-- dump date 20111121_015427 -- class Genbank::misc_feature -- table misc_feature_note -- id note 595494000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 595494000002 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 595494000003 Walker A motif; other site 595494000004 ATP binding site [chemical binding]; other site 595494000005 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494000006 Walker B motif; other site 595494000007 arginine finger; other site 595494000008 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 595494000009 DnaA box-binding interface [nucleotide binding]; other site 595494000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 595494000011 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 595494000012 putative DNA binding surface [nucleotide binding]; other site 595494000013 dimer interface [polypeptide binding]; other site 595494000014 beta-clamp/clamp loader binding surface; other site 595494000015 beta-clamp/translesion DNA polymerase binding surface; other site 595494000016 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 595494000017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494000018 Walker A/P-loop; other site 595494000019 ATP binding site [chemical binding]; other site 595494000020 Q-loop/lid; other site 595494000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494000022 ABC transporter signature motif; other site 595494000023 Walker B; other site 595494000024 D-loop; other site 595494000025 H-loop/switch region; other site 595494000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 595494000027 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 595494000028 Mg2+ binding site [ion binding]; other site 595494000029 G-X-G motif; other site 595494000030 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 595494000031 anchoring element; other site 595494000032 dimer interface [polypeptide binding]; other site 595494000033 ATP binding site [chemical binding]; other site 595494000034 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 595494000035 active site 595494000036 putative metal-binding site [ion binding]; other site 595494000037 General secretion pathway, M protein; Region: GspM; cl01222 595494000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 595494000039 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 595494000040 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494000041 metal binding site [ion binding]; metal-binding site 595494000042 active site 595494000043 I-site; other site 595494000044 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 595494000045 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 595494000046 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 595494000047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494000048 homodimer interface [polypeptide binding]; other site 595494000049 catalytic residue [active] 595494000050 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 595494000051 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 595494000052 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 595494000053 dimer interface [polypeptide binding]; other site 595494000054 motif 1; other site 595494000055 active site 595494000056 motif 2; other site 595494000057 motif 3; other site 595494000058 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 595494000059 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 595494000060 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 595494000061 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 595494000062 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 595494000063 sulfate ABC transporter, permease protein CysT; Region: permease_CysT; TIGR02139 595494000064 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 595494000065 dimer interface [polypeptide binding]; other site 595494000066 conserved gate region; other site 595494000067 putative PBP binding loops; other site 595494000068 ABC-ATPase subunit interface; other site 595494000069 sulfate transport protein; Provisional; Region: cysT; CHL00187 595494000070 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 595494000071 dimer interface [polypeptide binding]; other site 595494000072 conserved gate region; other site 595494000073 putative PBP binding loops; other site 595494000074 ABC-ATPase subunit interface; other site 595494000075 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 595494000076 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 595494000077 Walker A/P-loop; other site 595494000078 ATP binding site [chemical binding]; other site 595494000079 Q-loop/lid; other site 595494000080 ABC transporter signature motif; other site 595494000081 Walker B; other site 595494000082 D-loop; other site 595494000083 H-loop/switch region; other site 595494000084 TOBE domain; Region: TOBE_2; cl01440 595494000085 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 595494000086 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494000087 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 595494000088 substrate binding site [chemical binding]; other site 595494000089 dimerization interface [polypeptide binding]; other site 595494000090 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 595494000091 CPxP motif; other site 595494000092 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 595494000093 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 595494000094 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 595494000095 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 595494000096 ATP binding site [chemical binding]; other site 595494000097 Mg2+ binding site [ion binding]; other site 595494000098 G-X-G motif; other site 595494000099 osmolarity response regulator; Provisional; Region: ompR; PRK09468 595494000100 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 595494000101 active site 595494000102 phosphorylation site [posttranslational modification] 595494000103 intermolecular recognition site; other site 595494000104 dimerization interface [polypeptide binding]; other site 595494000105 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 595494000106 DNA binding site [nucleotide binding] 595494000107 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 595494000108 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 595494000109 putative transposase OrfB; Reviewed; Region: PHA02517 595494000110 Integrase core domain; Region: rve; cl01316 595494000111 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494000112 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 595494000113 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 595494000114 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 595494000115 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 595494000116 putative metal binding site; other site 595494000117 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 595494000118 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 595494000119 putative active site [active] 595494000120 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 595494000121 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 595494000122 putative active site [active] 595494000123 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 595494000124 O-Antigen ligase; Region: Wzy_C; cl04850 595494000125 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 595494000126 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 595494000127 NADP binding site [chemical binding]; other site 595494000128 homopentamer interface [polypeptide binding]; other site 595494000129 substrate binding site [chemical binding]; other site 595494000130 active site 595494000131 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 595494000132 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 595494000133 Walker A/P-loop; other site 595494000134 ATP binding site [chemical binding]; other site 595494000135 Q-loop/lid; other site 595494000136 ABC transporter signature motif; other site 595494000137 Walker B; other site 595494000138 D-loop; other site 595494000139 H-loop/switch region; other site 595494000140 TOBE domain; Region: TOBE_2; cl01440 595494000141 TOBE domain; Region: TOBE_2; cl01440 595494000142 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 595494000143 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 595494000144 trimer interface; other site 595494000145 sugar binding site [chemical binding]; other site 595494000146 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 595494000147 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 595494000148 Walker A/P-loop; other site 595494000149 ATP binding site [chemical binding]; other site 595494000150 Q-loop/lid; other site 595494000151 ABC transporter signature motif; other site 595494000152 Walker B; other site 595494000153 D-loop; other site 595494000154 H-loop/switch region; other site 595494000155 TOBE domain; Region: TOBE_2; cl01440 595494000156 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 595494000157 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 595494000158 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 595494000159 dimer interface [polypeptide binding]; other site 595494000160 conserved gate region; other site 595494000161 putative PBP binding loops; other site 595494000162 ABC-ATPase subunit interface; other site 595494000163 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 595494000164 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 595494000165 dimer interface [polypeptide binding]; other site 595494000166 conserved gate region; other site 595494000167 putative PBP binding loops; other site 595494000168 ABC-ATPase subunit interface; other site 595494000169 Phd_YefM; Region: PhdYeFM; cl09153 595494000170 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 595494000171 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494000172 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 595494000173 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 595494000174 maltodextrin phosphorylase; Provisional; Region: PRK14985 595494000175 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 595494000176 active site pocket [active] 595494000177 transcriptional regulator MalT; Provisional; Region: PRK04841 595494000178 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 595494000179 DNA binding residues [nucleotide binding] 595494000180 dimerization interface [polypeptide binding]; other site 595494000181 fructokinase; Reviewed; Region: PRK09557 595494000182 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 595494000183 osmolarity response regulator; Provisional; Region: ompR; PRK09468 595494000184 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 595494000185 active site 595494000186 phosphorylation site [posttranslational modification] 595494000187 intermolecular recognition site; other site 595494000188 dimerization interface [polypeptide binding]; other site 595494000189 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 595494000190 DNA binding site [nucleotide binding] 595494000191 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 595494000192 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 595494000193 substrate binding site [chemical binding]; other site 595494000194 ATP binding site [chemical binding]; other site 595494000195 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 595494000196 hypothetical protein; Provisional; Region: PRK08185 595494000197 intersubunit interface [polypeptide binding]; other site 595494000198 active site 595494000199 zinc binding site [ion binding]; other site 595494000200 Na+ binding site [ion binding]; other site 595494000201 Cupin domain; Region: Cupin_2; cl09118 595494000202 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 595494000203 N- and C-terminal domain interface [polypeptide binding]; other site 595494000204 D-xylulose kinase; Region: XylB; TIGR01312 595494000205 active site 595494000206 catalytic site [active] 595494000207 metal binding site [ion binding]; metal-binding