA domain; Region: PUA; cl00607 298386002699 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 298386002700 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 298386002701 putative catalytic cysteine [active] 298386002702 Helix-turn-helix domains; Region: HTH; cl00088 298386002703 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 298386002704 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 298386002705 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 298386002706 metal binding site [ion binding]; metal-binding site 298386002707 dimer interface [polypeptide binding]; other site 298386002708 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 298386002709 ArsC family; Region: ArsC; pfam03960 298386002710 putative catalytic residues [active] 298386002711 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 298386002712 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 298386002713 transcriptional regulator NarP; Provisional; Region: PRK10403 298386002714 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 298386002715 active site 298386002716 phosphorylation site [posttranslational modification] 298386002717 intermolecular recognition site; other site 298386002718 dimerization interface [polypeptide binding]; other site 298386002719 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 298386002720 DNA binding residues [nucleotide binding] 298386002721 dimerization interface [polypeptide binding]; other site 298386002722 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 298386002723 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 298386002724 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386002725 dimerization interface [polypeptide binding]; other site 298386002726 Histidine kinase; Region: HisKA_3; pfam07730 298386002727 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 298386002728 ATP binding site [chemical binding]; other site 298386002729 Mg2+ binding site [ion binding]; other site 298386002730 G-X-G motif; other site 298386002731 ferredoxin-type protein; Provisional; Region: PRK10194 298386002732 NapD protein; Region: NapD; cl01163 298386002733 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 298386002734 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 298386002735 [4Fe-4S] binding site [ion binding]; other site 298386002736 molybdopterin cofactor binding site; other site 298386002737 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 298386002738 molybdopterin cofactor binding site; other site 298386002739 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 298386002740 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 298386002741 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 298386002742 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 298386002743 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 298386002744 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 298386002745 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 298386002746 HPr interaction site; other site 298386002747 glycerol kinase (GK) interaction site [polypeptide binding]; other site 298386002748 active site 298386002749 phosphorylation site [posttranslational modification] 298386002750 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 298386002751 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 298386002752 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 298386002753 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 298386002754 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 298386002755 dimerization domain swap beta strand [polypeptide binding]; other site 298386002756 regulatory protein interface [polypeptide binding]; other site 298386002757 active site 298386002758 regulatory phosphorylation site [posttranslational modification]; other site 298386002759 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 298386002760 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 298386002761 dimer interface [polypeptide binding]; other site 298386002762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386002763 catalytic residue [active] 298386002764 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 298386002765 cell division protein ZipA; Provisional; Region: PRK04335 298386002766 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 298386002767 FtsZ protein binding site [polypeptide binding]; other site 298386002768 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 298386002769 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 298386002770 nucleotide binding pocket [chemical binding]; other site 298386002771 K-X-D-G motif; other site 298386002772 catalytic site [active] 298386002773 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 298386002774 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 298386002775 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 298386002776 Dimer interface [polypeptide binding]; other site 298386002777 BRCT sequence motif; other site 298386002778 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 298386002779 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386002780 Transposase [DNA replication, recombination, and repair]; Region: COG5433 298386002781 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386002782 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 298386002783 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 298386002784 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 298386002785 active site 298386002786 HIGH motif; other site 298386002787 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 298386002788 active site 298386002789 KMSKS motif; other site 298386002790 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 298386002791 eyelet of channel; other site 298386002792 trimer interface [polypeptide binding]; other site 298386002793 integrase; Provisional; Region: PRK09692 298386002794 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 298386002795 active site 298386002796 Int/Topo IB signature motif; other site 298386002797 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 298386002798 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 298386002799 active site 298386002800 metal binding site [ion binding]; metal-binding site 298386002801 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 298386002802 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386002803 HsdM N-terminal domain; Region: HsdM_N; pfam12161 298386002804 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 298386002805 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386002806 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 298386002807 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 298386002808 Protein of unknown function DUF262; Region: DUF262; cl14890 298386002809 Protein of unknown function DUF262; Region: DUF262; cl14890 298386002810 Protein of unknown function DUF262; Region: DUF262; cl14890 298386002811 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 298386002812 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 298386002813 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386002814 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 298386002815 catalytic residues [active] 298386002816 catalytic nucleophile [active] 298386002817 Presynaptic Site I dimer interface [polypeptide binding]; other site 298386002818 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 298386002819 Synaptic Flat tetramer interface [polypeptide binding]; other site 298386002820 Synaptic Site I dimer interface [polypeptide binding]; other site 298386002821 DNA binding site [nucleotide binding] 298386002822 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 298386002823 G1 box; other site 298386002824 GTP/Mg2+ binding site [chemical binding]; other site 298386002825 G2 box; other site 298386002826 G3 box; other site 298386002827 Switch II region; other site 298386002828 G4 box; other site 298386002829 Domain of unknown function (DUF697); Region: DUF697; cl12064 298386002830 TolB amino-terminal domain; Region: TolB_N; cl00639 298386002831 LPP20 lipoprotein; Region: LPP20; cl15824 298386002832 FlgN protein; Region: FlgN; cl09176 298386002833 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 298386002834 SAF domain; Region: SAF; cl00555 298386002835 SAF-like; Region: SAF_2; pfam13144 298386002836 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 298386002837 Response regulator receiver domain; Region: Response_reg; pfam00072 298386002838 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 298386002839 active site 298386002840 phosphorylation site [posttranslational modification] 298386002841 intermolecular recognition site; other site 298386002842 dimerization interface [polypeptide binding]; other site 298386002843 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 298386002844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386002845 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 298386002846 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 298386002847 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 298386002848 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 298386002849 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 298386002850 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 298386002851 FlgD Ig-like domain; Region: FlgD_ig; cl15790 298386002852 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 298386002853 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 298386002854 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 298386002855 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 298386002856 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 298386002857 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 298386002858 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 298386002859 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 298386002860 Flagellar L-ring protein; Region: FlgH; cl00905 298386002861 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 298386002862 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 298386002863 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 298386002864 Rod binding protein; Region: Rod-binding; cl01626 298386002865 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 298386002866 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08871 298386002867 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 298386002868 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 298386002869 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 298386002870 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 298386002871 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 298386002872 flagellin; Reviewed; Region: PRK08869 298386002873 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 298386002874 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 298386002875 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 298386002876 flagellin; Reviewed; Region: PRK08869 298386002877 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 298386002878 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 298386002879 FlaG protein; Region: FlaG; cl00591 298386002880 flagellar capping protein; Validated; Region: fliD; PRK08724 298386002881 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 298386002882 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 298386002883 Flagellar protein FliS; Region: FliS; cl00654 298386002884 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 298386002885 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 298386002886 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 298386002887 Walker A motif; other site 298386002888 ATP binding site [chemical binding]; other site 298386002889 Walker B motif; other site 298386002890 arginine finger; other site 298386002891 Helix-turn-helix domains; Region: HTH; cl00088 298386002892 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 298386002893 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 298386002894 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 298386002895 dimer interface [polypeptide binding]; other site 298386002896 phosphorylation site [posttranslational modification] 298386002897 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 298386002898 ATP binding site [chemical binding]; other site 298386002899 Mg2+ binding site [ion binding]; other site 298386002900 G-X-G motif; other site 298386002901 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 298386002902 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 298386002903 active site 298386002904 phosphorylation site [posttranslational modification] 298386002905 intermolecular recognition site; other site 298386002906 dimerization interface [polypeptide binding]; other site 298386002907 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 298386002908 Walker A motif; other site 298386002909 ATP binding site [chemical binding]; other site 298386002910 Walker B motif; other site 298386002911 arginine finger; other site 298386002912 Helix-turn-helix domains; Region: HTH; cl00088 298386002913 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 298386002914 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 298386002915 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 298386002916 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 298386002917 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 298386002918 MgtE intracellular N domain; Region: MgtE_N; cl15244 298386002919 FliG C-terminal domain; Region: FliG_C; pfam01706 298386002920 flagellar assembly protein H; Validated; Region: fliH; PRK05687 298386002921 Flagellar assembly protein FliH; Region: FliH; pfam02108 298386002922 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 298386002923 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 298386002924 Walker A motif/ATP binding site; other site 298386002925 Walker B motif; other site 298386002926 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 298386002927 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 298386002928 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 298386002929 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 298386002930 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 298386002931 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 298386002932 flagellar motor switch protein; Validated; Region: fliN; PRK05698 298386002933 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 298386002934 FliP family; Region: FliP; cl00593 298386002935 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 298386002936 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 298386002937 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 298386002938 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 298386002939 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 298386002940 FHIPEP family; Region: FHIPEP; pfam00771 298386002941 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 298386002942 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 298386002943 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386002944 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 298386002945 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386002946 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 298386002947 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 298386002948 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 298386002949 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 298386002950 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 298386002951 DNA binding residues [nucleotide binding] 298386002952 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 298386002953 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 298386002954 active site 298386002955 phosphorylation site [posttranslational modification] 298386002956 intermolecular recognition site; other site 298386002957 dimerization interface [polypeptide binding]; other site 298386002958 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 298386002959 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 298386002960 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 298386002961 putative binding surface; other site 298386002962 active site 298386002963 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 298386002964 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 298386002965 ATP binding site [chemical binding]; other site 298386002966 Mg2+ binding site [ion binding]; other site 298386002967 G-X-G motif; other site 298386002968 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 298386002969 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 298386002970 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 298386002971 active site 298386002972 phosphorylation site [posttranslational modification] 298386002973 intermolecular recognition site; other site 298386002974 CheB methylesterase; Region: CheB_methylest; pfam01339 298386002975 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 298386002976 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386002977 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 298386002978 Magnesium ion binding site [ion binding]; other site 298386002979 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 298386002980 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 298386002981 putative CheA interaction surface; other site 298386002982 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 298386002983 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 298386002984 CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE...; Region: ABC_CcmA_heme_exporter; cd03231 298386002985 Walker A/P-loop; other site 298386002986 ATP binding site [chemical binding]; other site 298386002987 Q-loop/lid; other site 298386002988 ABC transporter signature motif; other site 298386002989 Walker B; other site 298386002990 D-loop; other site 298386002991 H-loop/switch region; other site 298386002992 CcmB protein; Region: CcmB; cl01016 298386002993 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 298386002994 CcmE; Region: CcmE; cl00994 298386002995 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 298386002996 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 298386002997 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 298386002998 catalytic residues [active] 298386002999 central insert; other site 298386003000 Cytochrome C biogenesis protein; Region: CcmH; cl01179 298386003001 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 298386003002 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 298386003003 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 298386003004 binding surface 298386003005 TPR motif; other site 298386003006 VacJ like lipoprotein; Region: VacJ; cl01073 298386003007 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386003008 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386003009 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 298386003010 RNA polymerase sigma factor; Provisional; Region: PRK12517 298386003011 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 298386003012 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 298386003013 DNA binding residues [nucleotide binding] 298386003014 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 298386003015 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 298386003016 dimer interface [polypeptide binding]; other site 298386003017 active site 298386003018 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 298386003019 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 298386003020 substrate binding site [chemical binding]; other site 298386003021 oxyanion hole (OAH) forming residues; other site 298386003022 trimer interface [polypeptide binding]; other site 298386003023 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386003024 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 298386003025 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 298386003026 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 298386003027 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 298386003028 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 298386003029 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 298386003030 catalytic core [active] 298386003031 hypothetical protein; Provisional; Region: PRK04946 298386003032 Smr domain; Region: Smr; cl02619 298386003033 HemK family putative methylases; Region: hemK_fam; TIGR00536 298386003034 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 298386003035 S-adenosylmethionine binding site [chemical binding]; other site 298386003036 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 298386003037 Ligand Binding Site [chemical binding]; other site 298386003038 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 298386003039 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 298386003040 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386003041 catalytic residue [active] 298386003042 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 298386003043 Helix-turn-helix domains; Region: HTH; cl00088 298386003044 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 298386003045 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 298386003046 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386003047 Walker A/P-loop; other site 298386003048 ATP binding site [chemical binding]; other site 298386003049 Q-loop/lid; other site 298386003050 ABC transporter signature motif; other site 298386003051 Walker B; other site 298386003052 D-loop; other site 298386003053 H-loop/switch region; other site 298386003054 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 298386003055 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 298386003056 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386003057 Walker A/P-loop; other site 298386003058 ATP binding site [chemical binding]; other site 298386003059 Q-loop/lid; other site 298386003060 ABC transporter signature motif; other site 298386003061 Walker B; other site 298386003062 D-loop; other site 298386003063 H-loop/switch region; other site 298386003064 acyl-CoA thioesterase II; Provisional; Region: PRK10526 298386003065 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 298386003066 active site 298386003067 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 298386003068 catalytic triad [active] 298386003069 dimer interface [polypeptide binding]; other site 298386003070 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 298386003071 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 298386003072 DNA binding site [nucleotide binding] 298386003073 active site 298386003074 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 298386003075 Integrase core domain; Region: rve; cl01316 298386003076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 298386003077 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386003078 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 298386003079 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 298386003080 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 298386003081 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 298386003082 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 298386003083 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 298386003084 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 298386003085 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 298386003086 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 298386003087 active site 298386003088 phosphorylation site [posttranslational modification] 298386003089 intermolecular recognition site; other site 298386003090 dimerization interface [polypeptide binding]; other site 298386003091 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 298386003092 DNA binding site [nucleotide binding] 298386003093 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 298386003094 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386003095 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 298386003096 dimer interface [polypeptide binding]; other site 298386003097 phosphorylation site [posttranslational modification] 298386003098 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 298386003099 ATP binding site [chemical binding]; other site 298386003100 Mg2+ binding site [ion binding]; other site 298386003101 G-X-G motif; other site 298386003102 CHASE3 domain; Region: CHASE3; cl05000 298386003103 CHASE3 domain; Region: CHASE3; cl05000 298386003104 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386003105 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386003106 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386003107 dimer interface [polypeptide binding]; other site 298386003108 putative CheW interface [polypeptide binding]; other site 298386003109 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 298386003110 EamA-like transporter family; Region: EamA; cl01037 298386003111 EamA-like transporter family; Region: EamA; cl01037 298386003112 Sodium:solute symporter family; Region: SSF; cl00456 298386003113 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 298386003114 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386003115 Amidinotransferase; Region: Amidinotransf; cl12043 298386003116 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 298386003117 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 298386003118 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 298386003119 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 298386003120 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 298386003121 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386003122 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 298386003123 dimer interface [polypeptide binding]; other site 298386003124 phosphorylation site [posttranslational modification] 298386003125 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 298386003126 ATP binding site [chemical binding]; other site 298386003127 Mg2+ binding site [ion binding]; other site 298386003128 G-X-G motif; other site 298386003129 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 298386003130 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 298386003131 active site 298386003132 phosphorylation site [posttranslational modification] 298386003133 intermolecular recognition site; other site 298386003134 dimerization interface [polypeptide binding]; other site 298386003135 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 298386003136 DNA binding site [nucleotide binding] 298386003137 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 298386003138 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 298386003139 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 298386003140 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 298386003141 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 298386003142 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 298386003143 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 298386003144 Outer membrane efflux protein; Region: OEP; pfam02321 298386003145 Outer membrane efflux protein; Region: OEP; pfam02321 298386003146 Cation efflux family; Region: Cation_efflux; cl00316 298386003147 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 298386003148 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 298386003149 Helix-turn-helix domains; Region: HTH; cl00088 298386003150 Protein of unknown function (DUF2496); Region: DUF2496; cl11670 298386003151 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 298386003152 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 298386003153 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386003154 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 298386003155 eyelet of channel; other site 298386003156 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 298386003157 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 298386003158 Protein of unknown function (DUF454); Region: DUF454; cl01063 298386003159 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 298386003160 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 298386003161 active site 298386003162 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 298386003163 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 298386003164 Walker A motif; other site 298386003165 ATP binding site [chemical binding]; other site 298386003166 Walker B motif; other site 298386003167 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386003168 arginine finger; other site 298386003169 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 298386003170 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 298386003171 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 298386003172 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 298386003173 recombination protein RecR; Reviewed; Region: recR; PRK00076 298386003174 RecR protein; Region: RecR; pfam02132 298386003175 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 298386003176 putative active site [active] 298386003177 putative metal-binding site [ion binding]; other site 298386003178 tetramer interface [polypeptide binding]; other site 298386003179 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 298386003180 trimer interface [polypeptide binding]; other site 298386003181 eyelet of channel; other site 298386003182 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 298386003183 DNA binding site [nucleotide binding] 298386003184 heat shock protein 90; Provisional; Region: PRK05218 298386003185 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 298386003186 ATP binding site [chemical binding]; other site 298386003187 Mg2+ binding site [ion binding]; other site 298386003188 G-X-G motif; other site 298386003189 adenylate kinase; Reviewed; Region: adk; PRK00279 298386003190 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 298386003191 AMP-binding site [chemical binding]; other site 298386003192 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 298386003193 ferrochelatase; Reviewed; Region: hemH; PRK00035 298386003194 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 298386003195 active site 298386003196 C-terminal domain interface [polypeptide binding]; other site 298386003197 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 298386003198 active site 298386003199 N-terminal domain interface [polypeptide binding]; other site 298386003200 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 298386003201 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 298386003202 substrate binding site [chemical binding]; other site 298386003203 ATP binding site [chemical binding]; other site 298386003204 asparagine synthetase B; Provisional; Region: asnB; PRK09431 298386003205 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 298386003206 active site 298386003207 dimer interface [polypeptide binding]; other site 298386003208 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 298386003209 Ligand Binding Site [chemical binding]; other site 298386003210 Molecular Tunnel; other site 298386003211 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 298386003212 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 298386003213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386003214 Helix-turn-helix domains; Region: HTH; cl00088 298386003215 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 298386003216 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 298386003217 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 298386003218 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 298386003219 active site 298386003220 dimer interface [polypeptide binding]; other site 298386003221 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 298386003222 active site 298386003223 trimer interface [polypeptide binding]; other site 298386003224 allosteric site; other site 298386003225 active site lid [active] 298386003226 hexamer (dimer of trimers) interface [polypeptide binding]; other site 298386003227 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386003228 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 298386003229 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 298386003230 active site turn [active] 298386003231 phosphorylation site [posttranslational modification] 298386003232 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 298386003233 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 298386003234 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 298386003235 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 298386003236 active site 298386003237 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 298386003238 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 298386003239 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 298386003240 active site 298386003241 HIGH motif; other site 298386003242 nucleotide binding site [chemical binding]; other site 298386003243 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 298386003244 KMSKS motif; other site 298386003245 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 298386003246 ferric uptake regulator; Provisional; Region: fur; PRK09462 298386003247 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 298386003248 metal binding site 2 [ion binding]; metal-binding site 298386003249 putative DNA binding helix; other site 298386003250 metal binding site 1 [ion binding]; metal-binding site 298386003251 dimer interface [polypeptide binding]; other site 298386003252 structural Zn2+ binding site [ion binding]; other site 298386003253 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386003254 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 298386003255 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 298386003256 acyl-CoA esterase; Provisional; Region: PRK10673 298386003257 SeqA protein; Region: SeqA; cl11470 298386003258 phosphoglucomutase; Validated; Region: PRK07564 298386003259 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 298386003260 active site 298386003261 substrate binding site [chemical binding]; other site 298386003262 metal binding site [ion binding]; metal-binding site 298386003263 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 298386003264 Uncharacterized conserved protein [Function unknown]; Region: COG0327 298386003265 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 298386003266 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 298386003267 dimer interface [polypeptide binding]; other site 298386003268 Citrate synthase; Region: Citrate_synt; pfam00285 298386003269 active site 298386003270 citrylCoA binding site [chemical binding]; other site 298386003271 NADH binding [chemical binding]; other site 298386003272 cationic pore residues; other site 298386003273 oxalacetate/citrate binding site [chemical binding]; other site 298386003274 coenzyme A binding site [chemical binding]; other site 298386003275 catalytic triad [active] 298386003276 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 298386003277 Iron-sulfur protein interface; other site 298386003278 proximal quinone binding site [chemical binding]; other site 298386003279 SdhD (CybS) interface [polypeptide binding]; other site 298386003280 proximal heme binding site [chemical binding]; other site 298386003281 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 298386003282 cardiolipin binding site; other site 298386003283 SdhC subunit interface [polypeptide binding]; other site 298386003284 proximal heme binding site [chemical binding]; other site 298386003285 Iron-sulfur protein interface; other site 298386003286 proximal quinone binding site [chemical binding]; other site 298386003287 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 298386003288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386003289 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 298386003290 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 298386003291 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 298386003292 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 298386003293 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 298386003294 TPP-binding site [chemical binding]; other site 298386003295 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 298386003296 dimer interface [polypeptide binding]; other site 298386003297 PYR/PP interface [polypeptide binding]; other site 298386003298 TPP binding site [chemical binding]; other site 298386003299 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 298386003300 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 298386003301 E3 interaction surface; other site 298386003302 lipoyl attachment site [posttranslational modification]; other site 298386003303 e3 binding domain; Region: E3_binding; pfam02817 298386003304 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 298386003305 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 298386003306 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386003307 CoA-ligase; Region: Ligase_CoA; cl02894 298386003308 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 298386003309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386003310 CoA-ligase; Region: Ligase_CoA; cl02894 298386003311 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 298386003312 ABC-ATPase subunit interface; other site 298386003313 dimer interface [polypeptide binding]; other site 298386003314 putative PBP binding regions; other site 298386003315 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 298386003316 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 298386003317 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 298386003318 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 298386003319 metal binding site [ion binding]; metal-binding site 298386003320 putative peptidase; Provisional; Region: PRK11649 298386003321 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 298386003322 FeoA domain; Region: FeoA; cl00838 298386003323 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 298386003324 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 298386003325 G1 box; other site 298386003326 GTP/Mg2+ binding site [chemical binding]; other site 298386003327 Switch I region; other site 298386003328 G2 box; other site 298386003329 G3 box; other site 298386003330 Switch II region; other site 298386003331 G4 box; other site 298386003332 G5 box; other site 298386003333 Nucleoside recognition; Region: Gate; cl00486 298386003334 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 298386003335 Nucleoside recognition; Region: Gate; cl00486 298386003336 Helix-turn-helix domains; Region: HTH; cl00088 298386003337 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 298386003338 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 298386003339 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386003340 metal binding site [ion binding]; metal-binding site 298386003341 active site 298386003342 I-site; other site 298386003343 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 298386003344 arginyl-tRNA synthetase; Region: argS; TIGR00456 298386003345 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 298386003346 active site 298386003347 HIGH motif; other site 298386003348 KMSK motif region; other site 298386003349 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 298386003350 tRNA binding surface [nucleotide binding]; other site 298386003351 anticodon binding site; other site 298386003352 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 298386003353 putative metal binding site [ion binding]; other site 298386003354 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 298386003355 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 298386003356 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 298386003357 putative active site [active] 298386003358 putative substrate binding site [chemical binding]; other site 298386003359 putative cosubstrate binding site; other site 298386003360 catalytic site [active] 298386003361 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 298386003362 active site flap/lid [active] 298386003363 nucleophilic elbow; other site 298386003364 catalytic triad [active] 298386003365 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 298386003366 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 298386003367 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386003368 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386003369 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 298386003370 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 298386003371 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 298386003372 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 298386003373 nucleophilic elbow; other site 298386003374 catalytic triad; other site 298386003375 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 298386003376 AMP-binding enzyme; Region: AMP-binding; cl15778 298386003377 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 298386003378 ribonuclease D; Provisional; Region: PRK10829 298386003379 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 298386003380 catalytic site [active] 298386003381 putative active site [active] 298386003382 putative substrate binding site [chemical binding]; other site 298386003383 HRDC domain; Region: HRDC; cl02578 298386003384 Septum formation topological specificity factor MinE; Region: MinE; cl00538 298386003385 cell division inhibitor MinD; Provisional; Region: PRK10818 298386003386 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 298386003387 Switch I; other site 298386003388 Switch II; other site 298386003389 septum formation inhibitor; Reviewed; Region: minC; PRK04804 298386003390 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 298386003391 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 298386003392 YcgL domain; Region: YcgL; cl01189 298386003393 Transglycosylase SLT domain; Region: SLT_2; pfam13406 298386003394 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 298386003395 N-acetyl-D-glucosamine binding site [chemical binding]; other site 298386003396 catalytic residue [active] 298386003397 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 298386003398 H-NS histone family; Region: Histone_HNS; pfam00816 298386003399 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 298386003400 thymidine kinase; Provisional; Region: PRK04296 298386003401 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 298386003402 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 298386003403 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 298386003404 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 298386003405 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 298386003406 substrate binding site [chemical binding]; other site 298386003407 glutamase interaction surface [polypeptide binding]; other site 298386003408 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 298386003409 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 298386003410 catalytic residues [active] 298386003411 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 298386003412 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 298386003413 putative active site [active] 298386003414 oxyanion strand; other site 298386003415 catalytic triad [active] 298386003416 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 298386003417 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 298386003418 active site 298386003419 motif I; other site 298386003420 motif II; other site 298386003421 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 298386003422 putative active site pocket [active] 298386003423 4-fold oligomerization interface [polypeptide binding]; other site 298386003424 metal binding residues [ion binding]; metal-binding site 298386003425 3-fold/trimer interface [polypeptide binding]; other site 298386003426 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 298386003427 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 298386003428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386003429 homodimer interface [polypeptide binding]; other site 298386003430 catalytic residue [active] 298386003431 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 298386003432 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 298386003433 NAD binding site [chemical binding]; other site 298386003434 dimerization interface [polypeptide binding]; other site 298386003435 product binding site; other site 298386003436 substrate binding site [chemical binding]; other site 298386003437 zinc binding site [ion binding]; other site 298386003438 catalytic residues [active] 298386003439 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 298386003440 ATP phosphoribosyltransferase; Region: HisG; cl15266 298386003441 HisG, C-terminal domain; Region: HisG_C; cl06867 298386003442 hypothetical protein; Provisional; Region: PRK02250 298386003443 SEC-C motif; Region: SEC-C; pfam02810 298386003444 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 298386003445 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 298386003446 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 298386003447 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 298386003448 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 298386003449 putative active site [active] 298386003450 putative metal binding site [ion binding]; other site 298386003451 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 298386003452 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 298386003453 substrate binding site [chemical binding]; other site 298386003454 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 298386003455 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 298386003456 active site 298386003457 HIGH motif; other site 298386003458 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 298386003459 KMSKS motif; other site 298386003460 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 298386003461 tRNA binding surface [nucleotide binding]; other site 298386003462 anticodon binding site; other site 298386003463 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 298386003464 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 298386003465 active site 298386003466 catalytic site [active] 298386003467 metal binding site [ion binding]; metal-binding site 298386003468 Ion transport protein; Region: Ion_trans; pfam00520 298386003469 Ion channel; Region: Ion_trans_2; cl11596 298386003470 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 298386003471 MarC family integral membrane protein; Region: MarC; cl00919 298386003472 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 298386003473 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 298386003474 putative catalytic cysteine [active] 298386003475 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 298386003476 putative active site [active] 298386003477 metal binding site [ion binding]; metal-binding site 298386003478 classical (c) SDRs; Region: SDR_c; cd05233 298386003479 NAD(P) binding site [chemical binding]; other site 298386003480 active site 298386003481 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 298386003482 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386003483 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 298386003484 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 298386003485 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 298386003486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386003487 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 298386003488 S-adenosylmethionine binding site [chemical binding]; other site 298386003489 Protein of unknown function DUF72; Region: DUF72; cl00777 298386003490 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 298386003491 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 298386003492 dimer interface [polypeptide binding]; other site 298386003493 anticodon binding site; other site 298386003494 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 298386003495 homodimer interface [polypeptide binding]; other site 298386003496 motif 1; other site 298386003497 active site 298386003498 motif 2; other site 298386003499 GAD domain; Region: GAD; pfam02938 298386003500 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 298386003501 active site 298386003502 motif 3; other site 298386003503 Transcriptional regulator; Region: Transcrip_reg; cl00361 298386003504 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 298386003505 active site 298386003506 putative DNA-binding cleft [nucleotide binding]; other site 298386003507 dimer interface [polypeptide binding]; other site 298386003508 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386003509 dimer interface [polypeptide binding]; other site 298386003510 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 298386003511 putative CheW interface [polypeptide binding]; other site 298386003512 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 298386003513 RuvA N terminal domain; Region: RuvA_N; pfam01330 298386003514 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 298386003515 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 298386003516 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 298386003517 Walker A motif; other site 298386003518 ATP binding site [chemical binding]; other site 298386003519 Walker B motif; other site 298386003520 arginine finger; other site 298386003521 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 298386003522 excinuclease ABC subunit B; Provisional; Region: PRK05298 298386003523 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 298386003524 ATP binding site [chemical binding]; other site 298386003525 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 298386003526 nucleotide binding region [chemical binding]; other site 298386003527 ATP-binding site [chemical binding]; other site 298386003528 Ultra-violet resistance protein B; Region: UvrB; pfam12344 298386003529 UvrB/uvrC motif; Region: UVR; pfam02151 298386003530 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 298386003531 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 298386003532 active site 298386003533 phosphorylation site [posttranslational modification] 298386003534 intermolecular recognition site; other site 298386003535 dimerization interface [polypeptide binding]; other site 298386003536 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 298386003537 Walker A motif; other site 298386003538 ATP binding site [chemical binding]; other site 298386003539 Walker B motif; other site 298386003540 arginine finger; other site 298386003541 Helix-turn-helix domains; Region: HTH; cl00088 298386003542 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 298386003543 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 298386003544 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 298386003545 phosphate binding site [ion binding]; other site 298386003546 putative substrate binding pocket [chemical binding]; other site 298386003547 dimer interface [polypeptide binding]; other site 298386003548 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 298386003549 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 298386003550 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 298386003551 FeS/SAM binding site; other site 298386003552 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 298386003553 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 298386003554 trimer interface [polypeptide binding]; other site 298386003555 dimer interface [polypeptide binding]; other site 298386003556 putative active site [active] 298386003557 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 298386003558 MoaE interaction surface [polypeptide binding]; other site 298386003559 MoeB interaction surface [polypeptide binding]; other site 298386003560 thiocarboxylated glycine; other site 298386003561 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 298386003562 MoaE homodimer interface [polypeptide binding]; other site 298386003563 MoaD interaction [polypeptide binding]; other site 298386003564 active site residues [active] 298386003565 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 298386003566 trimer interface [polypeptide binding]; other site 298386003567 eyelet of channel; other site 298386003568 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 298386003569 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 298386003570 DNA binding residues [nucleotide binding] 298386003571 putative dimer interface [polypeptide binding]; other site 298386003572 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 298386003573 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 298386003574 peptide binding site [polypeptide binding]; other site 298386003575 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 298386003576 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386003577 dimer interface [polypeptide binding]; other site 298386003578 conserved gate region; other site 298386003579 putative PBP binding loops; other site 298386003580 ABC-ATPase subunit interface; other site 298386003581 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 298386003582 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 298386003583 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386003584 dimer interface [polypeptide binding]; other site 298386003585 conserved gate region; other site 298386003586 putative PBP binding loops; other site 298386003587 ABC-ATPase subunit interface; other site 298386003588 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 298386003589 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 298386003590 Walker A/P-loop; other site 298386003591 ATP binding site [chemical binding]; other site 298386003592 Q-loop/lid; other site 298386003593 ABC transporter signature motif; other site 298386003594 Walker B; other site 298386003595 D-loop; other site 298386003596 H-loop/switch region; other site 298386003597 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 298386003598 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 298386003599 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 298386003600 Walker A/P-loop; other site 298386003601 ATP binding site [chemical binding]; other site 298386003602 Q-loop/lid; other site 298386003603 ABC transporter signature motif; other site 298386003604 Walker B; other site 298386003605 D-loop; other site 298386003606 H-loop/switch region; other site 298386003607 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 298386003608 Cache domain; Region: Cache_1; pfam02743 298386003609 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 298386003610 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386003611 dimerization interface [polypeptide binding]; other site 298386003612 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386003613 dimer interface [polypeptide binding]; other site 298386003614 putative CheW interface [polypeptide binding]; other site 298386003615 Cache domain; Region: Cache_1; pfam02743 298386003616 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386003617 metal binding site [ion binding]; metal-binding site 298386003618 active site 298386003619 I-site; other site 298386003620 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 298386003621 Cupin superfamily protein; Region: Cupin_4; pfam08007 298386003622 Fibronectin type III-like domain; Region: Fn3-like; cl15273 298386003623 Fibronectin type III-like domain; Region: Fn3-like; cl15273 298386003624 Fibronectin type III-like domain; Region: Fn3-like; cl15273 298386003625 Fibronectin type III-like domain; Region: Fn3-like; cl15273 298386003626 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386003627 ligand binding site [chemical binding]; other site 298386003628 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 298386003629 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386003630 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 298386003631 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 298386003632 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386003633 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 298386003634 iron binding site [ion binding]; other site 298386003635 adenylosuccinate lyase; Provisional; Region: PRK09285 298386003636 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 298386003637 tetramer interface [polypeptide binding]; other site 298386003638 active site 298386003639 Protein of unknown function (DUF489); Region: DUF489; cl01097 298386003640 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 298386003641 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 298386003642 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 298386003643 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 298386003644 active site 298386003645 isocitrate dehydrogenase; Validated; Region: PRK07362 298386003646 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 298386003647 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 298386003648 DNA-binding site [nucleotide binding]; DNA binding site 298386003649 RNA-binding motif; other site 298386003650 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 298386003651 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 298386003652 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 298386003653 Walker A motif; other site 298386003654 ATP binding site [chemical binding]; other site 298386003655 Walker B motif; other site 298386003656 arginine finger; other site 298386003657 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 298386003658 Walker A motif; other site 298386003659 ATP binding site [chemical binding]; other site 298386003660 Walker B motif; other site 298386003661 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 298386003662 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 298386003663 rRNA binding site [nucleotide binding]; other site 298386003664 predicted 30S ribosome binding site; other site 298386003665 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 298386003666 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 298386003667 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386003668 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386003669 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 298386003670 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386003671 Walker A/P-loop; other site 298386003672 ATP binding site [chemical binding]; other site 298386003673 Q-loop/lid; other site 298386003674 ABC transporter signature motif; other site 298386003675 Walker B; other site 298386003676 D-loop; other site 298386003677 H-loop/switch region; other site 298386003678 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 298386003679 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 298386003680 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386003681 Walker A/P-loop; other site 298386003682 ATP binding site [chemical binding]; other site 298386003683 Q-loop/lid; other site 298386003684 ABC transporter signature motif; other site 298386003685 Walker B; other site 298386003686 D-loop; other site 298386003687 H-loop/switch region; other site 298386003688 thioredoxin reductase; Provisional; Region: PRK10262 298386003689 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386003690 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 298386003691 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 298386003692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386003693 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 298386003694 Helix-turn-helix domains; Region: HTH; cl00088 298386003695 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 298386003696 DNA translocase FtsK; Provisional; Region: PRK10263 298386003697 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386003698 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 298386003699 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 298386003700 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 298386003701 recombination factor protein RarA; Reviewed; Region: PRK13342 298386003702 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 298386003703 Walker A motif; other site 298386003704 ATP binding site [chemical binding]; other site 298386003705 Walker B motif; other site 298386003706 arginine finger; other site 298386003707 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 298386003708 seryl-tRNA synthetase; Provisional; Region: PRK05431 298386003709 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 298386003710 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 298386003711 dimer interface [polypeptide binding]; other site 298386003712 active site 298386003713 motif 1; other site 298386003714 motif 2; other site 298386003715 motif 3; other site 298386003716 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 298386003717 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 298386003718 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 298386003719 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 298386003720 active site 298386003721 HIGH motif; other site 298386003722 KMSKS motif; other site 298386003723 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 298386003724 tRNA binding surface [nucleotide binding]; other site 298386003725 anticodon binding site; other site 298386003726 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 298386003727 dimer interface [polypeptide binding]; other site 298386003728 putative tRNA-binding site [nucleotide binding]; other site 298386003729 antiporter inner membrane protein; Provisional; Region: PRK11670 298386003730 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 298386003731 Walker A motif; other site 298386003732 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 298386003733 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 298386003734 ATP-binding site [chemical binding]; other site 298386003735 Sugar specificity; other site 298386003736 Pyrimidine base specificity; other site 298386003737 AsmA family; Region: AsmA; pfam05170 298386003738 AsmA-like C-terminal region; Region: AsmA_2; cl15864 298386003739 putative assembly protein; Provisional; Region: PRK10833 298386003740 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 298386003741 FOG: CBS domain [General function prediction only]; Region: COG0517 298386003742 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 298386003743 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 298386003744 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 298386003745 Phosphate-starvation-inducible E; Region: PsiE; cl01264 298386003746 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386003747 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 298386003748 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 298386003749 homodimer interface [polypeptide binding]; other site 298386003750 Walker A motif; other site 298386003751 ATP binding site [chemical binding]; other site 298386003752 hydroxycobalamin binding site [chemical binding]; other site 298386003753 Walker B motif; other site 298386003754 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 298386003755 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 298386003756 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 298386003757 putative dimer interface [polypeptide binding]; other site 298386003758 active site pocket [active] 298386003759 putative cataytic base [active] 298386003760 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 298386003761 Low molecular weight phosphatase family; Region: LMWPc; cd00115 298386003762 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 298386003763 active site 298386003764 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 298386003765 Sulfate transporter family; Region: Sulfate_transp; cl15842 298386003766 Sulfate transporter family; Region: Sulfate_transp; cl15842 298386003767 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 298386003768 ribonuclease E; Reviewed; Region: rne; PRK10811 298386003769 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 298386003770 homodimer interface [polypeptide binding]; other site 298386003771 oligonucleotide binding site [chemical binding]; other site 298386003772 ribonuclease E; Reviewed; Region: rne; PRK10811 298386003773 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 298386003774 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 298386003775 RNA binding surface [nucleotide binding]; other site 298386003776 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 298386003777 active site 298386003778 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 298386003779 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 298386003780 motif II; other site 298386003781 Maf-like protein; Region: Maf; pfam02545 298386003782 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 298386003783 active site 298386003784 dimer interface [polypeptide binding]; other site 298386003785 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 298386003786 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 298386003787 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 298386003788 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 298386003789 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 298386003790 dimer interface [polypeptide binding]; other site 298386003791 active site 298386003792 CoA binding pocket [chemical binding]; other site 298386003793 Acyl transferase domain; Region: Acyl_transf_1; cl08282 298386003794 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 298386003795 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 298386003796 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 298386003797 NAD(P) binding site [chemical binding]; other site 298386003798 homotetramer interface [polypeptide binding]; other site 298386003799 homodimer interface [polypeptide binding]; other site 298386003800 active site 298386003801 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386003802 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08722 298386003803 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 298386003804 dimer interface [polypeptide binding]; other site 298386003805 active site 298386003806 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 298386003807 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386003808 catalytic residue [active] 298386003809 YceG-like family; Region: YceG; pfam02618 298386003810 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 298386003811 dimerization interface [polypeptide binding]; other site 298386003812 thymidylate kinase; Validated; Region: tmk; PRK00698 298386003813 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 298386003814 TMP-binding site; other site 298386003815 ATP-binding site [chemical binding]; other site 298386003816 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 298386003817 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386003818 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 298386003819 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 298386003820 active site 298386003821 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 298386003822 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386003823 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 298386003824 active site turn [active] 298386003825 phosphorylation site [posttranslational modification] 298386003826 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 298386003827 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 298386003828 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 298386003829 TfoX N-terminal domain; Region: TfoX_N; cl01167 298386003830 TfoX N-terminal domain; Region: TfoX_N; cl01167 298386003831 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 298386003832 Helix-turn-helix domains; Region: HTH; cl00088 298386003833 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 298386003834 dimerization interface [polypeptide binding]; other site 298386003835 substrate binding pocket [chemical binding]; other site 298386003836 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 298386003837 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386003838 Response regulator receiver domain; Region: Response_reg; pfam00072 298386003839 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 298386003840 active site 298386003841 phosphorylation site [posttranslational modification] 298386003842 intermolecular recognition site; other site 298386003843 dimerization interface [polypeptide binding]; other site 298386003844 Response regulator receiver domain; Region: Response_reg; pfam00072 298386003845 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 298386003846 active site 298386003847 phosphorylation site [posttranslational modification] 298386003848 intermolecular recognition site; other site 298386003849 dimerization interface [polypeptide binding]; other site 298386003850 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 298386003851 ligand binding site [chemical binding]; other site 298386003852 flexible hinge region; other site 298386003853 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 298386003854 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 298386003855 dimer interface [polypeptide binding]; other site 298386003856 phosphorylation site [posttranslational modification] 298386003857 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 298386003858 ATP binding site [chemical binding]; other site 298386003859 Mg2+ binding site [ion binding]; other site 298386003860 G-X-G motif; other site 298386003861 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 298386003862 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339; cl15420 298386003863 FOG: CBS domain [General function prediction only]; Region: COG0517 298386003864 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_16; cd04629 298386003865 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 298386003866 MatE; Region: MatE; cl10513 298386003867 MatE; Region: MatE; cl10513 298386003868 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 298386003869 transmembrane helices; other site 298386003870 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; cl00047 298386003871 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 298386003872 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 298386003873 ATP binding site [chemical binding]; other site 298386003874 Mg2+ binding site [ion binding]; other site 298386003875 G-X-G motif; other site 298386003876 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 298386003877 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 298386003878 active site 298386003879 phosphorylation site [posttranslational modification] 298386003880 intermolecular recognition site; other site 298386003881 dimerization interface [polypeptide binding]; other site 298386003882 Integrase core domain; Region: rve; cl01316 298386003883 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 298386003884 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 298386003885 metal-binding site [ion binding] 298386003886 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 298386003887 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 298386003888 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 298386003889 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 298386003890 trehalose repressor; Provisional; Region: treR; PRK09492 298386003891 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 298386003892 DNA binding site [nucleotide binding] 298386003893 domain linker motif; other site 298386003894 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 298386003895 dimerization interface [polypeptide binding]; other site 298386003896 ligand binding site [chemical binding]; other site 298386003897 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 298386003898 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 298386003899 active site turn [active] 298386003900 phosphorylation site [posttranslational modification] 298386003901 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386003902 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 298386003903 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 298386003904 Ca binding site [ion binding]; other site 298386003905 active site 298386003906 catalytic site [active] 298386003907 LysE type translocator; Region: LysE; cl00565 298386003908 Predicted membrane protein [Function unknown]; Region: COG1289 298386003909 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 298386003910 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 298386003911 DNA helicase IV; Provisional; Region: helD; PRK11054 298386003912 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 298386003913 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386003914 Family description; Region: UvrD_C_2; cl15862 298386003915 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 298386003916 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR5; cd08271 298386003917 putative NAD(P) binding site [chemical binding]; other site 298386003918 substrate binding site [chemical binding]; other site 298386003919 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 298386003920 active site 298386003921 dimer interfaces [polypeptide binding]; other site 298386003922 catalytic residues [active] 298386003923 TMAO reductase system periplasmic protein TorT; Region: TMAO_TorT; TIGR02955 298386003924 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 298386003925 putative ligand binding site [chemical binding]; other site 298386003926 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 298386003927 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386003928 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 298386003929 dimer interface [polypeptide binding]; other site 298386003930 phosphorylation site [posttranslational modification] 298386003931 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 298386003932 ATP binding site [chemical binding]; other site 298386003933 Mg2+ binding site [ion binding]; other site 298386003934 G-X-G motif; other site 298386003935 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 298386003936 active site 298386003937 phosphorylation site [posttranslational modification] 298386003938 intermolecular recognition site; other site 298386003939 dimerization interface [polypeptide binding]; other site 298386003940 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 298386003941 putative binding surface; other site 298386003942 active site 298386003943 Peptidase family C69; Region: Peptidase_C69; pfam03577 298386003944 elongation factor G; Reviewed; Region: PRK00007 298386003945 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 298386003946 G1 box; other site 298386003947 putative GEF interaction site [polypeptide binding]; other site 298386003948 GTP/Mg2+ binding site [chemical binding]; other site 298386003949 Switch I region; other site 298386003950 G2 box; other site 298386003951 G3 box; other site 298386003952 Switch II region; other site 298386003953 G4 box; other site 298386003954 G5 box; other site 298386003955 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 298386003956 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 298386003957 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 298386003958 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 298386003959 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 298386003960 ATP binding site [chemical binding]; other site 298386003961 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 298386003962 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 298386003963 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 298386003964 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 298386003965 active site 298386003966 catalytic tetrad [active] 298386003967 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 298386003968 active site residue [active] 298386003969 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 298386003970 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 298386003971 active site residue [active] 298386003972 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 298386003973 active site residue [active] 298386003974 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 298386003975 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 298386003976 active site residue [active] 298386003977 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 298386003978 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 298386003979 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 298386003980 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 298386003981 META domain; Region: META; cl01245 298386003982 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 298386003983 Walker A motif; other site 298386003984 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 298386003985 nudix motif; other site 298386003986 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 298386003987 putative catalytic site [active] 298386003988 putative metal binding site [ion binding]; other site 298386003989 putative phosphate binding site [ion binding]; other site 298386003990 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 298386003991 dimer interface [polypeptide binding]; other site 298386003992 Citrate synthase; Region: Citrate_synt; pfam00285 298386003993 active site 298386003994 citrylCoA binding site [chemical binding]; other site 298386003995 oxalacetate/citrate binding site [chemical binding]; other site 298386003996 coenzyme A binding site [chemical binding]; other site 298386003997 catalytic triad [active] 298386003998 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 298386003999 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 298386004000 AMMECR1; Region: AMMECR1; cl00911 298386004001 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 298386004002 putative ligand binding pocket/active site [active] 298386004003 putative metal binding site [ion binding]; other site 298386004004 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 298386004005 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 298386004006 FeS/SAM binding site; other site 298386004007 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 298386004008 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386004009 dimerization interface [polypeptide binding]; other site 298386004010 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386004011 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386004012 dimer interface [polypeptide binding]; other site 298386004013 putative CheW interface [polypeptide binding]; other site 298386004014 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 298386004015 MOSC domain; Region: MOSC; pfam03473 298386004016 3-alpha domain; Region: 3-alpha; pfam03475 298386004017 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 298386004018 binding surface 298386004019 TPR motif; other site 298386004020 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 298386004021 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 298386004022 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 298386004023 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 298386004024 Polysulphide reductase, NrfD; Region: NrfD; cl01295 298386004025 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 298386004026 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 298386004027 catalytic residues [active] 298386004028 central insert; other site 298386004029 Cytochrome C biogenesis protein; Region: CcmH; cl01179 298386004030 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 298386004031 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 298386004032 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 298386004033 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 298386004034 active site 298386004035 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 298386004036 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 298386004037 A functionally uncharacterized subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the chitobiase of Serratia marcescens, a beta-N-1,4-acetylhexosaminidase that hydrolyzes the beta-1,4-glycosidic linkages in...; Region: GH20_chitobiase-like_1; cd06570 298386004038 active site 298386004039 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 298386004040 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 298386004041 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386004042 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 298386004043 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 298386004044 dimer interface [polypeptide binding]; other site 298386004045 active site 298386004046 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 298386004047 substrate binding site [chemical binding]; other site 298386004048 catalytic residue [active] 298386004049 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 298386004050 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 298386004051 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 298386004052 putative active site [active] 298386004053 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 298386004054 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 298386004055 active site 298386004056 putative substrate binding pocket [chemical binding]; other site 298386004057 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 298386004058 homotrimer interaction site [polypeptide binding]; other site 298386004059 putative active site [active] 298386004060 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 298386004061 Sodium:solute symporter family; Region: SSF; cl00456 298386004062 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 298386004063 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 298386004064 substrate binding site [chemical binding]; other site 298386004065 ATP binding site [chemical binding]; other site 298386004066 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 298386004067 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 298386004068 active site 298386004069 intersubunit interface [polypeptide binding]; other site 298386004070 catalytic residue [active] 298386004071 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 298386004072 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 298386004073 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 298386004074 Uncharacterized protein conserved in bacteria (DUF2330); Region: DUF2330; cl01827 298386004075 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 298386004076 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 298386004077 LamB/YcsF family; Region: LamB_YcsF; cl00664 298386004078 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 298386004079 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 298386004080 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 298386004081 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 298386004082 putative active site pocket [active] 298386004083 dimerization interface [polypeptide binding]; other site 298386004084 putative catalytic residue [active] 298386004085 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 298386004086 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 298386004087 AMP-binding enzyme; Region: AMP-binding; cl15778 298386004088 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 298386004089 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 298386004090 Cupin domain; Region: Cupin_2; cl09118 298386004091 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 298386004092 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 298386004093 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 298386004094 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 298386004095 nudix motif; other site 298386004096 PAP2_like_2 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_2; cd03392 298386004097 active site 298386004098 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 298386004099 FAD binding domain; Region: FAD_binding_4; pfam01565 298386004100 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 298386004101 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 298386004102 amphipathic channel; other site 298386004103 Asn-Pro-Ala signature motifs; other site 298386004104 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386004105 Helix-turn-helix domains; Region: HTH; cl00088 298386004106 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386004107 Cation efflux family; Region: Cation_efflux; cl00316 298386004108 LabA_like proteins; Region: LabA; cd10911 298386004109 putative metal binding site [ion binding]; other site 298386004110 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 298386004111 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 298386004112 dimerization interface [polypeptide binding]; other site 298386004113 substrate binding site [chemical binding]; other site 298386004114 active site 298386004115 calcium binding site [ion binding]; other site 298386004116 hypothetical protein; Provisional; Region: PRK01254 298386004117 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 298386004118 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 298386004119 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 298386004120 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 298386004121 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 298386004122 Int/Topo IB signature motif; other site 298386004123 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 298386004124 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 298386004125 non-specific DNA binding site [nucleotide binding]; other site 298386004126 salt bridge; other site 298386004127 sequence-specific DNA binding site [nucleotide binding]; other site 298386004128 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 298386004129 replicative DNA helicase; Region: DnaB; TIGR00665 298386004130 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 298386004131 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 298386004132 Walker A motif; other site 298386004133 ATP binding site [chemical binding]; other site 298386004134 Walker B motif; other site 298386004135 DNA binding loops [nucleotide binding] 298386004136 Phage protein; Region: DUF3653; pfam12375 298386004137 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 298386004138 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 298386004139 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14272 298386004140 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386004141 ABC transporter signature motif; other site 298386004142 Walker B; other site 298386004143 D-loop; other site 298386004144 H-loop/switch region; other site 298386004145 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386004146 Integrase core domain; Region: rve; cl01316 298386004147 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 298386004148 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386004149 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 298386004150 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 298386004151 non-specific DNA binding site [nucleotide binding]; other site 298386004152 salt bridge; other site 298386004153 sequence-specific DNA binding site [nucleotide binding]; other site 298386004154 Domain of unknown function (DUF955); Region: DUF955; cl01076 298386004155 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386004156 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 298386004157 active site 298386004158 metal binding site [ion binding]; metal-binding site 298386004159 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 298386004160 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386004161 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 298386004162 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 298386004163 Putative transposase; Region: Y2_Tnp; pfam04986 298386004164 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 298386004165 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 298386004166 active site 298386004167 DNA binding site [nucleotide binding] 298386004168 Int/Topo IB signature motif; other site 298386004169 stationary phase growth adaptation protein; Provisional; Region: PRK09717 298386004170 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386004171 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386004172 Integrase core domain; Region: rve; cl01316 298386004173 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 298386004174 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 298386004175 active site 298386004176 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 298386004177 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 298386004178 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386004179 catalytic residue [active] 298386004180 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 298386004181 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 298386004182 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 298386004183 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 298386004184 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 298386004185 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 298386004186 Active Sites [active] 298386004187 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 298386004188 ParB-like nuclease domain; Region: ParBc; cl02129 298386004189 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 298386004190 dimer interface [polypeptide binding]; other site 298386004191 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 298386004192 metal binding site [ion binding]; metal-binding site 298386004193 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 298386004194 active site 298386004195 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 298386004196 Phage Terminase; Region: Terminase_1; pfam03354 298386004197 Phage-related protein [Function unknown]; Region: COG4695; cl01923 298386004198 Phage portal protein; Region: Phage_portal; pfam04860 298386004199 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 298386004200 oligomer interface [polypeptide binding]; other site 298386004201 active site residues [active] 298386004202 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 298386004203 Phage capsid family; Region: Phage_capsid; pfam05065 298386004204 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 298386004205 oligomerization interface [polypeptide binding]; other site 298386004206 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 298386004207 LysE type translocator; Region: LysE; cl00565 298386004208 Helix-turn-helix domains; Region: HTH; cl00088 298386004209 Winged helix-turn helix; Region: HTH_29; pfam13551 298386004210 Winged helix-turn helix; Region: HTH_33; pfam13592 298386004211 Integrase core domain; Region: rve; cl01316 298386004212 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 298386004213 putative deacylase active site [active] 298386004214 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 298386004215 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 298386004216 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386004217 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 298386004218 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 298386004219 Helix-turn-helix domains; Region: HTH; cl00088 298386004220 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386004221 dimerization interface [polypeptide binding]; other site 298386004222 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 298386004223 Major Facilitator Superfamily; Region: MFS_1; pfam07690 298386004224 putative substrate translocation pore; other site 298386004225 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386004226 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386004227 dimer interface [polypeptide binding]; other site 298386004228 putative CheW interface [polypeptide binding]; other site 298386004229 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 298386004230 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 298386004231 Cysteine-rich domain; Region: CCG; pfam02754 298386004232 Cysteine-rich domain; Region: CCG; pfam02754 298386004233 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 298386004234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386004235 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 298386004236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386004237 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 298386004238 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386004239 metal binding site [ion binding]; metal-binding site 298386004240 active site 298386004241 I-site; other site 298386004242 Helix-turn-helix domains; Region: HTH; cl00088 298386004243 Winged helix-turn helix; Region: HTH_29; pfam13551 298386004244 Winged helix-turn helix; Region: HTH_33; pfam13592 298386004245 Integrase core domain; Region: rve; cl01316 298386004246 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 298386004247 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 298386004248 Helix-turn-helix domains; Region: HTH; cl00088 298386004249 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 298386004250 putative dimerization interface [polypeptide binding]; other site 298386004251 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 298386004252 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 298386004253 THF binding site; other site 298386004254 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 298386004255 substrate binding site [chemical binding]; other site 298386004256 THF binding site; other site 298386004257 zinc-binding site [ion binding]; other site 298386004258 META domain; Region: META; cl01245 298386004259 mechanosensitive channel MscS; Provisional; Region: PRK10334 298386004260 Mechanosensitive ion channel; Region: MS_channel; pfam00924 298386004261 integrase; Provisional; Region: int; PHA02601 298386004262 Lecithin:cholesterol acyltransferase; Region: LACT; pfam02450 298386004263 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 298386004264 active site flap/lid [active] 298386004265 nucleophilic elbow; other site 298386004266 catalytic triad [active] 298386004267 Integrase core domain; Region: rve; cl01316 298386004268 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386004269 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14253 298386004270 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 298386004271 Walker A/P-loop; other site 298386004272 ATP binding site [chemical binding]; other site 298386004273 Q-loop/lid; other site 298386004274 ABC transporter signature motif; other site 298386004275 Walker B; other site 298386004276 D-loop; other site 298386004277 H-loop/switch region; other site 298386004278 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 298386004279 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386004280 dimer interface [polypeptide binding]; other site 298386004281 conserved gate region; other site 298386004282 putative PBP binding loops; other site 298386004283 ABC-ATPase subunit interface; other site 298386004284 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 298386004285 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386004286 dimer interface [polypeptide binding]; other site 298386004287 conserved gate region; other site 298386004288 putative PBP binding loops; other site 298386004289 ABC-ATPase subunit interface; other site 298386004290 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 298386004291 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 298386004292 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386004293 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386004294 dimer interface [polypeptide binding]; other site 298386004295 putative CheW interface [polypeptide binding]; other site 298386004296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386004297 Helix-turn-helix domains; Region: HTH; cl00088 298386004298 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386004299 putative effector binding pocket; other site 298386004300 dimerization interface [polypeptide binding]; other site 298386004301 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 298386004302 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 298386004303 Nucleoside recognition; Region: Gate; cl00486 298386004304 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 298386004305 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 298386004306 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 298386004307 transcriptional regulator; Provisional; Region: PRK10632 298386004308 Helix-turn-helix domains; Region: HTH; cl00088 298386004309 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 298386004310 dimerization interface [polypeptide binding]; other site 298386004311 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 298386004312 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 298386004313 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 298386004314 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386004315 DctM-like transporters; Region: DctM; pfam06808 298386004316 Helix-turn-helix domain; Region: HTH_18; pfam12833 298386004317 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386004318 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 298386004319 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386004320 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 298386004321 FAD binding domain; Region: FAD_binding_4; pfam01565 298386004322 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 298386004323 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 298386004324 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 298386004325 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 298386004326 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 298386004327 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 298386004328 Cysteine-rich domain; Region: CCG; pfam02754 298386004329 Cysteine-rich domain; Region: CCG; pfam02754 298386004330 L-lactate permease; Region: Lactate_perm; cl00701 298386004331 transcriptional regulator; Provisional; Region: PRK10632 298386004332 Helix-turn-helix domains; Region: HTH; cl00088 298386004333 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386004334 putative effector binding pocket; other site 298386004335 dimerization interface [polypeptide binding]; other site 298386004336 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 298386004337 Protein of unknown function (DUF805); Region: DUF805; cl01224 298386004338 Ribosome recycling factor; Region: RRF_GI; pfam12614 298386004339 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 298386004340 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386004341 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 298386004342 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 298386004343 active site residue [active] 298386004344 Predicted transporter component [General function prediction only]; Region: COG2391 298386004345 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 298386004346 Predicted transporter component [General function prediction only]; Region: COG2391 298386004347 Sulphur transport; Region: Sulf_transp; cl01018 298386004348 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 298386004349 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 298386004350 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 298386004351 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 298386004352 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 298386004353 nitrite reductase subunit NirD; Provisional; Region: PRK14989 298386004354 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386004355 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 298386004356 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 298386004357 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 298386004358 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 298386004359 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 298386004360 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 298386004361 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 298386004362 ligand binding site [chemical binding]; other site 298386004363 flexible hinge region; other site 298386004364 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 298386004365 aromatic amino acid transport protein; Region: araaP; TIGR00837 298386004366 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 298386004367 ATP adenylyltransferase; Region: ATP_transf; pfam09830 298386004368 PcfJ-like protein; Region: PcfJ; pfam14284 298386004369 NlpC/P60 family; Region: NLPC_P60; cl11438 298386004370 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386004371 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 298386004372 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 298386004373 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386004374 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386004375 metal binding site [ion binding]; metal-binding site 298386004376 active site 298386004377 I-site; other site 298386004378 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 298386004379 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 298386004380 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 298386004381 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 298386004382 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 298386004383 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 298386004384 putative active site [active] 298386004385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386004386 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 298386004387 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 298386004388 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 298386004389 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 298386004390 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 298386004391 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 298386004392 active site 298386004393 metal binding site [ion binding]; metal-binding site 298386004394 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 298386004395 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 298386004396 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 298386004397 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 298386004398 putative active site [active] 298386004399 putative substrate binding site [chemical binding]; other site 298386004400 putative cosubstrate binding site; other site 298386004401 catalytic site [active] 298386004402 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 298386004403 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 298386004404 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 298386004405 GST_N family, 2 repeats of the N-terminal domain of soluble GSTs (2 GST_N) subfamily; composed of uncharacterized proteins. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a...; Region: GST_N_2GST_N; cd03041 298386004406 putative C-terminal domain interface [polypeptide binding]; other site 298386004407 putative GSH binding site (G-site) [chemical binding]; other site 298386004408 putative dimer interface [polypeptide binding]; other site 298386004409 GST_N family, 2 repeats of the N-terminal domain of soluble GSTs (2 GST_N) subfamily; composed of uncharacterized proteins. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a...; Region: GST_N_2GST_N; cd03041 298386004410 putative C-terminal domain interface [polypeptide binding]; other site 298386004411 putative GSH binding site (G-site) [chemical binding]; other site 298386004412 putative dimer interface [polypeptide binding]; other site 298386004413 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 298386004414 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 298386004415 active site 298386004416 catalytic residues [active] 298386004417 PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from...; Region: PA_VapT_like; cd04817 298386004418 PA/subtilisin-like domain interface [polypeptide binding]; other site 298386004419 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 298386004420 catalytic residues [active] 298386004421 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 298386004422 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 298386004423 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 298386004424 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 298386004425 FMN binding site [chemical binding]; other site 298386004426 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 298386004427 substrate binding site [chemical binding]; other site 298386004428 putative catalytic residue [active] 298386004429 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 298386004430 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 298386004431 active site 298386004432 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 298386004433 active site 298386004434 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 298386004435 active site 2 [active] 298386004436 dimer interface [polypeptide binding]; other site 298386004437 active site 1 [active] 298386004438 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 298386004439 active site 1 [active] 298386004440 dimer interface [polypeptide binding]; other site 298386004441 active site 2 [active] 298386004442 Acyl transferase domain; Region: Acyl_transf_1; cl08282 298386004443 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 298386004444 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 298386004445 active site 298386004446 Acyl transferase domain; Region: Acyl_transf_1; cl08282 298386004447 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386004448 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386004449 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386004450 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386004451 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386004452 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 298386004453 putative NADP binding site [chemical binding]; other site 298386004454 active site 298386004455 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 298386004456 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 298386004457 active site 298386004458 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 298386004459 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 298386004460 dimer interface [polypeptide binding]; other site 298386004461 active site 298386004462 CoA binding pocket [chemical binding]; other site 298386004463 haloalkane dehalogenase; Provisional; Region: PRK03592 298386004464 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 298386004465 peptide synthase; Provisional; Region: PRK09274 298386004466 AMP-binding enzyme; Region: AMP-binding; cl15778 298386004467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386004468 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 298386004469 NAD(P) binding site [chemical binding]; other site 298386004470 active site 298386004471 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 298386004472 Cache domain; Region: Cache_1; pfam02743 298386004473 sensor kinase CusS; Provisional; Region: PRK09835 298386004474 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386004475 dimerization interface [polypeptide binding]; other site 298386004476 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386004477 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386004478 dimer interface [polypeptide binding]; other site 298386004479 putative CheW interface [polypeptide binding]; other site 298386004480 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 298386004481 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 298386004482 molybdopterin cofactor binding site [chemical binding]; other site 298386004483 substrate binding site [chemical binding]; other site 298386004484 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 298386004485 molybdopterin cofactor binding site; other site 298386004486 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 298386004487 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 298386004488 ATP binding site [chemical binding]; other site 298386004489 active site 298386004490 substrate binding site [chemical binding]; other site 298386004491 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 298386004492 Family description; Region: UvrD_C_2; cl15862 298386004493 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386004494 Helix-turn-helix domains; Region: HTH; cl00088 298386004495 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386004496 dimerization interface [polypeptide binding]; other site 298386004497 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 298386004498 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 298386004499 active site 298386004500 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 298386004501 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 298386004502 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 298386004503 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 298386004504 substrate binding pocket [chemical binding]; other site 298386004505 membrane-bound complex binding site; other site 298386004506 hinge residues; other site 298386004507 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 298386004508 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386004509 dimer interface [polypeptide binding]; other site 298386004510 conserved gate region; other site 298386004511 putative PBP binding loops; other site 298386004512 ABC-ATPase subunit interface; other site 298386004513 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 298386004514 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 298386004515 Walker A/P-loop; other site 298386004516 ATP binding site [chemical binding]; other site 298386004517 Q-loop/lid; other site 298386004518 ABC transporter signature motif; other site 298386004519 Walker B; other site 298386004520 D-loop; other site 298386004521 H-loop/switch region; other site 298386004522 Protein of unknown function (DUF445); Region: DUF445; pfam04286 298386004523 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 298386004524 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 298386004525 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 298386004526 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 298386004527 substrate binding site [chemical binding]; other site 298386004528 catalytic Zn binding site [ion binding]; other site 298386004529 NAD binding site [chemical binding]; other site 298386004530 structural Zn binding site [ion binding]; other site 298386004531 dimer interface [polypeptide binding]; other site 298386004532 putative transporter; Provisional; Region: PRK11021 298386004533 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 298386004534 Helix-turn-helix domains; Region: HTH; cl00088 298386004535 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 298386004536 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 298386004537 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 298386004538 putative dimer interface [polypeptide binding]; other site 298386004539 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 298386004540 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386004541 Integrase core domain; Region: rve; cl01316 298386004542 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 298386004543 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 298386004544 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 298386004545 molybdopterin cofactor binding site [chemical binding]; other site 298386004546 substrate binding site [chemical binding]; other site 298386004547 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 298386004548 molybdopterin cofactor binding site; other site 298386004549 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 298386004550 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 298386004551 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 298386004552 active site 298386004553 phosphorylation site [posttranslational modification] 298386004554 intermolecular recognition site; other site 298386004555 dimerization interface [polypeptide binding]; other site 298386004556 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 298386004557 DNA binding site [nucleotide binding] 298386004558 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 298386004559 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 298386004560 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386004561 catalytic residue [active] 298386004562 Protein of unknown function (DUF2860); Region: DUF2860; pfam11059 298386004563 putative transcription regulator; Region: PHA01082 298386004564 Phage protein; Region: DUF3653; pfam12375 298386004565 RelB antitoxin; Region: RelB; cl01171 298386004566 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 298386004567 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 298386004568 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386004569 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 298386004570 nucleophile elbow; other site 298386004571 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 298386004572 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 298386004573 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 298386004574 DHHA2 domain; Region: DHHA2; pfam02833 298386004575 GGGtGRT protein; Region: GGGtGRT; pfam14057 298386004576 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 298386004577 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 298386004578 UDP-glucose 4-epimerase; Region: PLN02240 298386004579 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 298386004580 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 298386004581 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; cl00522 298386004582 dimerization interface [polypeptide binding]; other site 298386004583 active site 298386004584 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; cl00522 298386004585 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 298386004586 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 298386004587 putative substrate translocation pore; other site 298386004588 Protein of unknown function, DUF440; Region: DUF440; cl11472 298386004589 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 298386004590 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 298386004591 Putative SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_2; cl00827 298386004592 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 298386004593 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386004594 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 298386004595 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 298386004596 DNA polymerase II; Reviewed; Region: PRK05762 298386004597 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 298386004598 active site 298386004599 catalytic site [active] 298386004600 substrate binding site [chemical binding]; other site 298386004601 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 298386004602 active site 298386004603 metal-binding site 298386004604 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 298386004605 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 298386004606 5S rRNA interface [nucleotide binding]; other site 298386004607 CTC domain interface [polypeptide binding]; other site 298386004608 L16 interface [polypeptide binding]; other site 298386004609 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 298386004610 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 298386004611 N-terminal plug; other site 298386004612 ligand-binding site [chemical binding]; other site 298386004613 isoaspartyl dipeptidase; Provisional; Region: PRK10657 298386004614 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 298386004615 active site 298386004616 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 298386004617 Helix-turn-helix domains; Region: HTH; cl00088 298386004618 Winged helix-turn helix; Region: HTH_29; pfam13551 298386004619 Winged helix-turn helix; Region: HTH_33; pfam13592 298386004620 Integrase core domain; Region: rve; cl01316 298386004621 DEAD-like helicases superfamily; Region: DEXDc; smart00487 298386004622 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 298386004623 ATP binding site [chemical binding]; other site 298386004624 putative Mg++ binding site [ion binding]; other site 298386004625 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 298386004626 nucleotide binding region [chemical binding]; other site 298386004627 ATP-binding site [chemical binding]; other site 298386004628 Double zinc ribbon; Region: DZR; pfam12773 298386004629 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 298386004630 Membrane transport protein; Region: Mem_trans; cl09117 298386004631 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 298386004632 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 298386004633 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 298386004634 P loop; other site 298386004635 Nucleotide binding site [chemical binding]; other site 298386004636 DTAP/Switch II; other site 298386004637 Switch I; other site 298386004638 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 298386004639 arsenite-activated ATPase ArsA; Region: arsA; TIGR00345 298386004640 DTAP/Switch II; other site 298386004641 Switch I; other site 298386004642 Predicted acetyltransferase [General function prediction only]; Region: COG3153 298386004643 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386004644 Coenzyme A binding pocket [chemical binding]; other site 298386004645 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 298386004646 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 298386004647 RNA binding surface [nucleotide binding]; other site 298386004648 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 298386004649 active site 298386004650 uracil binding [chemical binding]; other site 298386004651 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 298386004652 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 298386004653 putative substrate translocation pore; other site 298386004654 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 298386004655 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 298386004656 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 298386004657 BCCT family transporter; Region: BCCT; cl00569 298386004658 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 298386004659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386004660 NAD(P) binding site [chemical binding]; other site 298386004661 active site 298386004662 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 298386004663 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 298386004664 MatE; Region: MatE; cl10513 298386004665 MatE; Region: MatE; cl10513 298386004666 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 298386004667 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 298386004668 Walker A/P-loop; other site 298386004669 ATP binding site [chemical binding]; other site 298386004670 Q-loop/lid; other site 298386004671 ABC transporter signature motif; other site 298386004672 Walker B; other site 298386004673 D-loop; other site 298386004674 H-loop/switch region; other site 298386004675 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 298386004676 FtsX-like permease family; Region: FtsX; cl15850 298386004677 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 298386004678 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 298386004679 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 298386004680 putative metal binding site [ion binding]; other site 298386004681 dimer interface [polypeptide binding]; other site 298386004682 Fusaric acid resistance protein family; Region: FUSC; pfam04632 298386004683 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 298386004684 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 298386004685 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 298386004686 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 298386004687 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 298386004688 Ion channel; Region: Ion_trans_2; cl11596 298386004689 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 298386004690 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 298386004691 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 298386004692 ABC-ATPase subunit interface; other site 298386004693 dimer interface [polypeptide binding]; other site 298386004694 putative PBP binding regions; other site 298386004695 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 298386004696 ABC-ATPase subunit interface; other site 298386004697 dimer interface [polypeptide binding]; other site 298386004698 putative PBP binding regions; other site 298386004699 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 298386004700 intersubunit interface [polypeptide binding]; other site 298386004701 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 298386004702 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 298386004703 Walker A/P-loop; other site 298386004704 ATP binding site [chemical binding]; other site 298386004705 Q-loop/lid; other site 298386004706 ABC transporter signature motif; other site 298386004707 Walker B; other site 298386004708 D-loop; other site 298386004709 H-loop/switch region; other site 298386004710 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 298386004711 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 298386004712 N-terminal plug; other site 298386004713 ligand-binding site [chemical binding]; other site 298386004714 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 298386004715 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 298386004716 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 298386004717 Walker A/P-loop; other site 298386004718 ATP binding site [chemical binding]; other site 298386004719 Q-loop/lid; other site 298386004720 ABC transporter signature motif; other site 298386004721 Walker B; other site 298386004722 D-loop; other site 298386004723 H-loop/switch region; other site 298386004724 Integrase core domain; Region: rve; cl01316 298386004725 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386004726 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386004727 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 298386004728 G1 box; other site 298386004729 GTP/Mg2+ binding site [chemical binding]; other site 298386004730 G2 box; other site 298386004731 Switch I region; other site 298386004732 G3 box; other site 298386004733 Switch II region; other site 298386004734 Ribosome anti-association factor IF6 binds the large ribosomal subunit and prevents the two subunits from associating during translation initiation. IF6 comprises a family of translation factors that includes both eukaryotic (eIF6) and archeal (aIF6)...; Region: IF6; cl00241 298386004735 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 298386004736 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 298386004737 G1 box; other site 298386004738 GTP/Mg2+ binding site [chemical binding]; other site 298386004739 G2 box; other site 298386004740 Switch I region; other site 298386004741 G3 box; other site 298386004742 Switch II region; other site 298386004743 G4 box; other site 298386004744 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 298386004745 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 298386004746 DNA binding site [nucleotide binding] 298386004747 domain linker motif; other site 298386004748 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 298386004749 dimerization interface [polypeptide binding]; other site 298386004750 ligand binding site [chemical binding]; other site 298386004751 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 298386004752 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 298386004753 active site 298386004754 phosphorylation site [posttranslational modification] 298386004755 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 298386004756 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 298386004757 dimerization domain swap beta strand [polypeptide binding]; other site 298386004758 regulatory protein interface [polypeptide binding]; other site 298386004759 active site 298386004760 regulatory phosphorylation site [posttranslational modification]; other site 298386004761 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 298386004762 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 298386004763 putative substrate binding site [chemical binding]; other site 298386004764 putative ATP binding site [chemical binding]; other site 298386004765 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 298386004766 active site 298386004767 P-loop; other site 298386004768 phosphorylation site [posttranslational modification] 298386004769 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 298386004770 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 298386004771 active site 298386004772 P-loop; other site 298386004773 phosphorylation site [posttranslational modification] 298386004774 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386004775 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 298386004776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386004777 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 298386004778 Spore germination protein; Region: Spore_permease; cl15802 298386004779 Cell division inhibitor SulA; Region: SulA; cl01880 298386004780 Topoisomer_IB_N: N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the monomeric yeast and human topo I and heterodimeric topo I from Leishmania donvanni. Topo I enzymes are divided into: topo type IA; Region: Topoisomer_IB_N; cl02774 298386004781 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386004782 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386004783 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 298386004784 Restriction endonuclease; Region: Mrr_cat; cl00516 298386004785 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386004786 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386004787 Family description; Region: UvrD_C_2; cl15862 298386004788 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 298386004789 Transposase [DNA replication, recombination, and repair]; Region: COG5433 298386004790 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386004791 Transposase [DNA replication, recombination, and repair]; Region: COG5433 298386004792 Transposase [DNA replication, recombination, and repair]; Region: COG5433 298386004793 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386004794 Integrase core domain; Region: rve; cl01316 298386004795 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 298386004796 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386004797 Restriction endonuclease; Region: Mrr_cat; cl00516 298386004798 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 298386004799 substrate binding site [chemical binding]; other site 298386004800 activation loop (A-loop); other site 298386004801 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 298386004802 active site 298386004803 ATP binding site [chemical binding]; other site 298386004804 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386004805 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386004806 Family description; Region: UvrD_C_2; cl15862 298386004807 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 298386004808 tellurite resistance protein terB; Region: terB; cd07176 298386004809 putative metal binding site [ion binding]; other site 298386004810 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 298386004811 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 298386004812 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 298386004813 ATP binding site [chemical binding]; other site 298386004814 putative Mg++ binding site [ion binding]; other site 298386004815 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 298386004816 nucleotide binding region [chemical binding]; other site 298386004817 ATP-binding site [chemical binding]; other site 298386004818 Cys-rich peptide radical SAM maturase CcpM; Region: rSAM_ocin_clost; TIGR04068 298386004819 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 298386004820 FeS/SAM binding site; other site 298386004821 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386004822 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386004823 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386004824 Integrase core domain; Region: rve; cl01316 298386004825 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 298386004826 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 298386004827 FeS/SAM binding site; other site 298386004828 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 298386004829 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 298386004830 active site 298386004831 motif I; other site 298386004832 motif II; other site 298386004833 Ribosomal L22e protein family; Region: Ribosomal_L22e; cl03348 298386004834 Catalytic domain of uncharacterized hypothetical proteins similar to eukaryotic phosphatidylinositol-specific phospholipase C, X domain containing proteins; Region: PI-PLCXDc_like_1; cd08620 298386004835 putative active site [active] 298386004836 catalytic site [active] 298386004837 Integrase core domain; Region: rve; cl01316 298386004838 Integrase core domain; Region: rve_3; cl15866 298386004839 AAA domain; Region: AAA_22; pfam13401 298386004840 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386004841 DNA polymerase II large subunit; Provisional; Region: PRK14714 298386004842 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 298386004843 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 298386004844 putative active site [active] 298386004845 putative NTP binding site [chemical binding]; other site 298386004846 putative nucleic acid binding site [nucleotide binding]; other site 298386004847 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 298386004848 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 298386004849 Transposase [DNA replication, recombination, and repair]; Region: COG5433 298386004850 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386004851 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 298386004852 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 298386004853 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386004854 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 298386004855 putative acyl-acceptor binding pocket; other site 298386004856 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 298386004857 putative tRNA-binding site [nucleotide binding]; other site 298386004858 Putative transposase; Region: Y2_Tnp; pfam04986 298386004859 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386004860 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 298386004861 active site 298386004862 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 298386004863 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386004864 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386004865 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 298386004866 hypothetical protein; Provisional; Region: PRK02250 298386004867 SEC-C motif; Region: SEC-C; pfam02810 298386004868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386004869 NmrA-like family; Region: NmrA; pfam05368 298386004870 NAD(P) binding site [chemical binding]; other site 298386004871 active site 298386004872 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 298386004873 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 298386004874 catalytic residue [active] 298386004875 Copper resistance protein D; Region: CopD; cl00563 298386004876 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 298386004877 Transposase; Region: DEDD_Tnp_IS110; pfam01548 298386004878 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 298386004879 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386004880 Phosphotransferase enzyme family; Region: APH; pfam01636 298386004881 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 298386004882 substrate binding site [chemical binding]; other site 298386004883 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 298386004884 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_Omega_like; cd03060 298386004885 putative GSH binding site (G-site) [chemical binding]; other site 298386004886 active site cysteine [active] 298386004887 putative C-terminal domain interface [polypeptide binding]; other site 298386004888 putative dimer interface [polypeptide binding]; other site 298386004889 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 298386004890 putative N-terminal domain interface [polypeptide binding]; other site 298386004891 putative dimer interface [polypeptide binding]; other site 298386004892 putative substrate binding pocket (H-site) [chemical binding]; other site 298386004893 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 298386004894 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386004895 Walker A/P-loop; other site 298386004896 ATP binding site [chemical binding]; other site 298386004897 Q-loop/lid; other site 298386004898 ABC transporter signature motif; other site 298386004899 Walker B; other site 298386004900 D-loop; other site 298386004901 H-loop/switch region; other site 298386004902 ABC transporter; Region: ABC_tran_2; pfam12848 298386004903 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 298386004904 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 298386004905 active site 298386004906 metal binding site [ion binding]; metal-binding site 298386004907 Predicted permease [General function prediction only]; Region: COG2056 298386004908 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 298386004909 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 298386004910 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386004911 Walker A/P-loop; other site 298386004912 ATP binding site [chemical binding]; other site 298386004913 Q-loop/lid; other site 298386004914 ABC transporter signature motif; other site 298386004915 Walker B; other site 298386004916 D-loop; other site 298386004917 H-loop/switch region; other site 298386004918 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 298386004919 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 298386004920 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386004921 Walker A/P-loop; other site 298386004922 ATP binding site [chemical binding]; other site 298386004923 Q-loop/lid; other site 298386004924 ABC transporter signature motif; other site 298386004925 Walker B; other site 298386004926 D-loop; other site 298386004927 H-loop/switch region; other site 298386004928 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 298386004929 AMP-binding enzyme; Region: AMP-binding; cl15778 298386004930 AMP-binding enzyme; Region: AMP-binding; cl15778 298386004931 salicylate synthase; Region: salicyl_syn; TIGR03494 298386004932 chorismate binding enzyme; Region: Chorismate_bind; cl10555 298386004933 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 298386004934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386004935 active site 298386004936 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 298386004937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386004938 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 298386004939 AMP-binding enzyme; Region: AMP-binding; cl15778 298386004940 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386004941 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 298386004942 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 298386004943 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 298386004944 active site 298386004945 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 298386004946 Acyl transferase domain; Region: Acyl_transf_1; cl08282 298386004947 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 298386004948 NADP binding site [chemical binding]; other site 298386004949 active site 298386004950 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386004951 Condensation domain; Region: Condensation; pfam00668 298386004952 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 298386004953 Nonribosomal peptide synthase; Region: NRPS; pfam08415 298386004954 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 298386004955 S-adenosylmethionine binding site [chemical binding]; other site 298386004956 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386004957 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386004958 Condensation domain; Region: Condensation; pfam00668 298386004959 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 298386004960 Nonribosomal peptide synthase; Region: NRPS; pfam08415 298386004961 AMP-binding enzyme; Region: AMP-binding; cl15778 298386004962 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386004963 Condensation domain; Region: Condensation; pfam00668 298386004964 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 298386004965 Nonribosomal peptide synthase; Region: NRPS; pfam08415 298386004966 AMP-binding enzyme; Region: AMP-binding; cl15778 298386004967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386004968 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 298386004969 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386004970 Condensation domain; Region: Condensation; pfam00668 298386004971 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 298386004972 Nonribosomal peptide synthase; Region: NRPS; pfam08415 298386004973 peptide synthase; Validated; Region: PRK05691 298386004974 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386004975 AmpG-related permease; Region: 2A0125; TIGR00901 298386004976 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 298386004977 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 298386004978 N-terminal plug; other site 298386004979 ligand-binding site [chemical binding]; other site 298386004980 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 298386004981 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386004982 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 298386004983 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386004984 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386004985 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 298386004986 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 298386004987 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 298386004988 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 298386004989 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 298386004990 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 298386004991 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 298386004992 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 298386004993 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386004994 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386004995 NMT1-like family; Region: NMT1_2; cl15260 298386004996 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 298386004997 EamA-like transporter family; Region: EamA; cl01037 298386004998 cytidine deaminase; Provisional; Region: PRK09027 298386004999 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 298386005000 active site 298386005001 catalytic motif [active] 298386005002 Zn binding site [ion binding]; other site 298386005003 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 298386005004 active site 298386005005 catalytic motif [active] 298386005006 Zn binding site [ion binding]; other site 298386005007 LrgB-like family; Region: LrgB; cl00596 298386005008 LrgA family; Region: LrgA; cl00608 298386005009 Helix-turn-helix domains; Region: HTH; cl00088 298386005010 exonuclease I; Provisional; Region: sbcB; PRK11779 298386005011 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 298386005012 active site 298386005013 catalytic site [active] 298386005014 substrate binding site [chemical binding]; other site 298386005015 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 298386005016 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 298386005017 active site 298386005018 Int/Topo IB signature motif; other site 298386005019 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 298386005020 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 298386005021 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 298386005022 Putative transposase; Region: Y2_Tnp; pfam04986 298386005023 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 298386005024 active site 298386005025 DNA binding site [nucleotide binding] 298386005026 Int/Topo IB signature motif; other site 298386005027 Integrase core domain; Region: rve; cl01316 298386005028 Helix-turn-helix domains; Region: HTH; cl00088 298386005029 Winged helix-turn helix; Region: HTH_29; pfam13551 298386005030 Winged helix-turn helix; Region: HTH_33; pfam13592 298386005031 Integrase core domain; Region: rve; cl01316 298386005032 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386005033 Winged helix-turn helix; Region: HTH_29; pfam13551 298386005034 Helix-turn-helix domains; Region: HTH; cl00088 298386005035 Integrase core domain; Region: rve; cl01316 298386005036 Integrase core domain; Region: rve_3; cl15866 298386005037 Helix-turn-helix domains; Region: HTH; cl00088 298386005038 Helix-turn-helix domains; Region: HTH; cl00088 298386005039 Integrase core domain; Region: rve; cl01316 298386005040 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 298386005041 putative Mg++ binding site [ion binding]; other site 298386005042 Competence protein CoiA-like family; Region: CoiA; cl11541 298386005043 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386005044 Helix-turn-helix domains; Region: HTH; cl00088 298386005045 Winged helix-turn helix; Region: HTH_29; pfam13551 298386005046 Winged helix-turn helix; Region: HTH_33; pfam13592 298386005047 Integrase core domain; Region: rve; cl01316 298386005048 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 298386005049 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 298386005050 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 298386005051 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 298386005052 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 298386005053 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 298386005054 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 298386005055 DXD motif; other site 298386005056 PilZ domain; Region: PilZ; cl01260 298386005057 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 298386005058 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 298386005059 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 298386005060 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 298386005061 binding surface 298386005062 TPR motif; other site 298386005063 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 298386005064 binding surface 298386005065 TPR motif; other site 298386005066 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 298386005067 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 298386005068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386005069 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 298386005070 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 298386005071 maltodextrin glucosidase; Provisional; Region: PRK10785 298386005072 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 298386005073 homodimer interface [polypeptide binding]; other site 298386005074 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 298386005075 active site 298386005076 homodimer interface [polypeptide binding]; other site 298386005077 catalytic site [active] 298386005078 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 298386005079 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386005080 Helix-turn-helix domains; Region: HTH; cl00088 298386005081 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386005082 putative effector binding pocket; other site 298386005083 dimerization interface [polypeptide binding]; other site 298386005084 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 298386005085 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 298386005086 substrate-cofactor binding pocket; other site 298386005087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386005088 catalytic residue [active] 298386005089 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 298386005090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386005091 NAD(P) binding site [chemical binding]; other site 298386005092 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 298386005093 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 298386005094 putative ADP-binding pocket [chemical binding]; other site 298386005095 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 298386005096 active site 298386005097 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 298386005098 MatE; Region: MatE; cl10513 298386005099 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 298386005100 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386005101 Walker A/P-loop; other site 298386005102 ATP binding site [chemical binding]; other site 298386005103 Q-loop/lid; other site 298386005104 ABC transporter signature motif; other site 298386005105 Walker B; other site 298386005106 D-loop; other site 298386005107 H-loop/switch region; other site 298386005108 ABC transporter; Region: ABC_tran_2; pfam12848 298386005109 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 298386005110 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 298386005111 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 298386005112 Chemotaxis phosphatase CheX; Region: CheX; cl15816 298386005113 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 298386005114 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 298386005115 active site 298386005116 phosphorylation site [posttranslational modification] 298386005117 intermolecular recognition site; other site 298386005118 dimerization interface [polypeptide binding]; other site 298386005119 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 298386005120 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 298386005121 PAS domain; Region: PAS_9; pfam13426 298386005122 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386005123 metal binding site [ion binding]; metal-binding site 298386005124 active site 298386005125 I-site; other site 298386005126 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 298386005127 DTW domain; Region: DTW; cl01221 298386005128 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 298386005129 fructokinase; Reviewed; Region: PRK09557 298386005130 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 298386005131 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 298386005132 ATP binding site [chemical binding]; other site 298386005133 Mg++ binding site [ion binding]; other site 298386005134 motif III; other site 298386005135 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 298386005136 nucleotide binding region [chemical binding]; other site 298386005137 ATP-binding site [chemical binding]; other site 298386005138 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 298386005139 phosphoenolpyruvate synthase; Validated; Region: PRK06464 298386005140 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 298386005141 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 298386005142 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 298386005143 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 298386005144 putative metal binding site [ion binding]; other site 298386005145 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 298386005146 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386005147 Integrase core domain; Region: rve; cl01316 298386005148 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 298386005149 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 298386005150 ATP binding site [chemical binding]; other site 298386005151 putative Mg++ binding site [ion binding]; other site 298386005152 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 298386005153 nucleotide binding region [chemical binding]; other site 298386005154 ATP-binding site [chemical binding]; other site 298386005155 Helicase associated domain (HA2); Region: HA2; cl04503 298386005156 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 298386005157 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 298386005158 Peptidase family U32; Region: Peptidase_U32; cl03113 298386005159 Collagenase; Region: DUF3656; pfam12392 298386005160 Peptidase family U32; Region: Peptidase_U32; cl03113 298386005161 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 298386005162 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 298386005163 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386005164 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 298386005165 active site turn [active] 298386005166 phosphorylation site [posttranslational modification] 298386005167 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386005168 Helix-turn-helix domains; Region: HTH; cl00088 298386005169 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 298386005170 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 298386005171 active site 298386005172 aminopeptidase N; Provisional; Region: pepN; PRK14015 298386005173 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 298386005174 active site 298386005175 Zn binding site [ion binding]; other site 298386005176 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 298386005177 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 298386005178 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 298386005179 quinone interaction residues [chemical binding]; other site 298386005180 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 298386005181 active site 298386005182 catalytic residues [active] 298386005183 FMN binding site [chemical binding]; other site 298386005184 substrate binding site [chemical binding]; other site 298386005185 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 298386005186 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 298386005187 THUMP domain; Region: THUMP; cl12076 298386005188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386005189 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 298386005190 S-adenosylmethionine binding site [chemical binding]; other site 298386005191 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 298386005192 ABC transporter ATPase component; Reviewed; Region: PRK11147 298386005193 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 298386005194 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 298386005195 ABC transporter; Region: ABC_tran_2; pfam12848 298386005196 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 298386005197 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 298386005198 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 298386005199 active site 1 [active] 298386005200 dimer interface [polypeptide binding]; other site 298386005201 active site 2 [active] 298386005202 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 298386005203 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 298386005204 Organiser of macrodomain of Terminus of chromosome; Region: MatP; cl11476 298386005205 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 298386005206 Domain of unknown function (DUF296); Region: DUF296; cl00720 298386005207 Flagellar protein YcgR; Region: YcgR_2; pfam12945 298386005208 PilZ domain; Region: PilZ; cl01260 298386005209 Helix-turn-helix domains; Region: HTH; cl00088 298386005210 DNA binding site [nucleotide binding] 298386005211 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 298386005212 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386005213 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386005214 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 298386005215 DNA binding residues [nucleotide binding] 298386005216 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 298386005217 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 298386005218 S-adenosylmethionine binding site [chemical binding]; other site 298386005219 Predicted acetyltransferase [General function prediction only]; Region: COG3153 298386005220 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386005221 Coenzyme A binding pocket [chemical binding]; other site 298386005222 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386005223 GTPase RsgA; Reviewed; Region: PRK01889 298386005224 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 298386005225 GTPase/Zn-binding domain interface [polypeptide binding]; other site 298386005226 GTP/Mg2+ binding site [chemical binding]; other site 298386005227 G4 box; other site 298386005228 G5 box; other site 298386005229 G1 box; other site 298386005230 Switch I region; other site 298386005231 G2 box; other site 298386005232 G3 box; other site 298386005233 Switch II region; other site 298386005234 putative transcription regulator; Region: PHA01082 298386005235 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 298386005236 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 298386005237 catalytic residue [active] 298386005238 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 298386005239 Family description; Region: UvrD_C_2; cl15862 298386005240 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386005241 Protein of unknown function DUF262; Region: DUF262; cl14890 298386005242 Protein of unknown function DUF262; Region: DUF262; cl14890 298386005243 Protein of unknown function DUF262; Region: DUF262; cl14890 298386005244 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386005245 AAA domain; Region: AAA_21; pfam13304 298386005246 Walker A/P-loop; other site 298386005247 ATP binding site [chemical binding]; other site 298386005248 AAA domain; Region: AAA_21; pfam13304 298386005249 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 298386005250 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 298386005251 HsdM N-terminal domain; Region: HsdM_N; pfam12161 298386005252 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 298386005253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386005254 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 298386005255 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 298386005256 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 298386005257 ATP binding site [chemical binding]; other site 298386005258 putative Mg++ binding site [ion binding]; other site 298386005259 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 298386005260 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 298386005261 ATP binding site [chemical binding]; other site 298386005262 putative Mg++ binding site [ion binding]; other site 298386005263 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 298386005264 non-specific DNA binding site [nucleotide binding]; other site 298386005265 salt bridge; other site 298386005266 sequence-specific DNA binding site [nucleotide binding]; other site 298386005267 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 298386005268 active site 298386005269 Int/Topo IB signature motif; other site 298386005270 DNA binding site [nucleotide binding] 298386005271 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 298386005272 active site 298386005273 catalytic residues [active] 298386005274 DNA binding site [nucleotide binding] 298386005275 Int/Topo IB signature motif; other site 298386005276 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386005277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 298386005278 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 298386005279 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386005280 Family description; Region: UvrD_C_2; cl15862 298386005281 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 298386005282 Integrase core domain; Region: rve; cl01316 298386005283 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386005284 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 298386005285 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386005286 Integrase core domain; Region: rve; cl01316 298386005287 Restriction endonuclease; Region: Mrr_cat; cl00516 298386005288 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386005289 PAS domain; Region: PAS_9; pfam13426 298386005290 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 298386005291 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 298386005292 dimer interface [polypeptide binding]; other site 298386005293 phosphorylation site [posttranslational modification] 298386005294 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 298386005295 ATP binding site [chemical binding]; other site 298386005296 Mg2+ binding site [ion binding]; other site 298386005297 G-X-G motif; other site 298386005298 Response regulator receiver domain; Region: Response_reg; pfam00072 298386005299 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 298386005300 active site 298386005301 phosphorylation site [posttranslational modification] 298386005302 intermolecular recognition site; other site 298386005303 dimerization interface [polypeptide binding]; other site 298386005304 Uncharacterized conserved protein [Function unknown]; Region: COG3287 298386005305 FIST N domain; Region: FIST; cl10701 298386005306 FIST C domain; Region: FIST_C; pfam10442 298386005307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386005308 oxidoreductase; Validated; Region: PRK05717 298386005309 NAD(P) binding site [chemical binding]; other site 298386005310 active site 298386005311 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 298386005312 Low-spin heme binding site [chemical binding]; other site 298386005313 Putative water exit pathway; other site 298386005314 Binuclear center (active site) [active] 298386005315 Putative proton exit pathway; other site 298386005316 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 298386005317 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 298386005318 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 298386005319 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 298386005320 Cytochrome c; Region: Cytochrom_C; cl11414 298386005321 Cytochrome c; Region: Cytochrom_C; cl11414 298386005322 Cytochrome c; Region: Cytochrom_C; cl11414 298386005323 FixH; Region: FixH; cl01254 298386005324 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 298386005325 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 298386005326 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 298386005327 metal-binding site [ion binding] 298386005328 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 298386005329 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 298386005330 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 298386005331 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 298386005332 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 298386005333 ligand binding site [chemical binding]; other site 298386005334 flexible hinge region; other site 298386005335 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 298386005336 putative switch regulator; other site 298386005337 non-specific DNA interactions [nucleotide binding]; other site 298386005338 DNA binding site [nucleotide binding] 298386005339 sequence specific DNA binding site [nucleotide binding]; other site 298386005340 putative cAMP binding site [chemical binding]; other site 298386005341 universal stress protein UspE; Provisional; Region: PRK11175 298386005342 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 298386005343 Ligand Binding Site [chemical binding]; other site 298386005344 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 298386005345 Ligand Binding Site [chemical binding]; other site 298386005346 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 298386005347 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 298386005348 Ligand Binding Site [chemical binding]; other site 298386005349 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 298386005350 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 298386005351 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 298386005352 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 298386005353 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 298386005354 active site 298386005355 Zn binding site [ion binding]; other site 298386005356 RES domain; Region: RES; cl02411 298386005357 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 298386005358 Cation efflux family; Region: Cation_efflux; cl00316 298386005359 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 298386005360 metal binding site [ion binding]; metal-binding site 298386005361 dimer interface [polypeptide binding]; other site 298386005362 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 298386005363 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 298386005364 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 298386005365 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 298386005366 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 298386005367 Walker A/P-loop; other site 298386005368 ATP binding site [chemical binding]; other site 298386005369 Q-loop/lid; other site 298386005370 ABC transporter signature motif; other site 298386005371 Walker B; other site 298386005372 D-loop; other site 298386005373 H-loop/switch region; other site 298386005374 TOBE domain; Region: TOBE_2; cl01440 298386005375 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 298386005376 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386005377 dimer interface [polypeptide binding]; other site 298386005378 conserved gate region; other site 298386005379 putative PBP binding loops; other site 298386005380 ABC-ATPase subunit interface; other site 298386005381 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 298386005382 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386005383 dimer interface [polypeptide binding]; other site 298386005384 conserved gate region; other site 298386005385 putative PBP binding loops; other site 298386005386 ABC-ATPase subunit interface; other site 298386005387 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 298386005388 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 298386005389 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 298386005390 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 298386005391 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386005392 NAD-dependent deacetylase; Provisional; Region: PRK00481 298386005393 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 298386005394 NAD+ binding site [chemical binding]; other site 298386005395 substrate binding site [chemical binding]; other site 298386005396 Zn binding site [ion binding]; other site 298386005397 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 298386005398 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 298386005399 4Fe-4S binding domain; Region: Fer4; cl02805 298386005400 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 298386005401 [4Fe-4S] binding site [ion binding]; other site 298386005402 molybdopterin cofactor binding site; other site 298386005403 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 298386005404 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 298386005405 molybdopterin cofactor binding site; other site 298386005406 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 298386005407 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 298386005408 Ferredoxin [Energy production and conversion]; Region: COG1146 298386005409 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 298386005410 4Fe-4S binding domain; Region: Fer4; cl02805 298386005411 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 298386005412 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 298386005413 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 298386005414 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 298386005415 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 298386005416 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 298386005417 short chain dehydrogenase; Provisional; Region: PRK07201 298386005418 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 298386005419 putative NAD(P) binding site [chemical binding]; other site 298386005420 active site 298386005421 putative substrate binding site [chemical binding]; other site 298386005422 classical (c) SDRs; Region: SDR_c; cd05233 298386005423 NAD(P) binding site [chemical binding]; other site 298386005424 active site 298386005425 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 298386005426 Helix-turn-helix domains; Region: HTH; cl00088 298386005427 Bacterial transcriptional repressor; Region: TetR; pfam13972 298386005428 Protein of unknown function (DUF419); Region: DUF419; cl15265 298386005429 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 298386005430 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 298386005431 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 298386005432 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 298386005433 RNA/DNA hybrid binding site [nucleotide binding]; other site 298386005434 active site 298386005435 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 298386005436 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 298386005437 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 298386005438 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 298386005439 adenylate kinase; Provisional; Region: PRK13808 298386005440 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 298386005441 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 298386005442 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 298386005443 N-acetyl-D-glucosamine binding site [chemical binding]; other site 298386005444 catalytic residue [active] 298386005445 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 298386005446 putative peptidoglycan binding site; other site 298386005447 Integrase core domain; Region: rve; cl01316 298386005448 Major Facilitator Superfamily; Region: MFS_1; pfam07690 298386005449 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 298386005450 putative substrate translocation pore; other site 298386005451 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386005452 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 298386005453 dimer interface [polypeptide binding]; other site 298386005454 phosphorylation site [posttranslational modification] 298386005455 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 298386005456 ATP binding site [chemical binding]; other site 298386005457 Mg2+ binding site [ion binding]; other site 298386005458 G-X-G motif; other site 298386005459 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 298386005460 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 298386005461 active site 298386005462 phosphorylation site [posttranslational modification] 298386005463 intermolecular recognition site; other site 298386005464 dimerization interface [polypeptide binding]; other site 298386005465 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 298386005466 Walker A motif; other site 298386005467 ATP binding site [chemical binding]; other site 298386005468 Walker B motif; other site 298386005469 arginine finger; other site 298386005470 Helix-turn-helix domains; Region: HTH; cl00088 298386005471 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 298386005472 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 298386005473 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386005474 dimer interface [polypeptide binding]; other site 298386005475 conserved gate region; other site 298386005476 putative PBP binding loops; other site 298386005477 ABC-ATPase subunit interface; other site 298386005478 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 298386005479 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 298386005480 Walker A/P-loop; other site 298386005481 ATP binding site [chemical binding]; other site 298386005482 Q-loop/lid; other site 298386005483 ABC transporter signature motif; other site 298386005484 Walker B; other site 298386005485 D-loop; other site 298386005486 H-loop/switch region; other site 298386005487 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 298386005488 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 298386005489 GTP binding site; other site 298386005490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 298386005491 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 298386005492 Walker A motif; other site 298386005493 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 298386005494 dimer interface [polypeptide binding]; other site 298386005495 putative functional site; other site 298386005496 putative MPT binding site; other site 298386005497 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 298386005498 Helix-turn-helix domains; Region: HTH; cl00088 298386005499 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 298386005500 dimerization interface [polypeptide binding]; other site 298386005501 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 298386005502 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 298386005503 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 298386005504 active site 298386005505 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386005506 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386005507 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 298386005508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386005509 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 298386005510 active site 298386005511 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 298386005512 Protein of unknown function, DUF; Region: DUF411; cl01142 298386005513 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 298386005514 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 298386005515 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 298386005516 substrate binding site [chemical binding]; other site 298386005517 ATP binding site [chemical binding]; other site 298386005518 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 298386005519 DNA-binding site [nucleotide binding]; DNA binding site 298386005520 RNA-binding motif; other site 298386005521 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 298386005522 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 298386005523 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 298386005524 active site 298386005525 phosphorylation site [posttranslational modification] 298386005526 intermolecular recognition site; other site 298386005527 dimerization interface [polypeptide binding]; other site 298386005528 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 298386005529 elongation factor P; Provisional; Region: PRK04542 298386005530 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 298386005531 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 298386005532 RNA binding site [nucleotide binding]; other site 298386005533 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 298386005534 RNA binding site [nucleotide binding]; other site 298386005535 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 298386005536 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 298386005537 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_16; cd07263 298386005538 Surface antigen; Region: Bac_surface_Ag; cl03097 298386005539 carboxy-terminal protease; Provisional; Region: PRK11186 298386005540 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 298386005541 protein binding site [polypeptide binding]; other site 298386005542 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 298386005543 Catalytic dyad [active] 298386005544 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 298386005545 ProP expression regulator; Provisional; Region: PRK04950 298386005546 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 298386005547 GAF domain; Region: GAF; cl15785 298386005548 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 298386005549 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 298386005550 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386005551 Walker A/P-loop; other site 298386005552 ATP binding site [chemical binding]; other site 298386005553 Q-loop/lid; other site 298386005554 ABC transporter signature motif; other site 298386005555 Walker B; other site 298386005556 D-loop; other site 298386005557 H-loop/switch region; other site 298386005558 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 298386005559 Paraquat-inducible protein A; Region: PqiA; pfam04403 298386005560 Paraquat-inducible protein A; Region: PqiA; pfam04403 298386005561 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 298386005562 mce related protein; Region: MCE; pfam02470 298386005563 mce related protein; Region: MCE; pfam02470 298386005564 mce related protein; Region: MCE; pfam02470 298386005565 mce related protein; Region: MCE; pfam02470 298386005566 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 298386005567 mce related protein; Region: MCE; pfam02470 298386005568 mce related protein; Region: MCE; pfam02470 298386005569 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 298386005570 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 298386005571 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 298386005572 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 298386005573 guanine deaminase; Provisional; Region: PRK09228 298386005574 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 298386005575 active site 298386005576 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 298386005577 putative hypoxanthine oxidase; Provisional; Region: PRK09800 298386005578 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 298386005579 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 298386005580 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 298386005581 probable selenate reductase, FAD-binding subunit; Region: Se_sel_red_FAD; TIGR03312 298386005582 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 298386005583 BCCT family transporter; Region: BCCT; cl00569 298386005584 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 298386005585 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386005586 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386005587 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 298386005588 Walker A/P-loop; other site 298386005589 ATP binding site [chemical binding]; other site 298386005590 Q-loop/lid; other site 298386005591 ABC transporter signature motif; other site 298386005592 Walker B; other site 298386005593 D-loop; other site 298386005594 H-loop/switch region; other site 298386005595 Integrase core domain; Region: rve; cl01316 298386005596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386005597 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 298386005598 NAD(P) binding site [chemical binding]; other site 298386005599 active site 298386005600 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 298386005601 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 298386005602 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 298386005603 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 298386005604 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 298386005605 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 298386005606 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 298386005607 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 298386005608 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 298386005609 active site 298386005610 putative substrate binding pocket [chemical binding]; other site 298386005611 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 298386005612 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 298386005613 phosphate binding site [ion binding]; other site 298386005614 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386005615 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386005616 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 298386005617 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 298386005618 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 298386005619 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 298386005620 RNA binding surface [nucleotide binding]; other site 298386005621 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 298386005622 active site 298386005623 uracil binding [chemical binding]; other site 298386005624 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386005625 Coenzyme A binding pocket [chemical binding]; other site 298386005626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386005627 topology modulation protein; Reviewed; Region: PRK08118 298386005628 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386005629 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 298386005630 putative tRNA-binding site [nucleotide binding]; other site 298386005631 RDD family; Region: RDD; cl00746 298386005632 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386005633 Integrase core domain; Region: rve; cl01316 298386005634 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386005635 MltA-interacting protein MipA; Region: MipA; cl01504 298386005636 Protein of unknown function (DUF496); Region: DUF496; cl09955 298386005637 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 298386005638 DNA-binding site [nucleotide binding]; DNA binding site 298386005639 RNA-binding motif; other site 298386005640 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 298386005641 DNA-binding site [nucleotide binding]; DNA binding site 298386005642 RNA-binding motif; other site 298386005643 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 298386005644 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 298386005645 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386005646 LysE type translocator; Region: LysE; cl00565 298386005647 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 298386005648 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 298386005649 Cache domain; Region: Cache_1; pfam02743 298386005650 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 298386005651 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386005652 dimerization interface [polypeptide binding]; other site 298386005653 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386005654 metal binding site [ion binding]; metal-binding site 298386005655 active site 298386005656 I-site; other site 298386005657 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 298386005658 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386005659 Integrase core domain; Region: rve; cl01316 298386005660 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386005661 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 298386005662 DNA binding residues [nucleotide binding] 298386005663 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 298386005664 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386005665 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 298386005666 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 298386005667 nucleophilic elbow; other site 298386005668 catalytic triad; other site 298386005669 Flagellin N-methylase; Region: FliB; cl00497 298386005670 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 298386005671 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 298386005672 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 298386005673 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 298386005674 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 298386005675 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 298386005676 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 298386005677 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 298386005678 active site 298386005679 phosphorylation site [posttranslational modification] 298386005680 intermolecular recognition site; other site 298386005681 dimerization interface [polypeptide binding]; other site 298386005682 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 298386005683 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 298386005684 XdhC Rossmann domain; Region: XdhC_C; pfam13478 298386005685 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 298386005686 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 298386005687 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 298386005688 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 298386005689 Ligand binding site; other site 298386005690 metal-binding site 298386005691 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 298386005692 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 298386005693 dimer interface [polypeptide binding]; other site 298386005694 PYR/PP interface [polypeptide binding]; other site 298386005695 TPP binding site [chemical binding]; other site 298386005696 substrate binding site [chemical binding]; other site 298386005697 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 298386005698 Domain of unknown function; Region: EKR; cl11037 298386005699 4Fe-4S binding domain; Region: Fer4; cl02805 298386005700 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 298386005701 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 298386005702 TPP-binding site [chemical binding]; other site 298386005703 dimer interface [polypeptide binding]; other site 298386005704 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 298386005705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386005706 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386005707 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 298386005708 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 298386005709 putative substrate binding site [chemical binding]; other site 298386005710 nucleotide binding site [chemical binding]; other site 298386005711 nucleotide binding site [chemical binding]; other site 298386005712 homodimer interface [polypeptide binding]; other site 298386005713 phenylhydantoinase; Validated; Region: PRK08323 298386005714 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 298386005715 tetramer interface [polypeptide binding]; other site 298386005716 active site 298386005717 peptidase; Reviewed; Region: PRK13004 298386005718 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 298386005719 putative metal binding site [ion binding]; other site 298386005720 putative dimer interface [polypeptide binding]; other site 298386005721 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 298386005722 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 298386005723 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386005724 catalytic residue [active] 298386005725 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 298386005726 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 298386005727 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386005728 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 298386005729 GAF domain; Region: GAF; cl15785 298386005730 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 298386005731 Walker A motif; other site 298386005732 ATP binding site [chemical binding]; other site 298386005733 Walker B motif; other site 298386005734 arginine finger; other site 298386005735 Helix-turn-helix domains; Region: HTH; cl00088 298386005736 malate dehydrogenase; Provisional; Region: PRK13529 298386005737 Malic enzyme, N-terminal domain; Region: malic; pfam00390 298386005738 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 298386005739 NAD(P) binding site [chemical binding]; other site 298386005740 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 298386005741 putative active site [active] 298386005742 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 298386005743 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 298386005744 transmembrane helices; other site 298386005745 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 298386005746 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386005747 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 298386005748 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 298386005749 dimer interface [polypeptide binding]; other site 298386005750 active site 298386005751 CoA binding pocket [chemical binding]; other site 298386005752 Integral membrane protein TerC family; Region: TerC; cl10468 298386005753 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 298386005754 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386005755 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386005756 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386005757 dimer interface [polypeptide binding]; other site 298386005758 putative CheW interface [polypeptide binding]; other site 298386005759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 298386005760 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 298386005761 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 298386005762 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 298386005763 Domain of unknown function (DUF333); Region: DUF333; pfam03891 298386005764 hypothetical protein; Provisional; Region: PRK10977 298386005765 Glycine radical; Region: Gly_radical; cl12026 298386005766 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 298386005767 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 298386005768 4Fe-4S binding domain; Region: Fer4; cl02805 298386005769 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 298386005770 FeS/SAM binding site; other site 298386005771 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386005772 Helix-turn-helix domains; Region: HTH; cl00088 298386005773 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 298386005774 substrate binding pocket [chemical binding]; other site 298386005775 dimerization interface [polypeptide binding]; other site 298386005776 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 298386005777 active site 298386005778 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 298386005779 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 298386005780 dimer interface [polypeptide binding]; other site 298386005781 putative functional site; other site 298386005782 putative MPT binding site; other site 298386005783 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 298386005784 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 298386005785 ATP binding site [chemical binding]; other site 298386005786 substrate interface [chemical binding]; other site 298386005787 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 298386005788 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 298386005789 Nucleoside recognition; Region: Gate; cl00486 298386005790 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 298386005791 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 298386005792 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 298386005793 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 298386005794 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 298386005795 peptide binding site [polypeptide binding]; other site 298386005796 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 298386005797 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 298386005798 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 298386005799 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 298386005800 Protein of unknown function (DUF2860); Region: DUF2860; pfam11059 298386005801 Cache domain; Region: Cache_1; pfam02743 298386005802 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386005803 dimerization interface [polypeptide binding]; other site 298386005804 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 298386005805 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386005806 dimer interface [polypeptide binding]; other site 298386005807 putative CheW interface [polypeptide binding]; other site 298386005808 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 298386005809 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 298386005810 OpgC protein; Region: OpgC_C; cl00792 298386005811 Acyltransferase family; Region: Acyl_transf_3; pfam01757 298386005812 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 298386005813 NeuB family; Region: NeuB; cl00496 298386005814 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 298386005815 Protein of unknown function (DUF520); Region: DUF520; cl00723 298386005816 DNA-J related protein; Region: DNAJ_related; pfam12339 298386005817 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 298386005818 HSP70 interaction site [polypeptide binding]; other site 298386005819 Pirin-related protein [General function prediction only]; Region: COG1741 298386005820 Cupin domain; Region: Cupin_2; cl09118 298386005821 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 298386005822 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 298386005823 