site 595494000208 xylulose binding site [chemical binding]; other site 595494000209 putative ATP binding site [chemical binding]; other site 595494000210 homodimer interface [polypeptide binding]; other site 595494000211 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 595494000212 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 595494000213 putative ligand binding site [chemical binding]; other site 595494000214 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 595494000215 TM-ABC transporter signature motif; other site 595494000216 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 595494000217 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 595494000218 Walker A/P-loop; other site 595494000219 ATP binding site [chemical binding]; other site 595494000220 Q-loop/lid; other site 595494000221 ABC transporter signature motif; other site 595494000222 Walker B; other site 595494000223 D-loop; other site 595494000224 H-loop/switch region; other site 595494000225 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 595494000226 sensory histidine kinase AtoS; Provisional; Region: PRK11360 595494000227 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 595494000228 dimer interface [polypeptide binding]; other site 595494000229 phosphorylation site [posttranslational modification] 595494000230 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 595494000231 ATP binding site [chemical binding]; other site 595494000232 Mg2+ binding site [ion binding]; other site 595494000233 G-X-G motif; other site 595494000234 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 595494000235 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 595494000236 active site 595494000237 phosphorylation site [posttranslational modification] 595494000238 intermolecular recognition site; other site 595494000239 dimerization interface [polypeptide binding]; other site 595494000240 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 595494000241 L,D-transpeptidase; Provisional; Region: PRK10190 595494000242 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 595494000243 putative peptidoglycan binding site; other site 595494000244 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 595494000245 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl15476 595494000246 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 595494000247 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 595494000248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494000249 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494000250 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 595494000251 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 595494000252 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 595494000253 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 595494000254 FAD binding site [chemical binding]; other site 595494000255 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 595494000256 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 595494000257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494000258 homodimer interface [polypeptide binding]; other site 595494000259 catalytic residue [active] 595494000260 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494000261 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 595494000262 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 595494000263 ATP binding site [chemical binding]; other site 595494000264 Mg++ binding site [ion binding]; other site 595494000265 motif III; other site 595494000266 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 595494000267 nucleotide binding region [chemical binding]; other site 595494000268 ATP-binding site [chemical binding]; other site 595494000269 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 595494000270 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 595494000271 ATP binding site [chemical binding]; other site 595494000272 Mg++ binding site [ion binding]; other site 595494000273 motif III; other site 595494000274 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 595494000275 nucleotide binding region [chemical binding]; other site 595494000276 ATP-binding site [chemical binding]; other site 595494000277 DbpA RNA binding domain; Region: DbpA; pfam03880 595494000278 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 595494000279 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494000280 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 595494000281 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 595494000282 glycerol kinase; Provisional; Region: glpK; PRK00047 595494000283 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 595494000284 N- and C-terminal domain interface [polypeptide binding]; other site 595494000285 active site 595494000286 MgATP binding site [chemical binding]; other site 595494000287 catalytic site [active] 595494000288 metal binding site [ion binding]; metal-binding site 595494000289 glycerol binding site [chemical binding]; other site 595494000290 homotetramer interface [polypeptide binding]; other site 595494000291 homodimer interface [polypeptide binding]; other site 595494000292 FBP binding site [chemical binding]; other site 595494000293 protein IIAGlc interface [polypeptide binding]; other site 595494000294 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 595494000295 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 595494000296 putative NAD(P) binding site [chemical binding]; other site 595494000297 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 595494000298 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 595494000299 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 595494000300 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 595494000301 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 595494000302 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 595494000303 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 595494000304 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 595494000305 trimer interface [polypeptide binding]; other site 595494000306 active site 595494000307 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 595494000308 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494000309 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 595494000310 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 595494000311 Ligand Binding Site [chemical binding]; other site 595494000312 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 595494000313 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 595494000314 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494000315 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 595494000316 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 595494000317 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 595494000318 Protein of unknown function (DUF406); Region: DUF406; cl11449 595494000319 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 595494000320 phage shock protein C; Region: phageshock_pspC; TIGR02978 595494000321 PspC domain; Region: PspC; cl00864 595494000322 Phage shock protein B; Region: PspB; cl05946 595494000323 phage shock protein A; Region: phageshock_pspA; TIGR02977 595494000324 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 595494000325 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 595494000326 Walker A motif; other site 595494000327 ATP binding site [chemical binding]; other site 595494000328 Walker B motif; other site 595494000329 arginine finger; other site 595494000330 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494000331 Protein of unknown function (DUF2492); Region: DUF2492; cl11278 595494000332 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 595494000333 MarC family integral membrane protein; Region: MarC; cl00919 595494000334 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 595494000335 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 595494000336 acetylornithine deacetylase; Provisional; Region: PRK05111 595494000337 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 595494000338 metal binding site [ion binding]; metal-binding site 595494000339 putative dimer interface [polypeptide binding]; other site 595494000340 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 595494000341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494000342 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 595494000343 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 595494000344 nucleotide binding site [chemical binding]; other site 595494000345 substrate binding site [chemical binding]; other site 595494000346 ornithine carbamoyltransferase; Provisional; Region: PRK14805 595494000347 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 595494000348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494000349 argininosuccinate lyase; Provisional; Region: PRK04833 595494000350 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 595494000351 active sites [active] 595494000352 tetramer interface [polypeptide binding]; other site 595494000353 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 595494000354 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 595494000355 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 595494000356 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 595494000357 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 595494000358 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 595494000359 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 595494000360 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 595494000361 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 595494000362 putative translocon binding site; other site 595494000363 protein-rRNA interface [nucleotide binding]; other site 595494000364 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 595494000365 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 595494000366 G-X-X-G motif; other site 595494000367 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 595494000368 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 595494000369 23S rRNA interface [nucleotide binding]; other site 595494000370 5S rRNA interface [nucleotide binding]; other site 595494000371 putative antibiotic binding site [chemical binding]; other site 595494000372 L25 interface [polypeptide binding]; other site 595494000373 L27 interface [polypeptide binding]; other site 595494000374 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 595494000375 23S rRNA interface [nucleotide binding]; other site 595494000376 putative translocon interaction site; other site 595494000377 signal recognition particle (SRP54) interaction site; other site 595494000378 L23 interface [polypeptide binding]; other site 595494000379 trigger factor interaction site; other site 595494000380 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 595494000381 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 595494000382 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 595494000383 KOW motif; Region: KOW; cl00354 595494000384 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 595494000385 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 595494000386 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 595494000387 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 595494000388 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 595494000389 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 595494000390 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 595494000391 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 595494000392 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 595494000393 5S rRNA interface [nucleotide binding]; other site 595494000394 23S rRNA interface [nucleotide binding]; other site 595494000395 L5 interface [polypeptide binding]; other site 595494000396 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 595494000397 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 595494000398 