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 298386005824 putative acyl-acceptor binding pocket; other site 298386005825 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 298386005826 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 298386005827 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 298386005828 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 298386005829 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 298386005830 [4Fe-4S] binding site [ion binding]; other site 298386005831 molybdopterin cofactor binding site; other site 298386005832 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 298386005833 molybdopterin cofactor binding site; other site 298386005834 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 298386005835 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 298386005836 active site 298386005837 putative substrate binding region [chemical binding]; other site 298386005838 hypothetical protein; Provisional; Region: PRK11295 298386005839 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 298386005840 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 298386005841 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 298386005842 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 298386005843 DNA-K related protein; Region: DUF3731; pfam12531 298386005844 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 298386005845 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 298386005846 Walker A/P-loop; other site 298386005847 ATP binding site [chemical binding]; other site 298386005848 Q-loop/lid; other site 298386005849 ABC transporter signature motif; other site 298386005850 Walker B; other site 298386005851 D-loop; other site 298386005852 H-loop/switch region; other site 298386005853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386005854 DNA-binding site [nucleotide binding]; DNA binding site 298386005855 Helix-turn-helix domains; Region: HTH; cl00088 298386005856 Helix-turn-helix domains; Region: HTH; cl00088 298386005857 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386005858 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386005859 Helix-turn-helix domains; Region: HTH; cl00088 298386005860 Integrase core domain; Region: rve; cl01316 298386005861 Integrase core domain; Region: rve_3; cl15866 298386005862 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 298386005863 B2 nucleotide binding pocket [chemical binding]; other site 298386005864 CAS motifs; other site 298386005865 active site 298386005866 B1 nucleotide binding pocket [chemical binding]; other site 298386005867 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 298386005868 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 298386005869 LysE type translocator; Region: LysE; cl00565 298386005870 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 298386005871 active site 298386005872 P-loop; other site 298386005873 phosphorylation site [posttranslational modification] 298386005874 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386005875 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 298386005876 active site 298386005877 phosphorylation site [posttranslational modification] 298386005878 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386005879 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 298386005880 active site 298386005881 P-loop; other site 298386005882 phosphorylation site [posttranslational modification] 298386005883 Cytochrome C'; Region: Cytochrom_C_2; cl01610 298386005884 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 298386005885 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 298386005886 Helix-turn-helix domains; Region: HTH; cl00088 298386005887 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 298386005888 active site 298386005889 catalytic residues [active] 298386005890 metal binding site [ion binding]; metal-binding site 298386005891 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 298386005892 active site 298386005893 tetramer interface [polypeptide binding]; other site 298386005894 WYL domain; Region: WYL; cl14852 298386005895 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 298386005896 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 298386005897 active site 298386005898 motif I; other site 298386005899 motif II; other site 298386005900 Yip1 domain; Region: Yip1; cl12048 298386005901 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 298386005902 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 298386005903 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 298386005904 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 298386005905 Walker A/P-loop; other site 298386005906 ATP binding site [chemical binding]; other site 298386005907 Q-loop/lid; other site 298386005908 ABC transporter signature motif; other site 298386005909 Walker B; other site 298386005910 D-loop; other site 298386005911 H-loop/switch region; other site 298386005912 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 298386005913 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 298386005914 substrate binding pocket [chemical binding]; other site 298386005915 membrane-bound complex binding site; other site 298386005916 hinge residues; other site 298386005917 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 298386005918 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386005919 dimer interface [polypeptide binding]; other site 298386005920 conserved gate region; other site 298386005921 putative PBP binding loops; other site 298386005922 ABC-ATPase subunit interface; other site 298386005923 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 298386005924 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386005925 dimer interface [polypeptide binding]; other site 298386005926 conserved gate region; other site 298386005927 putative PBP binding loops; other site 298386005928 ABC-ATPase subunit interface; other site 298386005929 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386005930 dimerization interface [polypeptide binding]; other site 298386005931 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386005932 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386005933 dimer interface [polypeptide binding]; other site 298386005934 putative CheW interface [polypeptide binding]; other site 298386005935 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 298386005936 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 298386005937 DNA binding site [nucleotide binding] 298386005938 domain linker motif; other site 298386005939 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 298386005940 dimerization interface (closed form) [polypeptide binding]; other site 298386005941 ligand binding site [chemical binding]; other site 298386005942 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 298386005943 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 298386005944 active site 298386005945 catalytic residues [active] 298386005946 galactokinase; Provisional; Region: PRK05101 298386005947 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 298386005948 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 298386005949 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 298386005950 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 298386005951 dimer interface [polypeptide binding]; other site 298386005952 active site 298386005953 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 298386005954 UDP-glucose 4-epimerase; Region: PLN02240 298386005955 NAD binding site [chemical binding]; other site 298386005956 homodimer interface [polypeptide binding]; other site 298386005957 active site 298386005958 substrate binding site [chemical binding]; other site 298386005959 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 298386005960 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 298386005961 DNA binding site [nucleotide binding] 298386005962 domain linker motif; other site 298386005963 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 298386005964 putative dimerization interface [polypeptide binding]; other site 298386005965 putative ligand binding site [chemical binding]; other site 298386005966 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 298386005967 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 298386005968 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 298386005969 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 298386005970 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 298386005971 Domain of unknown function (DUF386); Region: DUF386; cl01047 298386005972 inner membrane transporter YjeM; Provisional; Region: PRK15238 298386005973 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 298386005974 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 298386005975 PAS domain; Region: PAS_9; pfam13426 298386005976 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 298386005977 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386005978 metal binding site [ion binding]; metal-binding site 298386005979 active site 298386005980 I-site; other site 298386005981 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 298386005982 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 298386005983 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 298386005984 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 298386005985 P-loop; other site 298386005986 Magnesium ion binding site [ion binding]; other site 298386005987 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 298386005988 Magnesium ion binding site [ion binding]; other site 298386005989 Helix-turn-helix domains; Region: HTH; cl00088 298386005990 Helix-turn-helix domains; Region: HTH; cl00088 298386005991 Winged helix-turn helix; Region: HTH_29; pfam13551 298386005992 Helix-turn-helix domains; Region: HTH; cl00088 298386005993 Integrase core domain; Region: rve; cl01316 298386005994 Integrase core domain; Region: rve_3; cl15866 298386005995 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 298386005996 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 298386005997 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 298386005998 Gram-negative bacterial tonB protein; Region: TonB; cl10048 298386005999 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 298386006000 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 298386006001 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 298386006002 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 298386006003 intersubunit interface [polypeptide binding]; other site 298386006004 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 298386006005 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 298386006006 ABC-ATPase subunit interface; other site 298386006007 dimer interface [polypeptide binding]; other site 298386006008 putative PBP binding regions; other site 298386006009 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 298386006010 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 298386006011 Walker A/P-loop; other site 298386006012 ATP binding site [chemical binding]; other site 298386006013 Q-loop/lid; other site 298386006014 ABC transporter signature motif; other site 298386006015 Walker B; other site 298386006016 D-loop; other site 298386006017 H-loop/switch region; other site 298386006018 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 298386006019 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 298386006020 DNA binding site [nucleotide binding] 298386006021 domain linker motif; other site 298386006022 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 298386006023 dimerization interface [polypeptide binding]; other site 298386006024 ligand binding site [chemical binding]; other site 298386006025 TfoX N-terminal domain; Region: TfoX_N; cl01167 298386006026 TfoX N-terminal domain; Region: TfoX_N; cl01167 298386006027 Uncharacterized conserved protein [Function unknown]; Region: COG2128 298386006028 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 298386006029 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 298386006030 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 298386006031 mercuric reductase; Validated; Region: PRK06370 298386006032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386006033 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386006034 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 298386006035 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 298386006036 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 298386006037 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 298386006038 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 298386006039 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 298386006040 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 298386006041 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386006042 Walker A/P-loop; other site 298386006043 ATP binding site [chemical binding]; other site 298386006044 Q-loop/lid; other site 298386006045 ABC transporter signature motif; other site 298386006046 Walker B; other site 298386006047 D-loop; other site 298386006048 H-loop/switch region; other site 298386006049 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 298386006050 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 298386006051 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 298386006052 putative NAD(P) binding site [chemical binding]; other site 298386006053 dimer interface [polypeptide binding]; other site 298386006054 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386006055 Helix-turn-helix domains; Region: HTH; cl00088 298386006056 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386006057 putative effector binding pocket; other site 298386006058 dimerization interface [polypeptide binding]; other site 298386006059 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 298386006060 Helix-turn-helix domains; Region: HTH; cl00088 298386006061 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 298386006062 dimerization interface [polypeptide binding]; other site 298386006063 putative transporter; Provisional; Region: PRK11043 298386006064 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 298386006065 putative substrate translocation pore; other site 298386006066 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 298386006067 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 298386006068 substrate binding pocket [chemical binding]; other site 298386006069 membrane-bound complex binding site; other site 298386006070 hinge residues; other site 298386006071 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386006072 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386006073 Helix-turn-helix domains; Region: HTH; cl00088 298386006074 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 298386006075 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 298386006076 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 298386006077 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 298386006078 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 298386006079 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386006080 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 298386006081 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 298386006082 Small T antigen; Reviewed; Region: PHA03102 298386006083 HSP70 interaction site [polypeptide binding]; other site 298386006084 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 298386006085 active site 298386006086 phosphorylation site [posttranslational modification] 298386006087 intermolecular recognition site; other site 298386006088 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386006089 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 298386006090 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386006091 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 298386006092 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 298386006093 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 298386006094 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 298386006095 High potential iron-sulfur protein; Region: HIPIP; pfam01355 298386006096 putative chaperone; Provisional; Region: PRK11678 298386006097 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 298386006098 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 298386006099 catalytic residues [active] 298386006100 hinge region; other site 298386006101 alpha helical domain; other site 298386006102 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 298386006103 trimer interface [polypeptide binding]; other site 298386006104 eyelet of channel; other site 298386006105 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 298386006106 eyelet of channel; other site 298386006107 trimer interface [polypeptide binding]; other site 298386006108 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 298386006109 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 298386006110 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 298386006111 active site 298386006112 dimer interface [polypeptide binding]; other site 298386006113 effector binding site; other site 298386006114 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 298386006115 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 298386006116 TSCPD domain; Region: TSCPD; cl14834 298386006117 putative transporter; Validated; Region: PRK03818 298386006118 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 298386006119 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 298386006120 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 298386006121 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 298386006122 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 298386006123 Cache domain; Region: Cache_2; cl07034 298386006124 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386006125 dimerization interface [polypeptide binding]; other site 298386006126 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386006127 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386006128 dimer interface [polypeptide binding]; other site 298386006129 putative CheW interface [polypeptide binding]; other site 298386006130 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 298386006131 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 298386006132 DNA binding site [nucleotide binding] 298386006133 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 298386006134 ligand binding site [chemical binding]; other site 298386006135 dimerization interface (closed form) [polypeptide binding]; other site 298386006136 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 298386006137 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 298386006138 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 298386006139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386006140 homodimer interface [polypeptide binding]; other site 298386006141 catalytic residue [active] 298386006142 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 298386006143 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 298386006144 catalytic residues [active] 298386006145 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 298386006146 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 298386006147 Walker A/P-loop; other site 298386006148 ATP binding site [chemical binding]; other site 298386006149 Q-loop/lid; other site 298386006150 ABC transporter signature motif; other site 298386006151 Walker B; other site 298386006152 D-loop; other site 298386006153 H-loop/switch region; other site 298386006154 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 298386006155 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 298386006156 dimer interface [polypeptide binding]; other site 298386006157 ABC-ATPase subunit interface; other site 298386006158 putative PBP binding regions; other site 298386006159 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 298386006160 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 298386006161 putative active site [active] 298386006162 Zn binding site [ion binding]; other site 298386006163 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 298386006164 IHF dimer interface [polypeptide binding]; other site 298386006165 IHF - DNA interface [nucleotide binding]; other site 298386006166 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 298386006167 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 298386006168 putative tRNA-binding site [nucleotide binding]; other site 298386006169 B3/4 domain; Region: B3_4; cl11458 298386006170 tRNA synthetase B5 domain; Region: B5; cl08394 298386006171 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 298386006172 dimer interface [polypeptide binding]; other site 298386006173 motif 1; other site 298386006174 motif 3; other site 298386006175 motif 2; other site 298386006176 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 298386006177 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 298386006178 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 298386006179 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 298386006180 dimer interface [polypeptide binding]; other site 298386006181 motif 1; other site 298386006182 active site 298386006183 motif 2; other site 298386006184 motif 3; other site 298386006185 ribosomal protein L20; Region: rpl20; CHL00068 298386006186 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 298386006187 23S rRNA binding site [nucleotide binding]; other site 298386006188 L21 binding site [polypeptide binding]; other site 298386006189 L13 binding site [polypeptide binding]; other site 298386006190 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 298386006191 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 298386006192 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 298386006193 motif 3; other site 298386006194 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 298386006195 anticodon binding site; other site 298386006196 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 298386006197 motif 2; other site 298386006198 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 298386006199 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 298386006200 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 298386006201 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 298386006202 motif 1; other site 298386006203 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 298386006204 Leucine-rich repeats, typical (most populated) subfamily; Region: LRR_TYP; cl15310 298386006205 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 298386006206 active site 298386006207 ATP binding site [chemical binding]; other site 298386006208 substrate binding site [chemical binding]; other site 298386006209 activation loop (A-loop); other site 298386006210 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 298386006211 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 298386006212 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386006213 DNA-binding site [nucleotide binding]; DNA binding site 298386006214 UTRA domain; Region: UTRA; cl01230 298386006215 imidazolonepropionase; Validated; Region: PRK09356 298386006216 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 298386006217 active site 298386006218 Arginase family; Region: Arginase; cl00306 298386006219 urocanate hydratase; Provisional; Region: PRK05414 298386006220 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 298386006221 active sites [active] 298386006222 tetramer interface [polypeptide binding]; other site 298386006223 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 298386006224 Phosphotransferase enzyme family; Region: APH; pfam01636 298386006225 active site 298386006226 ATP binding site [chemical binding]; other site 298386006227 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 298386006228 substrate binding site [chemical binding]; other site 298386006229 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 298386006230 motif II; other site 298386006231 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 298386006232 Lumazine binding domain; Region: Lum_binding; pfam00677 298386006233 Lumazine binding domain; Region: Lum_binding; pfam00677 298386006234 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 298386006235 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386006236 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 298386006237 dimer interface [polypeptide binding]; other site 298386006238 phosphorylation site [posttranslational modification] 298386006239 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 298386006240 ATP binding site [chemical binding]; other site 298386006241 Mg2+ binding site [ion binding]; other site 298386006242 G-X-G motif; other site 298386006243 osmolarity response regulator; Provisional; Region: ompR; PRK09468 298386006244 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 298386006245 active site 298386006246 phosphorylation site [posttranslational modification] 298386006247 intermolecular recognition site; other site 298386006248 dimerization interface [polypeptide binding]; other site 298386006249 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 298386006250 DNA binding site [nucleotide binding] 298386006251 multidrug efflux protein; Reviewed; Region: PRK01766 298386006252 MatE; Region: MatE; cl10513 298386006253 MatE; Region: MatE; cl10513 298386006254 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 298386006255 Glycoside hydrolase family 19 chitinase domain. Chitinases are enzymes that catalyze the hydrolysis of the beta-1,4-N-acetyl-D-glucosamine linkages in chitin polymers. Family 19 chitinases are found primarily in plants (classes I, III, and IV), but some...; Region: chitinase_glyco_hydro_19; cd00325 298386006256 putative sugar binding site [chemical binding]; other site 298386006257 catalytic residues [active] 298386006258 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 298386006259 chitin/cellulose binding site [chemical binding]; other site 298386006260 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 298386006261 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 298386006262 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 298386006263 Sporulation related domain; Region: SPOR; cl10051 298386006264 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 298386006265 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 298386006266 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 298386006267 substrate binding pocket [chemical binding]; other site 298386006268 membrane-bound complex binding site; other site 298386006269 hinge residues; other site 298386006270 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 298386006271 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 298386006272 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386006273 putative PBP binding loops; other site 298386006274 dimer interface [polypeptide binding]; other site 298386006275 ABC-ATPase subunit interface; other site 298386006276 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 298386006277 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386006278 dimer interface [polypeptide binding]; other site 298386006279 conserved gate region; other site 298386006280 putative PBP binding loops; other site 298386006281 ABC-ATPase subunit interface; other site 298386006282 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 298386006283 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 298386006284 Walker A/P-loop; other site 298386006285 ATP binding site [chemical binding]; other site 298386006286 Q-loop/lid; other site 298386006287 ABC transporter signature motif; other site 298386006288 Walker B; other site 298386006289 D-loop; other site 298386006290 H-loop/switch region; other site 298386006291 YccA-like proteins; Region: YccA_like; cd10433 298386006292 DsrC like protein; Region: DsrC; cl01101 298386006293 Acylphosphatase; Region: Acylphosphatase; cl00551 298386006294 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386006295 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386006296 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386006297 dimer interface [polypeptide binding]; other site 298386006298 putative CheW interface [polypeptide binding]; other site 298386006299 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 298386006300 PUA domain; Region: PUA; cl00607 298386006301 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 298386006302 S-adenosylmethionine binding site [chemical binding]; other site 298386006303 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 298386006304 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 298386006305 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 298386006306 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 298386006307 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 298386006308 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 298386006309 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 298386006310 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 298386006311 active site 298386006312 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 298386006313 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 298386006314 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 298386006315 Chitinase C; Region: ChiC; pfam06483 298386006316 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 298386006317 chitin/cellulose binding site [chemical binding]; other site 298386006318 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 298386006319 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 298386006320 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 298386006321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386006322 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 298386006323 active site 298386006324 metal-binding site 298386006325 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 298386006326 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 298386006327 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 298386006328 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386006329 catalytic residue [active] 298386006330 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 298386006331 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 298386006332 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 298386006333 motif II; other site 298386006334 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 298386006335 putative substrate translocation pore; other site 298386006336 Major Facilitator Superfamily; Region: MFS_1; pfam07690 298386006337 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 298386006338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386006339 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 298386006340 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 298386006341 Low molecular weight phosphatase family; Region: LMWPc; cl00105 298386006342 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 298386006343 dimerization interface [polypeptide binding]; other site 298386006344 putative DNA binding site [nucleotide binding]; other site 298386006345 putative Zn2+ binding site [ion binding]; other site 298386006346 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 298386006347 choline dehydrogenase; Validated; Region: PRK02106 298386006348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386006349 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 298386006350 short chain dehydrogenase; Provisional; Region: PRK07201 298386006351 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 298386006352 putative NAD(P) binding site [chemical binding]; other site 298386006353 active site 298386006354 putative substrate binding site [chemical binding]; other site 298386006355 classical (c) SDRs; Region: SDR_c; cd05233 298386006356 NAD(P) binding site [chemical binding]; other site 298386006357 active site 298386006358 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 298386006359 acyl-CoA binding pocket [chemical binding]; other site 298386006360 CoA binding site [chemical binding]; other site 298386006361 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 298386006362 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 298386006363 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 298386006364 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 298386006365 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 298386006366 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 298386006367 Response regulator receiver domain; Region: Response_reg; pfam00072 298386006368 active site 298386006369 phosphorylation site [posttranslational modification] 298386006370 intermolecular recognition site; other site 298386006371 dimerization interface [polypeptide binding]; other site 298386006372 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 298386006373 TPR motif; other site 298386006374 Tetratricopeptide repeat; Region: TPR_16; pfam13432 298386006375 binding surface 298386006376 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386006377 Helix-turn-helix domains; Region: HTH; cl00088 298386006378 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386006379 putative effector binding pocket; other site 298386006380 dimerization interface [polypeptide binding]; other site 298386006381 L-lactate permease; Region: Lactate_perm; cl00701 298386006382 D-lactate dehydrogenase; Provisional; Region: PRK11183 298386006383 FAD binding domain; Region: FAD_binding_4; pfam01565 298386006384 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 298386006385 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 298386006386 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 298386006387 dimer interface [polypeptide binding]; other site 298386006388 active site 298386006389 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 298386006390 catalytic residues [active] 298386006391 substrate binding site [chemical binding]; other site 298386006392 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 298386006393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386006394 NAD(P) binding pocket [chemical binding]; other site 298386006395 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 298386006396 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 298386006397 inhibitor-cofactor binding pocket; inhibition site 298386006398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386006399 catalytic residue [active] 298386006400 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 298386006401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386006402 catalytic residue [active] 298386006403 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386006404 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 298386006405 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 298386006406 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 298386006407 GIY-YIG motif/motif A; other site 298386006408 active site 298386006409 catalytic site [active] 298386006410 putative DNA binding site [nucleotide binding]; other site 298386006411 metal binding site [ion binding]; metal-binding site 298386006412 UvrB/uvrC motif; Region: UVR; pfam02151 298386006413 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 298386006414 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 298386006415 response regulator; Provisional; Region: PRK09483 298386006416 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 298386006417 active site 298386006418 phosphorylation site [posttranslational modification] 298386006419 intermolecular recognition site; other site 298386006420 dimerization interface [polypeptide binding]; other site 298386006421 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 298386006422 DNA binding residues [nucleotide binding] 298386006423 dimerization interface [polypeptide binding]; other site 298386006424 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 298386006425 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 298386006426 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 298386006427 Walker A/P-loop; other site 298386006428 ATP binding site [chemical binding]; other site 298386006429 Q-loop/lid; other site 298386006430 ABC transporter signature motif; other site 298386006431 Walker B; other site 298386006432 D-loop; other site 298386006433 H-loop/switch region; other site 298386006434 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 298386006435 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 298386006436 Walker A/P-loop; other site 298386006437 ATP binding site [chemical binding]; other site 298386006438 Q-loop/lid; other site 298386006439 ABC transporter signature motif; other site 298386006440 Walker B; other site 298386006441 D-loop; other site 298386006442 H-loop/switch region; other site 298386006443 Cobalt transport protein; Region: CbiQ; cl00463 298386006444 Transcriptional regulators [Transcription]; Region: FadR; COG2186 298386006445 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386006446 DNA-binding site [nucleotide binding]; DNA binding site 298386006447 FCD domain; Region: FCD; cl11656 298386006448 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 298386006449 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 298386006450 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 298386006451 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 298386006452 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 298386006453 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 298386006454 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 298386006455 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 298386006456 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 298386006457 XdhC Rossmann domain; Region: XdhC_C; pfam13478 298386006458 guanine deaminase; Provisional; Region: PRK09228 298386006459 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 298386006460 active site 298386006461 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 298386006462 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 298386006463 Initiator Replication protein; Region: Rep_3; cl03080 298386006464 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 298386006465 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 298386006466 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 298386006467 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386006468 dimer interface [polypeptide binding]; other site 298386006469 conserved gate region; other site 298386006470 putative PBP binding loops; other site 298386006471 ABC-ATPase subunit interface; other site 298386006472 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 298386006473 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386006474 dimer interface [polypeptide binding]; other site 298386006475 conserved gate region; other site 298386006476 putative PBP binding loops; other site 298386006477 ABC-ATPase subunit interface; other site 298386006478 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 298386006479 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 298386006480 Walker A/P-loop; other site 298386006481 ATP binding site [chemical binding]; other site 298386006482 Q-loop/lid; other site 298386006483 ABC transporter signature motif; other site 298386006484 Walker B; other site 298386006485 D-loop; other site 298386006486 H-loop/switch region; other site 298386006487 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 298386006488 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 298386006489 Walker A/P-loop; other site 298386006490 ATP binding site [chemical binding]; other site 298386006491 Q-loop/lid; other site 298386006492 ABC transporter signature motif; other site 298386006493 Walker B; other site 298386006494 D-loop; other site 298386006495 H-loop/switch region; other site 298386006496 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 298386006497 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 298386006498 trimer interface; other site 298386006499 sugar binding site [chemical binding]; other site 298386006500 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 298386006501 Predicted membrane protein [Function unknown]; Region: COG3748 298386006502 Protein of unknown function (DUF989); Region: DUF989; pfam06181 298386006503 Cytochrome c; Region: Cytochrom_C; cl11414 298386006504 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 298386006505 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 298386006506 allantoicase; Provisional; Region: PRK13257 298386006507 Allantoicase repeat; Region: Allantoicase; pfam03561 298386006508 Allantoicase repeat; Region: Allantoicase; pfam03561 298386006509 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 298386006510 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 298386006511 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 298386006512 active site 298386006513 catalytic site [active] 298386006514 tetramer interface [polypeptide binding]; other site 298386006515 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 298386006516 active site 298386006517 homotetramer interface [polypeptide binding]; other site 298386006518 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 298386006519 Sulfate transporter family; Region: Sulfate_transp; cl15842 298386006520 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 298386006521 xanthine permease; Region: pbuX; TIGR03173 298386006522 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 298386006523 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 298386006524 active site 298386006525 putative substrate binding pocket [chemical binding]; other site 298386006526 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 298386006527 Helix-turn-helix domains; Region: HTH; cl00088 298386006528 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 298386006529 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 298386006530 active site 298386006531 nucleophile elbow; other site 298386006532 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386006533 Cupin domain; Region: Cupin_2; cl09118 298386006534 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 298386006535 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 298386006536 MOFRL family; Region: MOFRL; pfam05161 298386006537 tartronate semialdehyde reductase; Provisional; Region: PRK15059 298386006538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386006539 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 298386006540 glyoxylate carboligase; Provisional; Region: PRK11269 298386006541 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 298386006542 PYR/PP interface [polypeptide binding]; other site 298386006543 dimer interface [polypeptide binding]; other site 298386006544 TPP binding site [chemical binding]; other site 298386006545 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 298386006546 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 298386006547 TPP-binding site [chemical binding]; other site 298386006548 malate synthase A; Region: malate_syn_A; TIGR01344 298386006549 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 298386006550 active site 298386006551 Domain of unknown function (DUF336); Region: DUF336; cl01249 298386006552 DctM-like transporters; Region: DctM; pfam06808 298386006553 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386006554 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 298386006555 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 298386006556 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 298386006557 Domain of unknown function (DUF386); Region: DUF386; cl01047 298386006558 Sodium:solute symporter family; Region: SSF; cl00456 298386006559 N-acetylmannosamine kinase; Provisional; Region: PRK05082 298386006560 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 298386006561 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 298386006562 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 298386006563 putative active site cavity [active] 298386006564 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 298386006565 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 298386006566 Protein of unknown function (DUF592); Region: DUF592; pfam04574 298386006567 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 298386006568 putative active site [active] 298386006569 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 298386006570 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 298386006571 catalytic residue [active] 298386006572 Peptidase M66; Region: Peptidase_M66; pfam10462 298386006573 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 298386006574 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 298386006575 Citrate lyase, alpha subunit (CitF); Region: CitF; pfam04223 298386006576 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 298386006577 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 298386006578 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 298386006579 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 298386006580 putative active site [active] 298386006581 (T/H)XGH motif; other site 298386006582 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 298386006583 oxaloacetate decarboxylase; Provisional; Region: PRK14040 298386006584 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 298386006585 active site 298386006586 catalytic residues [active] 298386006587 metal binding site [ion binding]; metal-binding site 298386006588 homodimer binding site [polypeptide binding]; other site 298386006589 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 298386006590 carboxyltransferase (CT) interaction site; other site 298386006591 biotinylation site [posttranslational modification]; other site 298386006592 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 298386006593 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 298386006594 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 298386006595 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 298386006596 ATP binding site [chemical binding]; other site 298386006597 Mg2+ binding site [ion binding]; other site 298386006598 G-X-G motif; other site 298386006599 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 298386006600 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 298386006601 active site 298386006602 phosphorylation site [posttranslational modification] 298386006603 intermolecular recognition site; other site 298386006604 dimerization interface [polypeptide binding]; other site 298386006605 Transcriptional regulator; Region: CitT; pfam12431 298386006606 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 298386006607 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 298386006608 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386006609 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386006610 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386006611 dimer interface [polypeptide binding]; other site 298386006612 putative CheW interface [polypeptide binding]; other site 298386006613 EamA-like transporter family; Region: EamA; cl01037 298386006614 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 298386006615 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386006616 DNA-binding site [nucleotide binding]; DNA binding site 298386006617 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 298386006618 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386006619 homodimer interface [polypeptide binding]; other site 298386006620 catalytic residue [active] 298386006621 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 298386006622 TPR motif; other site 298386006623 binding surface 298386006624 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386006625 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 298386006626 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 298386006627 ABC-2 type transporter; Region: ABC2_membrane; cl11417 298386006628 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 298386006629 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386006630 Walker A/P-loop; other site 298386006631 ATP binding site [chemical binding]; other site 298386006632 Q-loop/lid; other site 298386006633 ABC transporter signature motif; other site 298386006634 Walker B; other site 298386006635 D-loop; other site 298386006636 H-loop/switch region; other site 298386006637 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 298386006638 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 298386006639 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 298386006640 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 298386006641 Flagellin N-methylase; Region: FliB; cl00497 298386006642 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 298386006643 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 298386006644 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 298386006645 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386006646 Helix-turn-helix domains; Region: HTH; cl00088 298386006647 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386006648 putative effector binding pocket; other site 298386006649 dimerization interface [polypeptide binding]; other site 298386006650 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 298386006651 putative substrate translocation pore; other site 298386006652 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 298386006653 Peptidase family M48; Region: Peptidase_M48; cl12018 298386006654 Sulfate transporter family; Region: Sulfate_transp; cl15842 298386006655 Sulfate transporter family; Region: Sulfate_transp; cl15842 298386006656 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 298386006657 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 298386006658 Ligand Binding Site [chemical binding]; other site 298386006659 AAA domain; Region: AAA_26; pfam13500 298386006660 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386006661 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 298386006662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386006663 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 298386006664 S-adenosylmethionine binding site [chemical binding]; other site 298386006665 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 298386006666 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 298386006667 substrate-cofactor binding pocket; other site 298386006668 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386006669 catalytic residue [active] 298386006670 biotin synthase; Provisional; Region: PRK15108 298386006671 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 298386006672 FeS/SAM binding site; other site 298386006673 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 298386006674 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 298386006675 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 298386006676 inhibitor-cofactor binding pocket; inhibition site 298386006677 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386006678 catalytic residue [active] 298386006679 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 298386006680 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 298386006681 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 298386006682 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 298386006683 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 298386006684 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 298386006685 putative dimer interface [polypeptide binding]; other site 298386006686 putative anticodon binding site; other site 298386006687 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 298386006688 homodimer interface [polypeptide binding]; other site 298386006689 motif 1; other site 298386006690 motif 2; other site 298386006691 active site 298386006692 motif 3; other site 298386006693 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 298386006694 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 298386006695 substrate binding site [chemical binding]; other site 298386006696 multimerization interface [polypeptide binding]; other site 298386006697 ATP binding site [chemical binding]; other site 298386006698 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 298386006699 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 298386006700 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 298386006701 enoyl-CoA hydratase; Provisional; Region: PRK06688 298386006702 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 298386006703 substrate binding site [chemical binding]; other site 298386006704 oxyanion hole (OAH) forming residues; other site 298386006705 trimer interface [polypeptide binding]; other site 298386006706 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 298386006707 Major Facilitator Superfamily; Region: MFS_1; pfam07690 298386006708 putative substrate translocation pore; other site 298386006709 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 298386006710 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 298386006711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386006712 homodimer interface [polypeptide binding]; other site 298386006713 catalytic residue [active] 298386006714 Helix-turn-helix domains; Region: HTH; cl00088 298386006715 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 298386006716 regulatory protein UhpC; Provisional; Region: PRK11663 298386006717 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 298386006718 putative substrate translocation pore; other site 298386006719 sensory histidine kinase UhpB; Provisional; Region: PRK11644 298386006720 MASE1; Region: MASE1; pfam05231 298386006721 Histidine kinase; Region: HisKA_3; pfam07730 298386006722 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 298386006723 ATP binding site [chemical binding]; other site 298386006724 Mg2+ binding site [ion binding]; other site 298386006725 G-X-G motif; other site 298386006726 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 298386006727 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 298386006728 active site 298386006729 phosphorylation site [posttranslational modification] 298386006730 intermolecular recognition site; other site 298386006731 dimerization interface [polypeptide binding]; other site 298386006732 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 298386006733 DNA binding residues [nucleotide binding] 298386006734 dimerization interface [polypeptide binding]; other site 298386006735 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 298386006736 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 298386006737 putative substrate translocation pore; other site 298386006738 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 298386006739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 298386006740 Peptidase M15; Region: Peptidase_M15_3; cl01194 298386006741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 298386006742 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 298386006743 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 298386006744 Transcriptional regulators [Transcription]; Region: MarR; COG1846 298386006745 Helix-turn-helix domains; Region: HTH; cl00088 298386006746 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386006747 Helix-turn-helix domains; Region: HTH; cl00088 298386006748 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386006749 dimerization interface [polypeptide binding]; other site 298386006750 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 298386006751 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 298386006752 cell density-dependent motility repressor; Provisional; Region: PRK10082 298386006753 Helix-turn-helix domains; Region: HTH; cl00088 298386006754 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 298386006755 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 298386006756 aspartate racemase; Region: asp_race; TIGR00035 298386006757 L-lactate permease; Region: Lactate_perm; cl00701 298386006758 glycolate transporter; Provisional; Region: PRK09695 298386006759 Cysteine-rich domain; Region: CCG; pfam02754 298386006760 Cysteine-rich domain; Region: CCG; pfam02754 298386006761 iron-sulfur cluster-binding protein; Region: TIGR00273 298386006762 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 298386006763 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 298386006764 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 298386006765 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 298386006766 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386006767 Helix-turn-helix domains; Region: HTH; cl00088 298386006768 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386006769 putative effector binding pocket; other site 298386006770 dimerization interface [polypeptide binding]; other site 298386006771 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 298386006772 apolar tunnel; other site 298386006773 heme binding site [chemical binding]; other site 298386006774 dimerization interface [polypeptide binding]; other site 298386006775 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 298386006776 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 298386006777 molybdopterin cofactor binding site [chemical binding]; other site 298386006778 substrate binding site [chemical binding]; other site 298386006779 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 298386006780 molybdopterin cofactor binding site; other site 298386006781 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 298386006782 Dihaem cytochrome c; Region: DHC; pfam09626 298386006783 putative peptidase; Provisional; Region: PRK11649 298386006784 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 298386006785 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 298386006786 Sel1 repeat; Region: Sel1; cl02723 298386006787 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 298386006788 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 298386006789 Transposase; Region: DEDD_Tnp_IS110; pfam01548 298386006790 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 298386006791 Helix-turn-helix domains; Region: HTH; cl00088 298386006792 Helix-turn-helix domains; Region: HTH; cl00088 298386006793 Winged helix-turn helix; Region: HTH_29; pfam13551 298386006794 Helix-turn-helix domains; Region: HTH; cl00088 298386006795 Integrase core domain; Region: rve; cl01316 298386006796 Integrase core domain; Region: rve_3; cl15866 298386006797 Helix-turn-helix domains; Region: HTH; cl00088 298386006798 Winged helix-turn helix; Region: HTH_29; pfam13551 298386006799 Winged helix-turn helix; Region: HTH_33; pfam13592 298386006800 Integrase core domain; Region: rve; cl01316 298386006801 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386006802 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386006803 Integrase core domain; Region: rve; cl01316 298386006804 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 298386006805 cell division protein MukB; Provisional; Region: mukB; PRK04863 298386006806 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386006807 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 298386006808 MukE-like family; Region: MukE; cl11471 298386006809 KicB killing factor; Region: KicB; cl11468 298386006810 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 298386006811 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 298386006812 S-adenosylmethionine binding site [chemical binding]; other site 298386006813 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 298386006814 putative active site [active] 298386006815 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 298386006816 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 298386006817 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 298386006818 Ligand binding site; other site 298386006819 oligomer interface; other site 298386006820 Trm112p-like protein; Region: Trm112p; cl01066 298386006821 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 298386006822 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 298386006823 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 298386006824 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 298386006825 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 298386006826 Walker A/P-loop; other site 298386006827 ATP binding site [chemical binding]; other site 298386006828 Q-loop/lid; other site 298386006829 ABC transporter signature motif; other site 298386006830 Walker B; other site 298386006831 D-loop; other site 298386006832 H-loop/switch region; other site 298386006833 ComEC family competence protein; Provisional; Region: PRK11539 298386006834 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 298386006835 Competence protein; Region: Competence; cl00471 298386006836 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 298386006837 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 298386006838 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 298386006839 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 298386006840 FtsX-like permease family; Region: FtsX; cl15850 298386006841 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 298386006842 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 298386006843 Walker A/P-loop; other site 298386006844 ATP binding site [chemical binding]; other site 298386006845 Q-loop/lid; other site 298386006846 ABC transporter signature motif; other site 298386006847 Walker B; other site 298386006848 D-loop; other site 298386006849 H-loop/switch region; other site 298386006850 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 298386006851 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 298386006852 FtsX-like permease family; Region: FtsX; cl15850 298386006853 transcription-repair coupling factor; Provisional; Region: PRK10689 298386006854 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 298386006855 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 298386006856 ATP binding site [chemical binding]; other site 298386006857 putative Mg++ binding site [ion binding]; other site 298386006858 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 298386006859 nucleotide binding region [chemical binding]; other site 298386006860 ATP-binding site [chemical binding]; other site 298386006861 TRCF domain; Region: TRCF; cl04088 298386006862 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 298386006863 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 298386006864 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386006865 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 298386006866 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 298386006867 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 298386006868 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386006869 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 298386006870 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 298386006871 Phosphotransferase enzyme family; Region: APH; pfam01636 298386006872 active site 298386006873 substrate binding site [chemical binding]; other site 298386006874 ATP binding site [chemical binding]; other site 298386006875 TolB amino-terminal domain; Region: TolB_N; cl00639 298386006876 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 298386006877 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 298386006878 putative dimer interface [polypeptide binding]; other site 298386006879 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 298386006880 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 298386006881 nucleotide binding site/active site [active] 298386006882 HIT family signature motif; other site 298386006883 catalytic residue [active] 298386006884 CHASE3 domain; Region: CHASE3; cl05000 298386006885 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386006886 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386006887 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386006888 dimer interface [polypeptide binding]; other site 298386006889 putative CheW interface [polypeptide binding]; other site 298386006890 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 298386006891 active site 298386006892 substrate binding pocket [chemical binding]; other site 298386006893 dimer interface [polypeptide binding]; other site 298386006894 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 298386006895 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 298386006896 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 298386006897 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 298386006898 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 298386006899 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 298386006900 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 298386006901 putative fumarate hydratase; Provisional; Region: PRK15392 298386006902 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 298386006903 Fumarase C-terminus; Region: Fumerase_C; cl00795 298386006904 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 298386006905 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 298386006906 chorismate binding enzyme; Region: Chorismate_bind; cl10555 298386006907 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 298386006908 putative active site [active] 298386006909 putative CoA binding site [chemical binding]; other site 298386006910 nudix motif; other site 298386006911 metal binding site [ion binding]; metal-binding site 298386006912 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 298386006913 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 298386006914 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 298386006915 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 298386006916 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 298386006917 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 298386006918 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 298386006919 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 298386006920 dimer interface [polypeptide binding]; other site 298386006921 FMN binding site [chemical binding]; other site 298386006922 NADPH bind site [chemical binding]; other site 298386006923 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 298386006924 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 298386006925 putative active site [active] 298386006926 metal binding site [ion binding]; metal-binding site 298386006927 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 298386006928 GSH binding site [chemical binding]; other site 298386006929 catalytic residues [active] 298386006930 putative transporter; Provisional; Region: PRK04972 298386006931 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 298386006932 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 298386006933 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 298386006934 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 298386006935 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 298386006936 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 298386006937 active site 298386006938 phosphorylation site [posttranslational modification] 298386006939 intermolecular recognition site; other site 298386006940 dimerization interface [polypeptide binding]; other site 298386006941 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 298386006942 DNA binding site [nucleotide binding] 298386006943 sensor protein PhoQ; Provisional; Region: PRK10815 298386006944 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 298386006945 ATP binding site [chemical binding]; other site 298386006946 Mg2+ binding site [ion binding]; other site 298386006947 G-X-G motif; other site 298386006948 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 298386006949 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 298386006950 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386006951 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 298386006952 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 298386006953 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 298386006954 active site 298386006955 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 298386006956 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 298386006957 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 298386006958 metal binding site [ion binding]; metal-binding site 298386006959 dimer interface [polypeptide binding]; other site 298386006960 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386006961 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 298386006962 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 298386006963 putative NAD(P) binding site [chemical binding]; other site 298386006964 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 298386006965 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 298386006966 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 298386006967 putative active site [active] 298386006968 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 298386006969 pyruvate kinase; Provisional; Region: PRK05826 298386006970 domain interfaces; other site 298386006971 active site 298386006972 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 298386006973 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386006974 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 298386006975 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 298386006976 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 298386006977 DNA binding site [nucleotide binding] 298386006978 active site 298386006979 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 298386006980 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 298386006981 putative aromatic amino acid binding site; other site 298386006982 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 298386006983 Walker A motif; other site 298386006984 ATP binding site [chemical binding]; other site 298386006985 Walker B motif; other site 298386006986 arginine finger; other site 298386006987 hypothetical protein; Provisional; Region: PRK05415 298386006988 Domain of unknown function (DUF697); Region: DUF697; cl12064 298386006989 YcjX-like family, DUF463; Region: DUF463; cl01193 298386006990 PspC domain; Region: PspC; cl00864 298386006991 Phage shock protein B; Region: PspB; cl05946 298386006992 phage shock protein A; Region: phageshock_pspA; TIGR02977 298386006993 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 298386006994 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 298386006995 Walker A motif; other site 298386006996 ATP binding site [chemical binding]; other site 298386006997 Walker B motif; other site 298386006998 arginine finger; other site 298386006999 Helix-turn-helix domains; Region: HTH; cl00088 298386007000 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 298386007001 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 298386007002 peptide binding site [polypeptide binding]; other site 298386007003 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 298386007004 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386007005 dimer interface [polypeptide binding]; other site 298386007006 conserved gate region; other site 298386007007 putative PBP binding loops; other site 298386007008 ABC-ATPase subunit interface; other site 298386007009 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 298386007010 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 298386007011 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386007012 dimer interface [polypeptide binding]; other site 298386007013 conserved gate region; other site 298386007014 ABC-ATPase subunit interface; other site 298386007015 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 298386007016 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 298386007017 Walker A/P-loop; other site 298386007018 ATP binding site [chemical binding]; other site 298386007019 Q-loop/lid; other site 298386007020 ABC transporter signature motif; other site 298386007021 Walker B; other site 298386007022 D-loop; other site 298386007023 H-loop/switch region; other site 298386007024 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 298386007025 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 298386007026 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 298386007027 Walker A/P-loop; other site 298386007028 ATP binding site [chemical binding]; other site 298386007029 Q-loop/lid; other site 298386007030 ABC transporter signature motif; other site 298386007031 Walker B; other site 298386007032 D-loop; other site 298386007033 H-loop/switch region; other site 298386007034 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 298386007035 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 298386007036 active site 298386007037 dimer interface [polypeptide binding]; other site 298386007038 tetratricopeptide repeat protein; Provisional; Region: PRK11788 298386007039 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 298386007040 TPR motif; other site 298386007041 binding surface 298386007042 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 298386007043 binding surface 298386007044 TPR motif; other site 298386007045 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 298386007046 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 298386007047 IHF dimer interface [polypeptide binding]; other site 298386007048 IHF - DNA interface [nucleotide binding]; other site 298386007049 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 298386007050 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 298386007051 RNA binding site [nucleotide binding]; other site 298386007052 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 298386007053 RNA binding site [nucleotide binding]; other site 298386007054 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 298386007055 RNA binding site [nucleotide binding]; other site 298386007056 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 298386007057 RNA binding site [nucleotide binding]; other site 298386007058 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 298386007059 RNA binding site [nucleotide binding]; other site 298386007060 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 298386007061 RNA binding site [nucleotide binding]; other site 298386007062 cytidylate kinase; Provisional; Region: cmk; PRK00023 298386007063 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 298386007064 CMP-binding site; other site 298386007065 The sites determining sugar specificity; other site 298386007066 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 298386007067 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 298386007068 hinge; other site 298386007069 active site 298386007070 Archaeal serine proteases [General function prediction only]; Region: COG1750 298386007071 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 298386007072 homodimer interface [polypeptide binding]; other site 298386007073 substrate-cofactor binding pocket; other site 298386007074 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386007075 catalytic residue [active] 298386007076 DNA gyrase subunit A; Validated; Region: PRK05560 298386007077 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 298386007078 CAP-like domain; other site 298386007079 active site 298386007080 primary dimer interface [polypeptide binding]; other site 298386007081 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 298386007082 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 298386007083 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 298386007084 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 298386007085 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 298386007086 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 298386007087 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 298386007088 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 298386007089 S-adenosylmethionine binding site [chemical binding]; other site 298386007090 phosphoglycolate phosphatase; Provisional; Region: PRK13222 298386007091 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 298386007092 motif II; other site 298386007093 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 298386007094 ATP cone domain; Region: ATP-cone; pfam03477 298386007095 Class I ribonucleotide reductase; Region: RNR_I; cd01679 298386007096 active site 298386007097 dimer interface [polypeptide binding]; other site 298386007098 catalytic residues [active] 298386007099 effector binding site; other site 298386007100 R2 peptide binding site; other site 298386007101 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 298386007102 dimer interface [polypeptide binding]; other site 298386007103 putative radical transfer pathway; other site 298386007104 diiron center [ion binding]; other site 298386007105 tyrosyl radical; other site 298386007106 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 298386007107 catalytic loop [active] 298386007108 iron binding site [ion binding]; other site 298386007109 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 298386007110 META domain; Region: META; cl01245 298386007111 hypothetical protein; Provisional; Region: PRK03673 298386007112 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 298386007113 putative MPT binding site; other site 298386007114 Competence-damaged protein; Region: CinA; cl00666 298386007115 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 298386007116 aromatic amino acid transport protein; Region: araaP; TIGR00837 298386007117 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 298386007118 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386007119 metal binding site [ion binding]; metal-binding site 298386007120 active site 298386007121 I-site; other site 298386007122 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 298386007123 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 298386007124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386007125 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 298386007126 Helix-turn-helix domains; Region: HTH; cl00088 298386007127 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 298386007128 substrate binding site [chemical binding]; other site 298386007129 dimerization interface [polypeptide binding]; other site 298386007130 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 298386007131 active site 298386007132 dinuclear metal binding site [ion binding]; other site 298386007133 dimerization interface [polypeptide binding]; other site 298386007134 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 298386007135 Helix-turn-helix domains; Region: HTH; cl00088 298386007136 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 298386007137 dimerization interface [polypeptide binding]; other site 298386007138 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 298386007139 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 298386007140 metal binding site [ion binding]; metal-binding site 298386007141 dimer interface [polypeptide binding]; other site 298386007142 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 298386007143 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 298386007144 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 298386007145 active site 298386007146 interdomain interaction site; other site 298386007147 putative metal-binding site [ion binding]; other site 298386007148 nucleotide binding site [chemical binding]; other site 298386007149 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 298386007150 domain I; other site 298386007151 DNA binding groove [nucleotide binding] 298386007152 phosphate binding site [ion binding]; other site 298386007153 domain II; other site 298386007154 domain III; other site 298386007155 nucleotide binding site [chemical binding]; other site 298386007156 catalytic site [active] 298386007157 domain IV; other site 298386007158 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 298386007159 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 298386007160 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 298386007161 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 298386007162 Protein of unknown function (DUF2498); Region: DUF2498; cl11671 298386007163 Protein of unknown function (DUF805); Region: DUF805; cl01224 298386007164 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 298386007165 putative inner membrane peptidase; Provisional; Region: PRK11778 298386007166 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 298386007167 tandem repeat interface [polypeptide binding]; other site 298386007168 oligomer interface [polypeptide binding]; other site 298386007169 active site residues [active] 298386007170 short chain dehydrogenase; Provisional; Region: PRK08703 298386007171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386007172 NAD(P) binding site [chemical binding]; other site 298386007173 active site 298386007174 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 298386007175 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 298386007176 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 298386007177 probable active site [active] 298386007178 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 298386007179 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 298386007180 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 298386007181 NeuB family; Region: NeuB; cl00496 298386007182 anthranilate synthase component I; Provisional; Region: PRK13564 298386007183 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 298386007184 chorismate binding enzyme; Region: Chorismate_bind; cl10555 298386007185 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 298386007186 Glutamine amidotransferase class-I; Region: GATase; pfam00117 298386007187 glutamine binding [chemical binding]; other site 298386007188 catalytic triad [active] 298386007189 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 298386007190 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 298386007191 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 298386007192 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 298386007193 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 298386007194 active site 298386007195 ribulose/triose binding site [chemical binding]; other site 298386007196 phosphate binding site [ion binding]; other site 298386007197 substrate (anthranilate) binding pocket [chemical binding]; other site 298386007198 product (indole) binding pocket [chemical binding]; other site 298386007199 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 298386007200 active site 298386007201 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 298386007202 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 298386007203 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386007204 catalytic residue [active] 298386007205 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 298386007206 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 298386007207 substrate binding site [chemical binding]; other site 298386007208 active site 298386007209 catalytic residues [active] 298386007210 heterodimer interface [polypeptide binding]; other site 298386007211 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 298386007212 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 298386007213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386007214 Helix-turn-helix domains; Region: HTH; cl00088 298386007215 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386007216 dimerization interface [polypeptide binding]; other site 298386007217 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 298386007218 SAF domain; Region: SAF; cl00555 298386007219 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 298386007220 BON domain; Region: BON; cl02771 298386007221 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 298386007222 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 298386007223 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386007224 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 298386007225 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 298386007226 ATP binding site [chemical binding]; other site 298386007227 Walker A motif; other site 298386007228 hexamer interface [polypeptide binding]; other site 298386007229 Walker B motif; other site 298386007230 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 298386007231 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 298386007232 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 298386007233 binding surface 298386007234 TPR motif; other site 298386007235 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 298386007236 binding surface 298386007237 TPR motif; other site 298386007238 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 298386007239 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 298386007240 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 298386007241 flagellar motor protein MotS; Reviewed; Region: PRK06742 298386007242 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386007243 ligand binding site [chemical binding]; other site 298386007244 Intracellular septation protein A; Region: IspA; cl01098 298386007245 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 298386007246 YCII-related domain; Region: YCII; cl00999 298386007247 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 298386007248 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 298386007249 S-adenosylmethionine binding site [chemical binding]; other site 298386007250 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 298386007251 active site 298386007252 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 298386007253 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 298386007254 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 298386007255 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 298386007256 putative active site [active] 298386007257 catalytic site [active] 298386007258 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 298386007259 putative active site [active] 298386007260 catalytic site [active] 298386007261 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 298386007262 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386007263 metal binding site [ion binding]; metal-binding site 298386007264 active site 298386007265 I-site; other site 298386007266 BCCT family transporter; Region: BCCT; cl00569 298386007267 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 298386007268 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 298386007269 active site 298386007270 catalytic site [active] 298386007271 substrate binding site [chemical binding]; other site 298386007272 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 298386007273 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 298386007274 ligand binding site [chemical binding]; other site 298386007275 flexible hinge region; other site 298386007276 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 298386007277 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 298386007278 metal binding triad; other site 298386007279 putative alcohol dehydrogenase; Provisional; Region: PRK09860 298386007280 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 298386007281 dimer interface [polypeptide binding]; other site 298386007282 active site 298386007283 metal binding site [ion binding]; metal-binding site 298386007284 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 298386007285 active site 298386007286 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 298386007287 Catalytic domain of Protein Kinases; Region: PKc; cd00180 298386007288 active site 298386007289 ATP binding site [chemical binding]; other site 298386007290 substrate binding site [chemical binding]; other site 298386007291 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 298386007292 activation loop (A-loop); other site 298386007293 activation loop (A-loop); other site 298386007294 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 298386007295 putative substrate translocation pore; other site 298386007296 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 298386007297 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 298386007298 nitrite reductase subunit NirD; Provisional; Region: PRK14989 298386007299 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386007300 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 298386007301 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 298386007302 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 298386007303 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 298386007304 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 298386007305 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 298386007306 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 298386007307 [4Fe-4S] binding site [ion binding]; other site 298386007308 molybdopterin cofactor binding site; other site 298386007309 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 298386007310 molybdopterin cofactor binding site; other site 298386007311 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 298386007312 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 298386007313 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 298386007314 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 298386007315 substrate binding pocket [chemical binding]; other site 298386007316 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 298386007317 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 298386007318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386007319 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 298386007320 putative mechanosensitive channel protein; Provisional; Region: PRK10929 298386007321 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 298386007322 Mechanosensitive ion channel; Region: MS_channel; pfam00924 298386007323 tryptophanase, leader peptide-associated; Region: tnaA_trp_ase; TIGR02617 298386007324 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 298386007325 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386007326 catalytic residue [active] 298386007327 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 298386007328 aromatic amino acid transport protein; Region: araaP; TIGR00837 298386007329 pyridoxamine kinase; Validated; Region: PRK05756 298386007330 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 298386007331 pyridoxal binding site [chemical binding]; other site 298386007332 dimer interface [polypeptide binding]; other site 298386007333 ATP binding site [chemical binding]; other site 298386007334 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 298386007335 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 298386007336 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 298386007337 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 298386007338 Predicted ATPase [General function prediction only]; Region: COG4637 298386007339 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386007340 Walker A/P-loop; other site 298386007341 ATP binding site [chemical binding]; other site 298386007342 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386007343 ATP binding site [chemical binding]; other site 298386007344 ABC transporter signature motif; other site 298386007345 Walker B; other site 298386007346 D-loop; other site 298386007347 H-loop/switch region; other site 298386007348 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 298386007349 Predicted transcriptional regulator [Transcription]; Region: COG2378 298386007350 WYL domain; Region: WYL; cl14852 298386007351 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 298386007352 bile acid transporter; Region: bass; TIGR00841 298386007353 Membrane transport protein; Region: Mem_trans; cl09117 298386007354 Quinolinate synthetase A protein; Region: NadA; cl00420 298386007355 tol-pal system protein YbgF; Provisional; Region: PRK10803 298386007356 Tetratricopeptide repeat; Region: TPR_6; pfam13174 298386007357 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 298386007358 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386007359 ligand binding site [chemical binding]; other site 298386007360 translocation protein TolB; Provisional; Region: tolB; PRK04792 298386007361 TolB amino-terminal domain; Region: TolB_N; cl00639 298386007362 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 298386007363 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 298386007364 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 298386007365 TolA protein; Region: tolA_full; TIGR02794 298386007366 Gram-negative bacterial tonB protein; Region: TonB; cl10048 298386007367 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 298386007368 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 298386007369 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 298386007370 active site 298386007371 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 298386007372 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 298386007373 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 298386007374 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 298386007375 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 298386007376 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 298386007377 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 298386007378 active site pocket [active] 298386007379 oxyanion hole [active] 298386007380 catalytic triad [active] 298386007381 active site nucleophile [active] 298386007382 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 298386007383 electron transport complex protein RnfB; Provisional; Region: PRK05113 298386007384 Putative Fe-S cluster; Region: FeS; pfam04060 298386007385 4Fe-4S binding domain; Region: Fer4; cl02805 298386007386 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 298386007387 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 298386007388 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 298386007389 SLBB domain; Region: SLBB; pfam10531 298386007390 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 298386007391 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 298386007392 FMN-binding domain; Region: FMN_bind; cl01081 298386007393 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 298386007394 endonuclease III; Provisional; Region: PRK10702 298386007395 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 298386007396 minor groove reading motif; other site 298386007397 helix-hairpin-helix signature motif; other site 298386007398 substrate binding pocket [chemical binding]; other site 298386007399 