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 595494000399 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 595494000400 23S rRNA binding site [nucleotide binding]; other site 595494000401 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 595494000402 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 595494000403 SecY translocase; Region: SecY; pfam00344 595494000404 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 595494000405 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 595494000406 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 595494000407 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 595494000408 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 595494000409 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 595494000410 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 595494000411 RNA binding surface [nucleotide binding]; other site 595494000412 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 595494000413 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 595494000414 alphaNTD homodimer interface [polypeptide binding]; other site 595494000415 alphaNTD - beta interaction site [polypeptide binding]; other site 595494000416 alphaNTD - beta' interaction site [polypeptide binding]; other site 595494000417 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 595494000418 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 595494000419 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 595494000420 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 595494000421 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 595494000422 dimerization interface [polypeptide binding]; other site 595494000423 DNA binding site [nucleotide binding] 595494000424 corepressor binding sites; other site 595494000425 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 595494000426 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 595494000427 homodimer interface [polypeptide binding]; other site 595494000428 substrate-cofactor binding pocket; other site 595494000429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494000430 catalytic residue [active] 595494000431 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 595494000432 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 595494000433 nucleotide binding site [chemical binding]; other site 595494000434 substrate binding site [chemical binding]; other site 595494000435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494000436 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 595494000437 Acylphosphatase; Region: Acylphosphatase; cl00551 595494000438 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 595494000439 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 595494000440 DNA binding site [nucleotide binding] 595494000441 catalytic residue [active] 595494000442 H2TH interface [polypeptide binding]; other site 595494000443 putative catalytic residues [active] 595494000444 turnover-facilitating residue; other site 595494000445 intercalation triad [nucleotide binding]; other site 595494000446 8OG recognition residue [nucleotide binding]; other site 595494000447 putative reading head residues; other site 595494000448 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 595494000449 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 595494000450 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 595494000451 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 595494000452 active site 595494000453 (T/H)XGH motif; other site 595494000454 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_C39A; cd02549 595494000455 putative active site [active] 595494000456 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 595494000457 ATP binding site [chemical binding]; other site 595494000458 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 595494000459 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 595494000460 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 595494000461 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 595494000462 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 595494000463 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 595494000464 dimerization interface [polypeptide binding]; other site 595494000465 ligand binding site [chemical binding]; other site 595494000466 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 595494000467 TM-ABC transporter signature motif; other site 595494000468 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 595494000469 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 595494000470 TM-ABC transporter signature motif; other site 595494000471 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 595494000472 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 595494000473 Walker A/P-loop; other site 595494000474 ATP binding site [chemical binding]; other site 595494000475 Q-loop/lid; other site 595494000476 ABC transporter signature motif; other site 595494000477 Walker B; other site 595494000478 D-loop; other site 595494000479 H-loop/switch region; other site 595494000480 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 595494000481 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 595494000482 Walker A/P-loop; other site 595494000483 ATP binding site [chemical binding]; other site 595494000484 Q-loop/lid; other site 595494000485 ABC transporter signature motif; other site 595494000486 Walker B; other site 595494000487 D-loop; other site 595494000488 H-loop/switch region; other site 595494000489 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 595494000490 active site residue [active] 595494000491 intramembrane serine protease GlpG; Provisional; Region: PRK10907 595494000492 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 595494000493 Rhomboid family; Region: Rhomboid; cl11446 595494000494 UTRA domain; Region: UTRA; cl01230 595494000495 UbiA prenyltransferase family; Region: UbiA; cl00337 595494000496 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494000497 LexA repressor; Validated; Region: PRK00215 595494000498 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 595494000499 Catalytic site [active] 595494000500 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 595494000501 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494000502 Rrf2 family protein; Region: rrf2_super; TIGR00738 595494000503 Cation transport protein; Region: TrkH; cl10514 595494000504 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 595494000505 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 595494000506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494000507 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 595494000508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494000509 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 595494000510 16S rRNA methyltransferase B; Provisional; Region: PRK10901 595494000511 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 595494000512 putative RNA binding site [nucleotide binding]; other site 595494000513 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 595494000514 S-adenosylmethionine binding site [chemical binding]; other site 595494000515 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 595494000516 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 595494000517 putative active site [active] 595494000518 substrate binding site [chemical binding]; other site 595494000519 putative cosubstrate binding site; other site 595494000520 catalytic site [active] 595494000521 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 595494000522 substrate binding site [chemical binding]; other site 595494000523 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 595494000524 active site 595494000525 catalytic residues [active] 595494000526 metal binding site [ion binding]; metal-binding site 595494000527 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 595494000528 putative peptidoglycan binding site; other site 595494000529 hypothetical protein; Provisional; Region: PRK10736 595494000530 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 595494000531 Protein of unknown function (DUF494); Region: DUF494; cl01103 595494000532 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 595494000533 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 595494000534 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 595494000535 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 595494000536 AIR carboxylase; Region: AIRC; cl00310 595494000537 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 595494000538 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 595494000539 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 595494000540 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 595494000541 NAD(P) binding site [chemical binding]; other site 595494000542 shikimate binding site; other site 595494000543 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 595494000544 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 595494000545 trimer interface [polypeptide binding]; other site 595494000546 putative metal binding site [ion binding]; other site 595494000547 DinB superfamily; Region: DinB_2; cl00986 595494000548 TIGR03440 family protein; Region: unchr_TIGR03440 595494000549 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 595494000550 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 595494000551 S-adenosylmethionine binding site [chemical binding]; other site 595494000552 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 595494000553 active site 595494000554 catalytic motif [active] 595494000555 Zn binding site [ion binding]; other site 595494000556 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 595494000557 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 595494000558 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 595494000559 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 595494000560 active site turn [active] 595494000561 phosphorylation site [posttranslational modification] 595494000562 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494000563 trehalose repressor; Provisional; Region: treR; PRK09492 595494000564 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494000565 DNA binding site [nucleotide binding] 595494000566 domain linker motif; other site 595494000567 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 595494000568 dimerization interface [polypeptide binding]; other site 595494000569 ligand binding site [chemical binding]; other site 595494000570 Domain of unknown function (DUF386); Region: DUF386; cl01047 595494000571 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 595494000572 putative C-terminal domain interface [polypeptide binding]; other site 595494000573 putative GSH binding site (G-site) [chemical binding]; other site 595494000574 putative dimer interface [polypeptide binding]; other site 595494000575 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 595494000576 putative N-terminal domain interface [polypeptide binding]; other site 595494000577 putative dimer interface [polypeptide binding]; other site 595494000578 putative substrate binding pocket (H-site) [chemical binding]; other site 595494000579 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 595494000580 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 595494000581 homodimer interface [polypeptide binding]; other site 595494000582 substrate-cofactor binding pocket; other site 595494000583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494000584 catalytic residue [active] 595494000585 putative transporter; Provisional; Region: PRK10504 595494000586 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 595494000587 putative substrate translocation pore; other site 595494000588 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 595494000589 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 595494000590 dimer interface [polypeptide binding]; other site 595494000591 conserved gate region; other site 595494000592 putative PBP binding loops; other