active site 298386007400 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 298386007401 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 298386007402 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 298386007403 dimer interface [polypeptide binding]; other site 298386007404 active site 298386007405 glutathione binding site [chemical binding]; other site 298386007406 metal binding site [ion binding]; metal-binding site 298386007407 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 298386007408 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 298386007409 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 298386007410 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 298386007411 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 298386007412 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386007413 ligand binding site [chemical binding]; other site 298386007414 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 298386007415 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 298386007416 dimer interface [polypeptide binding]; other site 298386007417 catalytic site [active] 298386007418 putative active site [active] 298386007419 putative substrate binding site [chemical binding]; other site 298386007420 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386007421 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 298386007422 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 298386007423 peroxidase; Provisional; Region: PRK15000 298386007424 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 298386007425 dimer interface [polypeptide binding]; other site 298386007426 decamer (pentamer of dimers) interface [polypeptide binding]; other site 298386007427 catalytic triad [active] 298386007428 peroxidatic and resolving cysteines [active] 298386007429 Predicted permease [General function prediction only]; Region: COG2056 298386007430 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 298386007431 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 298386007432 putative GSH binding site [chemical binding]; other site 298386007433 catalytic residues [active] 298386007434 superoxide dismutase; Provisional; Region: PRK10543 298386007435 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 298386007436 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 298386007437 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 298386007438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386007439 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 298386007440 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 298386007441 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 298386007442 Nucleoside recognition; Region: Gate; cl00486 298386007443 Nucleoside recognition; Region: Gate; cl00486 298386007444 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 298386007445 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 298386007446 metal binding site [ion binding]; metal-binding site 298386007447 dimer interface [polypeptide binding]; other site 298386007448 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 298386007449 Nucleoid-associated protein [General function prediction only]; Region: COG3081 298386007450 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 298386007451 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 298386007452 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 298386007453 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 298386007454 Sulfatase; Region: Sulfatase; cl10460 298386007455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386007456 metal binding site [ion binding]; metal-binding site 298386007457 active site 298386007458 I-site; other site 298386007459 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 298386007460 DNA topoisomerase III; Provisional; Region: PRK07726 298386007461 active site 298386007462 putative interdomain interaction site [polypeptide binding]; other site 298386007463 putative metal-binding site [ion binding]; other site 298386007464 putative nucleotide binding site [chemical binding]; other site 298386007465 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 298386007466 domain I; other site 298386007467 DNA binding groove [nucleotide binding] 298386007468 phosphate binding site [ion binding]; other site 298386007469 domain II; other site 298386007470 domain III; other site 298386007471 nucleotide binding site [chemical binding]; other site 298386007472 catalytic site [active] 298386007473 domain IV; other site 298386007474 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 298386007475 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 298386007476 active site residue [active] 298386007477 selenophosphate synthetase; Provisional; Region: PRK00943 298386007478 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 298386007479 dimerization interface [polypeptide binding]; other site 298386007480 putative ATP binding site [chemical binding]; other site 298386007481 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 298386007482 putative FMN binding site [chemical binding]; other site 298386007483 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 298386007484 active site 298386007485 FMN binding site [chemical binding]; other site 298386007486 2,4-decadienoyl-CoA binding site; other site 298386007487 catalytic residue [active] 298386007488 4Fe-4S cluster binding site [ion binding]; other site 298386007489 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 298386007490 protease 4; Provisional; Region: PRK10949 298386007491 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 298386007492 tandem repeat interface [polypeptide binding]; other site 298386007493 oligomer interface [polypeptide binding]; other site 298386007494 active site residues [active] 298386007495 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 298386007496 tandem repeat interface [polypeptide binding]; other site 298386007497 oligomer interface [polypeptide binding]; other site 298386007498 active site residues [active] 298386007499 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 298386007500 homodimer interface [polypeptide binding]; other site 298386007501 active site 298386007502 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 298386007503 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 298386007504 C-terminal domain interface [polypeptide binding]; other site 298386007505 GSH binding site (G-site) [chemical binding]; other site 298386007506 dimer interface [polypeptide binding]; other site 298386007507 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 298386007508 N-terminal domain interface [polypeptide binding]; other site 298386007509 dimer interface [polypeptide binding]; other site 298386007510 substrate binding pocket (H-site) [chemical binding]; other site 298386007511 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 298386007512 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 298386007513 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 298386007514 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 298386007515 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 298386007516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386007517 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 298386007518 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 298386007519 active site 298386007520 phosphate binding residues; other site 298386007521 catalytic residues [active] 298386007522 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 298386007523 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_16; cd07263 298386007524 PrkA family serine protein kinase; Provisional; Region: PRK15455 298386007525 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386007526 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 298386007527 Uncharacterized conserved protein [Function unknown]; Region: COG2718 298386007528 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 298386007529 SpoVR family protein; Provisional; Region: PRK11767 298386007530 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 298386007531 fatty acid metabolism transcriptional regulator FadR; Region: fadR_gamma; TIGR02812 298386007532 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386007533 DNA-binding site [nucleotide binding]; DNA binding site 298386007534 FCD domain; Region: FCD; cl11656 298386007535 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 298386007536 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 298386007537 transmembrane helices; other site 298386007538 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 298386007539 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 298386007540 SEC-C motif; Region: SEC-C; pfam02810 298386007541 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 298386007542 NADH(P)-binding; Region: NAD_binding_10; pfam13460 298386007543 NAD binding site [chemical binding]; other site 298386007544 active site 298386007545 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 298386007546 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 298386007547 FMN binding site [chemical binding]; other site 298386007548 active site 298386007549 catalytic residues [active] 298386007550 substrate binding site [chemical binding]; other site 298386007551 Flagellin N-methylase; Region: FliB; cl00497 298386007552 Phosphate-starvation-inducible E; Region: PsiE; cl01264 298386007553 Tim44-like domain; Region: Tim44; cl09208 298386007554 TM2 domain; Region: TM2; cl00984 298386007555 TM2 domain; Region: TM2; cl00984 298386007556 WHG domain; Region: WHG; pfam13305 298386007557 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 298386007558 putative substrate translocation pore; other site 298386007559 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 298386007560 putative acyl-acceptor binding pocket; other site 298386007561 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 298386007562 AMP-binding enzyme; Region: AMP-binding; cl15778 298386007563 O-succinylbenzoate synthase; Provisional; Region: PRK05105 298386007564 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 298386007565 active site 298386007566 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 298386007567 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 298386007568 nucleophilic elbow; other site 298386007569 catalytic triad; other site 298386007570 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 298386007571 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 298386007572 dimer interface [polypeptide binding]; other site 298386007573 tetramer interface [polypeptide binding]; other site 298386007574 PYR/PP interface [polypeptide binding]; other site 298386007575 TPP binding site [chemical binding]; other site 298386007576 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 298386007577 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 298386007578 TPP-binding site; other site 298386007579 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 298386007580 chorismate binding enzyme; Region: Chorismate_bind; cl10555 298386007581 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 298386007582 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 298386007583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386007584 homodimer interface [polypeptide binding]; other site 298386007585 catalytic residue [active] 298386007586 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 298386007587 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 298386007588 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 298386007589 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 298386007590 DTW domain; Region: DTW; cl01221 298386007591 Rhomboid family; Region: Rhomboid; cl11446 298386007592 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 298386007593 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 298386007594 periplasmic folding chaperone; Provisional; Region: PRK10788 298386007595 SurA N-terminal domain; Region: SurA_N_3; cl07813 298386007596 PPIC-type PPIASE domain; Region: Rotamase; cl08278 298386007597 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 298386007598 IHF dimer interface [polypeptide binding]; other site 298386007599 IHF - DNA interface [nucleotide binding]; other site 298386007600 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 298386007601 Found in ATP-dependent protease La (LON); Region: LON; smart00464 298386007602 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 298386007603 Walker A motif; other site 298386007604 ATP binding site [chemical binding]; other site 298386007605 Walker B motif; other site 298386007606 arginine finger; other site 298386007607 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 298386007608 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 298386007609 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 298386007610 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 298386007611 Walker A motif; other site 298386007612 ATP binding site [chemical binding]; other site 298386007613 Walker B motif; other site 298386007614 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 298386007615 Clp protease; Region: CLP_protease; pfam00574 298386007616 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 298386007617 oligomer interface [polypeptide binding]; other site 298386007618 active site residues [active] 298386007619 trigger factor; Provisional; Region: tig; PRK01490 298386007620 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 298386007621 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 298386007622 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 298386007623 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 298386007624 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 298386007625 homodimer interface [polypeptide binding]; other site 298386007626 NADP binding site [chemical binding]; other site 298386007627 substrate binding site [chemical binding]; other site 298386007628 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 298386007629 active site 298386007630 tetramer interface; other site 298386007631 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 298386007632 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 298386007633 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 298386007634 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 298386007635 putative substrate translocation pore; other site 298386007636 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 298386007637 active site 298386007638 response regulator of RpoS; Provisional; Region: PRK10693 298386007639 phosphorylation site [posttranslational modification] 298386007640 intermolecular recognition site; other site 298386007641 dimerization interface [polypeptide binding]; other site 298386007642 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386007643 Helix-turn-helix domains; Region: HTH; cl00088 298386007644 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386007645 putative effector binding pocket; other site 298386007646 dimerization interface [polypeptide binding]; other site 298386007647 Yip1 domain; Region: Yip1; cl12048 298386007648 amidophosphoribosyltransferase; Provisional; Region: PRK09246 298386007649 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 298386007650 active site 298386007651 tetramer interface [polypeptide binding]; other site 298386007652 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 298386007653 active site 298386007654 Colicin V production protein; Region: Colicin_V; cl00567 298386007655 cell division protein DedD; Provisional; Region: PRK11633 298386007656 Sporulation related domain; Region: SPOR; cl10051 298386007657 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 298386007658 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 298386007659 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 298386007660 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 298386007661 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 298386007662 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 298386007663 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 298386007664 dimerization interface 3.5A [polypeptide binding]; other site 298386007665 active site 298386007666 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 298386007667 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 298386007668 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 298386007669 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 298386007670 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 298386007671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386007672 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 298386007673 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 298386007674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386007675 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 298386007676 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 298386007677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386007678 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 298386007679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386007680 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 298386007681 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 298386007682 dimer interface [polypeptide binding]; other site 298386007683 active site 298386007684 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 298386007685 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 298386007686 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 298386007687 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 298386007688 Beta-Casp domain; Region: Beta-Casp; cl12567 298386007689 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 298386007690 Integrase core domain; Region: rve; cl01316 298386007691 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 298386007692 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 298386007693 Mg++ binding site [ion binding]; other site 298386007694 putative catalytic motif [active] 298386007695 substrate binding site [chemical binding]; other site 298386007696 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 298386007697 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 298386007698 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 298386007699 Mg++ binding site [ion binding]; other site 298386007700 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 298386007701 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 298386007702 ATP binding site [chemical binding]; other site 298386007703 putative Mg++ binding site [ion binding]; other site 298386007704 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 298386007705 nucleotide binding region [chemical binding]; other site 298386007706 ATP-binding site [chemical binding]; other site 298386007707 Uncharacterized conserved protein [Function unknown]; Region: COG4715 298386007708 exonuclease subunit SbcC; Provisional; Region: PRK10246 298386007709 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 298386007710 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 298386007711 PemK-like protein; Region: PemK; cl00995 298386007712 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 298386007713 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 298386007714 Mg++ binding site [ion binding]; other site 298386007715 putative catalytic motif [active] 298386007716 substrate binding site [chemical binding]; other site 298386007717 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 298386007718 active site 298386007719 tetramer interface; other site 298386007720 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 298386007721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386007722 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 298386007723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386007724 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 298386007725 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 298386007726 putative NAD(P) binding site [chemical binding]; other site 298386007727 active site 298386007728 putative substrate binding site [chemical binding]; other site 298386007729 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 298386007730 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 298386007731 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 298386007732 putative ADP-binding pocket [chemical binding]; other site 298386007733 O-Antigen ligase; Region: Wzy_C; cl04850 298386007734 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 298386007735 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 298386007736 putative ADP-binding pocket [chemical binding]; other site 298386007737 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 298386007738 active site 298386007739 catalytic site [active] 298386007740 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 298386007741 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 298386007742 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 298386007743 active site 298386007744 HIGH motif; other site 298386007745 nucleotide binding site [chemical binding]; other site 298386007746 tyrosine kinase; Provisional; Region: PRK11519 298386007747 Chain length determinant protein; Region: Wzz; cl15801 298386007748 Chain length determinant protein; Region: Wzz; cl15801 298386007749 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 298386007750 P loop; other site 298386007751 Nucleotide binding site [chemical binding]; other site 298386007752 DTAP/Switch II; other site 298386007753 Switch I; other site 298386007754 Low molecular weight phosphatase family; Region: LMWPc; cd00115 298386007755 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 298386007756 active site 298386007757 polysaccharide export protein Wza; Provisional; Region: PRK15078 298386007758 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 298386007759 SLBB domain; Region: SLBB; pfam10531 298386007760 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 298386007761 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 298386007762 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 298386007763 YfcL protein; Region: YfcL; pfam08891 298386007764 Protein of unknown function, DUF462; Region: DUF462; cl01190 298386007765 Protein of unknown function, DUF462; Region: DUF462; cl01190 298386007766 Bacterial sugar transferase; Region: Bac_transf; cl00939 298386007767 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 298386007768 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 298386007769 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 298386007770 NAD(P) binding site [chemical binding]; other site 298386007771 homodimer interface [polypeptide binding]; other site 298386007772 substrate binding site [chemical binding]; other site 298386007773 active site 298386007774 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 298386007775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386007776 NAD(P) binding site [chemical binding]; other site 298386007777 active site 298386007778 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 298386007779 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 298386007780 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 298386007781 active site 298386007782 HIGH motif; other site 298386007783 nucleotide binding site [chemical binding]; other site 298386007784 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386007785 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1...; Region: PB1; cl02720 298386007786 PB1 interaction surface [polypeptide binding]; other site 298386007787 PB1 interaction site [polypeptide binding]; other site 298386007788 PB1 interaction site [polypeptide binding]; other site 298386007789 PB1 interaction surface [polypeptide binding]; other site 298386007790 PB1 interaction surface [polypeptide binding]; other site 298386007791 pseudaminic acid synthase; Region: PseI; TIGR03586 298386007792 NeuB family; Region: NeuB; cl00496 298386007793 SAF domain; Region: SAF; cl00555 298386007794 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 298386007795 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 298386007796 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 298386007797 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 298386007798 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386007799 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 298386007800 ligand binding site; other site 298386007801 tetramer interface; other site 298386007802 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 298386007803 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 298386007804 inhibitor-cofactor binding pocket; inhibition site 298386007805 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386007806 catalytic residue [active] 298386007807 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 298386007808 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 298386007809 NAD(P) binding site [chemical binding]; other site 298386007810 homodimer interface [polypeptide binding]; other site 298386007811 substrate binding site [chemical binding]; other site 298386007812 active site 298386007813 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 298386007814 UPF0126 domain; Region: UPF0126; pfam03458 298386007815 UPF0126 domain; Region: UPF0126; pfam03458 298386007816 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 298386007817 Tetramer interface [polypeptide binding]; other site 298386007818 active site 298386007819 FMN-binding site [chemical binding]; other site 298386007820 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 298386007821 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 298386007822 active site 298386007823 phosphorylation site [posttranslational modification] 298386007824 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 298386007825 active site 298386007826 P-loop; other site 298386007827 phosphorylation site [posttranslational modification] 298386007828 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386007829 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 298386007830 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 298386007831 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 298386007832 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386007833 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 298386007834 dimerization domain swap beta strand [polypeptide binding]; other site 298386007835 regulatory protein interface [polypeptide binding]; other site 298386007836 active site 298386007837 regulatory phosphorylation site [posttranslational modification]; other site 298386007838 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 298386007839 active site 298386007840 phosphorylation site [posttranslational modification] 298386007841 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 298386007842 active site 298386007843 P-loop; other site 298386007844 phosphorylation site [posttranslational modification] 298386007845 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 298386007846 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 298386007847 RNA binding surface [nucleotide binding]; other site 298386007848 PseudoU_synth_RluF_like: Pseudouridine synthase, Escherichia coli RluF like. This group is comprised of bacterial proteins similar to Escherichia coli RluF. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluF; cd02554 298386007849 probable active site [active] 298386007850 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 298386007851 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 298386007852 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 298386007853 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 298386007854 Response regulator receiver domain; Region: Response_reg; pfam00072 298386007855 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 298386007856 active site 298386007857 phosphorylation site [posttranslational modification] 298386007858 intermolecular recognition site; other site 298386007859 dimerization interface [polypeptide binding]; other site 298386007860 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 298386007861 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 298386007862 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 298386007863 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 298386007864 putative dimer interface [polypeptide binding]; other site 298386007865 N-terminal domain interface [polypeptide binding]; other site 298386007866 putative substrate binding pocket (H-site) [chemical binding]; other site 298386007867 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 298386007868 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 298386007869 dimer interface [polypeptide binding]; other site 298386007870 active site 298386007871 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 298386007872 substrate binding site [chemical binding]; other site 298386007873 catalytic residue [active] 298386007874 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386007875 Helix-turn-helix domains; Region: HTH; cl00088 298386007876 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386007877 dimerization interface [polypeptide binding]; other site 298386007878 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 298386007879 putative catalytic site [active] 298386007880 putative metal binding site [ion binding]; other site 298386007881 putative phosphate binding site [ion binding]; other site 298386007882 BCCT family transporter; Region: BCCT; cl00569 298386007883 MAEBL; Provisional; Region: PTZ00121 298386007884 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 298386007885 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 298386007886 putative catalytic site [active] 298386007887 putative phosphate binding site [ion binding]; other site 298386007888 active site 298386007889 metal binding site A [ion binding]; metal-binding site 298386007890 DNA binding site [nucleotide binding] 298386007891 putative AP binding site [nucleotide binding]; other site 298386007892 putative metal binding site B [ion binding]; other site 298386007893 glutaredoxin 2; Provisional; Region: PRK10387 298386007894 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 298386007895 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 298386007896 N-terminal domain interface [polypeptide binding]; other site 298386007897 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 298386007898 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386007899 dimer interface [polypeptide binding]; other site 298386007900 conserved gate region; other site 298386007901 putative PBP binding loops; other site 298386007902 ABC-ATPase subunit interface; other site 298386007903 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 298386007904 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386007905 dimer interface [polypeptide binding]; other site 298386007906 conserved gate region; other site 298386007907 putative PBP binding loops; other site 298386007908 ABC-ATPase subunit interface; other site 298386007909 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 298386007910 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 298386007911 substrate binding pocket [chemical binding]; other site 298386007912 membrane-bound complex binding site; other site 298386007913 hinge residues; other site 298386007914 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 298386007915 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386007916 Walker A/P-loop; other site 298386007917 ATP binding site [chemical binding]; other site 298386007918 Q-loop/lid; other site 298386007919 ABC transporter signature motif; other site 298386007920 Walker B; other site 298386007921 D-loop; other site 298386007922 H-loop/switch region; other site 298386007923 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 298386007924 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 298386007925 substrate binding site [chemical binding]; other site 298386007926 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 298386007927 dimerization interface [polypeptide binding]; other site 298386007928 putative DNA binding site [nucleotide binding]; other site 298386007929 putative Zn2+ binding site [ion binding]; other site 298386007930 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386007931 hypothetical protein; Provisional; Region: PRK07205 298386007932 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 298386007933 active site 298386007934 metal binding site [ion binding]; metal-binding site 298386007935 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 298386007936 YcaO-like family; Region: YcaO; pfam02624 298386007937 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 298386007938 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 298386007939 Pyruvate formate lyase 1; Region: PFL1; cd01678 298386007940 coenzyme A binding site [chemical binding]; other site 298386007941 active site 298386007942 catalytic residues [active] 298386007943 glycine loop; other site 298386007944 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 298386007945 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 298386007946 FeS/SAM binding site; other site 298386007947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 298386007948 NMT1-like family; Region: NMT1_2; cl15260 298386007949 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 298386007950 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 298386007951 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386007952 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 298386007953 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 298386007954 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 298386007955 dimer interface [polypeptide binding]; other site 298386007956 active site 298386007957 metal binding site [ion binding]; metal-binding site 298386007958 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 298386007959 potential catalytic triad [active] 298386007960 conserved cys residue [active] 298386007961 transcriptional regulator; Provisional; Region: PRK10632 298386007962 Helix-turn-helix domains; Region: HTH; cl00088 298386007963 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386007964 putative effector binding pocket; other site 298386007965 dimerization interface [polypeptide binding]; other site 298386007966 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 298386007967 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 298386007968 active site 298386007969 phosphorylation site [posttranslational modification] 298386007970 intermolecular recognition site; other site 298386007971 dimerization interface [polypeptide binding]; other site 298386007972 Transcriptional regulator; Region: CitT; pfam12431 298386007973 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 298386007974 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 298386007975 ATP binding site [chemical binding]; other site 298386007976 Mg2+ binding site [ion binding]; other site 298386007977 G-X-G motif; other site 298386007978 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 298386007979 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 298386007980 Potassium binding sites [ion binding]; other site 298386007981 Cesium cation binding sites [ion binding]; other site 298386007982 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 298386007983 Helix-turn-helix domains; Region: HTH; cl00088 298386007984 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 298386007985 putative dimerization interface [polypeptide binding]; other site 298386007986 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 298386007987 FOG: CBS domain [General function prediction only]; Region: COG0517 298386007988 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 298386007989 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 298386007990 YfbU domain; Region: YfbU; cl01137 298386007991 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 298386007992 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 298386007993 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386007994 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 298386007995 dimer interface [polypeptide binding]; other site 298386007996 phosphorylation site [posttranslational modification] 298386007997 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 298386007998 ATP binding site [chemical binding]; other site 298386007999 Mg2+ binding site [ion binding]; other site 298386008000 G-X-G motif; other site 298386008001 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 298386008002 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 298386008003 active site 298386008004 phosphorylation site [posttranslational modification] 298386008005 intermolecular recognition site; other site 298386008006 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386008007 Helix-turn-helix domains; Region: HTH; cl00088 298386008008 Protein of unknown function; Region: YhfT; pfam10797 298386008009 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 298386008010 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 298386008011 active site 298386008012 substrate binding pocket [chemical binding]; other site 298386008013 homodimer interaction site [polypeptide binding]; other site 298386008014 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386008015 DNA-binding site [nucleotide binding]; DNA binding site 298386008016 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 298386008017 active site 298386008018 P-loop; other site 298386008019 phosphorylation site [posttranslational modification] 298386008020 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 298386008021 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386008022 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cl00166 298386008023 methionine cluster; other site 298386008024 active site 298386008025 phosphorylation site [posttranslational modification] 298386008026 metal binding site [ion binding]; metal-binding site 298386008027 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386008028 AAA domain; Region: AAA_18; pfam13238 298386008029 P-loop motif; other site 298386008030 ATP binding site [chemical binding]; other site 298386008031 Chloramphenicol (Cm) binding site [chemical binding]; other site 298386008032 catalytic residue [active] 298386008033 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 298386008034 chitin/cellulose binding site [chemical binding]; other site 298386008035 putative mutase; Provisional; Region: PRK12383 298386008036 Sulfatase; Region: Sulfatase; cl10460 298386008037 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 298386008038 dimer interface [polypeptide binding]; other site 298386008039 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 298386008040 active site 298386008041 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 298386008042 substrate binding site [chemical binding]; other site 298386008043 catalytic residue [active] 298386008044 Protein of unknown function; Region: YhfT; pfam10797 298386008045 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 298386008046 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 298386008047 active site 298386008048 substrate binding pocket [chemical binding]; other site 298386008049 homodimer interaction site [polypeptide binding]; other site 298386008050 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386008051 DNA-binding site [nucleotide binding]; DNA binding site 298386008052 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 298386008053 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 298386008054 trimer interface [polypeptide binding]; other site 298386008055 eyelet of channel; other site 298386008056 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 298386008057 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 298386008058 S-adenosylmethionine binding site [chemical binding]; other site 298386008059 Protein of unknown function, DUF399; Region: DUF399; cl01139 298386008060 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 298386008061 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 298386008062 zinc binding site [ion binding]; other site 298386008063 putative ligand binding site [chemical binding]; other site 298386008064 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 298386008065 TM-ABC transporter signature motif; other site 298386008066 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 298386008067 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386008068 Walker A/P-loop; other site 298386008069 ATP binding site [chemical binding]; other site 298386008070 Q-loop/lid; other site 298386008071 ABC transporter signature motif; other site 298386008072 Walker B; other site 298386008073 D-loop; other site 298386008074 H-loop/switch region; other site 298386008075 Protein of unknown function, DUF412; Region: DUF412; cl01183 298386008076 Acetokinase family; Region: Acetate_kinase; cl01029 298386008077 propionate/acetate kinase; Provisional; Region: PRK12379 298386008078 phosphate acetyltransferase; Reviewed; Region: PRK05632 298386008079 DRTGG domain; Region: DRTGG; cl12147 298386008080 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 298386008081 Integrase core domain; Region: rve; cl01316 298386008082 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 298386008083 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 298386008084 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 298386008085 active site 298386008086 metal binding site [ion binding]; metal-binding site 298386008087 homotetramer interface [polypeptide binding]; other site 298386008088 FOG: CBS domain [General function prediction only]; Region: COG0517 298386008089 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_17; cd04630 298386008090 Nitrogen regulatory protein P-II; Region: P-II; smart00938 298386008091 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 298386008092 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 298386008093 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 298386008094 TIGR01777 family protein; Region: yfcH 298386008095 putative NAD(P) binding site [chemical binding]; other site 298386008096 putative active site [active] 298386008097 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 298386008098 FtsX-like permease family; Region: FtsX; cl15850 298386008099 FtsX-like permease family; Region: FtsX; cl15850 298386008100 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 298386008101 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 298386008102 Walker A/P-loop; other site 298386008103 ATP binding site [chemical binding]; other site 298386008104 Q-loop/lid; other site 298386008105 ABC transporter signature motif; other site 298386008106 Walker B; other site 298386008107 D-loop; other site 298386008108 H-loop/switch region; other site 298386008109 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 298386008110 active site 298386008111 catalytic triad [active] 298386008112 oxyanion hole [active] 298386008113 switch loop; other site 298386008114 short chain dehydrogenase; Validated; Region: PRK06182 298386008115 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 298386008116 NADP binding site [chemical binding]; other site 298386008117 active site 298386008118 steroid binding site; other site 298386008119 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 298386008120 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 298386008121 META domain; Region: META; cl01245 298386008122 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386008123 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386008124 ligand binding site [chemical binding]; other site 298386008125 Helix-turn-helix domains; Region: HTH; cl00088 298386008126 DNA binding site [nucleotide binding] 298386008127 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 298386008128 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 298386008129 DNA binding residues [nucleotide binding] 298386008130 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 298386008131 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 298386008132 copper exporting ATPase; Provisional; Region: copA; PRK10671 298386008133 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 298386008134 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 298386008135 metal-binding site [ion binding] 298386008136 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 298386008137 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 298386008138 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 298386008139 TraB family; Region: TraB; cl12050 298386008140 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 298386008141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 298386008142 Smr domain; Region: Smr; cl02619 298386008143 LysE type translocator; Region: LysE; cl00565 298386008144 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386008145 Helix-turn-helix domains; Region: HTH; cl00088 298386008146 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 298386008147 substrate binding pocket [chemical binding]; other site 298386008148 dimerization interface [polypeptide binding]; other site 298386008149 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 298386008150 putative deacylase active site [active] 298386008151 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 298386008152 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 298386008153 active site 298386008154 metal binding site [ion binding]; metal-binding site 298386008155 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 298386008156 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 298386008157 Cache domain; Region: Cache_1; pfam02743 298386008158 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 298386008159 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386008160 dimerization interface [polypeptide binding]; other site 298386008161 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386008162 dimer interface [polypeptide binding]; other site 298386008163 putative CheW interface [polypeptide binding]; other site 298386008164 Cache domain; Region: Cache_1; pfam02743 298386008165 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386008166 dimerization interface [polypeptide binding]; other site 298386008167 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386008168 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386008169 dimer interface [polypeptide binding]; other site 298386008170 putative CheW interface [polypeptide binding]; other site 298386008171 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 298386008172 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 298386008173 NeuB family; Region: NeuB; cl00496 298386008174 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 298386008175 hypothetical protein; Provisional; Region: PRK10941 298386008176 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 298386008177 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 298386008178 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 298386008179 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 298386008180 peptide chain release factor 1; Validated; Region: prfA; PRK00591 298386008181 RF-1 domain; Region: RF-1; cl02875 298386008182 RF-1 domain; Region: RF-1; cl02875 298386008183 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 298386008184 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 298386008185 tRNA; other site 298386008186 putative tRNA binding site [nucleotide binding]; other site 298386008187 putative NADP binding site [chemical binding]; other site 298386008188 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 298386008189 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 298386008190 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 298386008191 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 298386008192 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 298386008193 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 298386008194 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 298386008195 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 298386008196 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 298386008197 active site 298386008198 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 298386008199 putative active site [active] 298386008200 catalytic residue [active] 298386008201 GTP-binding protein YchF; Reviewed; Region: PRK09601 298386008202 YchF GTPase; Region: YchF; cd01900 298386008203 G1 box; other site 298386008204 GTP/Mg2+ binding site [chemical binding]; other site 298386008205 Switch I region; other site 298386008206 G2 box; other site 298386008207 Switch II region; other site 298386008208 G3 box; other site 298386008209 G4 box; other site 298386008210 G5 box; other site 298386008211 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 298386008212 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 298386008213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386008214 Transglycosylase; Region: Transgly; cl07896 298386008215 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 298386008216 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 298386008217 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 298386008218 FeS/SAM binding site; other site 298386008219 TRAM domain; Region: TRAM; cl01282 298386008220 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 298386008221 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386008222 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 298386008223 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 298386008224 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 298386008225 Transporter associated domain; Region: CorC_HlyC; cl08393 298386008226 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 298386008227 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 298386008228 putative active site [active] 298386008229 catalytic triad [active] 298386008230 putative dimer interface [polypeptide binding]; other site 298386008231 Family of unknown function (DUF500); Region: DUF500; cl01109 298386008232 hypothetical protein; Provisional; Region: PRK11032 298386008233 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 298386008234 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 298386008235 HIGH motif; other site 298386008236 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 298386008237 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 298386008238 active site 298386008239 KMSKS motif; other site 298386008240 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 298386008241 tRNA binding surface [nucleotide binding]; other site 298386008242 Lipopolysaccharide-assembly; Region: LptE; cl01125 298386008243 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 298386008244 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 298386008245 Oligomerisation domain; Region: Oligomerisation; cl00519 298386008246 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 298386008247 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 298386008248 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 298386008249 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 298386008250 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 298386008251 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 298386008252 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 298386008253 Sporulation related domain; Region: SPOR; cl10051 298386008254 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 298386008255 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 298386008256 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 298386008257 Protein of unknown function (DUF493); Region: DUF493; cl01102 298386008258 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 298386008259 lipoyl synthase; Provisional; Region: PRK05481 298386008260 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 298386008261 FeS/SAM binding site; other site 298386008262 lipoprotein; Provisional; Region: PRK11679 298386008263 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 298386008264 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 298386008265 dihydrodipicolinate synthase; Region: dapA; TIGR00674 298386008266 dimer interface [polypeptide binding]; other site 298386008267 active site 298386008268 catalytic residue [active] 298386008269 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 298386008270 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 298386008271 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 298386008272 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 298386008273 catalytic triad [active] 298386008274 Domain of unknown function DUF20; Region: UPF0118; pfam01594 298386008275 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 298386008276 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 298386008277 Peptidase family M48; Region: Peptidase_M48; cl12018 298386008278 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 298386008279 TPR motif; other site 298386008280 binding surface 298386008281 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 298386008282 ArsC family; Region: ArsC; pfam03960 298386008283 catalytic residues [active] 298386008284 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386008285 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 298386008286 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 298386008287 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 298386008288 uracil transporter; Provisional; Region: PRK10720 298386008289 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386008290 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 298386008291 active site 298386008292 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 298386008293 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 298386008294 dimerization interface [polypeptide binding]; other site 298386008295 putative ATP binding site [chemical binding]; other site 298386008296 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 298386008297 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 298386008298 active site 298386008299 substrate binding site [chemical binding]; other site 298386008300 cosubstrate binding site; other site 298386008301 catalytic site [active] 298386008302 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 298386008303 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 298386008304 putative active site [active] 298386008305 putative dimer interface [polypeptide binding]; other site 298386008306 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 298386008307 dimer interface [polypeptide binding]; other site 298386008308 active site 298386008309 putative transporter; Provisional; Region: PRK11660 298386008310 Sulfate transporter family; Region: Sulfate_transp; cl15842 298386008311 Sulfate transporter family; Region: Sulfate_transp; cl15842 298386008312 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 298386008313 stage II sporulation protein E; Region: spore_II_E; TIGR02865 298386008314 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 298386008315 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 298386008316 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 298386008317 active site 298386008318 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 298386008319 TIGR03503 family protein; Region: TIGR03503 298386008320 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 298386008321 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 298386008322 active site 298386008323 catalytic site [active] 298386008324 substrate binding site [chemical binding]; other site 298386008325 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 298386008326 RNA/DNA hybrid binding site [nucleotide binding]; other site 298386008327 active site 298386008328 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386008329 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 298386008330 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 298386008331 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 298386008332 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 298386008333 N-acetyl-D-glucosamine binding site [chemical binding]; other site 298386008334 catalytic residue [active] 298386008335 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 298386008336 putative peptidoglycan binding site; other site 298386008337 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 298386008338 putative peptidoglycan binding site; other site 298386008339 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 298386008340 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 298386008341 putative peptidoglycan binding site; other site 298386008342 Yip1 domain; Region: Yip1; cl12048 298386008343 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 298386008344 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 298386008345 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 298386008346 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 298386008347 Walker A/P-loop; other site 298386008348 ATP binding site [chemical binding]; other site 298386008349 Q-loop/lid; other site 298386008350 ABC transporter signature motif; other site 298386008351 Walker B; other site 298386008352 D-loop; other site 298386008353 H-loop/switch region; other site 298386008354 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 298386008355 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 298386008356 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 298386008357 Walker A/P-loop; other site 298386008358 ATP binding site [chemical binding]; other site 298386008359 Q-loop/lid; other site 298386008360 ABC transporter signature motif; other site 298386008361 Walker B; other site 298386008362 D-loop; other site 298386008363 H-loop/switch region; other site 298386008364 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 298386008365 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 298386008366 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 298386008367 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 298386008368 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386008369 dimer interface [polypeptide binding]; other site 298386008370 conserved gate region; other site 298386008371 putative PBP binding loops; other site 298386008372 ABC-ATPase subunit interface; other site 298386008373 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 298386008374 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386008375 dimer interface [polypeptide binding]; other site 298386008376 conserved gate region; other site 298386008377 putative PBP binding loops; other site 298386008378 ABC-ATPase subunit interface; other site 298386008379 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 298386008380 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 298386008381 active site 298386008382 motif I; other site 298386008383 motif II; other site 298386008384 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 298386008385 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 298386008386 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 298386008387 Walker A/P-loop; other site 298386008388 ATP binding site [chemical binding]; other site 298386008389 Q-loop/lid; other site 298386008390 ABC transporter signature motif; other site 298386008391 Walker B; other site 298386008392 D-loop; other site 298386008393 H-loop/switch region; other site 298386008394 NIL domain; Region: NIL; cl09633 298386008395 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386008396 dimer interface [polypeptide binding]; other site 298386008397 conserved gate region; other site 298386008398 ABC-ATPase subunit interface; other site 298386008399 NMT1-like family; Region: NMT1_2; cl15260 298386008400 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 298386008401 homodimer interaction site [polypeptide binding]; other site 298386008402 cofactor binding site; other site 298386008403 prolyl-tRNA synthetase; Provisional; Region: PRK09194 298386008404 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 298386008405 dimer interface [polypeptide binding]; other site 298386008406 motif 1; other site 298386008407 active site 298386008408 motif 2; other site 298386008409 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 298386008410 putative deacylase active site [active] 298386008411 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 298386008412 active site 298386008413 motif 3; other site 298386008414 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 298386008415 anticodon binding site; other site 298386008416 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 298386008417 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 298386008418 active site 298386008419 nucleophile elbow; other site 298386008420 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386008421 metal binding site [ion binding]; metal-binding site 298386008422 active site 298386008423 I-site; other site 298386008424 Uncharacterized protein family (UPF0253); Region: UPF0253; cl11640 298386008425 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 298386008426 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 298386008427 Cytochrome c; Region: Cytochrom_C; cl11414 298386008428 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 298386008429 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 298386008430 Ligand Binding Site [chemical binding]; other site 298386008431 TilS substrate binding domain; Region: TilS; pfam09179 298386008432 B3/4 domain; Region: B3_4; cl11458 298386008433 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 298386008434 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 298386008435 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 298386008436 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 298386008437 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 298386008438 generic binding surface I; other site 298386008439 generic binding surface II; other site 298386008440 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 298386008441 RNA/DNA hybrid binding site [nucleotide binding]; other site 298386008442 active site 298386008443 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 298386008444 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 298386008445 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 298386008446 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 298386008447 active site 298386008448 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 298386008449 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 298386008450 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 298386008451 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 298386008452 trimer interface [polypeptide binding]; other site 298386008453 active site 298386008454 UDP-GlcNAc binding site [chemical binding]; other site 298386008455 lipid binding site [chemical binding]; lipid-binding site 298386008456 periplasmic chaperone; Provisional; Region: PRK10780 298386008457 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 298386008458 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 298386008459 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 298386008460 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 298386008461 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 298386008462 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 298386008463 Surface antigen; Region: Bac_surface_Ag; cl03097 298386008464 zinc metallopeptidase RseP; Provisional; Region: PRK10779 298386008465 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 298386008466 active site 298386008467 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 298386008468 protein binding site [polypeptide binding]; other site 298386008469 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 298386008470 protein binding site [polypeptide binding]; other site 298386008471 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 298386008472 putative substrate binding region [chemical binding]; other site 298386008473 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 298386008474 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 298386008475 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 298386008476 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 298386008477 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 298386008478 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 298386008479 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 298386008480 catalytic residue [active] 298386008481 putative FPP diphosphate binding site; other site 298386008482 putative FPP binding hydrophobic cleft; other site 298386008483 dimer interface [polypeptide binding]; other site 298386008484 putative IPP diphosphate binding site; other site 298386008485 ribosome recycling factor; Reviewed; Region: frr; PRK00083 298386008486 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 298386008487 hinge region; other site 298386008488 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 298386008489 putative nucleotide binding site [chemical binding]; other site 298386008490 uridine monophosphate binding site [chemical binding]; other site 298386008491 homohexameric interface [polypeptide binding]; other site 298386008492 elongation factor Ts; Provisional; Region: tsf; PRK09377 298386008493 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 298386008494 Elongation factor TS; Region: EF_TS; pfam00889 298386008495 Elongation factor TS; Region: EF_TS; pfam00889 298386008496 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 298386008497 rRNA interaction site [nucleotide binding]; other site 298386008498 S8 interaction site; other site 298386008499 putative laminin-1 binding site; other site 298386008500 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 298386008501 active site 298386008502 PII uridylyl-transferase; Provisional; Region: PRK05007 298386008503 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 298386008504 metal binding triad; other site 298386008505 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 298386008506 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 298386008507 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 298386008508 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 298386008509 Protein of unknown function (DUF3461); Region: DUF3461; cl10125 298386008510 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386008511 tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. TruC makes psi65 in tRNAs. This psi residue is not...; Region: PseudoU_synth_TruC; cd02563 298386008512 probable active site [active] 298386008513 tRNA pseudouridine synthase C; Region: DUF446; cl01187 298386008514 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 298386008515 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 298386008516 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 298386008517 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 298386008518 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 298386008519 Syd protein (SUKH-2); Region: Syd; cl06405 298386008520 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 298386008521 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 298386008522 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 298386008523 Tetratricopeptide repeat; Region: TPR_12; pfam13424 298386008524 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 298386008525 binding surface 298386008526 TPR motif; other site 298386008527 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 298386008528 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386008529 metal binding site [ion binding]; metal-binding site 298386008530 active site 298386008531 I-site; other site 298386008532 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 298386008533 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 298386008534 flap endonuclease-like protein; Provisional; Region: PRK09482 298386008535 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 298386008536 active site 298386008537 metal binding site 1 [ion binding]; metal-binding site 298386008538 putative 5' ssDNA interaction site; other site 298386008539 metal binding site 3; metal-binding site 298386008540 metal binding site 2 [ion binding]; metal-binding site 298386008541 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 298386008542 putative DNA binding site [nucleotide binding]; other site 298386008543 putative metal binding site [ion binding]; other site 298386008544 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 298386008545 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 298386008546 Protein of unknown function (DUF423); Region: DUF423; cl01008 298386008547 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 298386008548 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 298386008549 Helix-turn-helix domains; Region: HTH; cl00088 298386008550 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 298386008551 dimerization interface [polypeptide binding]; other site 298386008552 substrate binding pocket [chemical binding]; other site 298386008553 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 298386008554 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 298386008555 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386008556 catalytic residue [active] 298386008557 Fe-S metabolism associated domain; Region: SufE; cl00951 298386008558 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 298386008559 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 298386008560 putative ATP binding site [chemical binding]; other site 298386008561 putative substrate interface [chemical binding]; other site 298386008562 murein transglycosylase A; Provisional; Region: mltA; PRK11162 298386008563 MltA specific insert domain; Region: MltA; cl08398 298386008564 3D domain; Region: 3D; cl01439 298386008565 Protein of unknown function (DUF2850); Region: DUF2850; pfam11012 298386008566 N-acetylglutamate synthase; Validated; Region: PRK05279 298386008567 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 298386008568 putative feedback inhibition sensing region; other site 298386008569 putative nucleotide binding site [chemical binding]; other site 298386008570 putative substrate binding site [chemical binding]; other site 298386008571 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386008572 Coenzyme A binding pocket [chemical binding]; other site 298386008573 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 298386008574 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386008575 Family description; Region: UvrD_C_2; cl15862 298386008576 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 298386008577 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386008578 Family description; Region: UvrD_C_2; cl15862 298386008579 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 298386008580 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 298386008581 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 298386008582 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 298386008583 gating phenylalanine in ion channel; other site 298386008584 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 298386008585 Helix-turn-helix domains; Region: HTH; cl00088 298386008586 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 298386008587 putative dimerization interface [polypeptide binding]; other site 298386008588 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 298386008589 YebG protein; Region: YebG; cl01217 298386008590 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 298386008591 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 298386008592 putative trimer interface [polypeptide binding]; other site 298386008593 putative CoA binding site [chemical binding]; other site 298386008594 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 298386008595 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 298386008596 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 298386008597 putative substrate translocation pore; other site 298386008598 Helix-turn-helix domains; Region: HTH; cl00088 298386008599 Helix-turn-helix domains; Region: HTH; cl00088 298386008600 Helix-turn-helix domains; Region: HTH; cl00088 298386008601 Integrase core domain; Region: rve; cl01316 298386008602 Integrase core domain; Region: rve_3; cl15866 298386008603 Helix-turn-helix domains; Region: HTH; cl00088 298386008604 Winged helix-turn helix; Region: HTH_29; pfam13551 298386008605 Winged helix-turn helix; Region: HTH_33; pfam13592 298386008606 Integrase core domain; Region: rve; cl01316 298386008607 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 298386008608 Clp amino terminal domain; Region: Clp_N; pfam02861 298386008609 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 298386008610 Walker A motif; other site 298386008611 ATP binding site [chemical binding]; other site 298386008612 Walker B motif; other site 298386008613 arginine finger; other site 298386008614 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 298386008615 Walker A motif; other site 298386008616 ATP binding site [chemical binding]; other site 298386008617 Walker B motif; other site 298386008618 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 298386008619 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 298386008620 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 298386008621 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 298386008622 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 298386008623 RNA binding surface [nucleotide binding]; other site 298386008624 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 298386008625 active site 298386008626 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 298386008627 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 298386008628 30S subunit binding site; other site 298386008629 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 298386008630 Chorismate mutase type II; Region: CM_2; cl00693 298386008631 Prephenate dehydratase; Region: PDT; pfam00800 298386008632 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 298386008633 putative L-Phe binding site [chemical binding]; other site 298386008634 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 298386008635 Chorismate mutase type II; Region: CM_2; cl00693 298386008636 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386008637 NeuB family; Region: NeuB; cl00496 298386008638 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 298386008639 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 298386008640 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 298386008641 Histidine kinase; Region: His_kinase; pfam06580 298386008642 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 298386008643 ATP binding site [chemical binding]; other site 298386008644 Mg2+ binding site [ion binding]; other site 298386008645 G-X-G motif; other site 298386008646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 298386008647 YheO-like PAS domain; Region: PAS_6; pfam08348 298386008648 Helix-turn-helix domains; Region: HTH; cl00088 298386008649 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 298386008650 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 298386008651 homotrimer interaction site [polypeptide binding]; other site 298386008652 putative active site [active] 298386008653 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 298386008654 putative substrate translocation pore; other site 298386008655 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 298386008656 DDE domain; Region: DDE_Tnp_IS240; pfam13610 298386008657 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 298386008658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386008659 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 298386008660 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 298386008661 active site 298386008662 phosphorylation site [posttranslational modification] 298386008663 intermolecular recognition site; other site 298386008664 dimerization interface [polypeptide binding]; other site 298386008665 LytTr DNA-binding domain; Region: LytTR; cl04498 298386008666 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 298386008667 Carbon starvation protein CstA; Region: CstA; pfam02554 298386008668 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 298386008669 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 298386008670 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 298386008671 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 298386008672 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 298386008673 RimM N-terminal domain; Region: RimM; pfam01782 298386008674 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 298386008675 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 298386008676 signal recognition particle protein; Provisional; Region: PRK10867 298386008677 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 298386008678 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 298386008679 P loop; other site 298386008680 GTP binding site [chemical binding]; other site 298386008681 Signal peptide binding domain; Region: SRP_SPB; pfam02978 298386008682 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 298386008683 hypothetical protein; Provisional; Region: PRK11573 298386008684 Domain of unknown function DUF21; Region: DUF21; pfam01595 298386008685 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 298386008686 Transporter associated domain; Region: CorC_HlyC; cl08393 298386008687 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 298386008688 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 298386008689 N-acetyl-D-glucosamine binding site [chemical binding]; other site 298386008690 catalytic residue [active] 298386008691 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 298386008692 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 298386008693 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 298386008694 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 298386008695 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 298386008696 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 298386008697 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 298386008698 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 298386008699 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 298386008700 oxaloacetate decarboxylase; Provisional; Region: PRK14040 298386008701 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 298386008702 active site 298386008703 catalytic residues [active] 298386008704 metal binding site [ion binding]; metal-binding site 298386008705 homodimer binding site [polypeptide binding]; other site 298386008706 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 298386008707 carboxyltransferase (CT) interaction site; other site 298386008708 biotinylation site [posttranslational modification]; other site 298386008709 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 298386008710 Global regulator protein family; Region: CsrA; cl00670 298386008711 aspartate kinase; Validated; Region: PRK08841 298386008712 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 298386008713 putative nucleotide binding site [chemical binding]; other site 298386008714 putative catalytic residues [active] 298386008715 putative Mg ion binding site [ion binding]; other site 298386008716 putative aspartate binding site [chemical binding]; other site 298386008717 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 298386008718 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 298386008719 motif 1; other site 298386008720 active site 298386008721 motif 2; other site 298386008722 motif 3; other site 298386008723 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 298386008724 DHHA1 domain; Region: DHHA1; pfam02272 298386008725 recombinase A; Provisional; Region: recA; PRK09354 298386008726 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 298386008727 hexamer interface [polypeptide binding]; other site 298386008728 Walker A motif; other site 298386008729 ATP binding site [chemical binding]; other site 298386008730 Walker B motif; other site 298386008731 Competence-damaged protein; Region: CinA; cl00666 298386008732 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 298386008733 MutS domain I; Region: MutS_I; pfam01624 298386008734 MutS domain II; Region: MutS_II; pfam05188 298386008735 MutS family domain IV; Region: MutS_IV; pfam05190 298386008736 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 298386008737 Walker A/P-loop; other site 298386008738 ATP binding site [chemical binding]; other site 298386008739 Q-loop/lid; other site 298386008740 ABC transporter signature motif; other site 298386008741 Walker B; other site 298386008742 D-loop; other site 298386008743 H-loop/switch region; other site 298386008744 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 298386008745 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 298386008746 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 298386008747 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 298386008748 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 298386008749 DNA binding residues [nucleotide binding] 298386008750 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 298386008751 putative peptidoglycan binding site; other site 298386008752 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 298386008753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386008754 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 298386008755 Survival protein SurE; Region: SurE; cl00448 298386008756 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 298386008757 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 298386008758 Permutation of conserved domain; other site 298386008759 active site 298386008760 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 298386008761 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 298386008762 homotrimer interaction site [polypeptide binding]; other site 298386008763 zinc binding site [ion binding]; other site 298386008764 CDP-binding sites; other site 298386008765 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 298386008766 substrate binding site; other site 298386008767 dimer interface; other site 298386008768 Septum formation initiator; Region: DivIC; cl11433 298386008769 enolase; Provisional; Region: eno; PRK00077 298386008770 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 298386008771 dimer interface [polypeptide binding]; other site 298386008772 metal binding site [ion binding]; metal-binding site 298386008773 substrate binding pocket [chemical binding]; other site 298386008774 CTP synthetase; Validated; Region: pyrG; PRK05380 298386008775 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 298386008776 Catalytic site [active] 298386008777 active site 298386008778 UTP binding site [chemical binding]; other site 298386008779 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 298386008780 active site 298386008781 putative oxyanion hole; other site 298386008782 catalytic triad [active] 298386008783 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 298386008784 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 298386008785 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 298386008786 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 298386008787 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 298386008788 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 298386008789 synthetase active site [active] 298386008790 NTP binding site [chemical binding]; other site 298386008791 metal binding site [ion binding]; metal-binding site 298386008792 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 298386008793 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 298386008794 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 298386008795 TRAM domain; Region: TRAM; cl01282 298386008796 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 298386008797 S-adenosylmethionine binding site [chemical binding]; other site 298386008798 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 298386008799 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 298386008800 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386008801 dimerization interface [polypeptide binding]; other site 298386008802 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 298386008803 dimer interface [polypeptide binding]; other site 298386008804 phosphorylation site [posttranslational modification] 298386008805 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 298386008806 ATP binding site [chemical binding]; other site 298386008807 Mg2+ binding site [ion binding]; other site 298386008808 G-X-G motif; other site 298386008809 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 298386008810 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 298386008811 active site 298386008812 phosphorylation site [posttranslational modification] 298386008813 intermolecular recognition site; other site 298386008814 dimerization interface [polypeptide binding]; other site 298386008815 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 298386008816 putative binding surface; other site 298386008817 active site 298386008818 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 298386008819 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 298386008820 active site 298386008821 hydrophilic channel; other site 298386008822 dimerization interface [polypeptide binding]; other site 298386008823 catalytic residues [active] 298386008824 active site lid [active] 298386008825 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 298386008826 Recombination protein O N terminal; Region: RecO_N; cl15812 298386008827 Recombination protein O C terminal; Region: RecO_C; pfam02565 298386008828 GTPase Era; Reviewed; Region: era; PRK00089 298386008829 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 298386008830 G1 box; other site 298386008831 GTP/Mg2+ binding site [chemical binding]; other site 298386008832 Switch I region; other site 298386008833 G2 box; other site 298386008834 Switch II region; other site 298386008835 G3 box; other site 298386008836 G4 box; other site 298386008837 G5 box; other site 298386008838 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 298386008839 ribonuclease III; Reviewed; Region: rnc; PRK00102 298386008840 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 298386008841 dimerization interface [polypeptide binding]; other site 298386008842 active site 298386008843 metal binding site [ion binding]; metal-binding site 298386008844 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 298386008845 dsRNA binding site [nucleotide binding]; other site 298386008846 signal peptidase I; Provisional; Region: PRK10861 298386008847 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 298386008848 Catalytic site [active] 298386008849 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 298386008850 GTP-binding protein LepA; Provisional; Region: PRK05433 298386008851 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 298386008852 G1 box; other site 298386008853 putative GEF interaction site [polypeptide binding]; other site 298386008854 GTP/Mg2+ binding site [chemical binding]; other site 298386008855 Switch I region; other site 298386008856 G2 box; other site 298386008857 G3 box; other site 298386008858 Switch II region; other site 298386008859 G4 box; other site 298386008860 G5 box; other site 298386008861 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 298386008862 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 298386008863 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 298386008864 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 298386008865 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 298386008866 MucB/RseB family; Region: MucB_RseB; pfam03888 298386008867 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 298386008868 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 298386008869 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 298386008870 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 298386008871 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 298386008872 DNA binding residues [nucleotide binding] 298386008873 L-aspartate oxidase; Provisional; Region: PRK09077 298386008874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386008875 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 298386008876 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 298386008877 putative global regulator; Reviewed; Region: PRK09559 298386008878 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 298386008879 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 298386008880 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 298386008881 putative deacylase active site [active] 298386008882 PAAR motif; Region: PAAR_motif; cl15808 298386008883 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 298386008884 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 298386008885 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386008886 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386008887 Helix-turn-helix domains; Region: HTH; cl00088 298386008888 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 298386008889 putative substrate binding pocket [chemical binding]; other site 298386008890 putative dimerization interface [polypeptide binding]; other site 298386008891 Protein of unknown function (DUF539); Region: DUF539; cl01129 298386008892 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 298386008893 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 298386008894 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 298386008895 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 298386008896 lipoyl attachment site [posttranslational modification]; other site 298386008897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386008898 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 298386008899 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386008900 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK07364 298386008901 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 298386008902 Cell division protein ZapA; Region: ZapA; cl01146 298386008903 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 298386008904 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 298386008905 tetramer (dimer of dimers) interface [polypeptide binding]; other site 298386008906 active site 298386008907 dimer interface [polypeptide binding]; other site 298386008908 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 298386008909 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386008910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386008911 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 298386008912 L-serine binding site [chemical binding]; other site 298386008913 ACT domain interface; other site 298386008914 Protein of unknown function (DUF541); Region: SIMPL; cl01077 298386008915 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 298386008916 Helix-turn-helix domains; Region: HTH; cl00088 298386008917 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 298386008918 putative dimerization interface [polypeptide binding]; other site 298386008919 LysE type translocator; Region: LysE; cl00565 298386008920 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 298386008921 putative deacylase active site [active] 298386008922 mechanosensitive channel MscS; Provisional; Region: PRK10334 298386008923 Conserved TM helix; Region: TM_helix; pfam05552 298386008924 Mechanosensitive ion channel; Region: MS_channel; pfam00924 298386008925 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 298386008926 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 298386008927 active site 298386008928 intersubunit interface [polypeptide binding]; other site 298386008929 zinc binding site [ion binding]; other site 298386008930 Na+ binding site [ion binding]; other site 298386008931 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 298386008932 Phosphoglycerate kinase; Region: PGK; pfam00162 298386008933 substrate binding site [chemical binding]; other site 298386008934 hinge regions; other site 298386008935 ADP binding site [chemical binding]; other site 298386008936 catalytic site [active] 298386008937 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 298386008938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386008939 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 298386008940 transketolase; Reviewed; Region: PRK12753 298386008941 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 298386008942 TPP-binding site [chemical binding]; other site 298386008943 dimer interface [polypeptide binding]; other site 298386008944 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 298386008945 PYR/PP interface [polypeptide binding]; other site 298386008946 dimer interface [polypeptide binding]; other site 298386008947 TPP binding site [chemical binding]; other site 298386008948 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 298386008949 S-adenosylmethionine synthetase; Validated; Region: PRK05250 298386008950 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 298386008951 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 298386008952 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 298386008953 hypothetical protein; Provisional; Region: PRK04860 298386008954 SprT homologues; Region: SprT; cl01182 298386008955 Endonuclease I; Region: Endonuclease_1; cl01003 298386008956 RNA methyltransferase, RsmE family; Region: TIGR00046 298386008957 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 298386008958 glutathione synthetase; Provisional; Region: PRK05246 298386008959 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 298386008960 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386008961 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 298386008962 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 298386008963 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 298386008964 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 298386008965 Walker A motif; other site 298386008966 ATP binding site [chemical binding]; other site 298386008967 Walker B motif; other site 298386008968 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 