site 595494000593 ABC-ATPase subunit interface; other site 595494000594 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 595494000595 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 595494000596 substrate binding pocket [chemical binding]; other site 595494000597 membrane-bound complex binding site; other site 595494000598 hinge residues; other site 595494000599 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 595494000600 transmembrane helices; other site 595494000601 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 595494000602 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 595494000603 PPIC-type PPIASE domain; Region: Rotamase; cl08278 595494000604 Predicted membrane protein [Function unknown]; Region: COG3650 595494000605 putative hydrolase; Provisional; Region: PRK10976 595494000606 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 595494000607 active site 595494000608 motif I; other site 595494000609 motif II; other site 595494000610 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 595494000611 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 595494000612 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 595494000613 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 595494000614 synthetase active site [active] 595494000615 NTP binding site [chemical binding]; other site 595494000616 metal binding site [ion binding]; metal-binding site 595494000617 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 595494000618 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 595494000619 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 595494000620 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 595494000621 catalytic site [active] 595494000622 G-X2-G-X-G-K; other site 595494000623 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 595494000624 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 595494000625 hypothetical protein; Reviewed; Region: PRK00024 595494000626 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 595494000627 MPN+ (JAMM) motif; other site 595494000628 Zinc-binding site [ion binding]; other site 595494000629 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 595494000630 Flavoprotein; Region: Flavoprotein; cl08021 595494000631 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 595494000632 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 595494000633 trimer interface [polypeptide binding]; other site 595494000634 active site 595494000635 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 595494000636 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 595494000637 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 595494000638 hypothetical protein; Provisional; Region: PRK11820 595494000639 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 595494000640 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 595494000641 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 595494000642 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494000643 metal binding site [ion binding]; metal-binding site 595494000644 active site 595494000645 I-site; other site 595494000646 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 595494000647 putative deacylase active site [active] 595494000648 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 595494000649 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 595494000650 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 595494000651 Protein of unknown function (DUF770); Region: DUF770; cl01402 595494000652 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 595494000653 Protein of unknown function (DUF877); Region: DUF877; pfam05943 595494000654 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 595494000655 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 595494000656 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 595494000657 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 595494000658 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 595494000659 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 595494000660 Walker A motif; other site 595494000661 ATP binding site [chemical binding]; other site 595494000662 Walker B motif; other site 595494000663 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 595494000664 Walker A motif; other site 595494000665 ATP binding site [chemical binding]; other site 595494000666 Walker B motif; other site 595494000667 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 595494000668 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 595494000669 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 595494000670 Walker A motif; other site 595494000671 ATP binding site [chemical binding]; other site 595494000672 Walker B motif; other site 595494000673 arginine finger; other site 595494000674 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494000675 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 595494000676 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 595494000677 phosphopeptide binding site; other site 595494000678 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 595494000679 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 595494000680 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 595494000681 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 595494000682 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 595494000683 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 595494000684 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 595494000685 Protein phosphatase 2C; Region: PP2C; pfam00481 595494000686 active site 595494000687 Catalytic domain of Protein Kinases; Region: PKc; cd00180 595494000688 active site 595494000689 ATP binding site [chemical binding]; other site 595494000690 substrate binding site [chemical binding]; other site 595494000691 activation loop (A-loop); other site 595494000692 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 595494000693 Phage protein D [General function prediction only]; Region: COG3500; cl12180 595494000694 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 595494000695 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 595494000696 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 595494000697 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 595494000698 C-terminal domain interface [polypeptide binding]; other site 595494000699 GSH binding site (G-site) [chemical binding]; other site 595494000700 dimer interface [polypeptide binding]; other site 595494000701 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 595494000702 N-terminal domain interface [polypeptide binding]; other site 595494000703 putative dimer interface [polypeptide binding]; other site 595494000704 active site 595494000705 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 595494000706 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 595494000707 Malic enzyme, N-terminal domain; Region: malic; pfam00390 595494000708 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 595494000709 putative NAD(P) binding site [chemical binding]; other site 595494000710 sensory histidine kinase DcuS; Provisional; Region: PRK11086 595494000711 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 595494000712 ATP binding site [chemical binding]; other site 595494000713 Mg2+ binding site [ion binding]; other site 595494000714 G-X-G motif; other site 595494000715 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 595494000716 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 595494000717 active site 595494000718 phosphorylation site [posttranslational modification] 595494000719 intermolecular recognition site; other site 595494000720 dimerization interface [polypeptide binding]; other site 595494000721 CHASE4 domain; Region: CHASE4; cl01308 595494000722 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 595494000723 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494000724 metal binding site [ion binding]; metal-binding site 595494000725 active site 595494000726 I-site; other site 595494000727 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 595494000728 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 595494000729 dimer interface [polypeptide binding]; other site 595494000730 substrate binding site [chemical binding]; other site 595494000731 ATP binding site [chemical binding]; other site 595494000732 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 595494000733 thiamine phosphate binding site [chemical binding]; other site 595494000734 active site 595494000735 pyrophosphate binding site [ion binding]; other site 595494000736 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 595494000737 substrate binding site [chemical binding]; other site 595494000738 multimerization interface [polypeptide binding]; other site 595494000739 ATP binding site [chemical binding]; other site 595494000740 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 595494000741 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 595494000742 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 595494000743 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 595494000744 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 595494000745 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 595494000746 putative NAD(P) binding site [chemical binding]; other site 595494000747 catalytic Zn binding site [ion binding]; other site 595494000748 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 595494000749 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 595494000750 NADP binding site [chemical binding]; other site 595494000751 homodimer interface [polypeptide binding]; other site 595494000752 active site 595494000753 gluconate transporter; Region: gntP; TIGR00791 595494000754 GntP family permease; Region: GntP_permease; cl15264 595494000755 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 595494000756 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494000757 DNA binding site [nucleotide binding] 595494000758 domain linker motif; other site 595494000759 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 595494000760 putative dimerization interface [polypeptide binding]; other site 595494000761 putative ligand binding site [chemical binding]; other site 595494000762 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 595494000763 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 595494000764 ATP-binding site [chemical binding]; other site 595494000765 Gluconate-6-phosphate binding site [chemical binding]; other site 595494000766 Dehydratase family; Region: ILVD_EDD; cl00340 595494000767 6-phosphogluconate dehydratase; Region: edd; TIGR01196 595494000768 Entner-Doudoroff aldolase; Region: eda; TIGR01182 595494000769 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 595494000770 active site 595494000771 intersubunit interface [polypeptide binding]; other site 595494000772 catalytic residue [active] 595494000773 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 595494000774 dimer interface [polypeptide binding]; other site 595494000775 ssDNA binding site [nucleotide binding]; other site 595494000776 tetramer (dimer of dimers) interface [polypeptide binding]; other site 595494000777 putative single-stranded DNA-binding protein; Region: PHA01740 595494000778 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 595494000779 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 595494000780 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 595494000781 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 595494000782 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 595494000783 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 595494000784 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 595494000785 EamA-like transporter family; Region: EamA; cl01037 595494000786 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 595494000787 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 595494000788 motif II; other site 595494000789 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 