298386008969 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 298386008970 Walker A motif; other site 298386008971 ATP binding site [chemical binding]; other site 298386008972 Walker B motif; other site 298386008973 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 298386008974 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 298386008975 catalytic residue [active] 298386008976 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 298386008977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386008978 YGGT family; Region: YGGT; cl00508 298386008979 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 298386008980 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 298386008981 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 298386008982 active site 298386008983 dimerization interface [polypeptide binding]; other site 298386008984 HemN family oxidoreductase; Provisional; Region: PRK05660 298386008985 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 298386008986 FeS/SAM binding site; other site 298386008987 HemN C-terminal domain; Region: HemN_C; pfam06969 298386008988 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 298386008989 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 298386008990 Glutaminase; Region: Glutaminase; cl00907 298386008991 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 298386008992 endonuclease III; Region: ENDO3c; smart00478 298386008993 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 298386008994 minor groove reading motif; other site 298386008995 helix-hairpin-helix signature motif; other site 298386008996 substrate binding pocket [chemical binding]; other site 298386008997 active site 298386008998 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 298386008999 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 298386009000 DNA binding and oxoG recognition site [nucleotide binding] 298386009001 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 298386009002 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 298386009003 murein transglycosylase C; Provisional; Region: mltC; PRK11671 298386009004 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 298386009005 N-acetyl-D-glucosamine binding site [chemical binding]; other site 298386009006 catalytic residue [active] 298386009007 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 298386009008 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 298386009009 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 298386009010 Zn2+ binding site [ion binding]; other site 298386009011 Mg2+ binding site [ion binding]; other site 298386009012 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 298386009013 Transglycosylase; Region: Transgly; cl07896 298386009014 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 298386009015 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 298386009016 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 298386009017 ATP binding site [chemical binding]; other site 298386009018 putative Mg++ binding site [ion binding]; other site 298386009019 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 298386009020 nucleotide binding region [chemical binding]; other site 298386009021 ATP-binding site [chemical binding]; other site 298386009022 Helicase associated domain (HA2); Region: HA2; cl04503 298386009023 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 298386009024 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 298386009025 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 298386009026 Sugar fermentation stimulation protein; Region: SfsA; cl00647 298386009027 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 298386009028 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 298386009029 active site 298386009030 HIGH motif; other site 298386009031 nucleotide binding site [chemical binding]; other site 298386009032 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 298386009033 active site 298386009034 KMSKS motif; other site 298386009035 poly(A) polymerase; Region: pcnB; TIGR01942 298386009036 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 298386009037 active site 298386009038 NTP binding site [chemical binding]; other site 298386009039 metal binding triad [ion binding]; metal-binding site 298386009040 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 298386009041 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 298386009042 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 298386009043 catalytic center binding site [active] 298386009044 ATP binding site [chemical binding]; other site 298386009045 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 298386009046 oligomerization interface [polypeptide binding]; other site 298386009047 active site 298386009048 metal binding site [ion binding]; metal-binding site 298386009049 pantoate--beta-alanine ligase; Region: panC; TIGR00018 298386009050 Pantoate-beta-alanine ligase; Region: PanC; cd00560 298386009051 active site 298386009052 ATP-binding site [chemical binding]; other site 298386009053 pantoate-binding site; other site 298386009054 HXXH motif; other site 298386009055 ABC-2 type transporter; Region: ABC2_membrane; cl11417 298386009056 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 298386009057 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 298386009058 Walker A/P-loop; other site 298386009059 ATP binding site [chemical binding]; other site 298386009060 Q-loop/lid; other site 298386009061 ABC transporter signature motif; other site 298386009062 Walker B; other site 298386009063 D-loop; other site 298386009064 H-loop/switch region; other site 298386009065 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 298386009066 active site clefts [active] 298386009067 zinc binding site [ion binding]; other site 298386009068 dimer interface [polypeptide binding]; other site 298386009069 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 298386009070 active site 298386009071 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386009072 Helix-turn-helix domains; Region: HTH; cl00088 298386009073 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 298386009074 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 298386009075 Walker A/P-loop; other site 298386009076 ATP binding site [chemical binding]; other site 298386009077 Q-loop/lid; other site 298386009078 ABC transporter signature motif; other site 298386009079 Walker B; other site 298386009080 D-loop; other site 298386009081 H-loop/switch region; other site 298386009082 TOBE domain; Region: TOBE_2; cl01440 298386009083 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386009084 dimer interface [polypeptide binding]; other site 298386009085 conserved gate region; other site 298386009086 putative PBP binding loops; other site 298386009087 ABC-ATPase subunit interface; other site 298386009088 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 298386009089 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 298386009090 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 298386009091 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 298386009092 Nitrogen regulatory protein P-II; Region: P-II; cl00412 298386009093 Nitrogen regulatory protein P-II; Region: P-II; smart00938 298386009094 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 298386009095 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 298386009096 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 298386009097 Helix-turn-helix domains; Region: HTH; cl00088 298386009098 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 298386009099 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 298386009100 Glycerate kinase family; Region: Gly_kinase; cl00841 298386009101 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 298386009102 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 298386009103 substrate binding site [chemical binding]; other site 298386009104 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 298386009105 substrate binding site [chemical binding]; other site 298386009106 ligand binding site [chemical binding]; other site 298386009107 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 298386009108 nucleophile elbow; other site 298386009109 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 298386009110 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 298386009111 Cache domain; Region: Cache_1; pfam02743 298386009112 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386009113 dimerization interface [polypeptide binding]; other site 298386009114 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386009115 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386009116 dimer interface [polypeptide binding]; other site 298386009117 putative CheW interface [polypeptide binding]; other site 298386009118 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 298386009119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386009120 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386009121 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 298386009122 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 298386009123 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 298386009124 E3 interaction surface; other site 298386009125 lipoyl attachment site [posttranslational modification]; other site 298386009126 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 298386009127 E3 interaction surface; other site 298386009128 lipoyl attachment site [posttranslational modification]; other site 298386009129 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 298386009130 E3 interaction surface; other site 298386009131 lipoyl attachment site [posttranslational modification]; other site 298386009132 e3 binding domain; Region: E3_binding; pfam02817 298386009133 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 298386009134 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 298386009135 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 298386009136 dimer interface [polypeptide binding]; other site 298386009137 TPP-binding site [chemical binding]; other site 298386009138 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 298386009139 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 298386009140 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386009141 DNA-binding site [nucleotide binding]; DNA binding site 298386009142 FCD domain; Region: FCD; cl11656 298386009143 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 298386009144 amidase catalytic site [active] 298386009145 substrate binding site [chemical binding]; other site 298386009146 Zn binding residues [ion binding]; other site 298386009147 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 298386009148 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 298386009149 dimerization interface [polypeptide binding]; other site 298386009150 active site 298386009151 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 298386009152 Pilin (bacterial filament); Region: Pilin; pfam00114 298386009153 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 298386009154 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 298386009155 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 298386009156 Walker A motif; other site 298386009157 ATP binding site [chemical binding]; other site 298386009158 Walker B motif; other site 298386009159 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 298386009160 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 298386009161 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 298386009162 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 298386009163 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 298386009164 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 298386009165 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 298386009166 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 298386009167 CoA-binding site [chemical binding]; other site 298386009168 ATP-binding [chemical binding]; other site 298386009169 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 298386009170 Domain of unknown function (DUF329); Region: DUF329; cl01144 298386009171 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 298386009172 active site 298386009173 8-oxo-dGMP binding site [chemical binding]; other site 298386009174 nudix motif; other site 298386009175 metal binding site [ion binding]; metal-binding site 298386009176 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 298386009177 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386009178 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 298386009179 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 298386009180 nucleotide binding region [chemical binding]; other site 298386009181 hypothetical protein; Provisional; Region: PRK10396 298386009182 SEC-C motif; Region: SEC-C; pfam02810 298386009183 Protein of unknown function (DUF721); Region: DUF721; cl02324 298386009184 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 298386009185 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 298386009186 cell division protein FtsZ; Validated; Region: PRK09330 298386009187 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 298386009188 nucleotide binding site [chemical binding]; other site 298386009189 SulA interaction site; other site 298386009190 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 298386009191 Cell division protein FtsA; Region: FtsA; cl11496 298386009192 Cell division protein FtsA; Region: FtsA; cl11496 298386009193 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 298386009194 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 298386009195 Cell division protein FtsQ; Region: FtsQ; pfam03799 298386009196 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 298386009197 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 298386009198 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 298386009199 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 298386009200 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 298386009201 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 298386009202 active site 298386009203 homodimer interface [polypeptide binding]; other site 298386009204 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 298386009205 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04663 298386009206 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 298386009207 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 298386009208 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 298386009209 Mg++ binding site [ion binding]; other site 298386009210 putative catalytic motif [active] 298386009211 putative substrate binding site [chemical binding]; other site 298386009212 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 298386009213 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 298386009214 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 298386009215 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 298386009216 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 298386009217 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 298386009218 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 298386009219 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 298386009220 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 298386009221 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 298386009222 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 298386009223 Septum formation initiator; Region: DivIC; cl11433 298386009224 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 298386009225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386009226 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 298386009227 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 298386009228 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 298386009229 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 298386009230 putative ligand binding site [chemical binding]; other site 298386009231 Restriction endonuclease; Region: Mrr_cat; cl00516 298386009232 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 298386009233 dimer interface [polypeptide binding]; other site 298386009234 active site 298386009235 BON domain; Region: BON; cl02771 298386009236 BON domain; Region: BON; cl02771 298386009237 Stringent starvation protein B; Region: SspB; cl01120 298386009238 stringent starvation protein A; Provisional; Region: sspA; PRK09481 298386009239 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 298386009240 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 298386009241 dimer interface [polypeptide binding]; other site 298386009242 N-terminal domain interface [polypeptide binding]; other site 298386009243 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 298386009244 cytochrome b; Provisional; Region: CYTB; MTH00145 298386009245 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 298386009246 Qi binding site; other site 298386009247 intrachain domain interface; other site 298386009248 interchain domain interface [polypeptide binding]; other site 298386009249 heme bH binding site [chemical binding]; other site 298386009250 heme bL binding site [chemical binding]; other site 298386009251 Qo binding site; other site 298386009252 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 298386009253 interchain domain interface [polypeptide binding]; other site 298386009254 intrachain domain interface; other site 298386009255 Qi binding site; other site 298386009256 Qo binding site; other site 298386009257 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 298386009258 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 298386009259 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 298386009260 [2Fe-2S] cluster binding site [ion binding]; other site 298386009261 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 298386009262 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 298386009263 23S rRNA interface [nucleotide binding]; other site 298386009264 L3 interface [polypeptide binding]; other site 298386009265 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 298386009266 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 298386009267 serine endoprotease; Provisional; Region: PRK10942 298386009268 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 298386009269 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 298386009270 protein binding site [polypeptide binding]; other site 298386009271 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 298386009272 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 298386009273 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 298386009274 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 298386009275 protein binding site [polypeptide binding]; other site 298386009276 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 298386009277 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 298386009278 hinge; other site 298386009279 active site 298386009280 BolA-like protein; Region: BolA; cl00386 298386009281 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 298386009282 anti sigma factor interaction site; other site 298386009283 regulatory phosphorylation site [posttranslational modification]; other site 298386009284 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 298386009285 mce related protein; Region: MCE; pfam02470 298386009286 Permease; Region: Permease; cl00510 298386009287 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 298386009288 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 298386009289 Walker A/P-loop; other site 298386009290 ATP binding site [chemical binding]; other site 298386009291 Q-loop/lid; other site 298386009292 ABC transporter signature motif; other site 298386009293 Walker B; other site 298386009294 D-loop; other site 298386009295 H-loop/switch region; other site 298386009296 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 298386009297 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 298386009298 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 298386009299 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 298386009300 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 298386009301 putative active site [active] 298386009302 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 298386009303 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 298386009304 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 298386009305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 298386009306 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 298386009307 OstA-like protein; Region: OstA; cl00844 298386009308 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 298386009309 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 298386009310 Walker A/P-loop; other site 298386009311 ATP binding site [chemical binding]; other site 298386009312 Q-loop/lid; other site 298386009313 ABC transporter signature motif; other site 298386009314 Walker B; other site 298386009315 D-loop; other site 298386009316 H-loop/switch region; other site 298386009317 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 298386009318 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 298386009319 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 298386009320 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 298386009321 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 298386009322 30S subunit binding site; other site 298386009323 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 298386009324 active site 298386009325 phosphorylation site [posttranslational modification] 298386009326 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 298386009327 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 298386009328 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 298386009329 dimerization domain swap beta strand [polypeptide binding]; other site 298386009330 regulatory protein interface [polypeptide binding]; other site 298386009331 active site 298386009332 regulatory phosphorylation site [posttranslational modification]; other site 298386009333 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 298386009334 MgtE intracellular N domain; Region: MgtE_N; cl15244 298386009335 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 298386009336 Divalent cation transporter; Region: MgtE; cl00786 298386009337 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 298386009338 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 298386009339 Protein of unknown function (DUF615); Region: DUF615; cl01147 298386009340 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 298386009341 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 298386009342 Predicted amidohydrolase [General function prediction only]; Region: COG0388 298386009343 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 298386009344 putative active site [active] 298386009345 catalytic triad [active] 298386009346 dimer interface [polypeptide binding]; other site 298386009347 TIGR02099 family protein; Region: TIGR02099 298386009348 AsmA-like C-terminal region; Region: AsmA_2; cl15864 298386009349 ribonuclease G; Provisional; Region: PRK11712 298386009350 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 298386009351 homodimer interface [polypeptide binding]; other site 298386009352 oligonucleotide binding site [chemical binding]; other site 298386009353 Maf-like protein; Region: Maf; pfam02545 298386009354 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 298386009355 active site 298386009356 dimer interface [polypeptide binding]; other site 298386009357 rod shape-determining protein MreD; Region: MreD; cl01087 298386009358 rod shape-determining protein MreC; Region: MreC; pfam04085 298386009359 rod shape-determining protein MreB; Provisional; Region: PRK13927 298386009360 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 298386009361 ATP binding site [chemical binding]; other site 298386009362 profilin binding site; other site 298386009363 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 298386009364 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 298386009365 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 298386009366 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 298386009367 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 298386009368 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 298386009369 Walker A motif; other site 298386009370 ATP binding site [chemical binding]; other site 298386009371 Walker B motif; other site 298386009372 TPR repeat; Region: TPR_11; pfam13414 298386009373 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 298386009374 binding surface 298386009375 TPR motif; other site 298386009376 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 298386009377 TPR motif; other site 298386009378 binding surface 298386009379 TPR repeat; Region: TPR_11; pfam13414 298386009380 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 298386009381 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 298386009382 Walker A motif; other site 298386009383 ATP binding site [chemical binding]; other site 298386009384 Walker B motif; other site 298386009385 arginine finger; other site 298386009386 Secretin and TonB N terminus short domain; Region: STN; cl06624 298386009387 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 298386009388 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 298386009389 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 298386009390 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 298386009391 regulatory protein CsrD; Provisional; Region: PRK11059 298386009392 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386009393 metal binding site [ion binding]; metal-binding site 298386009394 active site 298386009395 I-site; other site 298386009396 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 298386009397 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 298386009398 dimer interface [polypeptide binding]; other site 298386009399 ssDNA binding site [nucleotide binding]; other site 298386009400 tetramer (dimer of dimers) interface [polypeptide binding]; other site 298386009401 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 298386009402 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 298386009403 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 298386009404 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 298386009405 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 298386009406 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 298386009407 O-Antigen ligase; Region: Wzy_C; cl04850 298386009408 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 298386009409 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 298386009410 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 298386009411 homodimer interface [polypeptide binding]; other site 298386009412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386009413 catalytic residue [active] 298386009414 aspartate kinase III; Validated; Region: PRK09084 298386009415 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 298386009416 nucleotide binding site [chemical binding]; other site 298386009417 substrate binding site [chemical binding]; other site 298386009418 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 298386009419 dimer interface [polypeptide binding]; other site 298386009420 allosteric regulatory binding pocket; other site 298386009421 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 298386009422 dimer interface [polypeptide binding]; other site 298386009423 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 298386009424 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 298386009425 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 298386009426 substrate binding pocket [chemical binding]; other site 298386009427 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 298386009428 B12 binding site [chemical binding]; other site 298386009429 cobalt ligand [ion binding]; other site 298386009430 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 298386009431 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 298386009432 Winged helix-turn helix; Region: HTH_33; pfam13592 298386009433 Integrase core domain; Region: rve; cl01316 298386009434 Helix-turn-helix domains; Region: HTH; cl00088 298386009435 Winged helix-turn helix; Region: HTH_29; pfam13551 298386009436 Winged helix-turn helix; Region: HTH_33; pfam13592 298386009437 Integrase core domain; Region: rve; cl01316 298386009438 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 298386009439 active site 298386009440 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 298386009441 AAA domain; Region: AAA_18; pfam13238 298386009442 ligand-binding site [chemical binding]; other site 298386009443 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 298386009444 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 298386009445 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 298386009446 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 298386009447 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 298386009448 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 298386009449 CysD dimerization site [polypeptide binding]; other site 298386009450 G1 box; other site 298386009451 putative GEF interaction site [polypeptide binding]; other site 298386009452 GTP/Mg2+ binding site [chemical binding]; other site 298386009453 Switch I region; other site 298386009454 G2 box; other site 298386009455 G3 box; other site 298386009456 Switch II region; other site 298386009457 G4 box; other site 298386009458 G5 box; other site 298386009459 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 298386009460 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 298386009461 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 298386009462 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 298386009463 Active Sites [active] 298386009464 siroheme synthase; Provisional; Region: cysG; PRK10637 298386009465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386009466 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 298386009467 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 298386009468 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 298386009469 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 298386009470 active site 298386009471 metal binding site [ion binding]; metal-binding site 298386009472 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 298386009473 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 298386009474 ligand binding site [chemical binding]; other site 298386009475 flexible hinge region; other site 298386009476 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386009477 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 298386009478 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 298386009479 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 298386009480 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 298386009481 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 298386009482 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 298386009483 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 298386009484 Active Sites [active] 298386009485 sulfite reductase subunit beta; Provisional; Region: PRK13504 298386009486 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 298386009487 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 298386009488 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 298386009489 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386009490 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 298386009491 FAD binding pocket [chemical binding]; other site 298386009492 FAD binding motif [chemical binding]; other site 298386009493 catalytic residues [active] 298386009494 NAD binding pocket [chemical binding]; other site 298386009495 phosphate binding motif [ion binding]; other site 298386009496 beta-alpha-beta structure motif; other site 298386009497 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 298386009498 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 298386009499 FMN binding site [chemical binding]; other site 298386009500 active site 298386009501 catalytic residues [active] 298386009502 substrate binding site [chemical binding]; other site 298386009503 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 298386009504 metal binding site 2 [ion binding]; metal-binding site 298386009505 putative DNA binding helix; other site 298386009506 metal binding site 1 [ion binding]; metal-binding site 298386009507 dimer interface [polypeptide binding]; other site 298386009508 structural Zn2+ binding site [ion binding]; other site 298386009509 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 298386009510 Chemotaxis phosphatase CheX; Region: CheX; cl15816 298386009511 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 298386009512 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 298386009513 active site 298386009514 dimer interface [polypeptide binding]; other site 298386009515 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 298386009516 dimer interface [polypeptide binding]; other site 298386009517 active site 298386009518 Surface antigen; Region: Bac_surface_Ag; cl03097 298386009519 alanine racemase; Reviewed; Region: alr; PRK00053 298386009520 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 298386009521 active site 298386009522 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 298386009523 substrate binding site [chemical binding]; other site 298386009524 catalytic residues [active] 298386009525 dimer interface [polypeptide binding]; other site 298386009526 replicative DNA helicase; Provisional; Region: PRK08840 298386009527 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 298386009528 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 298386009529 Walker A motif; other site 298386009530 ATP binding site [chemical binding]; other site 298386009531 Walker B motif; other site 298386009532 DNA binding loops [nucleotide binding] 298386009533 Protein of unknown function, DUF481; Region: DUF481; cl01213 298386009534 Transposase; Region: DDE_Tnp_ISL3; pfam01610 298386009535 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 298386009536 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 298386009537 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 298386009538 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 298386009539 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 298386009540 dimer interface [polypeptide binding]; other site 298386009541 ssDNA binding site [nucleotide binding]; other site 298386009542 tetramer (dimer of dimers) interface [polypeptide binding]; other site 298386009543 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 298386009544 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 298386009545 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 298386009546 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 298386009547 exoribonuclease R; Provisional; Region: PRK11642 298386009548 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 298386009549 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 298386009550 RNB domain; Region: RNB; pfam00773 298386009551 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 298386009552 RNA binding site [nucleotide binding]; other site 298386009553 Helix-turn-helix domains; Region: HTH; cl00088 298386009554 Rrf2 family protein; Region: rrf2_super; TIGR00738 298386009555 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 298386009556 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 298386009557 heme-binding site [chemical binding]; other site 298386009558 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 298386009559 FAD binding pocket [chemical binding]; other site 298386009560 FAD binding motif [chemical binding]; other site 298386009561 phosphate binding motif [ion binding]; other site 298386009562 beta-alpha-beta structure motif; other site 298386009563 NAD binding pocket [chemical binding]; other site 298386009564 Heme binding pocket [chemical binding]; other site 298386009565 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 298386009566 Sel1 repeat; Region: Sel1; cl02723 298386009567 Sel1 repeat; Region: Sel1; cl02723 298386009568 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 298386009569 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 298386009570 GDP-binding site [chemical binding]; other site 298386009571 ACT binding site; other site 298386009572 IMP binding site; other site 298386009573 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 298386009574 FtsH protease regulator HflC; Provisional; Region: PRK11029 298386009575 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 298386009576 FtsH protease regulator HflK; Provisional; Region: PRK10930 298386009577 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 298386009578 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 298386009579 GTPase HflX; Provisional; Region: PRK11058 298386009580 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 298386009581 HflX GTPase family; Region: HflX; cd01878 298386009582 G1 box; other site 298386009583 GTP/Mg2+ binding site [chemical binding]; other site 298386009584 Switch I region; other site 298386009585 G2 box; other site 298386009586 G3 box; other site 298386009587 Switch II region; other site 298386009588 G4 box; other site 298386009589 G5 box; other site 298386009590 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 298386009591 Sm1 motif; other site 298386009592 intra - hexamer interaction site; other site 298386009593 inter - hexamer interaction site [polypeptide binding]; other site 298386009594 nucleotide binding pocket [chemical binding]; other site 298386009595 Sm2 motif; other site 298386009596 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386009597 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 298386009598 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 298386009599 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 298386009600 ATP binding site [chemical binding]; other site 298386009601 Mg2+ binding site [ion binding]; other site 298386009602 G-X-G motif; other site 298386009603 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 298386009604 ATP binding site [chemical binding]; other site 298386009605 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 298386009606 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 298386009607 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 298386009608 AMIN domain; Region: AMIN; pfam11741 298386009609 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 298386009610 active site 298386009611 metal binding site [ion binding]; metal-binding site 298386009612 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 298386009613 putative peptidoglycan binding site; other site 298386009614 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 298386009615 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 298386009616 putative peptidoglycan binding site; other site 298386009617 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 298386009618 putative peptidoglycan binding site; other site 298386009619 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 298386009620 putative carbohydrate kinase; Provisional; Region: PRK10565 298386009621 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 298386009622 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 298386009623 putative substrate binding site [chemical binding]; other site 298386009624 putative ATP binding site [chemical binding]; other site 298386009625 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 298386009626 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 298386009627 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 298386009628 catalytic site [active] 298386009629 putative active site [active] 298386009630 putative substrate binding site [chemical binding]; other site 298386009631 dimer interface [polypeptide binding]; other site 298386009632 GTPase RsgA; Reviewed; Region: PRK12288 298386009633 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 298386009634 RNA binding site [nucleotide binding]; other site 298386009635 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 298386009636 GTPase/Zn-binding domain interface [polypeptide binding]; other site 298386009637 GTP/Mg2+ binding site [chemical binding]; other site 298386009638 G4 box; other site 298386009639 G5 box; other site 298386009640 G1 box; other site 298386009641 Switch I region; other site 298386009642 G2 box; other site 298386009643 G3 box; other site 298386009644 Switch II region; other site 298386009645 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 298386009646 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 298386009647 transmembrane helices; other site 298386009648 Cache domain; Region: Cache_1; pfam02743 298386009649 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386009650 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386009651 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386009652 dimer interface [polypeptide binding]; other site 298386009653 putative CheW interface [polypeptide binding]; other site 298386009654 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 298386009655 active site 298386009656 zinc binding site [ion binding]; other site 298386009657 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 298386009658 poxB regulator PoxA; Provisional; Region: PRK09350 298386009659 motif 1; other site 298386009660 dimer interface [polypeptide binding]; other site 298386009661 active site 298386009662 motif 2; other site 298386009663 motif 3; other site 298386009664 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 298386009665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386009666 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 298386009667 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 298386009668 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 298386009669 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 298386009670 D-subunit interface [polypeptide binding]; other site 298386009671 Iron-sulfur protein interface; other site 298386009672 proximal quinone binding site [chemical binding]; other site 298386009673 distal quinone binding site [chemical binding]; other site 298386009674 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 298386009675 Iron-sulfur protein interface; other site 298386009676 proximal quinone binding site [chemical binding]; other site 298386009677 C-subunit interface; other site 298386009678 distal quinone binding site; other site 298386009679 elongation factor P; Validated; Region: PRK00529 298386009680 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 298386009681 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 298386009682 RNA binding site [nucleotide binding]; other site 298386009683 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 298386009684 RNA binding site [nucleotide binding]; other site 298386009685 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 298386009686 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 298386009687 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386009688 dimerization interface [polypeptide binding]; other site 298386009689 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386009690 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386009691 dimer interface [polypeptide binding]; other site 298386009692 putative CheW interface [polypeptide binding]; other site 298386009693 alanine racemase; Reviewed; Region: PRK13340 298386009694 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 298386009695 active site 298386009696 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 298386009697 dimer interface [polypeptide binding]; other site 298386009698 substrate binding site [chemical binding]; other site 298386009699 catalytic residues [active] 298386009700 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 298386009701 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386009702 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 298386009703 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 298386009704 ring oligomerisation interface [polypeptide binding]; other site 298386009705 ATP/Mg binding site [chemical binding]; other site 298386009706 stacking interactions; other site 298386009707 hinge regions; other site 298386009708 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 298386009709 oligomerisation interface [polypeptide binding]; other site 298386009710 mobile loop; other site 298386009711 roof hairpin; other site 298386009712 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 298386009713 MatE; Region: MatE; cl10513 298386009714 MatE; Region: MatE; cl10513 298386009715 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 298386009716 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 298386009717 Aspartase; Region: Aspartase; cd01357 298386009718 active sites [active] 298386009719 tetramer interface [polypeptide binding]; other site 298386009720 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 298386009721 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386009722 Helix-turn-helix domains; Region: HTH; cl00088 298386009723 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386009724 putative effector binding pocket; other site 298386009725 dimerization interface [polypeptide binding]; other site 298386009726 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 298386009727 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 298386009728 active site 298386009729 phosphorylation site [posttranslational modification] 298386009730 intermolecular recognition site; other site 298386009731 dimerization interface [polypeptide binding]; other site 298386009732 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 298386009733 DNA binding residues [nucleotide binding] 298386009734 dimerization interface [polypeptide binding]; other site 298386009735 MarC family integral membrane protein; Region: MarC; cl00919 298386009736 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 298386009737 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 298386009738 Sodium:solute symporter family; Region: SSF; cl00456 298386009739 Sodium:solute symporter family; Region: SSF; cl00456 298386009740 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 298386009741 PAS fold; Region: PAS_7; pfam12860 298386009742 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 298386009743 dimer interface [polypeptide binding]; other site 298386009744 phosphorylation site [posttranslational modification] 298386009745 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 298386009746 ATP binding site [chemical binding]; other site 298386009747 Mg2+ binding site [ion binding]; other site 298386009748 G-X-G motif; other site 298386009749 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 298386009750 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 298386009751 active site 298386009752 phosphorylation site [posttranslational modification] 298386009753 intermolecular recognition site; other site 298386009754 dimerization interface [polypeptide binding]; other site 298386009755 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 298386009756 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 298386009757 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 298386009758 ligand binding site [chemical binding]; other site 298386009759 flexible hinge region; other site 298386009760 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP...; Region: CBS_pair_CAP-ED_DUF294_assoc_bac; cd04589 298386009761 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 298386009762 metal binding triad; other site 298386009763 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 298386009764 active site 298386009765 catalytic site [active] 298386009766 substrate binding site [chemical binding]; other site 298386009767 acetyl-CoA synthetase; Provisional; Region: PRK00174 298386009768 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 298386009769 AMP-binding enzyme; Region: AMP-binding; cl15778 298386009770 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 298386009771 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 298386009772 active site 298386009773 trimer interface [polypeptide binding]; other site 298386009774 dimer interface [polypeptide binding]; other site 298386009775 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 298386009776 carboxyltransferase (CT) interaction site; other site 298386009777 biotinylation site [posttranslational modification]; other site 298386009778 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 298386009779 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 298386009780 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386009781 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 298386009782 Protein of unknown function (DUF997); Region: DUF997; cl01614 298386009783 Sodium:solute symporter family; Region: SSF; cl00456 298386009784 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 298386009785 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 298386009786 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 298386009787 S-adenosylmethionine binding site [chemical binding]; other site 298386009788 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 298386009789 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 298386009790 FMN binding site [chemical binding]; other site 298386009791 active site 298386009792 catalytic residues [active] 298386009793 substrate binding site [chemical binding]; other site 298386009794 Helix-turn-helix domains; Region: HTH; cl00088 298386009795 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 298386009796 Transposase; Region: DEDD_Tnp_IS110; pfam01548 298386009797 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 298386009798 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 298386009799 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 298386009800 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 298386009801 DNA binding residues [nucleotide binding] 298386009802 dimer interface [polypeptide binding]; other site 298386009803 metal binding site [ion binding]; metal-binding site 298386009804 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 298386009805 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 298386009806 purine monophosphate binding site [chemical binding]; other site 298386009807 dimer interface [polypeptide binding]; other site 298386009808 putative catalytic residues [active] 298386009809 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 298386009810 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 298386009811 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 298386009812 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 298386009813 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386009814 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 298386009815 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 298386009816 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 298386009817 IHF dimer interface [polypeptide binding]; other site 298386009818 IHF - DNA interface [nucleotide binding]; other site 298386009819 Domain of unknown function DUF21; Region: DUF21; pfam01595 298386009820 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 298386009821 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 298386009822 Protein of unknown function (DUF416); Region: DUF416; cl01166 298386009823 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 298386009824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386009825 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 298386009826 putative uracil binding site [chemical binding]; other site 298386009827 putative active site [active] 298386009828 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 298386009829 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 298386009830 substrate binding site [chemical binding]; other site 298386009831 active site 298386009832 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 298386009833 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 298386009834 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 298386009835 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 298386009836 putative NADH binding site [chemical binding]; other site 298386009837 putative active site [active] 298386009838 nudix motif; other site 298386009839 putative metal binding site [ion binding]; other site 298386009840 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; cl11478 298386009841 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 298386009842 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 298386009843 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 298386009844 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 298386009845 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 298386009846 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 298386009847 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 298386009848 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 298386009849 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 298386009850 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 298386009851 DNA binding site [nucleotide binding] 298386009852 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 298386009853 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 298386009854 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 298386009855 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 298386009856 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 298386009857 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 298386009858 RPB11 interaction site [polypeptide binding]; other site 298386009859 RPB12 interaction site [polypeptide binding]; other site 298386009860 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 298386009861 RPB3 interaction site [polypeptide binding]; other site 298386009862 RPB1 interaction site [polypeptide binding]; other site 298386009863 RPB11 interaction site [polypeptide binding]; other site 298386009864 RPB10 interaction site [polypeptide binding]; other site 298386009865 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 298386009866 core dimer interface [polypeptide binding]; other site 298386009867 peripheral dimer interface [polypeptide binding]; other site 298386009868 L10 interface [polypeptide binding]; other site 298386009869 L11 interface [polypeptide binding]; other site 298386009870 putative EF-Tu interaction site [polypeptide binding]; other site 298386009871 putative EF-G interaction site [polypeptide binding]; other site 298386009872 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 298386009873 23S rRNA interface [nucleotide binding]; other site 298386009874 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 298386009875 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 298386009876 mRNA/rRNA interface [nucleotide binding]; other site 298386009877 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 298386009878 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 298386009879 23S rRNA interface [nucleotide binding]; other site 298386009880 L7/L12 interface [polypeptide binding]; other site 298386009881 putative thiostrepton binding site; other site 298386009882 L25 interface [polypeptide binding]; other site 298386009883 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 298386009884 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 298386009885 putative homodimer interface [polypeptide binding]; other site 298386009886 KOW motif; Region: KOW; cl00354 298386009887 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 298386009888 elongation factor Tu; Reviewed; Region: PRK00049 298386009889 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 298386009890 G1 box; other site 298386009891 GEF interaction site [polypeptide binding]; other site 298386009892 GTP/Mg2+ binding site [chemical binding]; other site 298386009893 Switch I region; other site 298386009894 G2 box; other site 298386009895 G3 box; other site 298386009896 Switch II region; other site 298386009897 G4 box; other site 298386009898 G5 box; other site 298386009899 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 298386009900 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 298386009901 Antibiotic Binding Site [chemical binding]; other site 298386009902 Type III pantothenate kinase; Region: Pan_kinase; cl09130 298386009903 Helix-turn-helix domains; Region: HTH; cl00088 298386009904 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 298386009905 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 298386009906 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 298386009907 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 298386009908 FAD binding domain; Region: FAD_binding_4; pfam01565 298386009909 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 298386009910 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386009911 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 298386009912 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 298386009913 domain interface [polypeptide binding]; other site 298386009914 putative active site [active] 298386009915 catalytic site [active] 298386009916 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 298386009917 domain interface [polypeptide binding]; other site 298386009918 putative active site [active] 298386009919 catalytic site [active] 298386009920 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 298386009921 Isochorismatase family; Region: Isochorismatase; pfam00857 298386009922 catalytic triad [active] 298386009923 metal binding site [ion binding]; metal-binding site 298386009924 conserved cis-peptide bond; other site 298386009925 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386009926 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 298386009927 RNA/DNA binding site [nucleotide binding]; other site 298386009928 RRM dimerization site [polypeptide binding]; other site 298386009929 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 298386009930 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_IV; cd01994 298386009931 Ligand Binding Site [chemical binding]; other site 298386009932 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 298386009933 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 298386009934 N-terminal plug; other site 298386009935 ligand-binding site [chemical binding]; other site 298386009936 tRNA (uracil-5-)-methyltransferase; Region: trmA_only; TIGR02143 298386009937 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 298386009938 S-adenosylmethionine binding site [chemical binding]; other site 298386009939 Protein of unknown function (DUF1422); Region: DUF1422; cl11649 298386009940 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 298386009941 Helix-turn-helix domains; Region: HTH; cl00088 298386009942 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 298386009943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386009944 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386009945 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 298386009946 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 298386009947 active site 298386009948 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 298386009949 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 298386009950 dimer interface [polypeptide binding]; other site 298386009951 ADP-ribose binding site [chemical binding]; other site 298386009952 active site 298386009953 nudix motif; other site 298386009954 metal binding site [ion binding]; metal-binding site 298386009955 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 298386009956 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 298386009957 general secretion pathway protein L; Region: typeII_sec_gspL; TIGR01709 298386009958 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 298386009959 GspL periplasmic domain; Region: GspL_C; cl14909 298386009960 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 298386009961 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 298386009962 general secretion pathway protein J; Region: gspJ; TIGR01711 298386009963 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 298386009964 general secretion pathway protein I; Region: gspI; TIGR01707 298386009965 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 298386009966 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 298386009967 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 298386009968 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 298386009969 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 298386009970 general secretion pathway protein F; Region: GspF; TIGR02120 298386009971 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 298386009972 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 298386009973 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 298386009974 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 298386009975 Walker A motif; other site 298386009976 ATP binding site [chemical binding]; other site 298386009977 Walker B motif; other site 298386009978 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 298386009979 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 298386009980 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 298386009981 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 298386009982 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 298386009983 general secretion pathway protein C; Region: typeII_sec_gspC; TIGR01713 298386009984 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 298386009985 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 298386009986 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 298386009987 RNA binding surface [nucleotide binding]; other site 298386009988 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 298386009989 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 298386009990 dimerization interface [polypeptide binding]; other site 298386009991 domain crossover interface; other site 298386009992 redox-dependent activation switch; other site 298386009993 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 298386009994 active site 298386009995 substrate-binding site [chemical binding]; other site 298386009996 metal-binding site [ion binding] 298386009997 ATP binding site [chemical binding]; other site 298386009998 AsmA family; Region: AsmA; pfam05170 298386009999 AsmA-like C-terminal region; Region: AsmA_2; cl15864 298386010000 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 298386010001 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386010002 Coenzyme A binding pocket [chemical binding]; other site 298386010003 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 298386010004 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 298386010005 putative active site [active] 298386010006 dimerization interface [polypeptide binding]; other site 298386010007 putative tRNAtyr binding site [nucleotide binding]; other site 298386010008 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 298386010009 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386010010 AAA domain; Region: AAA_28; pfam13521 298386010011 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 298386010012 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 298386010013 G1 box; other site 298386010014 putative GEF interaction site [polypeptide binding]; other site 298386010015 GTP/Mg2+ binding site [chemical binding]; other site 298386010016 Switch I region; other site 298386010017 G2 box; other site 298386010018 G3 box; other site 298386010019 Switch II region; other site 298386010020 G4 box; other site 298386010021 G5 box; other site 298386010022 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 298386010023 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 298386010024 glutamine synthetase; Provisional; Region: glnA; PRK09469 298386010025 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 298386010026 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 298386010027 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 298386010028 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 298386010029 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 298386010030 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 298386010031 dimer interface [polypeptide binding]; other site 298386010032 phosphorylation site [posttranslational modification] 298386010033 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 298386010034 ATP binding site [chemical binding]; other site 298386010035 Mg2+ binding site [ion binding]; other site 298386010036 G-X-G motif; other site 298386010037 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 298386010038 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 298386010039 active site 298386010040 phosphorylation site [posttranslational modification] 298386010041 intermolecular recognition site; other site 298386010042 dimerization interface [polypeptide binding]; other site 298386010043 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 298386010044 Walker A motif; other site 298386010045 ATP binding site [chemical binding]; other site 298386010046 Walker B motif; other site 298386010047 arginine finger; other site 298386010048 Helix-turn-helix domains; Region: HTH; cl00088 298386010049 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 298386010050 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 298386010051 active site 298386010052 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 298386010053 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 298386010054 FeS/SAM binding site; other site 298386010055 HemN C-terminal domain; Region: HemN_C; pfam06969 298386010056 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 298386010057 Der GTPase activator (YihI); Region: YihI; cl01172 298386010058 Cytochrome c; Region: Cytochrom_C; cl11414 298386010059 Cytochrome c; Region: Cytochrom_C; cl11414 298386010060 Predicted GTPase [General function prediction only]; Region: COG0218 298386010061 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 298386010062 G1 box; other site 298386010063 GTP/Mg2+ binding site [chemical binding]; other site 298386010064 Switch I region; other site 298386010065 G2 box; other site 298386010066 G3 box; other site 298386010067 Switch II region; other site 298386010068 G4 box; other site 298386010069 G5 box; other site 298386010070 DNA polymerase I; Provisional; Region: PRK05755 298386010071 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 298386010072 active site 298386010073 metal binding site 1 [ion binding]; metal-binding site 298386010074 putative 5' ssDNA interaction site; other site 298386010075 metal binding site 3; metal-binding site 298386010076 metal binding site 2 [ion binding]; metal-binding site 298386010077 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 298386010078 putative DNA binding site [nucleotide binding]; other site 298386010079 putative metal binding site [ion binding]; other site 298386010080 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 298386010081 active site 298386010082 catalytic site [active] 298386010083 substrate binding site [chemical binding]; other site 298386010084 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 298386010085 active site 298386010086 DNA binding site [nucleotide binding] 298386010087 catalytic site [active] 298386010088 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 298386010089 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 298386010090 conserved cys residue [active] 298386010091 putative acetyltransferase; Provisional; Region: PRK03624 298386010092 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386010093 Coenzyme A binding pocket [chemical binding]; other site 298386010094 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 298386010095 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 298386010096 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 298386010097 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 298386010098 ATP binding site [chemical binding]; other site 298386010099 putative Mg++ binding site [ion binding]; other site 298386010100 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 298386010101 nucleotide binding region [chemical binding]; other site 298386010102 ATP-binding site [chemical binding]; other site 298386010103 RQC domain; Region: RQC; cl09632 298386010104 HRDC domain; Region: HRDC; cl02578 298386010105 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 298386010106 Cupin domain; Region: Cupin_2; cl09118 298386010107 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386010108 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 298386010109 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386010110 LysE type translocator; Region: LysE; cl00565 298386010111 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 298386010112 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 298386010113 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 298386010114 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386010115 Family description; Region: UvrD_C_2; cl15862 298386010116 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 298386010117 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 298386010118 Protein of unknown function (DUF692); Region: DUF692; cl01263 298386010119 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 298386010120 DoxX; Region: DoxX; cl00976 298386010121 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 298386010122 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 298386010123 motif II; other site 298386010124 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 298386010125 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 298386010126 active site 298386010127 Int/Topo IB signature motif; other site 298386010128 GAF domain; Region: GAF; cl15785 298386010129 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 298386010130 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 298386010131 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 298386010132 diaminopimelate decarboxylase; Region: lysA; TIGR01048 298386010133 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 298386010134 active site 298386010135 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 298386010136 substrate binding site [chemical binding]; other site 298386010137 catalytic residues [active] 298386010138 dimer interface [polypeptide binding]; other site 298386010139 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 298386010140 putative iron binding site [ion binding]; other site 298386010141 Integrase core domain; Region: rve; cl01316 298386010142 adenylate cyclase; Provisional; Region: cyaA; PRK09450 298386010143 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 298386010144 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 298386010145 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 298386010146 domain interfaces; other site 298386010147 active site 298386010148 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl03189 298386010149 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 298386010150 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 298386010151 active site 298386010152 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 298386010153 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 298386010154 HemY protein N-terminus; Region: HemY_N; pfam07219 298386010155 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 298386010156 TPR motif; other site 298386010157 binding surface 298386010158 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 298386010159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386010160 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 298386010161 hypothetical protein; Provisional; Region: PRK13560 298386010162 PAS domain S-box; Region: sensory_box; TIGR00229 298386010163 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 298386010164 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386010165 metal binding site [ion binding]; metal-binding site 298386010166 active site 298386010167 I-site; other site 298386010168 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 298386010169 Helix-turn-helix domains; Region: HTH; cl00088 298386010170 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 298386010171 FAD binding pocket [chemical binding]; other site 298386010172 FAD binding motif [chemical binding]; other site 298386010173 phosphate binding motif [ion binding]; other site 298386010174 beta-alpha-beta structure motif; other site 298386010175 NAD binding pocket [chemical binding]; other site 298386010176 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 298386010177 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 298386010178 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 298386010179 transcription termination factor Rho; Provisional; Region: rho; PRK09376 298386010180 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 298386010181 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 298386010182 RNA binding site [nucleotide binding]; other site 298386010183 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 298386010184 multimer interface [polypeptide binding]; other site 298386010185 Walker A motif; other site 298386010186 ATP binding site [chemical binding]; other site 298386010187 Walker B motif; other site 298386010188 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 298386010189 catalytic residues [active] 298386010190 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 298386010191 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 298386010192 ATP binding site [chemical binding]; other site 298386010193 Mg++ binding site [ion binding]; other site 298386010194 motif III; other site 298386010195 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 298386010196 nucleotide binding region [chemical binding]; other site 298386010197 ATP-binding site [chemical binding]; other site 298386010198 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 298386010199 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 298386010200 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 298386010201 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 298386010202 active site 298386010203 Zn binding site [ion binding]; other site 298386010204 glutathione reductase; Validated; Region: PRK06116 298386010205 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386010206 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 298386010207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 298386010208 Phosphoinositide 3-kinase (PI3K)-like family, catalytic domain; The PI3K-like catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: PI3Kc_like; cl00119 298386010209 catalytic loop [active] 298386010210 Nucleoside recognition; Region: Gate; cl00486 298386010211 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386010212 Integrase core domain; Region: rve; cl01316 298386010213 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 298386010214 Transposase; Region: DEDD_Tnp_IS110; pfam01548 298386010215 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 298386010216 Integrase core domain; Region: rve; cl01316 298386010217 Helix-turn-helix domains; Region: HTH; cl00088 298386010218 Winged helix-turn helix; Region: HTH_29; pfam13551 298386010219 Winged helix-turn helix; Region: HTH_33; pfam13592 298386010220 Integrase core domain; Region: rve; cl01316 298386010221 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 298386010222 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 298386010223 trimer interface [polypeptide binding]; other site 298386010224 putative metal binding site [ion binding]; other site 298386010225 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 298386010226 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 298386010227 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 298386010228 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 298386010229 shikimate binding site; other site 298386010230 NAD(P) binding site [chemical binding]; other site 298386010231 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 298386010232 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 298386010233 AIR carboxylase; Region: AIRC; cl00310 298386010234 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 298386010235 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 298386010236 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 298386010237 Protein of unknown function (DUF494); Region: DUF494; cl01103 298386010238 hypothetical protein; Provisional; Region: PRK10736 298386010239 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 298386010240 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 298386010241 putative peptidoglycan binding site; other site 298386010242 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 298386010243 active site 298386010244 catalytic residues [active] 298386010245 metal binding site [ion binding]; metal-binding site 298386010246 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 298386010247 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 298386010248 putative active site [active] 298386010249 substrate binding site [chemical binding]; other site 298386010250 putative cosubstrate binding site; other site 298386010251 catalytic site [active] 298386010252 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 298386010253 substrate binding site [chemical binding]; other site 298386010254 16S rRNA methyltransferase B; Provisional; Region: PRK10901 298386010255 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 298386010256 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 298386010257 S-adenosylmethionine binding site [chemical binding]; other site 298386010258 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 298386010259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386010260 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 298386010261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386010262 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 298386010263 Cation transport protein; Region: TrkH; cl10514 298386010264 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 298386010265 Haemolysin-III related; Region: HlyIII; cl03831 298386010266 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 298386010267 SpoOM protein; Region: Spo0M; pfam07070 298386010268 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386010269 DNA-binding site [nucleotide binding]; DNA binding site 298386010270 FCD domain; Region: FCD; cl11656 298386010271 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 298386010272 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 298386010273 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 298386010274 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 298386010275 Phosphotransferase enzyme family; Region: APH; pfam01636 298386010276 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 298386010277 active site 298386010278 ATP binding site [chemical binding]; other site 298386010279 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 298386010280 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 298386010281 catalytic residues [active] 298386010282 hinge region; other site 298386010283 alpha helical domain; other site 298386010284 Protein of unknown function (DUF523); Region: DUF523; cl00733 298386010285 Mg chelatase-related protein; Region: TIGR00368 298386010286 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 298386010287 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 298386010288 Walker A motif; other site 298386010289 ATP binding site [chemical binding]; other site 298386010290 Walker B motif; other site 298386010291 arginine finger; other site 298386010292 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 298386010293 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 298386010294 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 298386010295 PYR/PP interface [polypeptide binding]; other site 298386010296 dimer interface [polypeptide binding]; other site 298386010297 TPP binding site [chemical binding]; other site 298386010298 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 298386010299 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 298386010300 TPP-binding site [chemical binding]; other site 298386010301 dimer interface [polypeptide binding]; other site 298386010302 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 298386010303 homodimer interface [polypeptide binding]; other site 298386010304 substrate-cofactor binding pocket; other site 298386010305 catalytic residue [active] 298386010306 Dehydratase family; Region: ILVD_EDD; cl00340 298386010307 threonine dehydratase; Reviewed; Region: PRK09224 298386010308 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 298386010309 tetramer interface [polypeptide binding]; other site 298386010310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386010311 catalytic residue [active] 298386010312 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 298386010313 putative Ile/Val binding site [chemical binding]; other site 298386010314 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 298386010315 putative Ile/Val binding site [chemical binding]; other site 298386010316 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 298386010317 non-specific DNA binding site [nucleotide binding]; other site 298386010318 salt bridge; other site 298386010319 sequence-specific DNA binding site [nucleotide binding]; other site 298386010320 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 298386010321 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 298386010322 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 298386010323 glutaminase active site [active] 298386010324 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 298386010325 dimer interface [polypeptide binding]; other site 298386010326 active site 298386010327 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 298386010328 dimer interface [polypeptide binding]; other site 298386010329 active site 298386010330 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 298386010331 Helix-turn-helix domains; Region: HTH; cl00088 298386010332 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 298386010333 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 298386010334 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 298386010335 Substrate binding site; other site 298386010336 Mg++ binding site; other site 298386010337 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 298386010338 active site 298386010339 substrate binding site [chemical binding]; other site 298386010340 CoA binding site [chemical binding]; other site 298386010341 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 298386010342 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 298386010343 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 298386010344 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 298386010345 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 298386010346 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 298386010347 alpha subunit interaction interface [polypeptide binding]; other site 298386010348 Walker A motif; other site 298386010349 ATP binding site [chemical binding]; other site 298386010350 Walker B motif; other site 298386010351 inhibitor binding site; inhibition site 298386010352 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 298386010353 ATP synthase; Region: ATP-synt; cl00365 298386010354 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 298386010355 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 298386010356 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 298386010357 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 298386010358 beta subunit interaction interface [polypeptide binding]; other site 298386010359 Walker A motif; other site 298386010360 ATP binding site [chemical binding]; other site 298386010361 Walker B motif; other site 298386010362 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 298386010363 Plant ATP synthase F0; Region: YMF19; cl07975 298386010364 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 298386010365 Plant ATP synthase F0; Region: YMF19; cl07975 298386010366 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 298386010367 ATP synthase subunit C; Region: ATP-synt_C; cl00466 298386010368 ATP synthase A chain; Region: ATP-synt_A; cl00413 298386010369 ATP synthase I chain; Region: ATP_synt_I; cl09170 298386010370 ParB-like partition proteins; Region: parB_part; TIGR00180 298386010371 ParB-like nuclease domain; Region: ParBc; cl02129 298386010372 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 298386010373 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 298386010374 P-loop; other site 298386010375 Magnesium ion binding site [ion binding]; other site 298386010376 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 298386010377 Magnesium ion binding site [ion binding]; other site 298386010378 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 298386010379 S-adenosylmethionine binding site [chemical binding]; other site 298386010380 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 298386010381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386010382 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 298386010383 Protein of unknown function (DUF3346); Region: DUF3346; pfam11826 298386010384 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 298386010385 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 298386010386 active site 298386010387 nucleophile elbow; other site 298386010388 Surface antigen; Region: Bac_surface_Ag; cl03097 298386010389 tetrathionate reductase subunit A; Provisional; Region: PRK14991 298386010390 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 298386010391 molybdopterin cofactor binding site; other site 298386010392 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 298386010393 putative molybdopterin cofactor binding site [chemical binding]; other site 298386010394 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 298386010395 putative molybdopterin cofactor binding site; other site 298386010396 Polysulphide reductase, NrfD; Region: NrfD; cl01295 298386010397 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386010398 tetrathionate reductase subunit B; Provisional; Region: PRK14993 298386010399 NMT1-like family; Region: NMT1_2; cl15260 298386010400 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 298386010401 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 298386010402 dimer interface [polypeptide binding]; other site 298386010403 phosphorylation site [posttranslational modification] 298386010404 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 298386010405 ATP binding site [chemical binding]; other site 298386010406 Mg2+ binding site [ion binding]; other site 298386010407 G-X-G motif; other site 298386010408 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 298386010409 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 298386010410 active site 298386010411 phosphorylation site [posttranslational modification] 298386010412 intermolecular recognition site; other site 298386010413 dimerization interface [polypeptide binding]; other site 298386010414 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 298386010415 DNA binding residues [nucleotide binding] 298386010416 dimerization interface [polypeptide binding]; other site 298386010417 maltose O-acetyltransferase; Provisional; Region: PRK10092 298386010418 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 298386010419 active site 298386010420 substrate binding site [chemical binding]; other site 298386010421 trimer interface [polypeptide binding]; other site 298386010422 CoA binding site [chemical binding]; other site 298386010423 Helix-turn-helix domain; Region: HTH_18; pfam12833 298386010424 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386010425 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 298386010426 active site 298386010427 catalytic site [active] 298386010428 substrate binding site [chemical binding]; other site 298386010429 EamA-like transporter family; Region: EamA; cl01037 298386010430 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 298386010431 EamA-like transporter family; Region: EamA; cl01037 298386010432 DDE domain; Region: DDE_Tnp_IS240; pfam13610 298386010433 Integrase core domain; Region: rve; cl01316 298386010434 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386010435 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07768 298386010436 AMP-binding enzyme; Region: AMP-binding; cl15778 298386010437 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 298386010438 putative acyl-acceptor binding pocket; other site 298386010439 Integrase core domain; Region: rve; cl01316 298386010440 DDE domain; Region: DDE_Tnp_IS240; pfam13610 298386010441 Integrase core domain; Region: rve; cl01316 298386010442 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 298386010443 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 298386010444 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 298386010445 active site 298386010446 putative substrate binding pocket [chemical binding]; other site 298386010447 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 298386010448 alpha-galactosidase; Provisional; Region: PRK15076 298386010449 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 298386010450 NAD binding site [chemical binding]; other site 298386010451 sugar binding site [chemical binding]; other site 298386010452 divalent metal binding site [ion binding]; other site 298386010453 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 298386010454 dimer interface [polypeptide binding]; other site 298386010455 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 298386010456 TM-ABC transporter signature motif; other site 298386010457 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 298386010458 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386010459 Walker A/P-loop; other site 298386010460 ATP binding site [chemical binding]; other site 298386010461 Q-loop/lid; other site 298386010462 ABC transporter signature motif; other site 298386010463 Walker B; other site 298386010464 D-loop; other site 298386010465 H-loop/switch region; other site 298386010466 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 298386010467 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 298386010468 putative ligand binding site [chemical binding]; other site 298386010469 Integrase core domain; Region: rve; cl01316 298386010470 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 298386010471 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 298386010472 active site 298386010473 phosphorylation site [posttranslational modification] 298386010474 intermolecular recognition site; other site 298386010475 dimerization interface [polypeptide binding]; other site 298386010476 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 298386010477 DNA binding site [nucleotide binding] 298386010478 Cache domain; Region: Cache_2; cl07034 298386010479 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 298386010480 Cache domain; Region: Cache_2; cl07034 298386010481 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 298386010482 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386010483 dimerization interface [polypeptide binding]; other site 298386010484 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386010485 dimerization interface [polypeptide binding]; other site 298386010486 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 298386010487 dimer interface [polypeptide binding]; other site 298386010488 phosphorylation site [posttranslational modification] 298386010489 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 298386010490 ATP binding site [chemical binding]; other site 298386010491 Mg2+ binding site [ion binding]; other site 298386010492 G-X-G motif; other site 298386010493 Response regulator receiver domain; Region: Response_reg; pfam00072 298386010494 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 298386010495 active site 298386010496 phosphorylation site [posttranslational modification] 298386010497 intermolecular recognition site; other site 298386010498 dimerization interface [polypeptide binding]; other site 298386010499 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 298386010500 Helix-turn-helix domains; Region: HTH; cl00088 298386010501 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 298386010502 Cache domain; Region: Cache_2; cl07034 298386010503 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 298386010504 Cache domain; Region: Cache_2; cl07034 298386010505 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386010506 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386010507 dimer interface [polypeptide binding]; other site 298386010508 putative CheW interface [polypeptide binding]; other site 298386010509 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 298386010510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386010511 transaminase; Validated; Region: PRK07324 298386010512 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 298386010513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386010514 homodimer interface [polypeptide binding]; other site 298386010515 catalytic residue [active] 298386010516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 298386010517 YheO-like PAS domain; Region: PAS_6; pfam08348 298386010518 Helix-turn-helix domains; Region: HTH; cl00088 298386010519 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 298386010520 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 298386010521 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 298386010522 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 298386010523 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 298386010524 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 298386010525 DNA-binding site [nucleotide binding]; DNA binding site 298386010526 RNA-binding motif; other site 298386010527 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 298386010528 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 298386010529 FeS/SAM binding site; other site 298386010530 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 298386010531 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 