595494000790 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494000791 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 595494000792 dimerization interface [polypeptide binding]; other site 595494000793 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 595494000794 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 595494000795 putative substrate translocation pore; other site 595494000796 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 595494000797 putative active site [active] 595494000798 dimerization interface [polypeptide binding]; other site 595494000799 putative tRNAtyr binding site [nucleotide binding]; other site 595494000800 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; cl12011 595494000801 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 595494000802 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 595494000803 Y-family of DNA polymerases; Region: PolY; cl12025 595494000804 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 595494000805 generic binding surface II; other site 595494000806 ssDNA binding site; other site 595494000807 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 595494000808 ATP binding site [chemical binding]; other site 595494000809 putative Mg++ binding site [ion binding]; other site 595494000810 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 595494000811 nucleotide binding region [chemical binding]; other site 595494000812 ATP-binding site [chemical binding]; other site 595494000813 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 595494000814 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 595494000815 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 595494000816 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 595494000817 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 595494000818 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 595494000819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494000820 NAD(P) binding site [chemical binding]; other site 595494000821 active site 595494000822 Glucitol operon activator protein (GutM); Region: GutM; cl01890 595494000823 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 595494000824 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494000825 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 595494000826 Transcriptional regulators [Transcription]; Region: MarR; COG1846 595494000827 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494000828 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 595494000829 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 595494000830 dimer interface [polypeptide binding]; other site 595494000831 conserved gate region; other site 595494000832 ABC-ATPase subunit interface; other site 595494000833 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 595494000834 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 595494000835 Walker A/P-loop; other site 595494000836 ATP binding site [chemical binding]; other site 595494000837 Q-loop/lid; other site 595494000838 ABC transporter signature motif; other site 595494000839 Walker B; other site 595494000840 D-loop; other site 595494000841 H-loop/switch region; other site 595494000842 NIL domain; Region: NIL; cl09633 595494000843 rod shape-determining protein MreB; Provisional; Region: PRK13927 595494000844 hypothetical protein; Provisional; Region: PRK10039 595494000845 Cell division protein FtsA; Region: FtsA; cl11496 595494000846 rod shape-determining protein MreC; Provisional; Region: PRK13922 595494000847 rod shape-determining protein MreC; Region: MreC; pfam04085 595494000848 rod shape-determining protein MreD; Region: MreD; cl01087 595494000849 Maf-like protein; Region: Maf; pfam02545 595494000850 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 595494000851 active site 595494000852 dimer interface [polypeptide binding]; other site 595494000853 ribonuclease G; Provisional; Region: PRK11712 595494000854 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 595494000855 homodimer interface [polypeptide binding]; other site 595494000856 oligonucleotide binding site [chemical binding]; other site 595494000857 TIGR02099 family protein; Region: TIGR02099 595494000858 hypothetical protein; Provisional; Region: PRK10899 595494000859 Predicted amidohydrolase [General function prediction only]; Region: COG0388 595494000860 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 595494000861 putative active site [active] 595494000862 catalytic triad [active] 595494000863 dimer interface [polypeptide binding]; other site 595494000864 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 595494000865 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 595494000866 Protein of unknown function (DUF615); Region: DUF615; cl01147 595494000867 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 595494000868 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 595494000869 Protein of unknown function (DUF496); Region: DUF496; cl09955 595494000870 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 595494000871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494000872 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 595494000873 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 595494000874 Aminotransferase class-V; Region: Aminotran_5; pfam00266 595494000875 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 595494000876 catalytic residue [active] 595494000877 Fe-S metabolism associated domain; Region: SufE; cl00951 595494000878 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 595494000879 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 595494000880 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 595494000881 putative ATP binding site [chemical binding]; other site 595494000882 putative substrate interface [chemical binding]; other site 595494000883 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 595494000884 Ligand binding site; other site 595494000885 Putative Catalytic site; other site 595494000886 DXD motif; other site 595494000887 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 595494000888 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl15364 595494000889 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 595494000890 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 595494000891 putative NAD(P) binding site [chemical binding]; other site 595494000892 active site 595494000893 putative substrate binding site [chemical binding]; other site 595494000894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 595494000895 Protein of unknown function (DUF330); Region: DUF330; cl01135 595494000896 paraquat-inducible protein B; Provisional; Region: PRK10807 595494000897 mce related protein; Region: MCE; cl15431 595494000898 mce related protein; Region: MCE; cl15431 595494000899 mce related protein; Region: MCE; cl15431 595494000900 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 595494000901 Paraquat-inducible protein A; Region: PqiA; pfam04403 595494000902 Paraquat-inducible protein A; Region: PqiA; pfam04403 595494000903 ketol-acid reductoisomerase; Validated; Region: PRK05225 595494000904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494000905 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 595494000906 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 595494000907 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494000908 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 595494000909 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 595494000910 putative dimerization interface [polypeptide binding]; other site 595494000911 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 595494000912 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 595494000913 active site 595494000914 dimer interface [polypeptide binding]; other site 595494000915 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 595494000916 dimer interface [polypeptide binding]; other site 595494000917 active site 595494000918 NMT1/THI5 like; Region: NMT1; pfam09084 595494000919 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494000920 metal binding site [ion binding]; metal-binding site 595494000921 active site 595494000922 I-site; other site 595494000923 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 595494000924 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494000925 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 595494000926 active site 595494000927 P-loop; other site 595494000928 phosphorylation site [posttranslational modification] 595494000929 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 595494000930 active site 595494000931 phosphorylation site [posttranslational modification] 595494000932 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 595494000933 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 595494000934 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 595494000935 Mannitol repressor; Region: MtlR; cl11450 595494000936 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 595494000937 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 595494000938 P-loop; other site 595494000939 active site 595494000940 phosphorylation site [posttranslational modification] 595494000941 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 595494000942 P-loop; other site 595494000943 active site 595494000944 phosphorylation site [posttranslational modification] 595494000945 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494000946 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 595494000947 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 595494000948 putative substrate binding site [chemical binding]; other site 595494000949 putative ATP binding site [chemical binding]; other site 595494000950 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 595494000951 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 595494000952 active site 595494000953 phosphorylation site [posttranslational modification] 595494000954 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 595494000955 dimerization domain swap beta strand [polypeptide binding]; other site 595494000956 regulatory protein interface [polypeptide binding]; other site 595494000957 active site 595494000958 regulatory phosphorylation site [posttranslational modification]; other site 595494000959 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 595494000960 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494000961 DNA binding site [nucleotide binding] 595494000962 domain linker motif; other site 595494000963 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 595494000964 dimerization interface [polypeptide binding]; other site 595494000965 ligand binding site [chemical binding]; other site 595494000966 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 595494000967 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 595494000968 MatE; Region: MatE; cl10513 595494000969 MatE; Region: MatE; cl10513 595494000970 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 595494000971 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 595494000972 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 595494000973 Walker A/P-loop; other site 595494000974 ATP binding site [chemical binding]; other site 595494000975 Q-loop/lid; other site 595494000976 ABC transporter signature motif; other site 595494000977 Walker B; other site 595494000978 D-loop; other site 595494000979 H-loop/switch region; other site 595494000980 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 595494000981 FtsX-like permease family; Region: FtsX; pfam02687 595494000982 macrolide transporter subunit MacA; Provisional; Region: PRK11578 595494000983 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 595494000984 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 595494000985 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494000986 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 595494000987 Walker A/P-loop; other site 595494000988 ATP binding site [chemical binding]; other site 595494000989 Q-loop/lid; other site 595494000990 ABC transporter signature motif; other site 595494000991 Walker B; other site 595494000992 D-loop; other site 595494000993 H-loop/switch region; other site 595494000994 TOBE domain; Region: TOBE_2; cl01440 595494000995 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 595494000996 putative PBP binding loops; other site 595494000997 dimer interface [polypeptide binding]; other site 595494000998 ABC-ATPase subunit interface; other site 595494000999 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494001000 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 595494001001 TOBE domain; Region: TOBE_2; cl01440 595494001002 TOBE domain; Region: TOBE_2; cl01440 595494001003 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 595494001004 Autoinducer binding domain; Region: Autoind_bind; pfam03472 595494001005 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 595494001006 DNA binding residues [nucleotide binding] 595494001007 dimerization interface [polypeptide binding]; other site 595494001008 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 595494001009 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 595494001010 Substrate binding site; other site 595494001011 Mg++ binding site; other site 595494001012 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 595494001013 active site 595494001014 substrate binding site [chemical binding]; other site 595494001015 CoA binding site [chemical binding]; other site 595494001016 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 595494001017 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494001018 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 595494001019 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 595494001020 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 595494001021 glutaminase active site [active] 595494001022 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 595494001023 dimer interface [polypeptide binding]; other site 595494001024 active site 595494001025 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 595494001026 dimer interface [polypeptide binding]; other site 595494001027 active site 595494001028 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 595494001029 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 595494001030 Integrase core domain; Region: rve; cl01316 595494001031 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 595494001032 Walker A motif; other site 595494001033 ATP binding site [chemical binding]; other site 595494001034 Walker B motif; other site 595494001035 Tn7 transposition regulator TnsC; Region: Tn7_TnsC_Int; pfam11426 595494001036 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; cl15358 595494001037 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 595494001038 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 595494001039 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 595494001040 metal binding site 2 [ion binding]; metal-binding site 595494001041 putative DNA binding helix; other site 595494001042 metal binding site 1 [ion binding]; metal-binding site 595494001043 dimer interface [polypeptide binding]; other site 595494001044 structural Zn2+ binding site [ion binding]; other site 595494001045 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 595494001046 peroxiredoxin; Provisional; Region: PRK13189 595494001047 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 595494001048 dimer interface [polypeptide binding]; other site 595494001049 decamer (pentamer of dimers) interface [polypeptide binding]; other site 595494001050 catalytic triad [active] 595494001051 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 595494001052 gating phenylalanine in ion channel; other site 595494001053 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 595494001054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494001055 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 595494001056 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 595494001057 active site residue [active] 595494001058 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 595494001059 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 595494001060 CoenzymeA binding site [chemical binding]; other site 595494001061 subunit interaction site [polypeptide binding]; other site 595494001062 PHB binding site; other site 595494001063 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494001064 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 595494001065 active site residue [active] 595494001066 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; cl12011 595494001067 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; cl12011 595494001068 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 595494001069 S-adenosylmethionine binding site [chemical binding]; other site 595494001070 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 595494001071 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 595494001072 Ferritin-like domain; Region: Ferritin; pfam00210 595494001073 dimerization interface [polypeptide binding]; other site 595494001074 DPS ferroxidase diiron center [ion binding]; other site 595494001075 ion pore; other site 595494001076 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 595494001077 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 595494001078 active site 595494001079 motif I; other site 595494001080 motif II; other site 595494001081 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 595494001082 Bacitracin resistance protein BacA; Region: BacA; cl00858 595494001083 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 595494001084 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 595494001085 Ca2+ binding site [ion binding]; other site 595494001086 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 595494001087 dimer interface [polypeptide binding]; other site 595494001088 allosteric magnesium binding site [ion binding]; other site 595494001089 active site 595494001090 aspartate-rich active site metal binding site; other site 595494001091 Schiff base residues; other site 595494001092 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 595494001093 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 595494001094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 595494001095 SCP-2 sterol transfer family; Region: SCP2; cl01225 595494001096 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 595494001097 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 595494001098 S-adenosylmethionine binding site [chemical binding]; other site 595494001099 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 595494001100 DNA polymerase I; Provisional; Region: PRK05755 595494001101 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 595494001102 active site 595494001103 metal binding site 1 [ion binding]; metal-binding site 595494001104 putative 5' ssDNA interaction site; other site 595494001105 metal binding site 3; metal-binding site 595494001106 metal binding site 2 [ion binding]; metal-binding site 595494001107 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 595494001108 putative DNA binding site [nucleotide binding]; other site 595494001109 putative metal binding site [ion binding]; other site 595494001110 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 595494001111 active site 595494001112 catalytic site [active] 595494001113 substrate binding site [chemical binding]; other site 595494001114 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 595494001115 active site 595494001116 DNA binding site [nucleotide binding] 595494001117 catalytic site [active] 595494001118 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 595494001119 G1 box; other site 595494001120 GTP/Mg2+ binding site [chemical binding]; other site 595494001121 Switch I region; other site 595494001122 G2 box; other site 595494001123 G3 box; other site 595494001124 Switch II region; other site 595494001125 G4 box; other site 595494001126 G5 box; other site 595494001127 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 595494001128 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 595494001129 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 595494001130 Protein of unknown function (DUF796); Region: DUF796; cl01226 595494001131 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 595494001132 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 595494001133 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 595494001134 putative metal binding site [ion binding]; other site 595494001135 putative homotetramer interface [polypeptide binding]; other site 595494001136 putative homodimer interface [polypeptide binding]; other site 595494001137 putative homodimer-homodimer interface [polypeptide binding]; other site 595494001138 putative allosteric switch controlling residues; other site 595494001139 Cation efflux family; Region: Cation_efflux; cl00316 595494001140 Peptidase family M48; Region: Peptidase_M48; cl12018 595494001141 LemA family; Region: LemA; cl00742 595494001142 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 595494001143 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494001144 Amino acid permease; Region: AA_permease; cl00524 595494001145 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 595494001146 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 595494001147 Protein export membrane protein; Region: SecD_SecF; cl14618 595494001148 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 595494001149 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 595494001150 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494001151 hypothetical protein; Provisional; Region: PRK13560 595494001152 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 595494001153 putative active site [active] 595494001154 heme pocket [chemical binding]; other site 595494001155 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 595494001156 putative active site [active] 595494001157 heme pocket [chemical binding]; other site 595494001158 PAS domain S-box; Region: sensory_box; TIGR00229 595494001159 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 595494001160 putative active site [active] 595494001161 heme pocket [chemical binding]; other site 595494001162 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494001163 metal binding site [ion binding]; metal-binding site 595494001164 active site 595494001165 I-site; other site 595494001166 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 595494001167 Bacterial type II secretion system protein N; Region: GSPII_N; pfam01203 595494001168 General secretion pathway, M protein; Region: GspM; cl01222 595494001169 general secretion pathway protein L; Region: typeII_sec_gspL; TIGR01709 595494001170 GspL cytoplasmic actin-ATPase-like region; Region: GspL; pfam05134 595494001171 GspL periplasmic domain; Region: GspL_C; cl14909 595494001172 General secretion pathway protein K; Region: GspK; pfam03934 595494001173 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 595494001174 general secretion pathway protein J; Region: gspJ; TIGR01711 595494001175 Pseudopilin GspJ; Region: GspJ; pfam11612 595494001176 general secretion pathway protein I; Region: gspI; TIGR01707 595494001177 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 595494001178 Bacterial type II secretion system protein I/J; Region: GSPII_IJ; pfam02501 595494001179 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 595494001180 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 595494001181 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 595494001182 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 595494001183 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 595494001184 general secretion pathway protein F; Region: GspF; TIGR02120 595494001185 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 595494001186 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 595494001187 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 