298386010532 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386010533 Helix-turn-helix domains; Region: HTH; cl00088 298386010534 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 298386010535 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 298386010536 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386010537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386010538 Helix-turn-helix domains; Region: HTH; cl00088 298386010539 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386010540 dimerization interface [polypeptide binding]; other site 298386010541 aspartate ammonia-lyase; Provisional; Region: PRK13353 298386010542 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 298386010543 tetramer interface [polypeptide binding]; other site 298386010544 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 298386010545 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 298386010546 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 298386010547 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 298386010548 Predicted membrane protein [Function unknown]; Region: COG3766 298386010549 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 298386010550 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 298386010551 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 298386010552 Ion channel; Region: Ion_trans_2; cl11596 298386010553 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386010554 PspA/IM30 family; Region: PspA_IM30; pfam04012 298386010555 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 298386010556 transketolase; Reviewed; Region: PRK12753 298386010557 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 298386010558 TPP-binding site [chemical binding]; other site 298386010559 dimer interface [polypeptide binding]; other site 298386010560 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 298386010561 PYR/PP interface [polypeptide binding]; other site 298386010562 dimer interface [polypeptide binding]; other site 298386010563 TPP binding site [chemical binding]; other site 298386010564 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 298386010565 transaldolase-like protein; Provisional; Region: PTZ00411 298386010566 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 298386010567 active site 298386010568 dimer interface [polypeptide binding]; other site 298386010569 catalytic residue [active] 298386010570 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 298386010571 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386010572 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 298386010573 dimer interface [polypeptide binding]; other site 298386010574 phosphorylation site [posttranslational modification] 298386010575 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 298386010576 ATP binding site [chemical binding]; other site 298386010577 Mg2+ binding site [ion binding]; other site 298386010578 G-X-G motif; other site 298386010579 Response regulator receiver domain; Region: Response_reg; pfam00072 298386010580 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 298386010581 active site 298386010582 phosphorylation site [posttranslational modification] 298386010583 intermolecular recognition site; other site 298386010584 dimerization interface [polypeptide binding]; other site 298386010585 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 298386010586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 298386010587 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 298386010588 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 298386010589 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 298386010590 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386010591 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 298386010592 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 298386010593 Sel1 repeat; Region: Sel1; cl02723 298386010594 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 298386010595 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 298386010596 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 298386010597 motif II; other site 298386010598 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 298386010599 trimer interface [polypeptide binding]; other site 298386010600 active site 298386010601 substrate binding site [chemical binding]; other site 298386010602 CoA binding site [chemical binding]; other site 298386010603 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 298386010604 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 298386010605 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 298386010606 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 298386010607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386010608 NAD(P) binding site [chemical binding]; other site 298386010609 active site 298386010610 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386010611 Helix-turn-helix domains; Region: HTH; cl00088 298386010612 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 298386010613 dimerization interface [polypeptide binding]; other site 298386010614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 298386010615 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386010616 Acetokinase family; Region: Acetate_kinase; cl01029 298386010617 propionate/acetate kinase; Provisional; Region: PRK12379 298386010618 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 298386010619 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 298386010620 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 298386010621 Cupin domain; Region: Cupin_2; cl09118 298386010622 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386010623 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 298386010624 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386010625 LysE type translocator; Region: LysE; cl00565 298386010626 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 298386010627 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 298386010628 molybdopterin cofactor binding site [chemical binding]; other site 298386010629 substrate binding site [chemical binding]; other site 298386010630 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 298386010631 molybdopterin cofactor binding site; other site 298386010632 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 298386010633 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 298386010634 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386010635 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 298386010636 gating phenylalanine in ion channel; other site 298386010637 Integrase core domain; Region: rve; cl01316 298386010638 Helix-turn-helix domains; Region: HTH; cl00088 298386010639 Winged helix-turn helix; Region: HTH_29; pfam13551 298386010640 Winged helix-turn helix; Region: HTH_33; pfam13592 298386010641 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 298386010642 Ligand Binding Site [chemical binding]; other site 298386010643 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 298386010644 Catalytic site [active] 298386010645 Mor transcription activator family; Region: Mor; cl02360 298386010646 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 298386010647 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 298386010648 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 298386010649 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386010650 Nitrate and nitrite sensing; Region: NIT; pfam08376 298386010651 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386010652 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386010653 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386010654 dimer interface [polypeptide binding]; other site 298386010655 putative CheW interface [polypeptide binding]; other site 298386010656 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386010657 dimerization interface [polypeptide binding]; other site 298386010658 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 298386010659 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386010660 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 298386010661 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 298386010662 dimer interface [polypeptide binding]; other site 298386010663 active site 298386010664 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 298386010665 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 298386010666 NAD(P) binding site [chemical binding]; other site 298386010667 homotetramer interface [polypeptide binding]; other site 298386010668 homodimer interface [polypeptide binding]; other site 298386010669 active site 298386010670 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 298386010671 putative active site 1 [active] 298386010672 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 298386010673 dimer interface [polypeptide binding]; other site 298386010674 active site 298386010675 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 298386010676 Predicted exporter [General function prediction only]; Region: COG4258 298386010677 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 298386010678 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 298386010679 active site 298386010680 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 298386010681 active sites [active] 298386010682 tetramer interface [polypeptide binding]; other site 298386010683 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 298386010684 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 298386010685 Ligand binding site; other site 298386010686 Putative Catalytic site; other site 298386010687 DXD motif; other site 298386010688 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386010689 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 298386010690 putative acyl-acceptor binding pocket; other site 298386010691 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 298386010692 active site 2 [active] 298386010693 dimer interface [polypeptide binding]; other site 298386010694 active site 1 [active] 298386010695 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 298386010696 AMP-binding enzyme; Region: AMP-binding; cl15778 298386010697 Predicted membrane protein [Function unknown]; Region: COG4648 298386010698 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386010699 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386010700 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 298386010701 putative acyl-acceptor binding pocket; other site 298386010702 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 298386010703 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 298386010704 Methyltransferase domain; Region: Methyltransf_31; pfam13847 298386010705 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 298386010706 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 298386010707 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 298386010708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386010709 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 298386010710 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 298386010711 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 298386010712 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 298386010713 EamA-like transporter family; Region: EamA; cl01037 298386010714 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 298386010715 EamA-like transporter family; Region: EamA; cl01037 298386010716 ATP synthase A chain; Region: ATP-synt_A; cl00413 298386010717 ATP synthase subunit C; Region: ATP-synt_C; cl00466 298386010718 Plant ATP synthase F0; Region: YMF19; cl07975 298386010719 Plant ATP synthase F0; Region: YMF19; cl07975 298386010720 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 298386010721 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 298386010722 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 298386010723 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 298386010724 beta subunit interaction interface [polypeptide binding]; other site 298386010725 Walker A motif; other site 298386010726 ATP binding site [chemical binding]; other site 298386010727 Walker B motif; other site 298386010728 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 298386010729 ATP synthase; Region: ATP-synt; cl00365 298386010730 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 298386010731 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 298386010732 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 298386010733 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 298386010734 alpha subunit interaction interface [polypeptide binding]; other site 298386010735 Walker A motif; other site 298386010736 ATP binding site [chemical binding]; other site 298386010737 Walker B motif; other site 298386010738 inhibitor binding site; inhibition site 298386010739 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 298386010740 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 298386010741 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 298386010742 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 298386010743 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 298386010744 Sulfatase; Region: Sulfatase; cl10460 298386010745 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 298386010746 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 298386010747 Helix-turn-helix domains; Region: HTH; cl00088 298386010748 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 298386010749 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 298386010750 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 298386010751 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 298386010752 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 298386010753 putative active site [active] 298386010754 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 298386010755 active site 298386010756 phosphorylation site [posttranslational modification] 298386010757 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 298386010758 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 298386010759 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 298386010760 active pocket/dimerization site; other site 298386010761 active site 298386010762 phosphorylation site [posttranslational modification] 298386010763 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 298386010764 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 298386010765 active site 298386010766 dimer interface [polypeptide binding]; other site 298386010767 KduI/IolB family; Region: KduI; cl01508 298386010768 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK12481 298386010769 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 298386010770 NADP binding site [chemical binding]; other site 298386010771 homodimer interface [polypeptide binding]; other site 298386010772 active site 298386010773 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 298386010774 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 298386010775 putative ligand binding site [chemical binding]; other site 298386010776 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 298386010777 Lyase, N terminal; Region: Lyase_N; pfam09092 298386010778 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 298386010779 substrate binding site [chemical binding]; other site 298386010780 catalytic residues [active] 298386010781 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 298386010782 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 298386010783 FeS/SAM binding site; other site 298386010784 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 298386010785 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 298386010786 Sulfatase; Region: Sulfatase; cl10460 298386010787 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 298386010788 hypothetical protein; Provisional; Region: PRK08185 298386010789 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 298386010790 intersubunit interface [polypeptide binding]; other site 298386010791 active site 298386010792 zinc binding site [ion binding]; other site 298386010793 Na+ binding site [ion binding]; other site 298386010794 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 298386010795 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 298386010796 substrate binding site [chemical binding]; other site 298386010797 ATP binding site [chemical binding]; other site 298386010798 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 298386010799 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 298386010800 active site 298386010801 intersubunit interface [polypeptide binding]; other site 298386010802 catalytic residue [active] 298386010803 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 298386010804 DJ-1 family protein; Region: not_thiJ; TIGR01383 298386010805 conserved cys residue [active] 298386010806 Flagellin N-methylase; Region: FliB; cl00497 298386010807 Predicted acetyltransferase [General function prediction only]; Region: COG3981 298386010808 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386010809 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 298386010810 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386010811 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 298386010812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386010813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386010814 NAD(P) binding site [chemical binding]; other site 298386010815 active site 298386010816 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386010817 Helix-turn-helix domains; Region: HTH; cl00088 298386010818 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386010819 putative effector binding pocket; other site 298386010820 dimerization interface [polypeptide binding]; other site 298386010821 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 298386010822 Ligand Binding Site [chemical binding]; other site 298386010823 EamA-like transporter family; Region: EamA; cl01037 298386010824 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 298386010825 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386010826 Coenzyme A binding pocket [chemical binding]; other site 298386010827 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 298386010828 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 298386010829 Sulfatase; Region: Sulfatase; cl10460 298386010830 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386010831 dimer interface [polypeptide binding]; other site 298386010832 conserved gate region; other site 298386010833 putative PBP binding loops; other site 298386010834 ABC-ATPase subunit interface; other site 298386010835 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386010836 dimer interface [polypeptide binding]; other site 298386010837 conserved gate region; other site 298386010838 putative PBP binding loops; other site 298386010839 ABC-ATPase subunit interface; other site 298386010840 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 298386010841 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386010842 Walker A/P-loop; other site 298386010843 ATP binding site [chemical binding]; other site 298386010844 Q-loop/lid; other site 298386010845 ABC transporter signature motif; other site 298386010846 Walker B; other site 298386010847 D-loop; other site 298386010848 H-loop/switch region; other site 298386010849 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 298386010850 FixH; Region: FixH; cl01254 298386010851 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 298386010852 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 298386010853 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 298386010854 Integrase core domain; Region: rve; cl01316 298386010855 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 298386010856 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386010857 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386010858 Integrase core domain; Region: rve; cl01316 298386010859 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386010860 AAA domain; Region: AAA_28; pfam13521 298386010861 Integrase core domain; Region: rve; cl01316 298386010862 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 298386010863 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386010864 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386010865 Tryptophan-rich protein (DUF2389); Region: DUF2389; cl09726 298386010866 Transcriptional regulators [Transcription]; Region: FadR; COG2186 298386010867 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386010868 DNA-binding site [nucleotide binding]; DNA binding site 298386010869 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 298386010870 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 298386010871 ATP binding site [chemical binding]; other site 298386010872 Mg++ binding site [ion binding]; other site 298386010873 motif III; other site 298386010874 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 298386010875 nucleotide binding region [chemical binding]; other site 298386010876 ATP-binding site [chemical binding]; other site 298386010877 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 298386010878 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 298386010879 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 298386010880 FAD binding pocket [chemical binding]; other site 298386010881 FAD binding motif [chemical binding]; other site 298386010882 phosphate binding motif [ion binding]; other site 298386010883 beta-alpha-beta structure motif; other site 298386010884 NAD binding pocket [chemical binding]; other site 298386010885 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 298386010886 NADP binding site [chemical binding]; other site 298386010887 active site 298386010888 regulatory binding site [polypeptide binding]; other site 298386010889 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 298386010890 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 298386010891 substrate binding site [chemical binding]; other site 298386010892 oxyanion hole (OAH) forming residues; other site 298386010893 trimer interface [polypeptide binding]; other site 298386010894 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386010895 dimerization interface [polypeptide binding]; other site 298386010896 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386010897 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386010898 dimer interface [polypeptide binding]; other site 298386010899 putative CheW interface [polypeptide binding]; other site 298386010900 Tetratricopeptide repeat; Region: TPR_12; pfam13424 298386010901 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 298386010902 TPR motif; other site 298386010903 binding surface 298386010904 Tetratricopeptide repeat; Region: TPR_12; pfam13424 298386010905 Tetratricopeptide repeat; Region: TPR_12; pfam13424 298386010906 Tetratricopeptide repeat; Region: TPR_12; pfam13424 298386010907 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386010908 metal binding site [ion binding]; metal-binding site 298386010909 active site 298386010910 I-site; other site 298386010911 hypothetical protein; Validated; Region: PRK09071 298386010912 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 298386010913 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 298386010914 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 298386010915 ATP binding site [chemical binding]; other site 298386010916 Mg2+ binding site [ion binding]; other site 298386010917 G-X-G motif; other site 298386010918 Response regulator receiver domain; Region: Response_reg; pfam00072 298386010919 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 298386010920 active site 298386010921 phosphorylation site [posttranslational modification] 298386010922 intermolecular recognition site; other site 298386010923 dimerization interface [polypeptide binding]; other site 298386010924 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 298386010925 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 298386010926 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386010927 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386010928 AlkA N-terminal domain; Region: AlkA_N; cl05528 298386010929 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 298386010930 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 298386010931 minor groove reading motif; other site 298386010932 helix-hairpin-helix signature motif; other site 298386010933 substrate binding pocket [chemical binding]; other site 298386010934 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 298386010935 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 298386010936 DNA binding site [nucleotide binding] 298386010937 active site 298386010938 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 298386010939 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 298386010940 ATP binding site [chemical binding]; other site 298386010941 Mg++ binding site [ion binding]; other site 298386010942 motif III; other site 298386010943 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 298386010944 nucleotide binding region [chemical binding]; other site 298386010945 ATP-binding site [chemical binding]; other site 298386010946 DbpA RNA binding domain; Region: DbpA; pfam03880 298386010947 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386010948 Helix-turn-helix domains; Region: HTH; cl00088 298386010949 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 298386010950 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 298386010951 Walker A motif; other site 298386010952 ATP binding site [chemical binding]; other site 298386010953 Walker B motif; other site 298386010954 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 298386010955 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 298386010956 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 298386010957 dimerization domain swap beta strand [polypeptide binding]; other site 298386010958 regulatory protein interface [polypeptide binding]; other site 298386010959 active site 298386010960 regulatory phosphorylation site [posttranslational modification]; other site 298386010961 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 298386010962 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 298386010963 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 298386010964 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 298386010965 DAK2 domain; Region: Dak2; cl03685 298386010966 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 298386010967 Dak1 domain; Region: Dak1; pfam02733 298386010968 PAS domain; Region: PAS_9; pfam13426 298386010969 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 298386010970 putative active site [active] 298386010971 heme pocket [chemical binding]; other site 298386010972 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386010973 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386010974 dimer interface [polypeptide binding]; other site 298386010975 putative CheW interface [polypeptide binding]; other site 298386010976 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 298386010977 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 298386010978 putative NAD(P) binding site [chemical binding]; other site 298386010979 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386010980 Helix-turn-helix domains; Region: HTH; cl00088 298386010981 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386010982 putative effector binding pocket; other site 298386010983 dimerization interface [polypeptide binding]; other site 298386010984 Helix-turn-helix domain; Region: HTH_18; pfam12833 298386010985 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386010986 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386010987 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 298386010988 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 298386010989 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386010990 catalytic residue [active] 298386010991 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 298386010992 substrate binding pocket [chemical binding]; other site 298386010993 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 298386010994 membrane-bound complex binding site; other site 298386010995 hinge residues; other site 298386010996 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386010997 metal binding site [ion binding]; metal-binding site 298386010998 active site 298386010999 I-site; other site 298386011000 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 298386011001 alpha-glucosidase; Provisional; Region: PRK10137 298386011002 Integrase core domain; Region: rve; cl01316 298386011003 alpha-glucosidase; Provisional; Region: PRK10137 298386011004 Transcriptional regulators [Transcription]; Region: GntR; COG1802 298386011005 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386011006 DNA-binding site [nucleotide binding]; DNA binding site 298386011007 FCD domain; Region: FCD; cl11656 298386011008 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 298386011009 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 298386011010 tetramer interface [polypeptide binding]; other site 298386011011 active site 298386011012 Mg2+/Mn2+ binding site [ion binding]; other site 298386011013 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 298386011014 dimer interface [polypeptide binding]; other site 298386011015 Citrate synthase; Region: Citrate_synt; pfam00285 298386011016 active site 298386011017 citrylCoA binding site [chemical binding]; other site 298386011018 oxalacetate/citrate binding site [chemical binding]; other site 298386011019 coenzyme A binding site [chemical binding]; other site 298386011020 catalytic triad [active] 298386011021 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 298386011022 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 298386011023 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 298386011024 AMP-binding enzyme; Region: AMP-binding; cl15778 298386011025 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 298386011026 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 298386011027 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 298386011028 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 298386011029 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 298386011030 homotrimer interaction site [polypeptide binding]; other site 298386011031 putative active site [active] 298386011032 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 298386011033 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 298386011034 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 298386011035 active site 298386011036 catalytic triad [active] 298386011037 oxyanion hole [active] 298386011038 putative metal dependent hydrolase; Provisional; Region: PRK11598 298386011039 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 298386011040 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 298386011041 Sulfatase; Region: Sulfatase; cl10460 298386011042 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 298386011043 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386011044 metal binding site [ion binding]; metal-binding site 298386011045 active site 298386011046 I-site; other site 298386011047 PAS domain; Region: PAS_9; pfam13426 298386011048 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 298386011049 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_19; cd07262 298386011050 NADH dehydrogenase subunit G; Validated; Region: PRK08493 298386011051 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 298386011052 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 298386011053 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 298386011054 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 298386011055 DNA binding residues [nucleotide binding] 298386011056 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 298386011057 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 298386011058 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 298386011059 N-terminal domain interface [polypeptide binding]; other site 298386011060 dimer interface [polypeptide binding]; other site 298386011061 substrate binding pocket (H-site) [chemical binding]; other site 298386011062 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 298386011063 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 298386011064 metal binding site [ion binding]; metal-binding site 298386011065 Protein of unknown function, DUF393; Region: DUF393; cl01136 298386011066 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 298386011067 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 298386011068 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 298386011069 Walker A/P-loop; other site 298386011070 ATP binding site [chemical binding]; other site 298386011071 Q-loop/lid; other site 298386011072 ABC transporter signature motif; other site 298386011073 Walker B; other site 298386011074 D-loop; other site 298386011075 H-loop/switch region; other site 298386011076 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386011077 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 298386011078 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386011079 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 298386011080 alpha-galactosidase; Provisional; Region: PRK15076 298386011081 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 298386011082 NAD binding site [chemical binding]; other site 298386011083 sugar binding site [chemical binding]; other site 298386011084 divalent metal binding site [ion binding]; other site 298386011085 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 298386011086 dimer interface [polypeptide binding]; other site 298386011087 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 298386011088 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 298386011089 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 298386011090 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 298386011091 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386011092 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 298386011093 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 298386011094 ATP binding site [chemical binding]; other site 298386011095 Mg2+ binding site [ion binding]; other site 298386011096 G-X-G motif; other site 298386011097 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 298386011098 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 298386011099 active site 298386011100 phosphorylation site [posttranslational modification] 298386011101 intermolecular recognition site; other site 298386011102 dimerization interface [polypeptide binding]; other site 298386011103 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 298386011104 DNA binding site [nucleotide binding] 298386011105 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 298386011106 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386011107 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 298386011108 active site turn [active] 298386011109 phosphorylation site [posttranslational modification] 298386011110 Response regulator receiver domain; Region: Response_reg; pfam00072 298386011111 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 298386011112 active site 298386011113 phosphorylation site [posttranslational modification] 298386011114 intermolecular recognition site; other site 298386011115 dimerization interface [polypeptide binding]; other site 298386011116 Response regulator receiver domain; Region: Response_reg; pfam00072 298386011117 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 298386011118 active site 298386011119 phosphorylation site [posttranslational modification] 298386011120 intermolecular recognition site; other site 298386011121 dimerization interface [polypeptide binding]; other site 298386011122 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386011123 metal binding site [ion binding]; metal-binding site 298386011124 active site 298386011125 I-site; other site 298386011126 AsmA-like C-terminal region; Region: AsmA_2; cl15864 298386011127 AsmA family; Region: AsmA; pfam05170 298386011128 AsmA-like C-terminal region; Region: AsmA_2; cl15864 298386011129 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 298386011130 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 298386011131 putative active site [active] 298386011132 transcriptional repressor UlaR; Provisional; Region: PRK13509 298386011133 Helix-turn-helix domains; Region: HTH; cl00088 298386011134 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 298386011135 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 298386011136 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 298386011137 AP (apurinic/apyrimidinic) site pocket; other site 298386011138 DNA interaction; other site 298386011139 Metal-binding active site; metal-binding site 298386011140 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 298386011141 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 298386011142 motif II; other site 298386011143 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 298386011144 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 298386011145 transcriptional repressor UlaR; Provisional; Region: PRK13509 298386011146 Helix-turn-helix domains; Region: HTH; cl00088 298386011147 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 298386011148 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 298386011149 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 298386011150 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 298386011151 active site 298386011152 P-loop; other site 298386011153 phosphorylation site [posttranslational modification] 298386011154 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 298386011155 active site 298386011156 phosphorylation site [posttranslational modification] 298386011157 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 298386011158 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 298386011159 intersubunit interface [polypeptide binding]; other site 298386011160 active site 298386011161 Zn2+ binding site [ion binding]; other site 298386011162 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 298386011163 active site 298386011164 dimer interface [polypeptide binding]; other site 298386011165 magnesium binding site [ion binding]; other site 298386011166 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 298386011167 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 298386011168 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386011169 catalytic residue [active] 298386011170 isoaspartyl dipeptidase; Provisional; Region: PRK10657 298386011171 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 298386011172 Amidohydrolase family; Region: Amidohydro_3; pfam07969 298386011173 active site 298386011174 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386011175 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 298386011176 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 298386011177 dimer interface [polypeptide binding]; other site 298386011178 active site 298386011179 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 298386011180 substrate binding site [chemical binding]; other site 298386011181 catalytic residue [active] 298386011182 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386011183 Helix-turn-helix domains; Region: HTH; cl00088 298386011184 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386011185 dimerization interface [polypeptide binding]; other site 298386011186 DOMON-like domain of an uncharacterized protein family; Region: DOMON_like_cytochrome; cd09625 298386011187 putative ligand binding site [chemical binding]; other site 298386011188 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 298386011189 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 298386011190 tetramer interface [polypeptide binding]; other site 298386011191 heme binding pocket [chemical binding]; other site 298386011192 NADPH binding site [chemical binding]; other site 298386011193 Integral membrane protein TerC family; Region: TerC; cl10468 298386011194 Transposase; Region: DEDD_Tnp_IS110; pfam01548 298386011195 Winged helix-turn helix; Region: HTH_29; pfam13551 298386011196 Helix-turn-helix domains; Region: HTH; cl00088 298386011197 Integrase core domain; Region: rve; cl01316 298386011198 Integrase core domain; Region: rve_3; cl15866 298386011199 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386011200 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 298386011201 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 298386011202 non-specific DNA binding site [nucleotide binding]; other site 298386011203 salt bridge; other site 298386011204 sequence-specific DNA binding site [nucleotide binding]; other site 298386011205 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386011206 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386011207 Integrase core domain; Region: rve; cl01316 298386011208 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 298386011209 Protein of unknown function (DUF497); Region: DUF497; cl01108 298386011210 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 298386011211 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 298386011212 putative active site [active] 298386011213 putative NTP binding site [chemical binding]; other site 298386011214 putative nucleic acid binding site [nucleotide binding]; other site 298386011215 Integrase core domain; Region: rve; cl01316 298386011216 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 298386011217 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386011218 Integrase core domain; Region: rve; cl01316 298386011219 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 298386011220 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 298386011221 MOSC domain; Region: MOSC; pfam03473 298386011222 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 298386011223 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 298386011224 FAD binding pocket [chemical binding]; other site 298386011225 FAD binding motif [chemical binding]; other site 298386011226 phosphate binding motif [ion binding]; other site 298386011227 beta-alpha-beta structure motif; other site 298386011228 NAD binding pocket [chemical binding]; other site 298386011229 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 298386011230 catalytic loop [active] 298386011231 iron binding site [ion binding]; other site 298386011232 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 298386011233 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 298386011234 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 298386011235 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 298386011236 DXD motif; other site 298386011237 PilZ domain; Region: PilZ; cl01260 298386011238 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 298386011239 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 298386011240 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 298386011241 NAD(P) binding site [chemical binding]; other site 298386011242 catalytic residues [active] 298386011243 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 298386011244 GAF domain; Region: GAF; cl15785 298386011245 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 298386011246 Walker A motif; other site 298386011247 ATP binding site [chemical binding]; other site 298386011248 Walker B motif; other site 298386011249 arginine finger; other site 298386011250 Helix-turn-helix domains; Region: HTH; cl00088 298386011251 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386011252 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 298386011253 Chitin binding domain; Region: Chitin_bind_3; cl03871 298386011254 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 298386011255 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 298386011256 SlyX; Region: SlyX; cl01090 298386011257 Integrase core domain; Region: rve; cl01316 298386011258 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 298386011259 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 298386011260 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 298386011261 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 298386011262 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 298386011263 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 298386011264 CtsZ (cyclic tetrasaccharide-synthesizing enzyme Z) is a bacterial 6-alpha-glucosyltransferase, first identified in Arthrobacter globiformis, that produces cyclic tetrasaccharides together with a closely related enzyme CtsY. CtsZ and CtsY both have a...; Region: GH31_transferase_CtsZ; cd06598 298386011265 putative active site [active] 298386011266 putative catalytic site [active] 298386011267 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 298386011268 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386011269 DNA-binding site [nucleotide binding]; DNA binding site 298386011270 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 298386011271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386011272 homodimer interface [polypeptide binding]; other site 298386011273 catalytic residue [active] 298386011274 LysE type translocator; Region: LysE; cl00565 298386011275 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 298386011276 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 298386011277 Cation transport protein; Region: TrkH; cl10514 298386011278 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 298386011279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386011280 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 298386011281 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 298386011282 active site 298386011283 phosphorylation site [posttranslational modification] 298386011284 intermolecular recognition site; other site 298386011285 dimerization interface [polypeptide binding]; other site 298386011286 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 298386011287 DNA binding site [nucleotide binding] 298386011288 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 298386011289 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 298386011290 dimer interface [polypeptide binding]; other site 298386011291 phosphorylation site [posttranslational modification] 298386011292 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 298386011293 ATP binding site [chemical binding]; other site 298386011294 Mg2+ binding site [ion binding]; other site 298386011295 G-X-G motif; other site 298386011296 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 298386011297 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 298386011298 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 298386011299 putative [Fe4-S4] binding site [ion binding]; other site 298386011300 putative molybdopterin cofactor binding site [chemical binding]; other site 298386011301 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 298386011302 putative molybdopterin cofactor binding site; other site 298386011303 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 298386011304 ferredoxin-type protein; Provisional; Region: PRK10194 298386011305 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 298386011306 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 298386011307 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 298386011308 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386011309 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 298386011310 EamA-like transporter family; Region: EamA; cl01037 298386011311 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 298386011312 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 298386011313 catalytic residues [active] 298386011314 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 298386011315 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386011316 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 298386011317 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 298386011318 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386011319 Coenzyme A binding pocket [chemical binding]; other site 298386011320 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386011321 Integrase core domain; Region: rve; cl01316 298386011322 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 298386011323 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 298386011324 Integrase core domain; Region: rve; cl01316 298386011325 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 298386011326 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 298386011327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386011328 NAD(P) binding site [chemical binding]; other site 298386011329 active site 298386011330 Phasin protein; Region: Phasin_2; cl11491 298386011331 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 298386011332 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 298386011333 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 298386011334 dimer interface [polypeptide binding]; other site 298386011335 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 298386011336 active site 298386011337 trimer interface [polypeptide binding]; other site 298386011338 allosteric site; other site 298386011339 active site lid [active] 298386011340 hexamer (dimer of trimers) interface [polypeptide binding]; other site 298386011341 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 298386011342 Mannitol repressor; Region: MtlR; cl11450 298386011343 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 298386011344 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 298386011345 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 298386011346 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 298386011347 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386011348 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 298386011349 active site 298386011350 P-loop; other site 298386011351 phosphorylation site [posttranslational modification] 298386011352 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 298386011353 active site 298386011354 phosphorylation site [posttranslational modification] 298386011355 AAA domain; Region: AAA_32; pfam13654 298386011356 ATP-dependent protease Lon; Provisional; Region: PRK13765 298386011357 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 298386011358 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386011359 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386011360 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386011361 dimer interface [polypeptide binding]; other site 298386011362 putative CheW interface [polypeptide binding]; other site 298386011363 aromatic amino acid exporter; Provisional; Region: PRK11689 298386011364 CHASE3 domain; Region: CHASE3; cl05000 298386011365 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386011366 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386011367 dimer interface [polypeptide binding]; other site 298386011368 putative CheW interface [polypeptide binding]; other site 298386011369 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 298386011370 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 298386011371 Walker A/P-loop; other site 298386011372 ATP binding site [chemical binding]; other site 298386011373 Q-loop/lid; other site 298386011374 ABC transporter signature motif; other site 298386011375 Walker B; other site 298386011376 D-loop; other site 298386011377 H-loop/switch region; other site 298386011378 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 298386011379 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 298386011380 FtsX-like permease family; Region: FtsX; cl15850 298386011381 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 298386011382 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 298386011383 FtsX-like permease family; Region: FtsX; cl15850 298386011384 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 298386011385 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 298386011386 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 298386011387 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 298386011388 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 298386011389 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 298386011390 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386011391 Walker A/P-loop; other site 298386011392 ATP binding site [chemical binding]; other site 298386011393 Q-loop/lid; other site 298386011394 ABC transporter signature motif; other site 298386011395 Walker B; other site 298386011396 D-loop; other site 298386011397 H-loop/switch region; other site 298386011398 TOBE domain; Region: TOBE_2; cl01440 298386011399 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 298386011400 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386011401 dimer interface [polypeptide binding]; other site 298386011402 conserved gate region; other site 298386011403 putative PBP binding loops; other site 298386011404 ABC-ATPase subunit interface; other site 298386011405 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386011406 dimer interface [polypeptide binding]; other site 298386011407 conserved gate region; other site 298386011408 putative PBP binding loops; other site 298386011409 ABC-ATPase subunit interface; other site 298386011410 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 298386011411 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 298386011412 regulatory protein UhpC; Provisional; Region: PRK11663 298386011413 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 298386011414 putative substrate translocation pore; other site 298386011415 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 298386011416 MASE1; Region: MASE1; pfam05231 298386011417 Histidine kinase; Region: HisKA_3; pfam07730 298386011418 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 298386011419 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 298386011420 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 298386011421 active site 298386011422 phosphorylation site [posttranslational modification] 298386011423 intermolecular recognition site; other site 298386011424 dimerization interface [polypeptide binding]; other site 298386011425 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 298386011426 DNA binding residues [nucleotide binding] 298386011427 dimerization interface [polypeptide binding]; other site 298386011428 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 298386011429 Cache domain; Region: Cache_1; pfam02743 298386011430 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 298386011431 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386011432 dimerization interface [polypeptide binding]; other site 298386011433 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386011434 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386011435 dimer interface [polypeptide binding]; other site 298386011436 putative CheW interface [polypeptide binding]; other site 298386011437 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 298386011438 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 298386011439 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386011440 catalytic residue [active] 298386011441 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 298386011442 DNA-binding site [nucleotide binding]; DNA binding site 298386011443 RNA-binding motif; other site 298386011444 GTPase RsgA; Reviewed; Region: PRK01889 298386011445 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 298386011446 GTPase/Zn-binding domain interface [polypeptide binding]; other site 298386011447 GTP/Mg2+ binding site [chemical binding]; other site 298386011448 G4 box; other site 298386011449 G5 box; other site 298386011450 G1 box; other site 298386011451 Switch I region; other site 298386011452 G2 box; other site 298386011453 G3 box; other site 298386011454 Switch II region; other site 298386011455 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 298386011456 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 298386011457 Cytochrome c; Region: Cytochrom_C; cl11414 298386011458 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 298386011459 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 298386011460 D-pathway; other site 298386011461 Low-spin heme binding site [chemical binding]; other site 298386011462 Putative water exit pathway; other site 298386011463 Binuclear center (active site) [active] 298386011464 K-pathway; other site 298386011465 Putative proton exit pathway; other site 298386011466 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 298386011467 Subunit I/III interface [polypeptide binding]; other site 298386011468 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 298386011469 Subunit I/III interface [polypeptide binding]; other site 298386011470 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 298386011471 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 298386011472 Zn2+ binding site [ion binding]; other site 298386011473 Mg2+ binding site [ion binding]; other site 298386011474 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 298386011475 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 298386011476 malate dehydrogenase; Provisional; Region: PRK13529 298386011477 Malic enzyme, N-terminal domain; Region: malic; pfam00390 298386011478 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 298386011479 NAD(P) binding site [chemical binding]; other site 298386011480 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 298386011481 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 298386011482 active site 298386011483 HIGH motif; other site 298386011484 dimer interface [polypeptide binding]; other site 298386011485 KMSKS motif; other site 298386011486 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 298386011487 YceI-like domain; Region: YceI; cl01001 298386011488 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 298386011489 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 298386011490 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 298386011491 fumarate hydratase; Reviewed; Region: fumC; PRK00485 298386011492 Class II fumarases; Region: Fumarase_classII; cd01362 298386011493 active site 298386011494 tetramer interface [polypeptide binding]; other site 298386011495 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 298386011496 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like3; cd05668 298386011497 metal binding site [ion binding]; metal-binding site 298386011498 putative dimer interface [polypeptide binding]; other site 298386011499 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac1_AmyA; cd11315 298386011500 active site 298386011501 Ca binding site [ion binding]; other site 298386011502 catalytic site [active] 298386011503 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 298386011504 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 298386011505 ligand binding site; other site 298386011506 oligomer interface; other site 298386011507 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 298386011508 dimer interface [polypeptide binding]; other site 298386011509 N-terminal domain interface [polypeptide binding]; other site 298386011510 sulfate 1 binding site; other site 298386011511 glycogen synthase; Provisional; Region: glgA; PRK00654 298386011512 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 298386011513 ADP-binding pocket [chemical binding]; other site 298386011514 homodimer interface [polypeptide binding]; other site 298386011515 Cache domain; Region: Cache_1; pfam02743 298386011516 sensor protein RstB; Provisional; Region: PRK10604 298386011517 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386011518 dimerization interface [polypeptide binding]; other site 298386011519 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386011520 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386011521 dimer interface [polypeptide binding]; other site 298386011522 putative CheW interface [polypeptide binding]; other site 298386011523 Helix-turn-helix domains; Region: HTH; cl00088 298386011524 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386011525 dimerization interface [polypeptide binding]; other site 298386011526 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 298386011527 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 298386011528 Ca binding site [ion binding]; other site 298386011529 active site 298386011530 catalytic site [active] 298386011531 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 298386011532 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 298386011533 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 298386011534 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 298386011535 active site 298386011536 catalytic site [active] 298386011537 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 298386011538 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 298386011539 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 298386011540 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 298386011541 active site 298386011542 catalytic site [active] 298386011543 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 298386011544 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 298386011545 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 298386011546 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 298386011547 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 298386011548 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 298386011549 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 298386011550 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 298386011551 Walker A/P-loop; other site 298386011552 ATP binding site [chemical binding]; other site 298386011553 Q-loop/lid; other site 298386011554 ABC transporter signature motif; other site 298386011555 Walker B; other site 298386011556 D-loop; other site 298386011557 H-loop/switch region; other site 298386011558 TOBE domain; Region: TOBE_2; cl01440 298386011559 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 298386011560 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 298386011561 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386011562 dimer interface [polypeptide binding]; other site 298386011563 conserved gate region; other site 298386011564 putative PBP binding loops; other site 298386011565 ABC-ATPase subunit interface; other site 298386011566 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 298386011567 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386011568 dimer interface [polypeptide binding]; other site 298386011569 conserved gate region; other site 298386011570 putative PBP binding loops; other site 298386011571 ABC-ATPase subunit interface; other site 298386011572 D-galactonate transporter; Region: 2A0114; TIGR00893 298386011573 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386011574 metal binding site [ion binding]; metal-binding site 298386011575 active site 298386011576 I-site; other site 298386011577 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 298386011578 exoribonuclease II; Provisional; Region: PRK05054 298386011579 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 298386011580 RNB domain; Region: RNB; pfam00773 298386011581 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 298386011582 DEAD-like helicases superfamily; Region: DEXDc; smart00487 298386011583 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 298386011584 ATP binding site [chemical binding]; other site 298386011585 Mg++ binding site [ion binding]; other site 298386011586 motif III; other site 298386011587 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 298386011588 nucleotide binding region [chemical binding]; other site 298386011589 ATP-binding site [chemical binding]; other site 298386011590 DbpA RNA binding domain; Region: DbpA; pfam03880 298386011591 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 298386011592 metal binding triad [ion binding]; metal-binding site 298386011593 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386011594 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 298386011595 metal binding triad [ion binding]; metal-binding site 298386011596 HopJ type III effector protein; Region: HopJ; pfam08888 298386011597 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 298386011598 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 298386011599 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_C39G; cd02423 298386011600 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 298386011601 putative active site [active] 298386011602 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 298386011603 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 298386011604 Walker A motif; other site 298386011605 ATP binding site [chemical binding]; other site 298386011606 Walker B motif; other site 298386011607 arginine finger; other site 298386011608 Helix-turn-helix domains; Region: HTH; cl00088 298386011609 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 298386011610 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 298386011611 substrate binding pocket [chemical binding]; other site 298386011612 membrane-bound complex binding site; other site 298386011613 hinge residues; other site 298386011614 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 298386011615 N-acetyl-D-glucosamine binding site [chemical binding]; other site 298386011616 catalytic residue [active] 298386011617 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 298386011618 ATP cone domain; Region: ATP-cone; pfam03477 298386011619 Class III ribonucleotide reductase; Region: RNR_III; cd01675 298386011620 effector binding site; other site 298386011621 active site 298386011622 Zn binding site [ion binding]; other site 298386011623 glycine loop; other site 298386011624 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 298386011625 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 298386011626 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 298386011627 Ceramidase; Region: Ceramidase; pfam05875 298386011628 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 298386011629 heme-binding site [chemical binding]; other site 298386011630 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 298386011631 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 298386011632 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 298386011633 Helix-turn-helix domains; Region: HTH; cl00088 298386011634 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 298386011635 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 298386011636 Thioredoxin; Region: Thioredoxin_5; pfam13743 298386011637 catalytic residues [active] 298386011638 Integrase core domain; Region: rve; cl01316 298386011639 Protein of unknown function (DUF465); Region: DUF465; cl01070 298386011640 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_19; cd07262 298386011641 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 298386011642 cystathionine beta-lyase; Provisional; Region: PRK09028 298386011643 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 298386011644 homodimer interface [polypeptide binding]; other site 298386011645 substrate-cofactor binding pocket; other site 298386011646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386011647 catalytic residue [active] 298386011648 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 298386011649 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 298386011650 DXD motif; other site 298386011651 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 298386011652 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 298386011653 putative active site [active] 298386011654 putative metal binding site [ion binding]; other site 298386011655 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 298386011656 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386011657 Helix-turn-helix domains; Region: HTH; cl00088 298386011658 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386011659 putative effector binding pocket; other site 298386011660 dimerization interface [polypeptide binding]; other site 298386011661 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 298386011662 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 298386011663 putative substrate translocation pore; other site 298386011664 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 298386011665 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 298386011666 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 298386011667 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 298386011668 PYR/PP interface [polypeptide binding]; other site 298386011669 dimer interface [polypeptide binding]; other site 298386011670 TPP binding site [chemical binding]; other site 298386011671 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 298386011672 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 298386011673 TPP-binding site; other site 298386011674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386011675 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 298386011676 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 298386011677 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 298386011678 substrate binding site [chemical binding]; other site 298386011679 ATP binding site [chemical binding]; other site 298386011680 KduI/IolB family; Region: KduI; cl01508 298386011681 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 298386011682 hypothetical protein; Provisional; Region: PRK08185 298386011683 intersubunit interface [polypeptide binding]; other site 298386011684 active site 298386011685 zinc binding site [ion binding]; other site 298386011686 Na+ binding site [ion binding]; other site 298386011687 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 298386011688 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 298386011689 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 298386011690 putative active site [active] 298386011691 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 298386011692 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 298386011693 DNA interaction; other site 298386011694 Metal-binding active site; metal-binding site 298386011695 KduI/IolB family; Region: KduI; cl01508 298386011696 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 298386011697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386011698 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 298386011699 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 298386011700 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 298386011701 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 298386011702 putative active site [active] 298386011703 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 298386011704 TM-ABC transporter signature motif; other site 298386011705 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 298386011706 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 298386011707 Walker A/P-loop; other site 298386011708 ATP binding site [chemical binding]; other site 298386011709 Q-loop/lid; other site 298386011710 ABC transporter signature motif; other site 298386011711 Walker B; other site 298386011712 D-loop; other site 298386011713 H-loop/switch region; other site 298386011714 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 298386011715 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 298386011716 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 298386011717 putative ligand binding site [chemical binding]; other site 298386011718 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 298386011719 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 298386011720 substrate binding site [chemical binding]; other site 298386011721 ATP binding site [chemical binding]; other site 298386011722 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 298386011723 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 298386011724 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 298386011725 PYR/PP interface [polypeptide binding]; other site 298386011726 dimer interface [polypeptide binding]; other site 298386011727 TPP binding site [chemical binding]; other site 298386011728 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 298386011729 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 298386011730 TPP-binding site; other site 298386011731 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 298386011732 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 298386011733 DNA interaction; other site 298386011734 Metal-binding active site; metal-binding site 298386011735 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 298386011736 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 298386011737 tetrameric interface [polypeptide binding]; other site 298386011738 NAD binding site [chemical binding]; other site 298386011739 catalytic residues [active] 298386011740 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 298386011741 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 298386011742 maltose O-acetyltransferase; Provisional; Region: PRK10092 298386011743 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 298386011744 active site 298386011745 substrate binding site [chemical binding]; other site 298386011746 trimer interface [polypeptide binding]; other site 298386011747 CoA binding site [chemical binding]; other site 298386011748 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 298386011749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386011750 Protein of unknown function (DUF419); Region: DUF419; cl15265 298386011751 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 298386011752 PAS domain; Region: PAS_9; pfam13426 298386011753 putative active site [active] 298386011754 heme pocket [chemical binding]; other site 298386011755 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386011756 metal binding site [ion binding]; metal-binding site 298386011757 active site 298386011758 I-site; other site 298386011759 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 298386011760 active site residue [active] 298386011761 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 298386011762 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 298386011763 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 298386011764 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 298386011765 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 298386011766 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386011767 Helix-turn-helix domains; Region: HTH; cl00088 298386011768 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 298386011769 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 298386011770 DJ-1 family protein; Region: not_thiJ; TIGR01383 298386011771 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 298386011772 conserved cys residue [active] 298386011773 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 298386011774 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386011775 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 298386011776 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 298386011777 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 298386011778 Protein export membrane protein; Region: SecD_SecF; cl14618 298386011779 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13021 298386011780 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 298386011781 Protein export membrane protein; Region: SecD_SecF; cl14618 298386011782 Protein of unknown function (DUF406); Region: DUF406; cl11449 298386011783 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386011784 NMT1-like family; Region: NMT1_2; cl15260 298386011785 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 298386011786 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 298386011787 DEAD-like helicases superfamily; Region: DEXDc; smart00487 298386011788 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 298386011789 ATP binding site [chemical binding]; other site 298386011790 putative Mg++ binding site [ion binding]; other site 298386011791 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 298386011792 nucleotide binding region [chemical binding]; other site 298386011793 ATP-binding site [chemical binding]; other site 298386011794 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 298386011795 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 298386011796 PAS domain; Region: PAS_9; pfam13426 298386011797 putative active site [active] 298386011798 heme pocket [chemical binding]; other site 298386011799 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 298386011800 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386011801 dimer interface [polypeptide binding]; other site 298386011802 putative CheW interface [polypeptide binding]; other site 298386011803 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 298386011804 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386011805 dimerization interface [polypeptide binding]; other site 298386011806 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386011807 dimer interface [polypeptide binding]; other site 298386011808 putative CheW interface [polypeptide binding]; other site 298386011809 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 298386011810 AMP-binding enzyme; Region: AMP-binding; cl15778 298386011811 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 298386011812 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386011813 Helix-turn-helix domains; Region: HTH; cl00088 298386011814 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 298386011815 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 298386011816 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 298386011817 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 298386011818 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 298386011819 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 298386011820 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 298386011821 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 298386011822 ABC-2 type transporter; Region: ABC2_membrane; cl11417 298386011823 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 298386011824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 298386011825 CreA protein; Region: CreA; pfam05981 298386011826 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386011827 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 298386011828 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386011829 EamA-like transporter family; Region: EamA; cl01037 298386011830 META domain; Region: META; cl01245 298386011831 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 298386011832 DinB superfamily; Region: DinB_2; pfam12867 298386011833 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 298386011834 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 298386011835 S-adenosylmethionine binding site [chemical binding]; other site 298386011836 hydroxyglutarate oxidase; Provisional; Region: PRK11728 298386011837 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386011838 putative acetyltransferase YhhY; Provisional; Region: PRK10140 298386011839 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386011840 Coenzyme A binding pocket [chemical binding]; other site 298386011841 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 298386011842 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 298386011843 putative hydrophobic ligand binding site [chemical binding]; other site 298386011844 protein interface [polypeptide binding]; other site 298386011845 gate; other site 298386011846 Integrase core domain; Region: rve; cl01316 298386011847 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386011848 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 298386011849 substrate binding pocket [chemical binding]; other site 298386011850 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 298386011851 membrane-bound complex binding site; other site 298386011852 hinge residues; other site 298386011853 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386011854 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 298386011855 dimer interface [polypeptide binding]; other site 298386011856 phosphorylation site [posttranslational modification] 298386011857 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 298386011858 ATP binding site [chemical binding]; other site 298386011859 Mg2+ binding site [ion binding]; other site 298386011860 G-X-G motif; other site 298386011861 Response regulator receiver domain; Region: Response_reg; pfam00072 298386011862 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 298386011863 active site 298386011864 phosphorylation site [posttranslational modification] 298386011865 intermolecular recognition site; other site 298386011866 dimerization interface [polypeptide binding]; other site 298386011867 Response regulator receiver domain; Region: Response_reg; pfam00072 298386011868 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 298386011869 active site 298386011870 phosphorylation site [posttranslational modification] 298386011871 intermolecular recognition site; other site 298386011872 dimerization interface [polypeptide binding]; other site 298386011873 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386011874 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 298386011875 active site 298386011876 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 298386011877 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 298386011878 chitin/cellulose binding site [chemical binding]; other site 298386011879 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 298386011880 chitin/cellulose binding site [chemical binding]; other site 298386011881 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 298386011882 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 298386011883 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 298386011884 ABC-ATPase subunit interface; other site 298386011885 dimer interface [polypeptide binding]; other site 298386011886 putative PBP binding regions; other site 298386011887 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 298386011888 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 298386011889 metal binding site [ion binding]; metal-binding site 298386011890 High-affinity nickel-transport protein; Region: NicO; cl00964 298386011891 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 298386011892 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386011893 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 298386011894 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 298386011895 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386011896 phage Epsilon15 298386011897 integrase; Provisional; Region: PRK09692 298386011898 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 298386011899 active site 298386011900 Int/Topo IB signature motif; other site 298386011901 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386011902 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 298386011903 non-specific DNA binding site [nucleotide binding]; other site 298386011904 salt bridge; other site 298386011905 sequence-specific DNA binding site [nucleotide binding]; other site 298386011906 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 298386011907 putative active site [active] 298386011908 putative NTP binding site [chemical binding]; other site 298386011909 putative nucleic acid binding site [nucleotide binding]; other site 298386011910 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 298386011911 RecT family; Region: RecT; cl04285 298386011912 exonuclease VIII; Reviewed; Region: PRK09709 298386011913 exonuclease VIII; Reviewed; Region: PRK09709 298386011914 Terminase small subunit; Region: Terminase_2; cl01513 298386011915 Bacteriophage head to tail connecting protein; Region: Head-tail_con; cl10251 298386011916 putative protease; Region: PHA00666 298386011917 major capsid protein; Region: PHA00665 298386011918 hypothetical protein; Region: PHA00664 298386011919 hypothetical protein; Region: PHA00662 298386011920 hypothetical protein; Region: PHA00661 298386011921 hypothetical protein; Region: PHA00661 298386011922 hypothetical protein; Region: PHA00661 298386011923 hypothetical protein; Region: PHA01733 298386011924 crystallin beta/gamma motif-containing protein; Region: PHA00657 298386011925 hypothetical protein; Provisional; Region: PHA02515 298386011926 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_C39_likeD; cd02421 298386011927 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 298386011928 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 298386011929 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 298386011930 Walker A/P-loop; other site 298386011931 ATP binding site [chemical binding]; other site 298386011932 Q-loop/lid; other site 298386011933 ABC transporter signature motif; other site 298386011934 Walker B; other site 298386011935 D-loop; other site 298386011936 H-loop/switch region; other site 298386011937 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386011938 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386011939 metal binding site [ion binding]; metal-binding site 298386011940 active site 298386011941 I-site; other site 298386011942 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 298386011943 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 298386011944 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386011945 ligand binding site [chemical binding]; other site 298386011946 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 298386011947 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 298386011948 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 298386011949 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 298386011950 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 298386011951 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 298386011952 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 298386011953 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 298386011954 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 298386011955 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 298386011956 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 298386011957 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 298386011958 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 298386011959 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 298386011960 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 298386011961 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 298386011962 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 298386011963 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 298386011964 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 298386011965 Succinylarginine dihydrolase; Region: AstB; cl01511 298386011966 MarC family integral membrane protein; Region: MarC; cl00919 298386011967 Helix-turn-helix domains; Region: HTH; cl00088 298386011968 Winged helix-turn helix; Region: HTH_29; pfam13551 298386011969 Winged helix-turn helix; Region: HTH_33; pfam13592 298386011970 Integrase core domain; Region: rve; cl01316 298386011971 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 298386011972 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 298386011973 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 298386011974 putative metal binding site [ion binding]; other site 298386011975 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 298386011976 FMN binding site [chemical binding]; other site 298386011977 active site 298386011978 substrate binding site [chemical binding]; other site 298386011979 catalytic residue [active] 298386011980 Helix-turn-helix domains; Region: HTH; cl00088 298386011981 transcriptional activator TtdR; Provisional; Region: PRK09801 298386011982 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386011983 putative effector binding pocket; other site 298386011984 dimerization interface [polypeptide binding]; other site 298386011985 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 298386011986 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 298386011987 binding surface 298386011988 TPR motif; other site 298386011989 TPR repeat; Region: TPR_11; pfam13414 298386011990 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 298386011991 binding surface 298386011992 TPR motif; other site 298386011993 Tetratricopeptide repeat; Region: TPR_12; pfam13424 298386011994 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 298386011995 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 298386011996 Type II/IV secretion system protein; Region: T2SE; pfam00437 298386011997 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 298386011998 ATP binding site [chemical binding]; other site 298386011999 Walker A motif; other site 298386012000 hexamer interface [polypeptide binding]; other site 298386012001 Walker B motif; other site 298386012002 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 298386012003 active site 298386012004 phosphorylation site [posttranslational modification] 298386012005 intermolecular recognition site; other site 298386012006 dimerization interface [polypeptide binding]; other site 298386012007 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 298386012008 AAA domain; Region: AAA_31; pfam13614 298386012009 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 298386012010 TadE-like protein; Region: TadE; cl10688 298386012011 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 298386012012 TadE-like protein; Region: TadE; cl10688 298386012013 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 298386012014 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386012015 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 298386012016 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 298386012017 BON domain; Region: BON; cl02771 298386012018 SAF domain; Region: SAF; cl00555 298386012019 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]; Region: CDC6; COG1474 298386012020 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386012021 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 298386012022 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 298386012023 active site 298386012024 substrate binding site [chemical binding]; other site 298386012025 metal binding site [ion binding]; metal-binding site 298386012026 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 298386012027 Transglycosylase; Region: Transgly; cl07896 298386012028 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 298386012029 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_27; cd04686 298386012030 nudix motif; other site 298386012031 PAAR motif; Region: PAAR_motif; cl15808 298386012032 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 298386012033 Integrase core domain; Region: rve; cl01316 298386012034 YceI-like domain; Region: YceI; cl01001 298386012035 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 298386012036 Transposase; Region: DEDD_Tnp_IS110; pfam01548 298386012037 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 298386012038 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 298386012039 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 298386012040 hypothetical protein; Provisional; Region: yieM; PRK10997 298386012041 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 298386012042 metal ion-dependent adhesion site (MIDAS); other site 298386012043 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386012044 MoxR-like ATPases [General function prediction only]; Region: COG0714 298386012045 TIR domain; Region: TIR_2; cl15770 298386012046 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 298386012047 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386012048 metal binding site [ion binding]; metal-binding site 298386012049 active site 298386012050 I-site; other site 298386012051 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 298386012052 Protein of unknown function DUF45; Region: DUF45; cl00636 298386012053 Phospholipid methyltransferase; Region: PEMT; cl00763 298386012054 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 298386012055 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 298386012056 tetramerization interface [polypeptide binding]; other site 298386012057 NAD(P) binding site [chemical binding]; other site 298386012058 catalytic residues [active] 298386012059 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 298386012060 MPT binding site; other site 298386012061 trimer interface [polypeptide binding]; other site 298386012062 outer membrane protein A; Reviewed; Region: PRK10808 298386012063 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386012064 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386012065 ligand binding site [chemical binding]; other site 298386012066 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 298386012067 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 298386012068 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 298386012069 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 298386012070 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 298386012071 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 298386012072 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 298386012073 4Fe-4S binding domain; Region: Fer4_5; pfam12801 298386012074 4Fe-4S binding domain; Region: Fer4_5; pfam12801 298386012075 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 298386012076 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 298386012077 pyruvate ferredoxin oxidoreductase subunit gamma/delta; Provisional; Region: PRK14028 298386012078 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 298386012079 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 298386012080 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 298386012081 [4Fe-4S] binding site [ion binding]; other site 298386012082 molybdopterin cofactor binding site; other site 298386012083 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 298386012084 molybdopterin cofactor binding site; other site 298386012085 Cytochrome c; Region: Cytochrom_C; cl11414 298386012086 Cytochrome c; Region: Cytochrom_C; cl11414 298386012087 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 298386012088 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 298386012089 catalytic residues [active] 298386012090 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 298386012091 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386012092 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386012093 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386012094 dimer interface [polypeptide binding]; other site 298386012095 putative CheW interface [polypeptide binding]; other site 298386012096 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 298386012097 Integrase core domain; Region: rve; cl01316 298386012098 DDE domain; Region: DDE_Tnp_IS240; pfam13610 298386012099 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 298386012100 active site 298386012101 phosphorylation site [posttranslational modification] 298386012102 intermolecular recognition site; other site 298386012103 dimerization interface [polypeptide binding]; other site 298386012104 Tetratricopeptide repeat; Region: TPR_16; pfam13432 298386012105 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 298386012106 TPR motif; other site 298386012107 Tetratricopeptide repeat; Region: TPR_16; pfam13432 298386012108 binding surface 298386012109 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386012110 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386012111 Winged helix-turn helix; Region: HTH_29; pfam13551 298386012112 Winged helix-turn helix; Region: HTH_33; pfam13592 298386012113 Peptidase family M48; Region: Peptidase_M48; cl12018 298386012114 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 298386012115 CoenzymeA binding site [chemical binding]; other site 298386012116 subunit interaction site [polypeptide binding]; other site 298386012117 PHB binding site; other site 298386012118 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 298386012119 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 298386012120 active site 298386012121 Phosphotransferase enzyme family; Region: APH; pfam01636 298386012122 ATP binding site [chemical binding]; other site 298386012123 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 298386012124 active site 298386012125 ATP binding site [chemical binding]; other site 298386012126 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 298386012127 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 298386012128 Cytochrome C'; Region: Cytochrom_C_2; cl01610 298386012129 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 298386012130 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 298386012131 Integrase core domain; Region: rve; cl01316 298386012132 Helix-turn-helix domains; Region: HTH; cl00088 298386012133 DNA binding site [nucleotide binding] 298386012134 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 298386012135 Response regulator receiver domain; Region: Response_reg; pfam00072 298386012136 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 298386012137 active site 298386012138 phosphorylation site [posttranslational modification] 298386012139 intermolecular recognition site; other site 298386012140 dimerization interface [polypeptide binding]; other site 298386012141 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386012142 metal binding site [ion binding]; metal-binding site 298386012143 active site 298386012144 I-site; other site 298386012145 hypothetical protein; Provisional; Region: PRK11239 298386012146 Protein of unknown function, DUF480; Region: DUF480; cl01209 298386012147 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 298386012148 GIY-YIG motif/motif A; other site 298386012149 putative active site [active] 298386012150 putative metal binding site [ion binding]; other site 298386012151 YaeQ protein; Region: YaeQ; cl01913 298386012152 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 298386012153 putative active site [active] 298386012154 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 298386012155 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 298386012156 C-terminal domain interface [polypeptide binding]; other site 298386012157 GSH binding site (G-site) [chemical binding]; other site 298386012158 dimer interface [polypeptide binding]; other site 298386012159 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 298386012160 N-terminal domain interface [polypeptide binding]; other site 298386012161 putative dimer interface [polypeptide binding]; other site 298386012162 active site 298386012163 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 298386012164 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 298386012165 putative C-terminal domain interface [polypeptide binding]; other site 298386012166 putative GSH binding site (G-site) [chemical binding]; other site 298386012167 putative dimer interface [polypeptide binding]; other site 298386012168 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 298386012169 putative N-terminal domain interface [polypeptide binding]; other site 298386012170 putative dimer interface [polypeptide binding]; other site 298386012171 putative substrate binding pocket (H-site) [chemical binding]; other site 298386012172 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386012173 Helix-turn-helix domains; Region: HTH; cl00088 298386012174 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 298386012175 NMT1/THI5 like; Region: NMT1; pfam09084 298386012176 NMT1-like family; Region: NMT1_2; cl15260 298386012177 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386012178 dimer interface [polypeptide binding]; other site 298386012179 conserved gate region; other site 298386012180 putative PBP binding loops; other site 298386012181 ABC-ATPase subunit interface; other site 298386012182 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386012183 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 298386012184 Walker A/P-loop; other site 298386012185 ATP binding site [chemical binding]; other site 298386012186 Q-loop/lid; other site 298386012187 ABC transporter signature motif; other site 298386012188 Walker B; other site 298386012189 D-loop; other site 298386012190 H-loop/switch region; other site 298386012191 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 298386012192 dimer interface [polypeptide binding]; other site 298386012193 substrate binding site [chemical binding]; other site 298386012194 ATP binding site [chemical binding]; other site 298386012195 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 298386012196 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 298386012197 PhnA protein; Region: PhnA; pfam03831 298386012198 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 298386012199 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 298386012200 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 298386012201 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386012202 homodimer interface [polypeptide binding]; other site 298386012203 catalytic residue [active] 298386012204 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 298386012205 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 298386012206 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 298386012207 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 298386012208 Gram-negative bacterial tonB protein; Region: TonB; cl10048 298386012209 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 298386012210 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 298386012211 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 298386012212 active site 298386012213 phosphorylation site [posttranslational modification] 298386012214 intermolecular recognition site; other site 298386012215 dimerization interface [polypeptide binding]; other site 298386012216 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 298386012217 DNA binding site [nucleotide binding] 298386012218 two-component sensor protein; Provisional; Region: cpxA; PRK09470 298386012219 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386012220 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 298386012221 dimer interface [polypeptide binding]; other site 298386012222 phosphorylation site [posttranslational modification] 298386012223 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 298386012224 ATP binding site [chemical binding]; other site 298386012225 Mg2+ binding site [ion binding]; other site 298386012226 G-X-G motif; other site 298386012227 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 298386012228 Peptidase M3-like family, a zincin metallopeptidase, includes M3 and M32 families; Region: M3_like; cd06258 298386012229 active site 298386012230 Zn binding site [ion binding]; other site 298386012231 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 298386012232 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386012233 Glycosyl hydrolases related to GH101 family; Region: GHL; pfam11308 298386012234 Protein of unknown function (DUF2861); Region: DUF2861; pfam11060 298386012235 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 298386012236 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 298386012237 active site 298386012238 phosphorylation site [posttranslational modification] 298386012239 intermolecular recognition site; other site 298386012240 dimerization interface [polypeptide binding]; other site 298386012241 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 298386012242 DNA binding site [nucleotide binding] 298386012243 Domain of unknown function (DUF3404); Region: DUF3404; pfam11884 298386012244 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 298386012245 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 298386012246 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 298386012247 ATP binding site [chemical binding]; other site 298386012248 Mg2+ binding site [ion binding]; other site 298386012249 G-X-G motif; other site 298386012250 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 298386012251 active site 298386012252 Zn binding site [ion binding]; other site 298386012253 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 298386012254 Interdomain contacts; other site 298386012255 Cytokine receptor motif; other site 298386012256 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386012257 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 298386012258 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386012259 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 298386012260 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 298386012261 metal binding site [ion binding]; metal-binding site 298386012262 dimer interface [polypeptide binding]; other site 298386012263 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386012264 Helix-turn-helix domains; Region: HTH; cl00088 298386012265 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 298386012266 dimerization interface [polypeptide binding]; other site 298386012267 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 298386012268 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 298386012269 Walker A/P-loop; other site 298386012270 ATP binding site [chemical binding]; other site 298386012271 Q-loop/lid; other site 298386012272 ABC transporter signature motif; other site 298386012273 Walker B; other site 298386012274 D-loop; other site 298386012275 H-loop/switch region; other site 298386012276 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 298386012277 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386012278 dimer interface [polypeptide binding]; other site 298386012279 conserved gate region; other site 298386012280 putative PBP binding loops; other site 298386012281 ABC-ATPase subunit interface; other site 298386012282 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386012283 dimer interface [polypeptide binding]; other site 298386012284 conserved gate region; other site 298386012285 putative PBP binding loops; other site 298386012286 ABC-ATPase subunit interface; other site 298386012287 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 298386012288 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 298386012289 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 298386012290 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 298386012291 ligand binding site [chemical binding]; other site 298386012292 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 298386012293 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 298386012294 Walker A/P-loop; other site 298386012295 ATP binding site [chemical binding]; other site 298386012296 Q-loop/lid; other site 298386012297 ABC transporter signature motif; other site 298386012298 Walker B; other site 298386012299 D-loop; other site 298386012300 H-loop/switch region; other site 298386012301 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 298386012302 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 298386012303 TM-ABC transporter signature motif; other site 298386012304 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 298386012305 TM-ABC transporter signature motif; other site 298386012306 FGGY-family pentulose kinase; Region: 5C_CHO_kinase; TIGR01315 298386012307 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 298386012308 N- and C-terminal domain interface [polypeptide binding]; other site 298386012309 putative active site [active] 298386012310 putative MgATP binding site [chemical binding]; other site 298386012311 catalytic site [active] 298386012312 metal binding site [ion binding]; metal-binding site 298386012313 carbohydrate binding site [chemical binding]; other site 298386012314 putative homodimer interface [polypeptide binding]; other site 298386012315 CHASE domain; Region: CHASE; cl01369 298386012316 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386012317 metal binding site [ion binding]; metal-binding site 298386012318 active site 298386012319 I-site; other site 298386012320 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 298386012321 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 298386012322 Helix-turn-helix domains; Region: HTH; cl00088 298386012323 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 298386012324 substrate binding pocket [chemical binding]; other site 298386012325 dimerization interface [polypeptide binding]; other site 298386012326 Helix-turn-helix domain; Region: HTH_18; pfam12833 298386012327 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386012328 Integrase core domain; Region: rve; cl01316 298386012329 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 298386012330 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386012331 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 298386012332 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 298386012333 FAD binding domain; Region: FAD_binding_4; pfam01565 298386012334 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 298386012335 FAD binding domain; Region: FAD_binding_4; pfam01565 298386012336 Berberine and berberine like; Region: BBE; pfam08031 298386012337 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 298386012338 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 298386012339 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 298386012340 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 298386012341 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 298386012342 Integrase core domain; Region: rve; cl01316 298386012343 SlyX; Region: SlyX; cl01090 298386012344 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 298386012345 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 298386012346 nudix motif; other site 298386012347 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 298386012348 TMAO/DMSO reductase; Reviewed; Region: PRK05363 298386012349 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 298386012350 Moco binding site; other site 298386012351 metal coordination site [ion binding]; other site 298386012352 Fatty acid desaturase; Region: FA_desaturase; pfam00487 298386012353 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 298386012354 Di-iron ligands [ion binding]; other site 298386012355 L,D-transpeptidase; Provisional; Region: PRK10190 298386012356 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 298386012357 putative peptidoglycan binding site; other site 298386012358 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 298386012359 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 298386012360 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 298386012361 Cu(I) binding site [ion binding]; other site 298386012362 Domain of unknown function (DUF368); Region: DUF368; cl00893 298386012363 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 298386012364 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386012365 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 298386012366 dimer interface [polypeptide binding]; other site 298386012367 phosphorylation site [posttranslational modification] 298386012368 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 298386012369 ATP binding site [chemical binding]; other site 298386012370 Mg2+ binding site [ion binding]; other site 298386012371 G-X-G motif; other site 298386012372 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 298386012373 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 298386012374 active site 298386012375 phosphorylation site [posttranslational modification] 298386012376 intermolecular recognition site; other site 298386012377 dimerization interface [polypeptide binding]; other site 298386012378 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 298386012379 DNA binding site [nucleotide binding] 298386012380 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 298386012381 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 298386012382 Ligand binding site; other site 298386012383 Putative Catalytic site; other site 298386012384 DXD motif; other site 298386012385 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 298386012386 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 298386012387 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386012388 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 298386012389 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 298386012390 putative ligand binding site [chemical binding]; other site 298386012391 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386012392 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 298386012393 dimer interface [polypeptide binding]; other site 298386012394 phosphorylation site [posttranslational modification] 298386012395 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 298386012396 ATP binding site [chemical binding]; other site 298386012397 Mg2+ binding site [ion binding]; other site 298386012398 G-X-G motif; other site 298386012399 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 298386012400 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 298386012401 active site 298386012402 phosphorylation site [posttranslational modification] 298386012403 intermolecular recognition site; other site 298386012404 dimerization interface [polypeptide binding]; other site 298386012405 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 298386012406 DNA binding site [nucleotide binding] 298386012407 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 298386012408 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386012409 ligand binding site [chemical binding]; other site 298386012410 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 298386012411 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 298386012412 active site 298386012413 phosphorylation site [posttranslational modification] 298386012414 intermolecular recognition site; other site 298386012415 dimerization interface [polypeptide binding]; other site 298386012416 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 298386012417 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 298386012418 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 298386012419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386012420 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386012421 4Fe-4S binding domain; Region: Fer4; cl02805 298386012422 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 298386012423 4Fe-4S binding domain; Region: Fer4; cl02805 298386012424 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 298386012425 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 298386012426 [4Fe-4S] binding site [ion binding]; other site 298386012427 molybdopterin cofactor binding site; other site 298386012428 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 298386012429 molybdopterin cofactor binding site; other site 298386012430 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 298386012431 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 298386012432 active site 298386012433 dimer interface [polypeptide binding]; other site 298386012434 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386012435 Helix-turn-helix domains; Region: HTH; cl00088 298386012436 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386012437 putative effector binding pocket; other site 298386012438 dimerization interface [polypeptide binding]; other site 298386012439 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 298386012440 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 298386012441 putative substrate translocation pore; other site 298386012442 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 298386012443 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 298386012444 Isochorismatase family; Region: Isochorismatase; pfam00857 298386012445 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 298386012446 catalytic triad [active] 298386012447 dimer interface [polypeptide binding]; other site 298386012448 conserved cis-peptide bond; other site 298386012449 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386012450 Helix-turn-helix domains; Region: HTH; cl00088 298386012451 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 298386012452 dimerization interface [polypeptide binding]; other site 298386012453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386012454 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 298386012455 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386012456 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 298386012457 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 298386012458 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 298386012459 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386012460 Walker A/P-loop; other site 298386012461 ATP binding site [chemical binding]; other site 298386012462 ABC transporter signature motif; other site 298386012463 Walker B; other site 298386012464 D-loop; other site 298386012465 H-loop/switch region; other site 298386012466 NMT1-like family; Region: NMT1_2; cl15260 298386012467 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 298386012468 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 298386012469 putative active site [active] 298386012470 putative metal binding residues [ion binding]; other site 298386012471 signature motif; other site 298386012472 putative triphosphate binding site [ion binding]; other site 298386012473 dimer interface [polypeptide binding]; other site 298386012474 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 298386012475 peptidase T-like protein; Region: PepT-like; TIGR01883 298386012476 metal binding site [ion binding]; metal-binding site 298386012477 putative dimer interface [polypeptide binding]; other site 298386012478 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 298386012479 RF-1 domain; Region: RF-1; cl02875 298386012480 Peptidase M14 Aspartoacylase (ASPA) subfamily; Region: M14_ASPA; cd06909 298386012481 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 298386012482 active site 298386012483 Zn binding site [ion binding]; other site 298386012484 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 298386012485 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_10; cd07251 298386012486 EamA-like transporter family; Region: EamA; cl01037 298386012487 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 298386012488 MatE; Region: MatE; cl10513 298386012489 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 298386012490 dimer interface [polypeptide binding]; other site 298386012491 FMN binding site [chemical binding]; other site 298386012492 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 298386012493 dimer interface [polypeptide binding]; other site 298386012494 transcriptional regulator SgrR; Provisional; Region: PRK13626 298386012495 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 298386012496 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 298386012497 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 298386012498 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 298386012499 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 298386012500 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 298386012501 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 298386012502 transmembrane helices; other site 298386012503 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 298386012504 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 298386012505 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 298386012506 tetramer interface [polypeptide binding]; other site 298386012507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386012508 catalytic residue [active] 298386012509 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 298386012510 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 298386012511 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 298386012512 putative active site [active] 298386012513 putative nucleic acid binding site [nucleotide binding]; other site 298386012514 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 298386012515 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 298386012516 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 298386012517 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 298386012518 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 298386012519 active site 298386012520 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 298386012521 MatE; Region: MatE; cl10513 298386012522 MatE; Region: MatE; cl10513 298386012523 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 298386012524 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 298386012525 putative active site [active] 298386012526 putative NTP binding site [chemical binding]; other site 298386012527 putative nucleic acid binding site [nucleotide binding]; other site 298386012528 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 298386012529 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 298386012530 putative active site [active] 298386012531 putative catalytic site [active] 298386012532 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 298386012533 Domain of unknown function; Region: DUF331; cl01149 298386012534 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 298386012535 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386012536 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 298386012537 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 298386012538 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386012539 Walker A/P-loop; other site 298386012540 ATP binding site [chemical binding]; other site 298386012541 Q-loop/lid; other site 298386012542 ABC transporter signature motif; other site 298386012543 Walker B; other site 298386012544 D-loop; other site 298386012545 H-loop/switch region; other site 298386012546 protein-export membrane protein SecD; Region: secD; TIGR01129 298386012547 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386012548 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386012549 thioredoxin 2; Provisional; Region: PRK10996 298386012550 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 298386012551 catalytic residues [active] 298386012552 Cation efflux family; Region: Cation_efflux; cl00316 298386012553 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 298386012554 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386012555 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 298386012556 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 298386012557 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 298386012558 Integrase core domain; Region: rve; cl01316 298386012559 Helix-turn-helix domains; Region: HTH; cl00088 298386012560 Winged helix-turn helix; Region: HTH_29; pfam13551 298386012561 Winged helix-turn helix; Region: HTH_33; pfam13592 298386012562 Integrase core domain; Region: rve; cl01316 298386012563 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386012564 Integrase core domain; Region: rve; cl01316 298386012565 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 298386012566 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386012567 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386012568 Integrase core domain; Region: rve; cl01316 298386012569 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 298386012570 Integrase core domain; Region: rve; cl01316 298386012571 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386012572 Integrase core domain; Region: rve; cl01316 298386012573 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 298386012574 Helix-turn-helix domains; Region: HTH; cl00088 298386012575 Winged helix-turn helix; Region: HTH_29; pfam13551 298386012576 Winged helix-turn helix; Region: HTH_33; pfam13592 298386012577 Integrase core domain; Region: rve; cl01316 298386012578 sensor protein PhoQ; Provisional; Region: PRK10815 298386012579 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 298386012580 ATP binding site [chemical binding]; other site 298386012581 Mg2+ binding site [ion binding]; other site 298386012582 G-X-G motif; other site 298386012583 Response regulator receiver domain; Region: Response_reg; pfam00072 298386012584 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 298386012585 active site 298386012586 phosphorylation site [posttranslational modification] 298386012587 intermolecular recognition site; other site 298386012588 dimerization interface [polypeptide binding]; other site 298386012589 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 298386012590 DNA binding site [nucleotide binding] 298386012591 Predicted membrane protein [Function unknown]; Region: COG3212 298386012592 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 298386012593 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 298386012594 FMN-binding domain; Region: FMN_bind; cl01081 298386012595 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 298386012596 4Fe-4S binding domain; Region: Fer4_5; pfam12801 298386012597 4Fe-4S binding domain; Region: Fer4_5; pfam12801 298386012598 nitrous-oxide reductase; Validated; Region: PRK02888 298386012599 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 298386012600 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 298386012601 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 298386012602 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 298386012603 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 298386012604 Walker A/P-loop; other site 298386012605 ATP binding site [chemical binding]; other site 298386012606 Q-loop/lid; other site 298386012607 ABC transporter signature motif; other site 298386012608 Walker B; other site 298386012609 D-loop; other site 298386012610 H-loop/switch region; other site 298386012611 ABC-2 type transporter; Region: ABC2_membrane; cl11417 298386012612 NosL; Region: NosL; cl01769 298386012613 PPIC-type PPIASE domain; Region: Rotamase; cl08278 298386012614 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 298386012615 Helix-turn-helix domains; Region: HTH; cl00088 298386012616 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 298386012617 putative substrate binding pocket [chemical binding]; other site 298386012618 putative dimerization interface [polypeptide binding]; other site 298386012619 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 298386012620 DNA binding site [nucleotide binding] 298386012621 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 298386012622 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 298386012623 catalytic triad [active] 298386012624 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 298386012625 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 298386012626 putative active site [active] 298386012627 metal binding site [ion binding]; metal-binding site 298386012628 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 298386012629 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 298386012630 NAD(P) binding site [chemical binding]; other site 298386012631 catalytic residues [active] 298386012632 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 298386012633 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 298386012634 Cytochrome c; Region: Cytochrom_C; cl11414 298386012635 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 298386012636 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386012637 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 298386012638 putative catalytic site [active] 298386012639 putative metal binding site [ion binding]; other site 298386012640 putative phosphate binding site [ion binding]; other site 298386012641 Protein of unkown function (DUF1881); Region: DUF1881; pfam08964 298386012642 Beta/Gamma crystallin; Region: Crystall; cl02528 298386012643 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 298386012644 active site 298386012645 catalytic site [active] 298386012646 Integrase core domain; Region: rve; cl01316 298386012647 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386012648 Helix-turn-helix domains; Region: HTH; cl00088 298386012649 Winged helix-turn helix; Region: HTH_29; pfam13551 298386012650 Helix-turn-helix domains; Region: HTH; cl00088 298386012651 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 298386012652 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386012653 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 298386012654 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 298386012655 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 298386012656 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 298386012657 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 298386012658 DNA binding site [nucleotide binding] 298386012659 active site 298386012660 Int/Topo IB signature motif; other site 298386012661 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 298386012662 Putative transposase; Region: Y2_Tnp; pfam04986 298386012663 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 298386012664 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 298386012665 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 298386012666 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 298386012667 Protein export membrane protein; Region: SecD_SecF; cl14618 298386012668 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; cd00190 298386012669 active site 298386012670 substrate binding sites [chemical binding]; other site 298386012671 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 298386012672 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 298386012673 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386012674 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 298386012675 Integrase core domain; Region: rve; cl01316 298386012676 3-mercaptopyruvate sulfurtransferase; Region: PLN02723 298386012677 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 298386012678 active site residue [active] 298386012679 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 298386012680 active site residue [active] 298386012681 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 298386012682 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386012683 metal binding site [ion binding]; metal-binding site 298386012684 active site 298386012685 I-site; other site 298386012686 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386012687 Integrase core domain; Region: rve; cl01316 298386012688 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386012689 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 298386012690 substrate binding pocket [chemical binding]; other site 298386012691 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 298386012692 membrane-bound complex binding site; other site 298386012693 hinge residues; other site 298386012694 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 298386012695 dimer interface [polypeptide binding]; other site 298386012696 active site residues [active] 298386012697 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 298386012698 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 298386012699 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 298386012700 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 298386012701 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 298386012702 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 298386012703 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 298386012704 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 298386012705 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 298386012706 putative active site [active] 298386012707 putative metal-binding site [ion binding]; other site 298386012708 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 298386012709 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 298386012710 dimer interface [polypeptide binding]; other site 298386012711 active site 298386012712 metal binding site [ion binding]; metal-binding site 298386012713 glutathione binding site [chemical binding]; other site 298386012714 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 298386012715 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 298386012716 active site 298386012717 metal binding site [ion binding]; metal-binding site 298386012718 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 298386012719 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 298386012720 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 298386012721 Transcriptional activator HlyU; Region: HlyU; cl02273 298386012722 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 298386012723 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 298386012724 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386012725 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 298386012726 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 298386012727 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 298386012728 Domain of unknown function (DUF3404); Region: DUF3404; pfam11884 298386012729 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 298386012730 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 298386012731 dimer interface [polypeptide binding]; other site 298386012732 phosphorylation site [posttranslational modification] 298386012733 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 298386012734 ATP binding site [chemical binding]; other site 298386012735 Mg2+ binding site [ion binding]; other site 298386012736 G-X-G motif; other site 298386012737 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 298386012738 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 298386012739 active site 298386012740 phosphorylation site [posttranslational modification] 298386012741 intermolecular recognition site; other site 298386012742 dimerization interface [polypeptide binding]; other site 298386012743 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 298386012744 DNA binding site [nucleotide binding] 298386012745 Protein of unknown function (DUF2861); Region: DUF2861; pfam11060 298386012746 NnrS protein; Region: NnrS; cl01258 298386012747 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 298386012748 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 298386012749 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 298386012750 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 298386012751 homodimer interface [polypeptide binding]; other site 298386012752 NAD binding pocket [chemical binding]; other site 298386012753 ATP binding pocket [chemical binding]; other site 298386012754 Mg binding site [ion binding]; other site 298386012755 active-site loop [active] 298386012756 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 298386012757 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 298386012758 active site 298386012759 (T/H)XGH motif; other site 298386012760 Cupin domain; Region: Cupin_2; cl09118 298386012761 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386012762 putative acyl-acceptor binding pocket; other site 298386012763 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 298386012764 ligand binding site [chemical binding]; other site 298386012765 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386012766 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 298386012767 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 298386012768 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 298386012769 Helix-turn-helix domains; Region: HTH; cl00088 298386012770 The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; Region: PBP2_HupR; cd08431 298386012771 putative dimerization interface [polypeptide binding]; other site 298386012772 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 298386012773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386012774 CoA-ligase; Region: Ligase_CoA; cl02894 298386012775 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386012776 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 298386012777 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386012778 Integrase core domain; Region: rve; cl01316 298386012779 Helix-turn-helix domains; Region: HTH; cl00088 298386012780 Winged helix-turn helix; Region: HTH_29; pfam13551 298386012781 Winged helix-turn helix; Region: HTH_33; pfam13592 298386012782 Sporulation related domain; Region: SPOR; cl10051 298386012783 maltose O-acetyltransferase; Provisional; Region: PRK10092 298386012784 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 298386012785 active site 298386012786 substrate binding site [chemical binding]; other site 298386012787 trimer interface [polypeptide binding]; other site 298386012788 CoA binding site [chemical binding]; other site 298386012789 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 298386012790 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 298386012791 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386012792 Fic/DOC family; Region: Fic; cl00960 298386012793 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 298386012794 active site 298386012795 DNA binding site [nucleotide binding] 298386012796 Int/Topo IB signature motif; other site 298386012797 Protein of unknown function (DUF3319); Region: DUF3319; pfam11782 298386012798 Protein of unknown function (DUF3319); Region: DUF3319; pfam11782 298386012799 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 298386012800 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 298386012801 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 298386012802 translation initiation factor Sui1; Validated; Region: PRK06824 298386012803 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 298386012804 Predicted RNA interaction site [nucleotide binding]; other site 298386012805 putative binding site; other site 298386012806 Mutations affecting start-site selection; other site 298386012807 Phage protein; Region: DUF3653; pfam12375 298386012808 virion protein; Provisional; Region: V; PHA02564 298386012809 Helix-turn-helix domains; Region: HTH; cl00088 298386012810 Winged helix-turn helix; Region: HTH_29; pfam13551 298386012811 Winged helix-turn helix; Region: HTH_33; pfam13592 298386012812 Integrase core domain; Region: rve; cl01316 298386012813 AAA-like domain; Region: AAA_10; pfam12846 298386012814 HerA helicase [Replication, recombination, and repair]; Region: COG0433 298386012815 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 298386012816 sequence-specific DNA binding site [nucleotide binding]; other site 298386012817 salt bridge; other site 298386012818 Helix-turn-helix domains; Region: HTH; cl00088 298386012819 Winged helix-turn helix; Region: HTH_29; pfam13551 298386012820 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 298386012821 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 298386012822 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 298386012823 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 298386012824 Cupin domain; Region: Cupin_2; cl09118 298386012825 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 298386012826 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 298386012827 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 298386012828 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 298386012829 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 298386012830 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 298386012831 Chromate transporter; Region: Chromate_transp; pfam02417 298386012832 Chromate transporter; Region: Chromate_transp; pfam02417 298386012833 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386012834 Helix-turn-helix domains; Region: HTH; cl00088 298386012835 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386012836 putative effector binding pocket; other site 298386012837 dimerization interface [polypeptide binding]; other site 298386012838 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386012839 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 298386012840 Dicarboxylate transport; Region: DctA-YdbH; cl14674 298386012841 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 298386012842 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 298386012843 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 298386012844 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 298386012845 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 298386012846 active site 298386012847 DNA binding site [nucleotide binding] 298386012848 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 298386012849 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 298386012850 Catalytic site [active] 298386012851 Sporulation related domain; Region: SPOR; cl10051 298386012852 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 298386012853 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 298386012854 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 298386012855 Zn binding site [ion binding]; other site 298386012856 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 298386012857 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 298386012858 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 298386012859 N-terminal plug; other site 298386012860 ligand-binding site [chemical binding]; other site 298386012861 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 298386012862 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 298386012863 multidrug efflux protein NorA; Provisional; Region: PRK00187 298386012864 MatE; Region: MatE; cl10513 298386012865 MatE; Region: MatE; cl10513 298386012866 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 298386012867 Helix-turn-helix domains; Region: HTH; cl00088 298386012868 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 298386012869 dimerization interface [polypeptide binding]; other site 298386012870 helicase 45; Provisional; Region: PTZ00424 298386012871 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 298386012872 ATP binding site [chemical binding]; other site 298386012873 Mg++ binding site [ion binding]; other site 298386012874 motif III; other site 298386012875 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 298386012876 nucleotide binding region [chemical binding]; other site 298386012877 ATP-binding site [chemical binding]; other site 298386012878 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 298386012879 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 298386012880 NAD binding site [chemical binding]; other site 298386012881 homodimer interface [polypeptide binding]; other site 298386012882 active site 298386012883 substrate binding site [chemical binding]; other site 298386012884 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 298386012885 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386012886 metal binding site [ion binding]; metal-binding site 298386012887 active site 298386012888 I-site; other site 298386012889 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 298386012890 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 298386012891 dimer interface [polypeptide binding]; other site 298386012892 ADP-ribose binding site [chemical binding]; other site 298386012893 active site 298386012894 nudix motif; other site 298386012895 metal binding site [ion binding]; metal-binding site 298386012896 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386012897 Integrase core domain; Region: rve; cl01316 298386012898 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 298386012899 TPR motif; other site 298386012900 TPR repeat; Region: TPR_11; pfam13414 298386012901 binding surface 298386012902 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 298386012903 putative active site [active] 298386012904 cobyric acid synthase; Provisional; Region: PRK00784 298386012905 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386012906 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 298386012907 catalytic triad [active] 298386012908 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 298386012909 catalytic core [active] 298386012910 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 298386012911 homotrimer interface [polypeptide binding]; other site 298386012912 Walker A motif; other site 298386012913 GTP binding site [chemical binding]; other site 298386012914 Walker B motif; other site 298386012915 CAAX protease self-immunity; Region: Abi; cl00558 298386012916 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 298386012917 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 298386012918 Protein of unknown function (DUF962); Region: DUF962; cl01879 298386012919 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 298386012920 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 298386012921 putative efflux protein, MATE family; Region: matE; TIGR00797 298386012922 MatE; Region: MatE; cl10513 298386012923 MatE; Region: MatE; cl10513 298386012924 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 298386012925 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 298386012926 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 298386012927 active site 298386012928 motif I; other site 298386012929 motif II; other site 298386012930 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 298386012931 catalytic site [active] 298386012932 active site 298386012933 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 298386012934 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 298386012935 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 298386012936 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 298386012937 ATP binding site [chemical binding]; other site 298386012938 Mg++ binding site [ion binding]; other site 298386012939 motif III; other site 298386012940 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 298386012941 nucleotide binding region [chemical binding]; other site 298386012942 ATP-binding site [chemical binding]; other site 298386012943 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 298386012944 Guanosine kinase-like sugar kinases. Found in bacteria and archaea, the guanosine kinase-like group is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: Guanosine_kinase_like; cd01947 298386012945 substrate binding site [chemical binding]; other site 298386012946 ATP binding site [chemical binding]; other site 298386012947 NMT1-like family; Region: NMT1_2; cl15260 298386012948 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 298386012949 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 298386012950 dimer interface [polypeptide binding]; other site 298386012951 phosphorylation site [posttranslational modification] 298386012952 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 298386012953 ATP binding site [chemical binding]; other site 298386012954 Mg2+ binding site [ion binding]; other site 298386012955 G-X-G motif; other site 298386012956 Response regulator receiver domain; Region: Response_reg; pfam00072 298386012957 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 298386012958 active site 298386012959 phosphorylation site [posttranslational modification] 298386012960 intermolecular recognition site; other site 298386012961 dimerization interface [polypeptide binding]; other site 298386012962 'elongating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP) thioesters as...; Region: elong_cond_enzymes; cd00828 298386012963 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 298386012964 active site 298386012965 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 298386012966 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 298386012967 conserved cys residue [active] 298386012968 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386012969 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386012970 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 298386012971 carbohydrate binding site [chemical binding]; other site 298386012972 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 298386012973 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 298386012974 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 298386012975 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 298386012976 Ca binding site [ion binding]; other site 298386012977 active site 298386012978 catalytic site [active] 298386012979 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 298386012980 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386012981 Helix-turn-helix domains; Region: HTH; cl00088 298386012982 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386012983 dimerization interface [polypeptide binding]; other site 298386012984 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 298386012985 catalytic motif [active] 298386012986 Zn binding site [ion binding]; other site 298386012987 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 298386012988 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 298386012989 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 298386012990 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 298386012991 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 298386012992 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 298386012993 putative active site [active] 298386012994 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 298386012995 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 298386012996 RNA binding surface [nucleotide binding]; other site 298386012997 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 298386012998 active site 298386012999 uracil binding [chemical binding]; other site 298386013000 BCCT family transporter; Region: BCCT; cl00569 298386013001 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 298386013002 PLD-like domain; Region: PLDc_2; pfam13091 298386013003 putative active site [active] 298386013004 catalytic site [active] 298386013005 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 298386013006 PLD-like domain; Region: PLDc_2; pfam13091 298386013007 putative active site [active] 298386013008 catalytic site [active] 298386013009 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 298386013010 Uncharacterized conserved protein [Function unknown]; Region: COG3391 298386013011 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 298386013012 hypothetical protein; Provisional; Region: PRK07208 298386013013 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386013014 UDP-galactopyranose mutase; Region: GLF; pfam03275 298386013015 Iron permease FTR1 family; Region: FTR1; cl00475 298386013016 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 298386013017 Helix-turn-helix domains; Region: HTH; cl00088 298386013018 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 298386013019 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 298386013020 Helix-turn-helix domains; Region: HTH; cl00088 298386013021 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 298386013022 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 298386013023 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 298386013024 active site 298386013025 phosphorylation site [posttranslational modification] 298386013026 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 298386013027 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 298386013028 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 298386013029 active pocket/dimerization site; other site 298386013030 active site 298386013031 phosphorylation site [posttranslational modification] 298386013032 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 298386013033 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 298386013034 active site 298386013035 dimer interface [polypeptide binding]; other site 298386013036 hypothetical protein; Provisional; Region: PRK08185 298386013037 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 298386013038 intersubunit interface [polypeptide binding]; other site 298386013039 active site 298386013040 zinc binding site [ion binding]; other site 298386013041 Na+ binding site [ion binding]; other site 298386013042 Helix-turn-helix domains; Region: HTH; cl00088 298386013043 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386013044 putative effector binding pocket; other site 298386013045 dimerization interface [polypeptide binding]; other site 298386013046 classical (c) SDRs; Region: SDR_c; cd05233 298386013047 NAD(P) binding site [chemical binding]; other site 298386013048 active site 298386013049 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 298386013050 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 298386013051 putative substrate translocation pore; other site 298386013052 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 298386013053 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 298386013054 substrate binding site [chemical binding]; other site 298386013055 oxyanion hole (OAH) forming residues; other site 298386013056 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 298386013057 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; cl15762 298386013058 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386013059 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 298386013060 dimerization interface [polypeptide binding]; other site 298386013061 Cytochrome c; Region: Cytochrom_C; cl11414 298386013062 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 298386013063 D-pathway; other site 298386013064 Low-spin heme binding site [chemical binding]; other site 298386013065 Putative water exit pathway; other site 298386013066 Binuclear center (active site) [active] 298386013067 K-pathway; other site 298386013068 Putative proton exit pathway; other site 298386013069 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 298386013070 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 298386013071 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386013072 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 298386013073 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 298386013074 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 298386013075 Subunit I/III interface [polypeptide binding]; other site 298386013076 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 298386013077 EamA-like transporter family; Region: EamA; cl01037 298386013078 EamA-like transporter family; Region: EamA; cl01037 298386013079 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386013080 Coenzyme A binding pocket [chemical binding]; other site 298386013081 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 298386013082 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 298386013083 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 298386013084 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386013085 active site 298386013086 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 298386013087 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386013088 Protein of unkown function (DUF1881); Region: DUF1881; pfam08964 298386013089 Beta/Gamma crystallin; Region: Crystall; cl02528 298386013090 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 298386013091 active site 298386013092 catalytic site [active] 298386013093 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386013094 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386013095 Integrase core domain; Region: rve; cl01316 298386013096 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386013097 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 298386013098 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 298386013099 putative active site [active] 298386013100 Zn binding site [ion binding]; other site 298386013101 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 298386013102 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386013103 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 298386013104 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 298386013105 putative NAD(P) binding site [chemical binding]; other site 298386013106 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386013107 Helix-turn-helix domains; Region: HTH; cl00088 298386013108 Protein of unknown function (DUF535); Region: DUF535; cl01128 298386013109 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 298386013110 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 298386013111 dimer interface [polypeptide binding]; other site 298386013112 phosphorylation site [posttranslational modification] 298386013113 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 298386013114 ATP binding site [chemical binding]; other site 298386013115 Mg2+ binding site [ion binding]; other site 298386013116 G-X-G motif; other site 298386013117 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 298386013118 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 298386013119 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 298386013120 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 298386013121 Protein export membrane protein; Region: SecD_SecF; cl14618 298386013122 Cupin domain; Region: Cupin_2; cl09118 298386013123 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 298386013124 LysE type translocator; Region: LysE; cl00565 298386013125 DNA ligase; Provisional; Region: PRK09125 298386013126 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 298386013127 DNA binding site [nucleotide binding] 298386013128 active site 298386013129 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 298386013130 DNA binding site [nucleotide binding] 298386013131 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 298386013132 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 298386013133 TPP-binding site [chemical binding]; other site 298386013134 tetramer interface [polypeptide binding]; other site 298386013135 heterodimer interface [polypeptide binding]; other site 298386013136 phosphorylation loop region [posttranslational modification] 298386013137 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 298386013138 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 298386013139 alpha subunit interface [polypeptide binding]; other site 298386013140 TPP binding site [chemical binding]; other site 298386013141 heterodimer interface [polypeptide binding]; other site 298386013142 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 298386013143 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 298386013144 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 298386013145 E3 interaction surface; other site 298386013146 lipoyl attachment site [posttranslational modification]; other site 298386013147 e3 binding domain; Region: E3_binding; pfam02817 298386013148 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 298386013149 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 298386013150 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 298386013151 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 298386013152 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 298386013153 Ligand binding site [chemical binding]; other site 298386013154 Electron transfer flavoprotein domain; Region: ETF; pfam01012 298386013155 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 298386013156 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 298386013157 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 298386013158 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 298386013159 active site 298386013160 catalytic site [active] 298386013161 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 298386013162 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 298386013163 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 298386013164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386013165 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 298386013166 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 298386013167 putative C-terminal domain interface [polypeptide binding]; other site 298386013168 putative GSH binding site (G-site) [chemical binding]; other site 298386013169 putative dimer interface [polypeptide binding]; other site 298386013170 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 298386013171 putative N-terminal domain interface [polypeptide binding]; other site 298386013172 putative dimer interface [polypeptide binding]; other site 298386013173 putative substrate binding pocket (H-site) [chemical binding]; other site 298386013174 Protein of unknown function (DUF2810); Region: DUF2810; cl08159 298386013175 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 298386013176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386013177 NAD(P) binding site [chemical binding]; other site 298386013178 active site 298386013179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386013180 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 298386013181 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 298386013182 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 298386013183 substrate binding site [chemical binding]; other site 298386013184 oxyanion hole (OAH) forming residues; other site 298386013185 trimer interface [polypeptide binding]; other site 298386013186 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; cl15762 298386013187 enoyl-CoA hydratase; Provisional; Region: PRK09076 298386013188 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 298386013189 substrate binding site [chemical binding]; other site 298386013190 oxyanion hole (OAH) forming residues; other site 298386013191 trimer interface [polypeptide binding]; other site 298386013192 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 298386013193 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 298386013194 substrate binding pocket [chemical binding]; other site 298386013195 FAD binding site [chemical binding]; other site 298386013196 catalytic base [active] 298386013197 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 298386013198 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 298386013199 tetrameric interface [polypeptide binding]; other site 298386013200 NAD binding site [chemical binding]; other site 298386013201 catalytic residues [active] 298386013202 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 298386013203 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 298386013204 dimer interface [polypeptide binding]; other site 298386013205 active site 298386013206 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 298386013207 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 298386013208 DNA binding residues [nucleotide binding] 298386013209 putative dimer interface [polypeptide binding]; other site 298386013210 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 298386013211 isovaleryl-CoA dehydrogenase; Region: PLN02519 298386013212 substrate binding site [chemical binding]; other site 298386013213 FAD binding site [chemical binding]; other site 298386013214 catalytic base [active] 298386013215 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 298386013216 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 298386013217 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 298386013218 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 298386013219 substrate binding site [chemical binding]; other site 298386013220 oxyanion hole (OAH) forming residues; other site 298386013221 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 298386013222 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 298386013223 oxyanion hole (OAH) forming residues; other site 298386013224 trimer interface [polypeptide binding]; other site 298386013225 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 298386013226 active site 298386013227 catalytic residues [active] 298386013228 metal binding site [ion binding]; metal-binding site 298386013229 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386013230 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 298386013231 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 298386013232 Walker A/P-loop; other site 298386013233 ATP binding site [chemical binding]; other site 298386013234 Q-loop/lid; other site 298386013235 ABC transporter signature motif; other site 298386013236 Walker B; other site 298386013237 D-loop; other site 298386013238 H-loop/switch region; other site 298386013239 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 298386013240 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 298386013241 FtsX-like permease family; Region: FtsX; cl15850 298386013242 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 298386013243 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 298386013244 FtsX-like permease family; Region: FtsX; cl15850 298386013245 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 298386013246 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 298386013247 substrate binding pocket [chemical binding]; other site 298386013248 membrane-bound complex binding site; other site 298386013249 hinge residues; other site 298386013250 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 298386013251 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 298386013252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386013253 homodimer interface [polypeptide binding]; other site 298386013254 catalytic residue [active] 298386013255 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 298386013256 Helix-turn-helix domains; Region: HTH; cl00088 298386013257 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 298386013258 substrate binding pocket [chemical binding]; other site 298386013259 dimerization interface [polypeptide binding]; other site 298386013260 LysE type translocator; Region: LysE; cl00565 298386013261 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 298386013262 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 298386013263 conserved cys residue [active] 298386013264 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386013265 S1/P1 Nuclease; Region: S1-P1_nuclease; pfam02265 298386013266 Integrase core domain; Region: rve; cl01316 298386013267 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 298386013268 S-adenosylmethionine binding site [chemical binding]; other site 298386013269 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 298386013270 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386013271 DNA-binding site [nucleotide binding]; DNA binding site 298386013272 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386013273 Phage-related protein [Function unknown]; Region: COG4695; cl01923 298386013274 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386013275 metal binding site [ion binding]; metal-binding site 298386013276 active site 298386013277 I-site; other site 298386013278 Winged helix-turn helix; Region: HTH_29; pfam13551 298386013279 Helix-turn-helix domains; Region: HTH; cl00088 298386013280 Integrase core domain; Region: rve; cl01316 298386013281 Integrase core domain; Region: rve_3; cl15866 298386013282 Helix-turn-helix domains; Region: HTH; cl00088 298386013283 Helix-turn-helix domains; Region: HTH; cl00088 298386013284 CHASE3 domain; Region: CHASE3; cl05000 298386013285 Integrase core domain; Region: rve; cl01316 298386013286 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 298386013287 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 298386013288 GTP/Mg2+ binding site [chemical binding]; other site 298386013289 G4 box; other site 298386013290 G5 box; other site 298386013291 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386013292 G1 box; other site 298386013293 Switch I region; other site 298386013294 G2 box; other site 298386013295 G3 box; other site 298386013296 Switch II region; other site 298386013297 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 298386013298 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 298386013299 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 298386013300 dimer interface [polypeptide binding]; other site 298386013301 phosphorylation site [posttranslational modification] 298386013302 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 298386013303 ATP binding site [chemical binding]; other site 298386013304 Mg2+ binding site [ion binding]; other site 298386013305 G-X-G motif; other site 298386013306 Response regulator receiver domain; Region: Response_reg; pfam00072 298386013307 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 298386013308 active site 298386013309 phosphorylation site [posttranslational modification] 298386013310 intermolecular recognition site; other site 298386013311 dimerization interface [polypeptide binding]; other site 298386013312 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 298386013313 fructokinase; Reviewed; Region: PRK09557 298386013314 Helix-turn-helix domains; Region: HTH; cl00088 298386013315 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 298386013316 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 298386013317 Prostaglandin dehydrogenases; Region: PGDH; cd05288 298386013318 NAD(P) binding site [chemical binding]; other site 298386013319 substrate binding site [chemical binding]; other site 298386013320 dimer interface [polypeptide binding]; other site 298386013321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 298386013322 Protein of unknown function (DUF330); Region: DUF330; cl01135 298386013323 paraquat-inducible protein B; Provisional; Region: PRK10807 298386013324 mce related protein; Region: MCE; pfam02470 298386013325 mce related protein; Region: MCE; pfam02470 298386013326 mce related protein; Region: MCE; pfam02470 298386013327 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 298386013328 Paraquat-inducible protein A; Region: PqiA; pfam04403 298386013329 Paraquat-inducible protein A; Region: PqiA; pfam04403 298386013330 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 298386013331 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 298386013332 aromatic arch; other site 298386013333 DCoH dimer interaction site [polypeptide binding]; other site 298386013334 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 298386013335 DCoH tetramer interaction site [polypeptide binding]; other site 298386013336 substrate binding site [chemical binding]; other site 298386013337 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 298386013338 cofactor binding site; other site 298386013339 metal binding site [ion binding]; metal-binding site 298386013340 Cupin domain; Region: Cupin_2; cl09118 298386013341 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 298386013342 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 298386013343 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 298386013344 maleylacetoacetate isomerase; Region: maiA; TIGR01262 298386013345 C-terminal domain interface [polypeptide binding]; other site 298386013346 GSH binding site (G-site) [chemical binding]; other site 298386013347 putative dimer interface [polypeptide binding]; other site 298386013348 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 298386013349 dimer interface [polypeptide binding]; other site 298386013350 N-terminal domain interface [polypeptide binding]; other site 298386013351 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 298386013352 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 298386013353 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 298386013354 AMP-binding enzyme; Region: AMP-binding; cl15778 298386013355 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 298386013356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386013357 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 298386013358 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 298386013359 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 298386013360 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 298386013361 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 298386013362 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 298386013363 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 298386013364 Walker A/P-loop; other site 298386013365 ATP binding site [chemical binding]; other site 298386013366 Q-loop/lid; other site 298386013367 ABC transporter signature motif; other site 298386013368 Walker B; other site 298386013369 D-loop; other site 298386013370 H-loop/switch region; other site 298386013371 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 298386013372 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 298386013373 Walker A/P-loop; other site 298386013374 ATP binding site [chemical binding]; other site 298386013375 Q-loop/lid; other site 298386013376 ABC transporter signature motif; other site 298386013377 Walker B; other site 298386013378 D-loop; other site 298386013379 H-loop/switch region; other site 298386013380 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 298386013381 active site 298386013382 homodimer interface [polypeptide binding]; other site 298386013383 homotetramer interface [polypeptide binding]; other site 298386013384 Helix-turn-helix domains; Region: HTH; cl00088 298386013385 OsmC-like protein; Region: OsmC; cl00767 298386013386 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 298386013387 active site 298386013388 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 298386013389 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 298386013390 dimer interface [polypeptide binding]; other site 298386013391 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 298386013392 active site 298386013393 Fe binding site [ion binding]; other site 298386013394 CHAD domain; Region: CHAD; cl10506 298386013395 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 298386013396 catalytic residues [active] 298386013397 dimer interface [polypeptide binding]; other site 298386013398 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 298386013399 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 298386013400 active site 298386013401 purine riboside binding site [chemical binding]; other site 298386013402 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 298386013403 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 298386013404 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 298386013405 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 298386013406 Helix-turn-helix domains; Region: HTH; cl00088 298386013407 Integrase core domain; Region: rve; cl01316 298386013408 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 298386013409 DNA binding site [nucleotide binding] 298386013410 Int/Topo IB signature motif; other site 298386013411 active site 298386013412 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 298386013413 Putative transposase; Region: Y2_Tnp; pfam04986 298386013414 Putative transposase; Region: Y2_Tnp; pfam04986 298386013415 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 298386013416 Helix-turn-helix domains; Region: HTH; cl00088 298386013417 Helix-turn-helix domains; Region: HTH; cl00088 298386013418 Integrase core domain; Region: rve; cl01316 298386013419 Integrase core domain; Region: rve_3; cl15866 298386013420 Putative transposase; Region: Y2_Tnp; pfam04986 298386013421 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 298386013422 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386013423 Transposase [DNA replication, recombination, and repair]; Region: COG5433 298386013424 Transposase [DNA replication, recombination, and repair]; Region: COG5433 298386013425 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 298386013426 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 298386013427 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386013428 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 298386013429 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 298386013430 ABC-ATPase subunit interface; other site 298386013431 dimer interface [polypeptide binding]; other site 298386013432 putative PBP binding regions; other site 298386013433 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 298386013434 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 298386013435 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 298386013436 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 298386013437 metal binding site [ion binding]; metal-binding site 298386013438 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 298386013439 FlgD Ig-like domain; Region: FlgD_ig; cl15790 298386013440 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 298386013441 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 298386013442 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 298386013443 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 298386013444 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 298386013445 binding surface 298386013446 TPR motif; other site 298386013447 Gram-negative bacterial tonB protein; Region: TonB; cl10048 298386013448 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 298386013449 Ligand-gated ion channel; Region: Lig_chan; pfam00060 298386013450 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 298386013451 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 298386013452 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 298386013453 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 298386013454 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 298386013455 N-terminal plug; other site 298386013456 ligand-binding site [chemical binding]; other site 298386013457 Helix-turn-helix domains; Region: HTH; cl00088 298386013458 Winged helix-turn helix; Region: HTH_29; pfam13551 298386013459 Winged helix-turn helix; Region: HTH_33; pfam13592 298386013460 Integrase core domain; Region: rve; cl01316 298386013461 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 298386013462 Helix-turn-helix domains; Region: HTH; cl00088 298386013463 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 298386013464 dimerization interface [polypeptide binding]; other site 298386013465 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 298386013466 dimerization interface [polypeptide binding]; other site 298386013467 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 298386013468 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 298386013469 active site 298386013470 HIGH motif; other site 298386013471 nucleotide binding site [chemical binding]; other site 298386013472 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 298386013473 KMSKS motif; other site 298386013474 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 298386013475 tRNA binding surface [nucleotide binding]; other site 298386013476 anticodon binding site; other site 298386013477 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 298386013478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386013479 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 298386013480 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 298386013481 active site 298386013482 catalytic site [active] 298386013483 substrate binding site [chemical binding]; other site 298386013484 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 298386013485 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 298386013486 putative catalytic site [active] 298386013487 putative metal binding site [ion binding]; other site 298386013488 putative metal binding site [ion binding]; other site 298386013489 putative phosphate binding site [ion binding]; other site 298386013490 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 298386013491 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 298386013492 ATP binding site [chemical binding]; other site 298386013493 Mg++ binding site [ion binding]; other site 298386013494 motif III; other site 298386013495 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 298386013496 nucleotide binding region [chemical binding]; other site 298386013497 ATP-binding site [chemical binding]; other site 298386013498 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 298386013499 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 298386013500 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 298386013501 active site 298386013502 metal binding site [ion binding]; metal-binding site 298386013503 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 298386013504 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 298386013505 CoenzymeA binding site [chemical binding]; other site 298386013506 subunit interaction site [polypeptide binding]; other site 298386013507 PHB binding site; other site 298386013508 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 298386013509 gating phenylalanine in ion channel; other site 298386013510 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 298386013511 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 298386013512 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 298386013513 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 298386013514 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 298386013515 conserved cys residue [active] 298386013516 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 298386013517 Rhomboid family; Region: Rhomboid; cl11446 298386013518 DoxX; Region: DoxX; cl00976 298386013519 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386013520 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 298386013521 Helix-turn-helix domains; Region: HTH; cl00088 298386013522 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 298386013523 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 298386013524 enoyl-CoA hydratase; Provisional; Region: PRK07509 298386013525 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 298386013526 substrate binding site [chemical binding]; other site 298386013527 oxyanion hole (OAH) forming residues; other site 298386013528 trimer interface [polypeptide binding]; other site 298386013529 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 298386013530 putative DNA binding site [nucleotide binding]; other site 298386013531 putative Zn2+ binding site [ion binding]; other site 298386013532 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 298386013533 NeuB family; Region: NeuB; cl00496 298386013534 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 298386013535 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 298386013536 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 298386013537 Walker A/P-loop; other site 298386013538 ATP binding site [chemical binding]; other site 298386013539 Q-loop/lid; other site 298386013540 ABC transporter signature motif; other site 298386013541 Walker B; other site 298386013542 D-loop; other site 298386013543 H-loop/switch region; other site 298386013544 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 298386013545 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386013546 dimer interface [polypeptide binding]; other site 298386013547 conserved gate region; other site 298386013548 putative PBP binding loops; other site 298386013549 ABC-ATPase subunit interface; other site 298386013550 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 298386013551 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 298386013552 substrate binding pocket [chemical binding]; other site 298386013553 membrane-bound complex binding site; other site 298386013554 hinge residues; other site 298386013555 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 298386013556 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 298386013557 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386013558 putative PBP binding loops; other site 298386013559 dimer interface [polypeptide binding]; other site 298386013560 ABC-ATPase subunit interface; other site 298386013561 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 298386013562 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 298386013563 active site 298386013564 nucleophile elbow; other site 298386013565 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 298386013566 Surface antigen; Region: Bac_surface_Ag; cl03097 298386013567 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 298386013568 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 298386013569 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 298386013570 short chain dehydrogenase; Provisional; Region: PRK08278 298386013571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386013572 NAD(P) binding site [chemical binding]; other site 298386013573 active site 298386013574 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 298386013575 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_Omega_like; cd03060 298386013576 putative GSH binding site (G-site) [chemical binding]; other site 298386013577 active site cysteine [active] 298386013578 putative C-terminal domain interface [polypeptide binding]; other site 298386013579 putative dimer interface [polypeptide binding]; other site 298386013580 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 298386013581 putative N-terminal domain interface [polypeptide binding]; other site 298386013582 putative dimer interface [polypeptide binding]; other site 298386013583 putative substrate binding pocket (H-site) [chemical binding]; other site 298386013584 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 298386013585 active site 298386013586 Int/Topo IB signature motif; other site 298386013587 Phage-related protein, tail component [Function unknown]; Region: COG4733 298386013588 Putative phage tail protein; Region: Phage-tail_3; pfam13550 298386013589 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 298386013590 Phage-related minor tail protein [Function unknown]; Region: COG5281 298386013591 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 298386013592 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 298386013593 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 298386013594 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 298386013595 Phage tail protein; Region: Phage_tail_3; pfam08813 298386013596 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 298386013597 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 298386013598 oligomerization interface [polypeptide binding]; other site 298386013599 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 298386013600 Phage capsid family; Region: Phage_capsid; pfam05065 298386013601 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 298386013602 oligomer interface [polypeptide binding]; other site 298386013603 active site residues [active] 298386013604 Phage-related protein [Function unknown]; Region: COG4695; cl01923 298386013605 Phage portal protein; Region: Phage_portal; pfam04860 298386013606 Phage Terminase; Region: Terminase_1; pfam03354 298386013607 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 298386013608 active site 298386013609 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 298386013610 RES domain; Region: RES; cl02411 298386013611 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386013612 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 298386013613 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386013614 Helix-turn-helix domains; Region: HTH; cl00088 298386013615 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 298386013616 substrate binding pocket [chemical binding]; other site 298386013617 dimerization interface [polypeptide binding]; other site 298386013618 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 298386013619 active site 298386013620 metal binding site [ion binding]; metal-binding site 298386013621 YcxB-like protein; Region: YcxB; pfam14317 298386013622 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 298386013623 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386013624 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 298386013625 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 298386013626 binding surface 298386013627 TPR motif; other site 298386013628 Restriction endonuclease; Region: Mrr_cat; cl00516 298386013629 Protein of unknown function (DUF2743); Region: DUF2743; pfam10899 298386013630 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 298386013631 AAA domain; Region: AAA_25; pfam13481 298386013632 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386013633 Walker A motif; other site 298386013634 ATP binding site [chemical binding]; other site 298386013635 Walker B motif; other site 298386013636 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 298386013637 non-specific DNA binding site [nucleotide binding]; other site 298386013638 salt bridge; other site 298386013639 sequence-specific DNA binding site [nucleotide binding]; other site 298386013640 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 298386013641 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 298386013642 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 298386013643 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 298386013644 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 298386013645 non-specific DNA binding site [nucleotide binding]; other site 298386013646 salt bridge; other site 298386013647 sequence-specific DNA binding site [nucleotide binding]; other site 298386013648 Cupin domain; Region: Cupin_2; cl09118 298386013649 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 298386013650 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 