595494001188 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 595494001189 Walker A motif; other site 595494001190 ATP binding site [chemical binding]; other site 595494001191 Walker B motif; other site 595494001192 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 595494001193 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 595494001194 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 595494001195 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 595494001196 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 595494001197 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 595494001198 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494001199 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 595494001200 general secretion pathway protein C; Region: typeII_sec_gspC; TIGR01713 595494001201 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 595494001202 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 595494001203 dimer interface [polypeptide binding]; other site 595494001204 ADP-ribose binding site [chemical binding]; other site 595494001205 active site 595494001206 nudix motif; other site 595494001207 metal binding site [ion binding]; metal-binding site 595494001208 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 595494001209 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 595494001210 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494001211 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 595494001212 putative dimerization interface [polypeptide binding]; other site 595494001213 LysE type translocator; Region: LysE; cl00565 595494001214 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 595494001215 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 595494001216 putative dimer interface [polypeptide binding]; other site 595494001217 tRNA (Uracil-5-)-methyltransferase; Region: tRNA_U5-meth_tr; pfam05958 595494001218 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 595494001219 S-adenosylmethionine binding site [chemical binding]; other site 595494001220 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 595494001221 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 595494001222 N-terminal plug; other site 595494001223 ligand-binding site [chemical binding]; other site 595494001224 arginine decarboxylase; Provisional; Region: PRK05354 595494001225 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 595494001226 dimer interface [polypeptide binding]; other site 595494001227 active site 595494001228 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 595494001229 catalytic residues [active] 595494001230 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 595494001231 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 595494001232 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 595494001233 transmembrane helices; other site 595494001234 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 595494001235 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 595494001236 FeS/SAM binding site; other site 595494001237 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 595494001238 active site 595494001239 zinc binding site [ion binding]; other site 595494001240 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 595494001241 putative acyl-acceptor binding pocket; other site 595494001242 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 595494001243 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 595494001244 putative ribose interaction site [chemical binding]; other site 595494001245 putative ADP binding site [chemical binding]; other site 595494001246 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 595494001247 active site 595494001248 nucleotide binding site [chemical binding]; other site 595494001249 HIGH motif; other site 595494001250 KMSKS motif; other site 595494001251 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 595494001252 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 595494001253 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 595494001254 FAD binding pocket [chemical binding]; other site 595494001255 FAD binding motif [chemical binding]; other site 595494001256 phosphate binding motif [ion binding]; other site 595494001257 beta-alpha-beta structure motif; other site 595494001258 NAD binding pocket [chemical binding]; other site 595494001259 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 595494001260 gating phenylalanine in ion channel; other site 595494001261 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 595494001262 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 595494001263 ABC-2 type transporter; Region: ABC2_membrane; cl11417 595494001264 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 595494001265 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494001266 Walker A/P-loop; other site 595494001267 ATP binding site [chemical binding]; other site 595494001268 Q-loop/lid; other site 595494001269 ABC transporter signature motif; other site 595494001270 Walker B; other site 595494001271 D-loop; other site 595494001272 H-loop/switch region; other site 595494001273 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 595494001274 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 595494001275 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494001276 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 595494001277 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 595494001278 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 595494001279 dimer interface [polypeptide binding]; other site 595494001280 ADP-ribose binding site [chemical binding]; other site 595494001281 active site 595494001282 nudix motif; other site 595494001283 metal binding site [ion binding]; metal-binding site 595494001284 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 595494001285 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 595494001286 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 595494001287 active site 595494001288 metal binding site [ion binding]; metal-binding site 595494001289 hexamer interface [polypeptide binding]; other site 595494001290 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 595494001291 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 595494001292 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 595494001293 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 595494001294 ATP binding site [chemical binding]; other site 595494001295 Mg2+ binding site [ion binding]; other site 595494001296 G-X-G motif; other site 595494001297 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 595494001298 anchoring element; other site 595494001299 dimer interface [polypeptide binding]; other site 595494001300 ATP binding site [chemical binding]; other site 595494001301 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 595494001302 active site 595494001303 metal binding site [ion binding]; metal-binding site 595494001304 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 595494001305 putative transporter; Provisional; Region: PRK11660 595494001306 Permease family; Region: Xan_ur_permease; cl00967 595494001307 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 595494001308 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 595494001309 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 595494001310 oxaloacetate decarboxylase; Provisional; Region: PRK14040 595494001311 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 595494001312 active site 595494001313 catalytic residues [active] 595494001314 metal binding site [ion binding]; metal-binding site 595494001315 homodimer binding site [polypeptide binding]; other site 595494001316 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 595494001317 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 595494001318 carboxyltransferase (CT) interaction site; other site 595494001319 biotinylation site [posttranslational modification]; other site 595494001320 subunit; Region: OAD_beta; cl00816 595494001321 Transcriptional regulators [Transcription]; Region: MarR; COG1846 595494001322 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494001323 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 595494001324 Transcriptional activator HlyU; Region: HlyU; cl02273 595494001325 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 595494001326 6-phosphofructokinase 2; Provisional; Region: PRK10294 595494001327 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 595494001328 putative substrate binding site [chemical binding]; other site 595494001329 putative ATP binding site [chemical binding]; other site 595494001330 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3809 595494001331 CHASE domain; Region: CHASE; cl01369 595494001332 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 595494001333 PAS fold; Region: PAS_3; pfam08447 595494001334 putative active site [active] 595494001335 heme pocket [chemical binding]; other site 595494001336 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 595494001337 D-galactonate transporter; Region: 2A0114; TIGR00893 595494001338 putative substrate translocation pore; other site 595494001339 transcriptional activator TtdR; Provisional; Region: PRK09801 595494001340 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494001341 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 595494001342 putative effector binding pocket; other site 595494001343 putative dimerization interface [polypeptide binding]; other site 595494001344 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 595494001345 Fumarase C-terminus; Region: Fumerase_C; cl00795 595494001346 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 595494001347 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 595494001348 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 595494001349 active site 595494001350 substrate-binding site [chemical binding]; other site 595494001351 metal-binding site [ion binding] 595494001352 ATP binding site [chemical binding]; other site 595494001353 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 595494001354 ATP cone domain; Region: ATP-cone; pfam03477 595494001355 Class III ribonucleotide reductase; Region: RNR_III; cd01675 595494001356 effector binding site; other site 595494001357 active site 595494001358 Zn binding site [ion binding]; other site 595494001359 glycine loop; other site 595494001360 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 595494001361 active site 595494001362 substrate-binding site [chemical binding]; other site 595494001363 metal-binding site [ion binding] 595494001364 ATP binding site [chemical binding]; other site 595494001365 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 595494001366 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 595494001367 dimerization interface [polypeptide binding]; other site 595494001368 domain crossover interface; other site 595494001369 redox-dependent activation switch; other site 595494001370 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 595494001371 RNA binding surface [nucleotide binding]; other site 595494001372 stringent starvation protein A; Provisional; Region: sspA; PRK09481 595494001373 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 595494001374 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 595494001375 dimer interface [polypeptide binding]; other site 595494001376 N-terminal domain interface [polypeptide binding]; other site 595494001377 Stringent starvation protein B; Region: SspB; cl01120 595494001378 outer membrane lipoprotein; Provisional; Region: PRK11023 595494001379 BON domain; Region: BON; cl02771 595494001380 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 595494001381 dimer interface [polypeptide binding]; other site 595494001382 active site 595494001383 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 595494001384 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 595494001385 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 595494001386 putative