298386013651 dimer interface [polypeptide binding]; other site 298386013652 active site 298386013653 glycine-pyridoxal phosphate binding site [chemical binding]; other site 298386013654 folate binding site [chemical binding]; other site 298386013655 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 298386013656 lipoyl attachment site [posttranslational modification]; other site 298386013657 glycine dehydrogenase; Provisional; Region: PRK05367 298386013658 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 298386013659 tetramer interface [polypeptide binding]; other site 298386013660 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386013661 catalytic residue [active] 298386013662 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 298386013663 tetramer interface [polypeptide binding]; other site 298386013664 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386013665 catalytic residue [active] 298386013666 Protein of unknown function (DUF535); Region: DUF535; cl01128 298386013667 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 298386013668 PAS domain; Region: PAS_9; pfam13426 298386013669 putative active site [active] 298386013670 heme pocket [chemical binding]; other site 298386013671 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386013672 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386013673 dimer interface [polypeptide binding]; other site 298386013674 putative CheW interface [polypeptide binding]; other site 298386013675 glycogen branching enzyme; Provisional; Region: PRK05402 298386013676 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 298386013677 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 298386013678 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 298386013679 active site 298386013680 catalytic site [active] 298386013681 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 298386013682 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 298386013683 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 298386013684 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 298386013685 homodimer interface [polypeptide binding]; other site 298386013686 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 298386013687 active site pocket [active] 298386013688 transcriptional regulator MalT; Provisional; Region: PRK04841 298386013689 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 298386013690 DNA binding residues [nucleotide binding] 298386013691 dimerization interface [polypeptide binding]; other site 298386013692 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 298386013693 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386013694 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 298386013695 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 298386013696 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 298386013697 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 298386013698 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 298386013699 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 298386013700 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 298386013701 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 298386013702 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 298386013703 LysR family transcriptional regulator; Provisional; Region: PRK14997 298386013704 Helix-turn-helix domains; Region: HTH; cl00088 298386013705 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 298386013706 dimerization interface [polypeptide binding]; other site 298386013707 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 298386013708 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 298386013709 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 298386013710 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 298386013711 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 298386013712 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 298386013713 active site 298386013714 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 298386013715 LssY C-terminus; Region: LssY_C; pfam14067 298386013716 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 298386013717 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 298386013718 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 298386013719 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 298386013720 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386013721 Walker A/P-loop; other site 298386013722 ATP binding site [chemical binding]; other site 298386013723 Q-loop/lid; other site 298386013724 ABC transporter signature motif; other site 298386013725 Walker B; other site 298386013726 D-loop; other site 298386013727 H-loop/switch region; other site 298386013728 TOBE domain; Region: TOBE_2; cl01440 298386013729 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386013730 dimer interface [polypeptide binding]; other site 298386013731 conserved gate region; other site 298386013732 putative PBP binding loops; other site 298386013733 ABC-ATPase subunit interface; other site 298386013734 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 298386013735 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 298386013736 cell density-dependent motility repressor; Provisional; Region: PRK10082 298386013737 Helix-turn-helix domains; Region: HTH; cl00088 298386013738 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386013739 dimerization interface [polypeptide binding]; other site 298386013740 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 298386013741 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386013742 malate dehydrogenase; Provisional; Region: PRK13529 298386013743 Malic enzyme, N-terminal domain; Region: malic; pfam00390 298386013744 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 298386013745 NAD(P) binding site [chemical binding]; other site 298386013746 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 298386013747 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 298386013748 DHHA2 domain; Region: DHHA2; pfam02833 298386013749 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 298386013750 putative active site [active] 298386013751 Zn binding site [ion binding]; other site 298386013752 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386013753 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386013754 Integrase core domain; Region: rve; cl01316 298386013755 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386013756 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 298386013757 FMN binding site [chemical binding]; other site 298386013758 active site 298386013759 substrate binding site [chemical binding]; other site 298386013760 catalytic residue [active] 298386013761 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386013762 Helix-turn-helix domains; Region: HTH; cl00088 298386013763 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386013764 Helix-turn-helix domains; Region: HTH; cl00088 298386013765 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 298386013766 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 298386013767 tetrathionate reductase subunit A; Provisional; Region: PRK14991 298386013768 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 298386013769 putative [Fe4-S4] binding site [ion binding]; other site 298386013770 putative molybdopterin cofactor binding site [chemical binding]; other site 298386013771 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 298386013772 putative molybdopterin cofactor binding site; other site 298386013773 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 298386013774 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 298386013775 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 298386013776 Sodium:solute symporter family; Region: SSF; cl00456 298386013777 cytosine deaminase; Provisional; Region: PRK09230 298386013778 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 298386013779 active site 298386013780 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; cd00190 298386013781 cleavage site 298386013782 active site 298386013783 substrate binding sites [chemical binding]; other site 298386013784 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386013785 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 298386013786 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 298386013787 active site 298386013788 purine riboside binding site [chemical binding]; other site 298386013789 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 298386013790 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 298386013791 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386013792 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 298386013793 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 298386013794 Walker A/P-loop; other site 298386013795 ATP binding site [chemical binding]; other site 298386013796 Q-loop/lid; other site 298386013797 ABC transporter signature motif; other site 298386013798 Walker B; other site 298386013799 D-loop; other site 298386013800 H-loop/switch region; other site 298386013801 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; cl00462 298386013802 4Fe-4S binding domain; Region: Fer4_5; pfam12801 298386013803 4Fe-4S binding domain; Region: Fer4_5; pfam12801 298386013804 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 298386013805 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 298386013806 Winged helix-turn helix; Region: HTH_29; pfam13551 298386013807 Helix-turn-helix domains; Region: HTH; cl00088 298386013808 Integrase core domain; Region: rve; cl01316 298386013809 Integrase core domain; Region: rve_3; cl15866 298386013810 Helix-turn-helix domains; Region: HTH; cl00088 298386013811 Helix-turn-helix domains; Region: HTH; cl00088 298386013812 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386013813 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 298386013814 putative active site [active] 298386013815 putative NTP binding site [chemical binding]; other site 298386013816 putative nucleic acid binding site [nucleotide binding]; other site 298386013817 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 298386013818 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 298386013819 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 298386013820 active site 298386013821 DNA binding site [nucleotide binding] 298386013822 Int/Topo IB signature motif; other site 298386013823 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 298386013824 Putative transposase; Region: Y2_Tnp; pfam04986 298386013825 Transposase [DNA replication, recombination, and repair]; Region: COG5433 298386013826 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 298386013827 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 298386013828 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 298386013829 HflX GTPase family; Region: HflX; cd01878 298386013830 G1 box; other site 298386013831 GTP/Mg2+ binding site [chemical binding]; other site 298386013832 Switch I region; other site 298386013833 G2 box; other site 298386013834 G3 box; other site 298386013835 Switch II region; other site 298386013836 G4 box; other site 298386013837 G5 box; other site 298386013838 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 298386013839 CoenzymeA binding site [chemical binding]; other site 298386013840 subunit interaction site [polypeptide binding]; other site 298386013841 PHB binding site; other site 298386013842 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 298386013843 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 298386013844 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 298386013845 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 298386013846 Walker A/P-loop; other site 298386013847 ATP binding site [chemical binding]; other site 298386013848 Q-loop/lid; other site 298386013849 ABC transporter signature motif; other site 298386013850 Walker B; other site 298386013851 D-loop; other site 298386013852 H-loop/switch region; other site 298386013853 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 298386013854 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 298386013855 Beta-Casp domain; Region: Beta-Casp; cl12567 298386013856 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 298386013857 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 298386013858 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386013859 catalytic residue [active] 298386013860 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 298386013861 Helix-turn-helix domains; Region: HTH; cl00088 298386013862 Winged helix-turn helix; Region: HTH_29; pfam13551 298386013863 Winged helix-turn helix; Region: HTH_33; pfam13592 298386013864 Integrase core domain; Region: rve; cl01316 298386013865 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 298386013866 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 298386013867 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 298386013868 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 298386013869 active site 298386013870 FMN binding site [chemical binding]; other site 298386013871 substrate binding site [chemical binding]; other site 298386013872 putative catalytic residue [active] 298386013873 Protein of unknown function (DUF465); Region: DUF465; cl01070 298386013874 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 298386013875 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 298386013876 homodimer interface [polypeptide binding]; other site 298386013877 substrate-cofactor binding pocket; other site 298386013878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386013879 catalytic residue [active] 298386013880 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 298386013881 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; pfam01262 298386013882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386013883 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 298386013884 active site 298386013885 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386013886 Helix-turn-helix domains; Region: HTH; cl00088 298386013887 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386013888 dimerization interface [polypeptide binding]; other site 298386013889 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 298386013890 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 298386013891 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 298386013892 Arginase family; Region: Arginase; cl00306 298386013893 Bacterial transcriptional regulator; Region: IclR; pfam01614 298386013894 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386013895 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 298386013896 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 298386013897 Helix-turn-helix domains; Region: HTH; cl00088 298386013898 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 298386013899 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 298386013900 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 298386013901 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 298386013902 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 298386013903 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386013904 Helix-turn-helix domains; Region: HTH; cl00088 298386013905 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386013906 dimerization interface [polypeptide binding]; other site 298386013907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386013908 Helix-turn-helix domains; Region: HTH; cl00088 298386013909 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 298386013910 dimerization interface [polypeptide binding]; other site 298386013911 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 298386013912 Protein of unknown function (DUF917); Region: DUF917; pfam06032 298386013913 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 298386013914 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 298386013915 AAA domain; Region: AAA_25; pfam13481 298386013916 Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent; Region: repA; cd01125 298386013917 Walker A motif; other site 298386013918 NTP binding site [chemical binding]; other site 298386013919 hexamer interface [polypeptide binding]; other site 298386013920 Walker B motif; other site 298386013921 exonuclease VIII; Reviewed; Region: PRK09709 298386013922 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 298386013923 AAA domain; Region: AAA_24; pfam13479 298386013924 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386013925 Helix-turn-helix domains; Region: HTH; cl00088 298386013926 Winged helix-turn helix; Region: HTH_29; pfam13551 298386013927 Winged helix-turn helix; Region: HTH_33; pfam13592 298386013928 Integrase core domain; Region: rve; cl01316 298386013929 Transposase [DNA replication, recombination, and repair]; Region: COG5433 298386013930 Integrase core domain; Region: rve_3; cl15866 298386013931 Winged helix-turn helix; Region: HTH_29; pfam13551 298386013932 Helix-turn-helix domains; Region: HTH; cl00088 298386013933 Helix-turn-helix domains; Region: HTH; cl00088 298386013934 Helix-turn-helix domains; Region: HTH; cl00088 298386013935 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 298386013936 Transposase [DNA replication, recombination, and repair]; Region: COG5433 298386013937 Integrase core domain; Region: rve; cl01316 298386013938 Helix-turn-helix domains; Region: HTH; cl00088 298386013939 Winged helix-turn helix; Region: HTH_29; pfam13551 298386013940 Winged helix-turn helix; Region: HTH_33; pfam13592 298386013941 Integrase core domain; Region: rve; cl01316 298386013942 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386013943 Helix-turn-helix domains; Region: HTH; cl00088 298386013944 Helix-turn-helix domains; Region: HTH; cl00088 298386013945 Winged helix-turn helix; Region: HTH_29; pfam13551 298386013946 Helix-turn-helix domains; Region: HTH; cl00088 298386013947 Integrase core domain; Region: rve; cl01316 298386013948 Integrase core domain; Region: rve_3; cl15866 298386013949 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 298386013950 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 298386013951 Nucleoside recognition; Region: Gate; cl00486 298386013952 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 298386013953 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386013954 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 298386013955 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 298386013956 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 298386013957 dimerization interface [polypeptide binding]; other site 298386013958 active site 298386013959 dUMP phosphatase; Provisional; Region: PRK09449 298386013960 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 298386013961 motif II; other site 298386013962 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 298386013963 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 298386013964 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386013965 Integrase core domain; Region: rve; cl01316 298386013966 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 298386013967 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386013968 Transposase; Region: DEDD_Tnp_IS110; pfam01548 298386013969 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 298386013970 active site 298386013971 nucleophile elbow; other site 298386013972 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 298386013973 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386013974 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 298386013975 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 298386013976 active site 298386013977 metal binding site [ion binding]; metal-binding site 298386013978 N-formylglutamate amidohydrolase; Region: FGase; cl01522 298386013979 conserved hypothetical protein; Region: QEGLA; TIGR02421 298386013980 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 298386013981 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 298386013982 glutathione synthetase; Provisional; Region: PRK12458 298386013983 ATP-grasp domain; Region: ATP-grasp_4; cl03087 298386013984 Protein of unknown function, DUF; Region: DUF413; cl10479 298386013985 transcriptional regulator HdfR; Provisional; Region: PRK03601 298386013986 Helix-turn-helix domains; Region: HTH; cl00088 298386013987 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386013988 dimerization interface [polypeptide binding]; other site 298386013989 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 298386013990 Integrase core domain; Region: rve; cl01316 298386013991 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 298386013992 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 298386013993 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 298386013994 substrate binding site [chemical binding]; other site 298386013995 nucleotide binding site [chemical binding]; other site 298386013996 Helix-turn-helix domains; Region: HTH; cl00088 298386013997 Winged helix-turn helix; Region: HTH_29; pfam13551 298386013998 Winged helix-turn helix; Region: HTH_33; pfam13592 298386013999 Integrase core domain; Region: rve; cl01316 298386014000 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 298386014001 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_2; cd04915 298386014002 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 298386014003 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 298386014004 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 298386014005 DsbD alpha interface [polypeptide binding]; other site 298386014006 catalytic residues [active] 298386014007 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 298386014008 catalytic residues [active] 298386014009 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 298386014010 putative deacylase active site [active] 298386014011 NlpC/P60 family; Region: NLPC_P60; cl11438 298386014012 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386014013 Coenzyme A binding pocket [chemical binding]; other site 298386014014 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 298386014015 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 298386014016 putative acyl-acceptor binding pocket; other site 298386014017 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 298386014018 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386014019 Predicted permeases [General function prediction only]; Region: RarD; COG2962 298386014020 EamA-like transporter family; Region: EamA; cl01037 298386014021 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 298386014022 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 298386014023 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 298386014024 DNA binding residues [nucleotide binding] 298386014025 dimer interface [polypeptide binding]; other site 298386014026 [2Fe-2S] cluster binding site [ion binding]; other site 298386014027 H+ Antiporter protein; Region: 2A0121; TIGR00900 298386014028 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 298386014029 putative substrate translocation pore; other site 298386014030 Predicted permease; Region: DUF318; pfam03773 298386014031 Predicted permease; Region: DUF318; pfam03773 298386014032 Helix-turn-helix domains; Region: HTH; cl00088 298386014033 FCD domain; Region: FCD; cl11656 298386014034 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 298386014035 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386014036 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 298386014037 Glucuronate isomerase; Region: UxaC; cl00829 298386014038 altronate oxidoreductase; Provisional; Region: PRK03643 298386014039 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 298386014040 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 298386014041 SAF domain; Region: SAF; cl00555 298386014042 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 298386014043 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 298386014044 RecX family; Region: RecX; cl00936 298386014045 RecX family; Region: RecX; cl00936 298386014046 Helix-turn-helix domains; Region: HTH; cl00088 298386014047 Winged helix-turn helix; Region: HTH_29; pfam13551 298386014048 Winged helix-turn helix; Region: HTH_33; pfam13592 298386014049 Integrase core domain; Region: rve; cl01316 298386014050 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386014051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 298386014052 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 298386014053 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386014054 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386014055 Helix-turn-helix domains; Region: HTH; cl00088 298386014056 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 298386014057 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386014058 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 298386014059 classical (c) SDRs; Region: SDR_c; cd05233 298386014060 NAD(P) binding site [chemical binding]; other site 298386014061 active site 298386014062 LytB protein; Region: LYTB; cl00507 298386014063 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 298386014064 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386014065 Coenzyme A binding pocket [chemical binding]; other site 298386014066 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 298386014067 NADH(P)-binding; Region: NAD_binding_10; pfam13460 298386014068 NAD(P) binding site [chemical binding]; other site 298386014069 putative active site [active] 298386014070 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 298386014071 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386014072 G2 box; other site 298386014073 Switch I region; other site 298386014074 G3 box; other site 298386014075 Switch II region; other site 298386014076 GTP/Mg2+ binding site [chemical binding]; other site 298386014077 G4 box; other site 298386014078 G5 box; other site 298386014079 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 298386014080 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 298386014081 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 298386014082 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 298386014083 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 298386014084 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl06409 298386014085 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 298386014086 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 298386014087 dimerization interface [polypeptide binding]; other site 298386014088 putative ATP binding site [chemical binding]; other site 298386014089 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 298386014090 '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 298386014091 dimer interface [polypeptide binding]; other site 298386014092 active site 298386014093 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 298386014094 Glycine reductase complex selenoprotein A; Region: GRDA; cl04705 298386014095 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 298386014096 catalytic residues [active] 298386014097 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 298386014098 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386014099 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 298386014100 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 298386014101 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 298386014102 oligomer interface [polypeptide binding]; other site 298386014103 putative active site [active] 298386014104 metal binding site [ion binding]; metal-binding site 298386014105 DsrE/DsrF-like family; Region: DrsE; cl00672 298386014106 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 298386014107 Helix-turn-helix domains; Region: HTH; cl00088 298386014108 TOBE domain; Region: TOBE_2; cl01440 298386014109 TOBE domain; Region: TOBE_2; cl01440 298386014110 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 298386014111 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 298386014112 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 298386014113 Walker A/P-loop; other site 298386014114 ATP binding site [chemical binding]; other site 298386014115 Q-loop/lid; other site 298386014116 ABC transporter signature motif; other site 298386014117 Walker B; other site 298386014118 D-loop; other site 298386014119 H-loop/switch region; other site 298386014120 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 298386014121 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 298386014122 TM-ABC transporter signature motif; other site 298386014123 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 298386014124 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 298386014125 ligand binding site [chemical binding]; other site 298386014126 dimerization interface [polypeptide binding]; other site 298386014127 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 298386014128 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 298386014129 substrate binding site [chemical binding]; other site 298386014130 dimer interface [polypeptide binding]; other site 298386014131 ATP binding site [chemical binding]; other site 298386014132 transcriptional repressor RbsR; Provisional; Region: PRK10423 298386014133 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 298386014134 DNA binding site [nucleotide binding] 298386014135 domain linker motif; other site 298386014136 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 298386014137 dimerization interface [polypeptide binding]; other site 298386014138 ligand binding site [chemical binding]; other site 298386014139 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386014140 NAD(P) binding site [chemical binding]; other site 298386014141 active site 298386014142 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386014143 Helix-turn-helix domains; Region: HTH; cl00088 298386014144 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386014145 putative effector binding pocket; other site 298386014146 dimerization interface [polypeptide binding]; other site 298386014147 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 298386014148 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 298386014149 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386014150 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 298386014151 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386014152 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 298386014153 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386014154 Helix-turn-helix domains; Region: HTH; cl00088 298386014155 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 298386014156 putative effector binding pocket; other site 298386014157 putative dimerization interface [polypeptide binding]; other site 298386014158 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 298386014159 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 298386014160 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 298386014161 S-adenosylmethionine binding site [chemical binding]; other site 298386014162 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 298386014163 Helix-turn-helix domains; Region: HTH; cl00088 298386014164 transcriptional activator TtdR; Provisional; Region: PRK09801 298386014165 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386014166 putative effector binding pocket; other site 298386014167 dimerization interface [polypeptide binding]; other site 298386014168 Transcriptional regulator; Region: Transcrip_reg; cl00361 298386014169 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 298386014170 DNA binding residues [nucleotide binding] 298386014171 dimerization interface [polypeptide binding]; other site 298386014172 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386014173 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 298386014174 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 298386014175 active site turn [active] 298386014176 phosphorylation site [posttranslational modification] 298386014177 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 298386014178 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 298386014179 active site 298386014180 phosphorylation site [posttranslational modification] 298386014181 intermolecular recognition site; other site 298386014182 dimerization interface [polypeptide binding]; other site 298386014183 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 298386014184 DNA binding site [nucleotide binding] 298386014185 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386014186 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 298386014187 dimer interface [polypeptide binding]; other site 298386014188 phosphorylation site [posttranslational modification] 298386014189 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 298386014190 ATP binding site [chemical binding]; other site 298386014191 Mg2+ binding site [ion binding]; other site 298386014192 G-X-G motif; other site 298386014193 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 298386014194 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 298386014195 active site 298386014196 catalytic triad [active] 298386014197 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 298386014198 chitin/cellulose binding site [chemical binding]; other site 298386014199 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386014200 Protein of unknown function (DUF808); Region: DUF808; cl01002 298386014201 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 298386014202 DNA binding residues [nucleotide binding] 298386014203 dimerization interface [polypeptide binding]; other site 298386014204 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 298386014205 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386014206 DNA-binding site [nucleotide binding]; DNA binding site 298386014207 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 298386014208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 298386014209 homodimer interface [polypeptide binding]; other site 298386014210 catalytic residue [active] 298386014211 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 298386014212 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386014213 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 298386014214 Helix-turn-helix domains; Region: HTH; cl00088 298386014215 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 298386014216 dimerization interface [polypeptide binding]; other site 298386014217 TrbC/VIRB2 family; Region: TrbC; cl01583 298386014218 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 298386014219 conjugal transfer protein TrbE; Provisional; Region: PRK13891 298386014220 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 298386014221 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386014222 Walker B; other site 298386014223 D-loop; other site 298386014224 H-loop/switch region; other site 298386014225 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 298386014226 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 298386014227 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 298386014228 ATP binding site [chemical binding]; other site 298386014229 Walker A motif; other site 298386014230 hexamer interface [polypeptide binding]; other site 298386014231 Walker B motif; other site 298386014232 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 298386014233 VirB8 protein; Region: VirB8; cl01500 298386014234 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 298386014235 VirB7 interaction site; other site 298386014236 conjugal transfer protein TrbH; Provisional; Region: PRK13883 298386014237 YedD-like protein; Region: YedD; cl08117 298386014238 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 298386014239 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 298386014240 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 298386014241 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 298386014242 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386014243 Walker A motif; other site 298386014244 ATP binding site [chemical binding]; other site 298386014245 Walker B motif; other site 298386014246 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 298386014247 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 298386014248 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 298386014249 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 298386014250 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 298386014251 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 298386014252 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 298386014253 N-acetyl-D-glucosamine binding site [chemical binding]; other site 298386014254 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 298386014255 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386014256 Walker A motif; other site 298386014257 ATP binding site [chemical binding]; other site 298386014258 Walker B motif; other site 298386014259 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 298386014260 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 298386014261 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 298386014262 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 298386014263 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 298386014264 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386014265 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 298386014266 coenzyme A disulfide reductase; Provisional; Region: PRK13512 298386014267 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 298386014268 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 298386014269 putative oxidoreductase; Provisional; Region: PRK11579 298386014270 Domain of unknown function (DUF336); Region: DUF336; cl01249 298386014271 MatE; Region: MatE; cl10513 298386014272 MatE; Region: MatE; cl10513 298386014273 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386014274 Helix-turn-helix domains; Region: HTH; cl00088 298386014275 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386014276 putative effector binding pocket; other site 298386014277 dimerization interface [polypeptide binding]; other site 298386014278 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 298386014279 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 298386014280 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 298386014281 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 298386014282 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 298386014283 trimer interface [polypeptide binding]; other site 298386014284 eyelet of channel; other site 298386014285 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 298386014286 Transposase; Region: DEDD_Tnp_IS110; pfam01548 298386014287 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 298386014288 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 298386014289 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 298386014290 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 298386014291 dimerization interface [polypeptide binding]; other site 298386014292 putative DNA binding site [nucleotide binding]; other site 298386014293 putative Zn2+ binding site [ion binding]; other site 298386014294 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 298386014295 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 298386014296 NAD(P) binding site [chemical binding]; other site 298386014297 catalytic residues [active] 298386014298 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 298386014299 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 298386014300 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 298386014301 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 298386014302 FeS/SAM binding site; other site 298386014303 LysE type translocator; Region: LysE; cl00565 298386014304 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 298386014305 dimerization interface [polypeptide binding]; other site 298386014306 substrate binding pocket [chemical binding]; other site 298386014307 DDE domain; Region: DDE_Tnp_IS240; pfam13610 298386014308 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 298386014309 FMN binding site [chemical binding]; other site 298386014310 active site 298386014311 substrate binding site [chemical binding]; other site 298386014312 catalytic residue [active] 298386014313 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 298386014314 FMN binding site [chemical binding]; other site 298386014315 active site 298386014316 substrate binding site [chemical binding]; other site 298386014317 catalytic residue [active] 298386014318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386014319 Helix-turn-helix domains; Region: HTH; cl00088 298386014320 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 298386014321 dimerization interface [polypeptide binding]; other site 298386014322 DDE domain; Region: DDE_Tnp_IS240; pfam13610 298386014323 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386014324 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 298386014325 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 298386014326 Integrase core domain; Region: rve; cl01316 298386014327 Helix-turn-helix domains; Region: HTH; cl00088 298386014328 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 298386014329 prephenate dehydrogenase; Validated; Region: PRK06545 298386014330 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386014331 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 298386014332 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 298386014333 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 298386014334 Integrase core domain; Region: rve; cl01316 298386014335 Integrase core domain; Region: rve; cl01316 298386014336 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 298386014337 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 298386014338 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386014339 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 298386014340 catalytic motif [active] 298386014341 Zn binding site [ion binding]; other site 298386014342 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 298386014343 short chain dehydrogenase; Provisional; Region: PRK06138 298386014344 classical (c) SDRs; Region: SDR_c; cd05233 298386014345 NAD(P) binding site [chemical binding]; other site 298386014346 active site 298386014347 Domain of unknown function (DUF336); Region: DUF336; cl01249 298386014348 Transcriptional regulator [Transcription]; Region: IclR; COG1414 298386014349 Helix-turn-helix domains; Region: HTH; cl00088 298386014350 Bacterial transcriptional regulator; Region: IclR; pfam01614 298386014351 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 298386014352 non-specific DNA binding site [nucleotide binding]; other site 298386014353 salt bridge; other site 298386014354 sequence-specific DNA binding site [nucleotide binding]; other site 298386014355 integrase; Provisional; Region: int; PHA02601 298386014356 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 298386014357 active site 298386014358 DNA binding site [nucleotide binding] 298386014359 Int/Topo IB signature motif; other site 298386014360 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 298386014361 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 298386014362 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 298386014363 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 298386014364 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 298386014365 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 298386014366 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 298386014367 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 298386014368 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 298386014369 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 298386014370 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 298386014371 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 298386014372 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 298386014373 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 298386014374 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386014375 universal stress protein UspE; Provisional; Region: PRK11175 298386014376 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 298386014377 Ligand Binding Site [chemical binding]; other site 298386014378 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 298386014379 Ligand Binding Site [chemical binding]; other site 298386014380 BCCT family transporter; Region: BCCT; cl00569 298386014381 Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]; Region: SecA; COG0653 298386014382 Restriction endonuclease; Region: Mrr_cat; cl00516 298386014383 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386014384 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386014385 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12900 298386014386 SEC-C motif; Region: SEC-C; pfam02810 298386014387 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 298386014388 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 298386014389 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 298386014390 active site 298386014391 DNA binding site [nucleotide binding] 298386014392 Int/Topo IB signature motif; other site 298386014393 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 298386014394 Putative transposase; Region: Y2_Tnp; pfam04986 298386014395 Integrase core domain; Region: rve; cl01316 298386014396 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386014397 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 298386014398 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386014399 Coenzyme A binding pocket [chemical binding]; other site 298386014400 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386014401 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 298386014402 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386014403 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386014404 Integrase core domain; Region: rve; cl01316 298386014405 Integrase core domain; Region: rve_3; cl15866 298386014406 Winged helix-turn helix; Region: HTH_29; pfam13551 298386014407 Helix-turn-helix domains; Region: HTH; cl00088 298386014408 Integrase core domain; Region: rve; cl01316 298386014409 Helix-turn-helix domains; Region: HTH; cl00088 298386014410 Helix-turn-helix domains; Region: HTH; cl00088 298386014411 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386014412 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 298386014413 Cytochrome P450; Region: p450; pfam00067 298386014414 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 298386014415 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 298386014416 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 298386014417 active site 298386014418 Integrase core domain; Region: rve; cl01316 298386014419 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 298386014420 Sodium:solute symporter family; Region: SSF; cl00456 298386014421 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 298386014422 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 298386014423 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 298386014424 Transcriptional regulator [Transcription]; Region: IclR; COG1414 298386014425 Bacterial transcriptional regulator; Region: IclR; pfam01614 298386014426 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386014427 DctM-like transporters; Region: DctM; pfam06808 298386014428 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 298386014429 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 298386014430 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 298386014431 KduI/IolB family; Region: KduI; cl01508 298386014432 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 298386014433 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 298386014434 active site 298386014435 intersubunit interface [polypeptide binding]; other site 298386014436 catalytic residue [active] 298386014437 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 298386014438 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 298386014439 substrate binding site [chemical binding]; other site 298386014440 ATP binding site [chemical binding]; other site 298386014441 hypothetical protein; Provisional; Region: PRK09273 298386014442 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 298386014443 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 298386014444 Cupin domain; Region: Cupin_2; cl09118 298386014445 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 298386014446 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 298386014447 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 298386014448 NADP binding site [chemical binding]; other site 298386014449 homodimer interface [polypeptide binding]; other site 298386014450 active site 298386014451 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 298386014452 Helix-turn-helix domains; Region: HTH; cl00088 298386014453 Bacterial transcriptional regulator; Region: IclR; pfam01614 298386014454 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 298386014455 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 298386014456 ligand binding site [chemical binding]; other site 298386014457 flexible hinge region; other site 298386014458 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc; cd04587 298386014459 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 298386014460 metal binding triad; other site 298386014461 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 298386014462 active site 298386014463 catalytic site [active] 298386014464 substrate binding site [chemical binding]; other site 298386014465 Choline/Carnitine o-acyltransferase; Region: Carn_acyltransf; pfam00755 298386014466 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 298386014467 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386014468 Walker A/P-loop; other site 298386014469 ATP binding site [chemical binding]; other site 298386014470 Q-loop/lid; other site 298386014471 ABC transporter signature motif; other site 298386014472 Walker B; other site 298386014473 D-loop; other site 298386014474 H-loop/switch region; other site 298386014475 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386014476 dimer interface [polypeptide binding]; other site 298386014477 conserved gate region; other site 298386014478 putative PBP binding loops; other site 298386014479 ABC-ATPase subunit interface; other site 298386014480 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 298386014481 NMT1-like family; Region: NMT1_2; cl15260 298386014482 choline dehydrogenase; Validated; Region: PRK02106 298386014483 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 298386014484 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 298386014485 NAD(P) binding site [chemical binding]; other site 298386014486 catalytic residues [active] 298386014487 transcriptional regulator BetI; Validated; Region: PRK00767 298386014488 Helix-turn-helix domains; Region: HTH; cl00088 298386014489 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 298386014490 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 298386014491 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 298386014492 dimer interface [polypeptide binding]; other site 298386014493 phosphorylation site [posttranslational modification] 298386014494 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 298386014495 ATP binding site [chemical binding]; other site 298386014496 Mg2+ binding site [ion binding]; other site 298386014497 G-X-G motif; other site 298386014498 Response regulator receiver domain; Region: Response_reg; pfam00072 298386014499 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 298386014500 active site 298386014501 phosphorylation site [posttranslational modification] 298386014502 intermolecular recognition site; other site 298386014503 dimerization interface [polypeptide binding]; other site 298386014504 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 298386014505 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 298386014506 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386014507 catalytic residue [active] 298386014508 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386014509 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386014510 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386014511 dimer interface [polypeptide binding]; other site 298386014512 putative CheW interface [polypeptide binding]; other site 298386014513 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386014514 Integrase core domain; Region: rve; cl01316 298386014515 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 298386014516 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 298386014517 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 298386014518 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 298386014519 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 298386014520 Response regulator receiver domain; Region: Response_reg; pfam00072 298386014521 active site 298386014522 phosphorylation site [posttranslational modification] 298386014523 intermolecular recognition site; other site 298386014524 dimerization interface [polypeptide binding]; other site 298386014525 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 298386014526 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 298386014527 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 298386014528 Walker A/P-loop; other site 298386014529 ATP binding site [chemical binding]; other site 298386014530 Q-loop/lid; other site 298386014531 ABC transporter signature motif; other site 298386014532 Walker B; other site 298386014533 D-loop; other site 298386014534 H-loop/switch region; other site 298386014535 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 298386014536 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 298386014537 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386014538 Walker A/P-loop; other site 298386014539 ATP binding site [chemical binding]; other site 298386014540 Q-loop/lid; other site 298386014541 ABC transporter signature motif; other site 298386014542 Walker B; other site 298386014543 D-loop; other site 298386014544 H-loop/switch region; other site 298386014545 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 298386014546 ATP binding site [chemical binding]; other site 298386014547 Mg++ binding site [ion binding]; other site 298386014548 motif III; other site 298386014549 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 298386014550 nucleotide binding region [chemical binding]; other site 298386014551 ATP-binding site [chemical binding]; other site 298386014552 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 298386014553 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 298386014554 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 298386014555 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 298386014556 Integrase core domain; Region: rve; cl01316 298386014557 Integrase core domain; Region: rve; cl01316 298386014558 Replicase family; Region: Replicase; pfam03090 298386014559 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 298386014560 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 298386014561 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 298386014562 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 298386014563 thioredoxin 2; Provisional; Region: PRK10996 298386014564 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 298386014565 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 298386014566 catalytic residues [active] 298386014567 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 298386014568 homotrimer interaction site [polypeptide binding]; other site 298386014569 putative active site [active] 298386014570 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 298386014571 homotrimer interaction site [polypeptide binding]; other site 298386014572 putative active site [active] 298386014573 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 298386014574 homotrimer interaction site [polypeptide binding]; other site 298386014575 putative active site [active] 298386014576 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386014577 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386014578 Coenzyme A binding pocket [chemical binding]; other site 298386014579 Cupin domain; Region: Cupin_2; cl09118 298386014580 Cupin domain; Region: Cupin_2; cl09118 298386014581 Helix-turn-helix domains; Region: HTH; cl00088 298386014582 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 298386014583 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 298386014584 dimerization interface [polypeptide binding]; other site 298386014585 substrate binding pocket [chemical binding]; other site 298386014586 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 298386014587 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 298386014588 DNA-binding site [nucleotide binding]; DNA binding site 298386014589 RNA-binding motif; other site 298386014590 Transposase Tn5 dimerisation domain; Region: Dimer_Tnp_Tn5; pfam02281 298386014591 Helix-turn-helix domains; Region: HTH; cl00088 298386014592 Winged helix-turn helix; Region: HTH_29; pfam13551 298386014593 Winged helix-turn helix; Region: HTH_33; pfam13592 298386014594 Integrase core domain; Region: rve; cl01316 298386014595 Transposase IS200 like; Region: Y1_Tnp; cl00848 298386014596 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 298386014597 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 298386014598 putative substrate binding site [chemical binding]; other site 298386014599 nucleotide binding site [chemical binding]; other site 298386014600 nucleotide binding site [chemical binding]; other site 298386014601 homodimer interface [polypeptide binding]; other site 298386014602 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386014603 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386014604 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386014605 Helix-turn-helix domains; Region: HTH; cl00088 298386014606 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386014607 dimerization interface [polypeptide binding]; other site 298386014608 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 298386014609 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 298386014610 Walker A/P-loop; other site 298386014611 ATP binding site [chemical binding]; other site 298386014612 Q-loop/lid; other site 298386014613 ABC transporter signature motif; other site 298386014614 Walker B; other site 298386014615 D-loop; other site 298386014616 H-loop/switch region; other site 298386014617 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 298386014618 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 298386014619 dimer interface [polypeptide binding]; other site 298386014620 conserved gate region; other site 298386014621 putative PBP binding loops; other site 298386014622 ABC-ATPase subunit interface; other site 298386014623 NMT1-like family; Region: NMT1_2; cl15260 298386014624 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 298386014625 sugar phosphate phosphatase; Provisional; Region: PRK10513 298386014626 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 298386014627 active site 298386014628 motif I; other site 298386014629 motif II; other site 298386014630 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 298386014631 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 298386014632 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 298386014633 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 298386014634 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 298386014635 Cupin domain; Region: Cupin_2; cl09118 298386014636 Helix-turn-helix domain; Region: HTH_18; pfam12833 298386014637 FMN-binding domain; Region: FMN_bind; cl01081 298386014638 4Fe-4S binding domain; Region: Fer4_5; pfam12801 298386014639 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 298386014640 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386014641 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386014642 Helix-turn-helix domains; Region: HTH; cl00088 298386014643 Winged helix-turn helix; Region: HTH_29; pfam13551 298386014644 Winged helix-turn helix; Region: HTH_33; pfam13592 298386014645 Integrase core domain; Region: rve; cl01316 298386014646 Integrase core domain; Region: rve; cl01316 298386014647 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 298386014648 Helix-turn-helix domains; Region: HTH; cl00088 298386014649 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 298386014650 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 298386014651 dimerization interface [polypeptide binding]; other site 298386014652 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 298386014653 Fasciclin domain; Region: Fasciclin; cl02663 298386014654 Fasciclin domain; Region: Fasciclin; cl02663 298386014655 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 298386014656 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 298386014657 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 298386014658 Cation efflux family; Region: Cation_efflux; cl00316 298386014659 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 298386014660 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 298386014661 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 298386014662 FAD binding pocket [chemical binding]; other site 298386014663 FAD binding motif [chemical binding]; other site 298386014664 phosphate binding motif [ion binding]; other site 298386014665 NAD binding pocket [chemical binding]; other site 298386014666 NeuB family; Region: NeuB; cl00496 298386014667 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 298386014668 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 298386014669 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 298386014670 Walker A/P-loop; other site 298386014671 ATP binding site [chemical binding]; other site 298386014672 Q-loop/lid; other site 298386014673 ABC transporter signature motif; other site 298386014674 Walker B; other site 298386014675 D-loop; other site 298386014676 H-loop/switch region; other site 298386014677 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 298386014678 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 298386014679 ABC-ATPase subunit interface; other site 298386014680 dimer interface [polypeptide binding]; other site 298386014681 putative PBP binding regions; other site 298386014682 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 298386014683 ABC-ATPase subunit interface; other site 298386014684 dimer interface [polypeptide binding]; other site 298386014685 putative PBP binding regions; other site 298386014686 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 298386014687 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 298386014688 siderophore binding site; other site 298386014689 Condensation domain; Region: Condensation; pfam00668 298386014690 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 298386014691 AMP-binding enzyme; Region: AMP-binding; cl15778 298386014692 AMP-binding enzyme; Region: AMP-binding; cl15778 298386014693 peptide synthase; Provisional; Region: PRK12316 298386014694 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 298386014695 AMP-binding enzyme; Region: AMP-binding; cl15778 298386014696 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386014697 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 298386014698 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386014699 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 298386014700 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 298386014701 putative NAD(P) binding site [chemical binding]; other site 298386014702 active site 298386014703 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 298386014704 AMP-binding enzyme; Region: AMP-binding; cl15778 298386014705 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386014706 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 298386014707 hydrophobic substrate binding pocket; other site 298386014708 Isochorismatase family; Region: Isochorismatase; pfam00857 298386014709 active site 298386014710 conserved cis-peptide bond; other site 298386014711 Phosphopantetheine attachment site; Region: PP-binding; cl09936 298386014712 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 298386014713 AMP-binding enzyme; Region: AMP-binding; cl15778 298386014714 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 298386014715 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 298386014716 chorismate binding enzyme; Region: Chorismate_bind; cl10555 298386014717 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 298386014718 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 298386014719 N-terminal plug; other site 298386014720 ligand-binding site [chemical binding]; other site 298386014721 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 298386014722 putative substrate translocation pore; other site 298386014723 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 298386014724 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 298386014725 Winged helix-turn helix; Region: HTH_29; pfam13551 298386014726 Helix-turn-helix domains; Region: HTH; cl00088 298386014727 Winged helix-turn helix; Region: HTH_33; pfam13592 298386014728 Integrase core domain; Region: rve; cl01316 298386014729 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 298386014730 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 298386014731 Phasin protein; Region: Phasin_2; cl11491 298386014732 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 298386014733 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 298386014734 dimer interface [polypeptide binding]; other site 298386014735 active site 298386014736 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 298386014737 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 298386014738 NAD(P) binding site [chemical binding]; other site 298386014739 homotetramer interface [polypeptide binding]; other site 298386014740 homodimer interface [polypeptide binding]; other site 298386014741 active site 298386014742 MoxR-like ATPases [General function prediction only]; Region: COG0714 298386014743 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386014744 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 298386014745 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 298386014746 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 298386014747 metal ion-dependent adhesion site (MIDAS); other site 298386014748 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 298386014749 metal ion-dependent adhesion site (MIDAS); other site 298386014750 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 298386014751 TPR motif; other site 298386014752 binding surface 298386014753 Oxygen tolerance; Region: BatD; pfam13584 298386014754 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 298386014755 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 298386014756 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 298386014757 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 298386014758 dimer interface [polypeptide binding]; other site 298386014759 active site 298386014760 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 298386014761 substrate binding site [chemical binding]; other site 298386014762 catalytic residue [active] 298386014763 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386014764 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 298386014765 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 298386014766 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 298386014767 catalytic residue [active] 298386014768 Biofilm formation and stress response factor; Region: BsmA; cl01794 298386014769 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 298386014770 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 298386014771 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386014772 Walker A/P-loop; other site 298386014773 ATP binding site [chemical binding]; other site 298386014774 Q-loop/lid; other site 298386014775 ABC transporter signature motif; other site 298386014776 Walker B; other site 298386014777 D-loop; other site 298386014778 H-loop/switch region; other site 298386014779 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 298386014780 DNA-binding site [nucleotide binding]; DNA binding site 298386014781 RNA-binding motif; other site 298386014782 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386014783 Helix-turn-helix domains; Region: HTH; cl00088 298386014784 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386014785 putative effector binding pocket; other site 298386014786 dimerization interface [polypeptide binding]; other site 298386014787 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 298386014788 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 298386014789 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 298386014790 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 298386014791 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 298386014792 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 298386014793 putative substrate translocation pore; other site 298386014794 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 298386014795 NADH(P)-binding; Region: NAD_binding_10; pfam13460 298386014796 NAD(P) binding site [chemical binding]; other site 298386014797 putative active site [active] 298386014798 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 298386014799 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 298386014800 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386014801 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386014802 dimer interface [polypeptide binding]; other site 298386014803 putative CheW interface [polypeptide binding]; other site 298386014804 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 298386014805 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386014806 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386014807 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386014808 dimer interface [polypeptide binding]; other site 298386014809 putative CheW interface [polypeptide binding]; other site 298386014810 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386014811 dimerization interface [polypeptide binding]; other site 298386014812 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386014813 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386014814 dimer interface [polypeptide binding]; other site 298386014815 putative CheW interface [polypeptide binding]; other site 298386014816 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 298386014817 TM-ABC transporter signature motif; other site 298386014818 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 298386014819 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 298386014820 Walker A/P-loop; other site 298386014821 ATP binding site [chemical binding]; other site 298386014822 Q-loop/lid; other site 298386014823 ABC transporter signature motif; other site 298386014824 Walker B; other site 298386014825 D-loop; other site 298386014826 H-loop/switch region; other site 298386014827 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 298386014828 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 298386014829 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 298386014830 ligand binding site [chemical binding]; other site 298386014831 calcium binding site [ion binding]; other site 298386014832 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 298386014833 mannonate dehydratase; Provisional; Region: PRK03906 298386014834 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 298386014835 DNA-binding site [nucleotide binding]; DNA binding site 298386014836 FCD domain; Region: FCD; cl11656 298386014837 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 298386014838 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 298386014839 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 298386014840 DctM-like transporters; Region: DctM; pfam06808 298386014841 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386014842 D-mannonate oxidoreductase; Provisional; Region: PRK15037 298386014843 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 298386014844 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 298386014845 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 298386014846 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 298386014847 substrate binding site [chemical binding]; other site 298386014848 ATP binding site [chemical binding]; other site 298386014849 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 298386014850 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 298386014851 active site 298386014852 intersubunit interface [polypeptide binding]; other site 298386014853 catalytic residue [active] 298386014854 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 298386014855 Domain of unknown function (DUF386); Region: DUF386; cl01047 298386014856 DctM-like transporters; Region: DctM; pfam06808 298386014857 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 298386014858 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 298386014859 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 298386014860 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 298386014861 LysE type translocator; Region: LysE; cl00565 298386014862 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 298386014863 Helix-turn-helix domains; Region: HTH; cl00088 298386014864 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 298386014865 dimerization interface [polypeptide binding]; other site 298386014866 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 298386014867 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 298386014868 active site 298386014869 metal binding site [ion binding]; metal-binding site 298386014870 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 298386014871 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 298386014872 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 298386014873 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 298386014874 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 298386014875 FAD binding pocket [chemical binding]; other site 298386014876 FAD binding motif [chemical binding]; other site 298386014877 phosphate binding motif [ion binding]; other site 298386014878 beta-alpha-beta structure motif; other site 298386014879 NAD binding pocket [chemical binding]; other site 298386014880 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 298386014881 catalytic loop [active] 298386014882 iron binding site [ion binding]; other site 298386014883 hybrid cluster protein; Provisional; Region: PRK05290 298386014884 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 298386014885 ACS interaction site; other site 298386014886 CODH interaction site; other site 298386014887 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 298386014888 hybrid metal cluster; other site 298386014889 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 298386014890 GAF domain; Region: GAF; cl15785 298386014891 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 298386014892 Walker A motif; other site 298386014893 ATP binding site [chemical binding]; other site 298386014894 Walker B motif; other site 298386014895 arginine finger; other site 298386014896 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386014897 Helix-turn-helix domains; Region: HTH; cl00088 298386014898 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386014899 putative effector binding pocket; other site 298386014900 dimerization interface [polypeptide binding]; other site 298386014901 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 298386014902 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 298386014903 Helix-turn-helix domains; Region: HTH; cl00088 298386014904 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 298386014905 dimerization interface [polypeptide binding]; other site 298386014906 EamA-like transporter family; Region: EamA; cl01037 298386014907 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 298386014908 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 298386014909 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 298386014910 G1 box; other site 298386014911 GTP/Mg2+ binding site [chemical binding]; other site 298386014912 Switch I region; other site 298386014913 G2 box; other site 298386014914 G3 box; other site 298386014915 Switch II region; other site 298386014916 G4 box; other site 298386014917 G5 box; other site 298386014918 Nucleoside recognition; Region: Gate; cl00486 298386014919 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 298386014920 FeoA domain; Region: FeoA; cl00838 298386014921 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 298386014922 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 298386014923 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 298386014924 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 298386014925 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 298386014926 dimer interface [polypeptide binding]; other site 298386014927 phosphorylation site [posttranslational modification] 298386014928 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 298386014929 ATP binding site [chemical binding]; other site 298386014930 Mg2+ binding site [ion binding]; other site 298386014931 G-X-G motif; other site 298386014932 osmolarity response regulator; Provisional; Region: ompR; PRK09468 298386014933 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 298386014934 active site 298386014935 phosphorylation site [posttranslational modification] 298386014936 intermolecular recognition site; other site 298386014937 dimerization interface [polypeptide binding]; other site 298386014938 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 298386014939 DNA binding site [nucleotide binding] 298386014940 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 298386014941 30S subunit binding site; other site 298386014942 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 298386014943 Helix-turn-helix domains; Region: HTH; cl00088 298386014944 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 298386014945 Histidine kinase; Region: His_kinase; pfam06580 298386014946 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 298386014947 ATP binding site [chemical binding]; other site 298386014948 Mg2+ binding site [ion binding]; other site 298386014949 G-X-G motif; other site 298386014950 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 298386014951 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 298386014952 active site 298386014953 phosphorylation site [posttranslational modification] 298386014954 intermolecular recognition site; other site 298386014955 dimerization interface [polypeptide binding]; other site 298386014956 LytTr DNA-binding domain; Region: LytTR; cl04498 298386014957 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 298386014958 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 298386014959 putative substrate translocation pore; other site 298386014960 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 298386014961 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 298386014962 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 298386014963 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 298386014964 putative substrate binding site [chemical binding]; other site 298386014965 nucleotide binding site [chemical binding]; other site 298386014966 nucleotide binding site [chemical binding]; other site 298386014967 homodimer interface [polypeptide binding]; other site 298386014968 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 298386014969 Helix-turn-helix domains; Region: HTH; cl00088 298386014970 putrescine carbamoyltransferase; Provisional; Region: PRK02255 298386014971 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 298386014972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386014973 NlpE N-terminal domain; Region: NlpE; cl01138 298386014974 ornithine carbamoyltransferase; Validated; Region: PRK02102 298386014975 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 298386014976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386014977 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 298386014978 active site 298386014979 catalytic triad [active] 298386014980 oxyanion hole [active] 298386014981 Integrase core domain; Region: rve; cl01316 298386014982 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 298386014983 DNA-binding site [nucleotide binding]; DNA binding site 298386014984 RNA-binding motif; other site 298386014985 Uncharacterized conserved protein (DUF2196); Region: DUF2196; cl02044 298386014986 lysophospholipase L2; Provisional; Region: PRK10749 298386014987 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 298386014988 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 298386014989 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 298386014990 active site 298386014991 nucleophile elbow; other site 298386014992 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 298386014993 homotrimer interaction site [polypeptide binding]; other site 298386014994 putative active site [active] 298386014995 Cytochrome c; Region: Cytochrom_C; cl11414 298386014996 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 298386014997 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 298386014998 Coenzyme A binding pocket [chemical binding]; other site 298386014999 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 298386015000 metal binding site [ion binding]; metal-binding site 298386015001 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 298386015002 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 298386015003 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386015004 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386015005 Helix-turn-helix domains; Region: HTH; cl00088 298386015006 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 298386015007 dimerization interface [polypeptide binding]; other site 298386015008 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 298386015009 MatE; Region: MatE; cl10513 298386015010 Aerolysin/Pertussis toxin (APT) domain; Region: APT; pfam03440 298386015011 Aerolysin toxin; Region: Aerolysin; cl03107 298386015012 Cupin domain; Region: Cupin_2; cl09118 298386015013 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 298386015014 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 298386015015 DNA binding residues [nucleotide binding] 298386015016 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386015017 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 298386015018 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 298386015019 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 298386015020 ATP binding site [chemical binding]; other site 298386015021 Mg2+ binding site [ion binding]; other site 298386015022 G-X-G motif; other site 298386015023 Response regulator receiver domain; Region: Response_reg; pfam00072 298386015024 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 298386015025 active site 298386015026 phosphorylation site [posttranslational modification] 298386015027 intermolecular recognition site; other site 298386015028 dimerization interface [polypeptide binding]; other site 298386015029 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386015030 Q-loop/lid; other site 298386015031 Walker B; other site 298386015032 D-loop; other site 298386015033 H-loop/switch region; other site 298386015034 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 298386015035 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 298386015036 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 298386015037 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 298386015038 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 298386015039 Propeptide_C25; Region: Propeptide_C25; pfam08126 298386015040 gingipain subgroup of the Peptidase C25 family N-terminal domain; Region: Peptidase_C25_N_gingipain; cd10913 298386015041 active site 298386015042 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 298386015043 REJ domain; Region: REJ; pfam02010 298386015044 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 298386015045 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 298386015046 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 298386015047 dimerization interface [polypeptide binding]; other site 298386015048 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 298386015049 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 298386015050 dimer interface [polypeptide binding]; other site 298386015051 putative CheW interface [polypeptide binding]; other site 298386015052 alanine racemase; Reviewed; Region: PRK13340 298386015053 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 298386015054 active site 298386015055 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 298386015056 dimer interface [polypeptide binding]; other site 298386015057 substrate binding site [chemical binding]; other site 298386015058 catalytic residues [active] 298386015059 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 298386015060 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 298386015061 putative DNA binding site [nucleotide binding]; other site 298386015062 putative Zn2+ binding site [ion binding]; other site 298386015063 Helix-turn-helix domains; Region: HTH; cl00088 298386015064 Protein of unknown function (DUF461); Region: DUF461; cl01071 298386015065 Membrane transport protein; Region: Mem_trans; cl09117 298386015066 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 298386015067 RNA/DNA binding site [nucleotide binding]; other site 298386015068 RRM dimerization site [polypeptide binding]; other site 298386015069 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 298386015070 lipase chaperone; Provisional; Region: PRK01294 298386015071 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 298386015072 Cupin domain; Region: Cupin_2; cl09118 298386015073 Cystatin-like domain; Cystatins are a family of cysteine protease inhibitors that occur mainly as single domain proteins. However some extracellular proteins such as kininogen, His-rich glycoprotein and fetuin also contain these domains; Region: CY; cl09238 298386015074 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 298386015075 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 298386015076 Transposase [DNA replication, recombination, and repair]; Region: COG5433 298386015077 Transposase [DNA replication, recombination, and repair]; Region: COG5433 298386015078 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 298386015079 active site 298386015080 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 298386015081 YadA-like C-terminal region; Region: YadA; pfam03895 298386015082 Helix-turn-helix domains; Region: HTH; cl00088 298386015083 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386015084 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 298386015085 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 298386015086 putative fimbrial protein TcfA; Provisional; Region: PRK15308 298386015087 CS1 type fimbrial major subunit; Region: Fimbrial_CS1; cl04524 298386015088 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 298386015089 catalytic residues [active] 298386015090 hinge region; other site 298386015091 alpha helical domain; other site 298386015092 Integrase core domain; Region: rve; cl01316 298386015093 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 298386015094 trimer interface [polypeptide binding]; other site 298386015095 active site 298386015096 substrate binding site [chemical binding]; other site 298386015097 CoA binding site [chemical binding]; other site 298386015098 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 298386015099 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 298386015100 putative acyl-acceptor binding pocket; other site 298386015101 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 298386015102 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 298386015103 Surface antigen; Region: Bac_surface_Ag; cl03097 298386015104 Protein of unknown function (DUF3283); Region: DUF3283; pfam11686 298386015105 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 298386015106 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 298386015107 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 298386015108 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386015109 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 298386015110 Integrase core domain; Region: rve; cl01316 298386015111 Sodium:solute symporter family; Region: SSF; cl00456 298386015112 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 298386015113 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 298386015114 NAD(P) binding site [chemical binding]; other site 298386015115 catalytic residues [active] 298386015116 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 298386015117 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 298386015118 Proline dehydrogenase; Region: Pro_dh; cl03282 298386015119 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 298386015120 Glutamate binding site [chemical binding]; other site 298386015121 NAD binding site [chemical binding]; other site 298386015122 catalytic residues [active] 298386015123 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386015124 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 298386015125 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 298386015126 Membrane transport protein; Region: Mem_trans; cl09117 298386015127 Transcriptional regulators [Transcription]; Region: PurR; COG1609 298386015128 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 298386015129 DNA binding site [nucleotide binding] 298386015130 domain linker motif; other site 298386015131 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 298386015132 ligand binding site [chemical binding]; other site 298386015133 dimerization interface [polypeptide binding]; other site 298386015134 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 298386015135 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 298386015136 methionine cluster; other site 298386015137 active site 298386015138 phosphorylation site [posttranslational modification] 298386015139 metal binding site [ion binding]; metal-binding site 298386015140 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 298386015141 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386015142 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 298386015143 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 298386015144 active site 298386015145 P-loop; other site 298386015146 phosphorylation site [posttranslational modification] 298386015147 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 298386015148 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 298386015149 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 298386015150 MatE; Region: MatE; cl10513 298386015151 MatE; Region: MatE; cl10513 298386015152 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 298386015153 Transcriptional regulator [Transcription]; Region: LysR; COG0583 298386015154 Helix-turn-helix domains; Region: HTH; cl00088 298386015155 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 298386015156 putative effector binding pocket; other site 298386015157 dimerization interface [polypeptide binding]; other site 298386015158 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 298386015159 PAS fold; Region: PAS_4; pfam08448 298386015160 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 298386015161 DNA binding residues [nucleotide binding] 298386015162 dimerization interface [polypeptide binding]; other site 298386015163 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 298386015164 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 298386015165 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 298386015166 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 298386015167 DASH complex subunit Hsk3 like; Region: DASH_Hsk3; pfam08227 298386015168 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 298386015169 dimer interface [polypeptide binding]; other site 298386015170 phosphorylation site [posttranslational modification] 298386015171 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 298386015172 ATP binding site [chemical binding]; other site 298386015173 Mg2+ binding site [ion binding]; other site 298386015174 G-X-G motif; other site 298386015175 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 298386015176 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 298386015177 active site 298386015178 phosphorylation site [posttranslational modification] 298386015179 intermolecular recognition site; other site 298386015180 dimerization interface [polypeptide binding]; other site 298386015181 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 298386015182 Walker A motif; other site 298386015183 ATP binding site [chemical binding]; other site 298386015184 Walker B motif; other site 298386015185 arginine finger; other site 298386015186 Helix-turn-helix domains; Region: HTH; cl00088 298386015187 biofilm formation regulator HmsP; Provisional; Region: PRK11829 298386015188 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 298386015189 metal binding site [ion binding]; metal-binding site 298386015190 active site 298386015191 I-site; other site 298386015192 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 298386015193 Protein of unknown function (DUF342); Region: DUF342; pfam03961 298386015194 putative hydrolase; Validated; Region: PRK09248 298386015195 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 298386015196 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 298386015197 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 298386015198 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 298386015199 plasmid-partitioning protein; Provisional; Region: PRK13698 298386015200 ParB-like nuclease domain; Region: ParBc; cl02129 298386015201 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 298386015202 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 298386015203 P-loop; other site 298386015204 Magnesium ion binding site [ion binding]; other site 298386015205 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 298386015206 Magnesium ion binding site [ion binding]; other site