ligand binding site [chemical binding]; other site 595494001387 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 595494001388 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 595494001389 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 595494001390 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 595494001391 O-succinylbenzoate synthase; Provisional; Region: PRK05105 595494001392 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 595494001393 active site 595494001394 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 595494001395 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 595494001396 substrate binding site [chemical binding]; other site 595494001397 oxyanion hole (OAH) forming residues; other site 595494001398 trimer interface [polypeptide binding]; other site 595494001399 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 595494001400 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 595494001401 nucleophilic elbow; other site 595494001402 catalytic triad; other site 595494001403 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 595494001404 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 595494001405 dimer interface [polypeptide binding]; other site 595494001406 tetramer interface [polypeptide binding]; other site 595494001407 PYR/PP interface [polypeptide binding]; other site 595494001408 TPP binding site [chemical binding]; other site 595494001409 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 595494001410 TPP-binding site; other site 595494001411 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 595494001412 chorismate binding enzyme; Region: Chorismate_bind; cl10555 595494001413 UbiA prenyltransferase family; Region: UbiA; cl00337 595494001414 LysE type translocator; Region: LysE; cl00565 595494001415 Protein of unknown function, DUF414; Region: DUF414; cl01172 595494001416 Transcriptional regulators [Transcription]; Region: PurR; COG1609 595494001417 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494001418 DNA binding site [nucleotide binding] 595494001419 domain linker motif; other site 595494001420 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 595494001421 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 595494001422 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494001423 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 595494001424 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 595494001425 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 595494001426 FeS/SAM binding site; other site 595494001427 HemN C-terminal region; Region: HemN_C; pfam06969 595494001428 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 595494001429 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 595494001430 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 595494001431 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494001432 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 595494001433 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 595494001434 P-loop; other site 595494001435 active site 595494001436 phosphorylation site [posttranslational modification] 595494001437 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 595494001438 dimerization domain swap beta strand [polypeptide binding]; other site 595494001439 regulatory protein interface [polypeptide binding]; other site 595494001440 active site 595494001441 regulatory phosphorylation site [posttranslational modification]; other site 595494001442 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 595494001443 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 595494001444 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 595494001445 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 595494001446 active site 595494001447 phosphorylation site [posttranslational modification] 595494001448 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 595494001449 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494001450 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 595494001451 fructokinase; Reviewed; Region: PRK09557 595494001452 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 595494001453 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 595494001454 methionine cluster; other site 595494001455 active site 595494001456 phosphorylation site [posttranslational modification] 595494001457 metal binding site [ion binding]; metal-binding site 595494001458 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 595494001459 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494001460 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 595494001461 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 595494001462 active site 595494001463 P-loop; other site 595494001464 phosphorylation site [posttranslational modification] 595494001465 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494001466 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 595494001467 Transcriptional regulators [Transcription]; Region: PurR; COG1609 595494001468 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494001469 DNA binding site [nucleotide binding] 595494001470 domain linker motif; other site 595494001471 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 595494001472 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 595494001473 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 595494001474 active site 595494001475 phosphorylation site [posttranslational modification] 595494001476 intermolecular recognition site; other site 595494001477 dimerization interface [polypeptide binding]; other site 595494001478 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 595494001479 Walker A motif; other site 595494001480 ATP binding site [chemical binding]; other site 595494001481 Walker B motif; other site 595494001482 arginine finger; other site 595494001483 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494001484 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 595494001485 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 595494001486 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 595494001487 dimer interface [polypeptide binding]; other site 595494001488 phosphorylation site [posttranslational modification] 595494001489 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 595494001490 ATP binding site [chemical binding]; other site 595494001491 Mg2+ binding site [ion binding]; other site 595494001492 G-X-G motif; other site 595494001493 glutamine synthetase; Provisional; Region: glnA; PRK09469 595494001494 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 595494001495 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 595494001496 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 595494001497 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 595494001498 G1 box; other site 595494001499 putative GEF interaction site [polypeptide binding]; other site 595494001500 GTP/Mg2+ binding site [chemical binding]; other site 595494001501 Switch I region; other site 595494001502 G2 box; other site 595494001503 G3 box; other site 595494001504 Switch II region; other site 595494001505 G4 box; other site 595494001506 G5 box; other site 595494001507 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 595494001508 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 595494001509 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 595494001510 Protein of unknown function, DUF440; Region: DUF440; cl11472 595494001511 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 595494001512 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 595494001513 CAP-like domain; other site 595494001514 active site 595494001515 primary dimer interface [polypeptide binding]; other site 595494001516 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 595494001517 putative acyl-acceptor binding pocket; other site 595494001518 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 595494001519 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 595494001520 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 595494001521 MFS_1 like family; Region: MFS_1_like; pfam12832 595494001522 Membrane transport protein; Region: Mem_trans; cl09117 595494001523 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 595494001524 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 595494001525 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 595494001526 Walker A motif; other site 595494001527 ATP binding site [chemical binding]; other site 595494001528 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494001529 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 595494001530 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 595494001531 active site 595494001532 HslU subunit interaction site [polypeptide binding]; other site 595494001533 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 595494001534 Sporulation related domain; Region: SPOR; cl10051 595494001535 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 595494001536 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 595494001537 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 595494001538 active site 595494001539 HIGH motif; other site 595494001540 KMSK motif region; other site 595494001541 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 595494001542 tRNA binding surface [nucleotide binding]; other site 595494001543 anticodon binding site; other site 595494001544 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 595494001545 RNA polymerase sigma factor; Provisional; Region: PRK12526 595494001546 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 595494001547 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 595494001548 DNA binding residues [nucleotide binding] 595494001549 Transcriptional activator [Transcription]; Region: ChrR; COG3806 595494001550 Cupin domain; Region: Cupin_2; cl09118 595494001551 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494001552 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494001553 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 595494001554 substrate binding pocket [chemical binding]; other site 595494001555 dimerization interface [polypeptide binding]; other site 595494001556 N-carbamolyputrescine amidase; Region: PLN02747 595494001557 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 595494001558 putative active site; other site 595494001559 catalytic triad [active] 595494001560 putative dimer interface [polypeptide binding]; other site 595494001561 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 595494001562 agmatine deiminase; Region: agmatine_aguA; TIGR03380 595494001563 putative diguanylate cyclase; Provisional; Region: PRK09776 595494001564 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 595494001565 PAS domain S-box; Region: sensory_box; TIGR00229 595494001566 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 595494001567 putative active site [active] 595494001568 heme pocket [chemical binding]; other site 595494001569 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494001570 metal binding site [ion binding]; metal-binding site 595494001571 active site 595494001572 I-site; other site 595494001573 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 595494001574 primosome assembly protein PriA; Validated; Region: PRK05580 595494001575 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 595494001576 ATP binding site [chemical binding]; other site 595494001577 putative Mg++ binding site [ion binding]; other site 595494001578 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494001579 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 595494001580 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 595494001581 Malic enzyme, N-terminal domain; Region: malic; pfam00390 595494001582 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 595494001583 putative NAD(P) binding site [chemical binding]; other site 595494001584 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 595494001585 trimer interface [polypeptide binding]; other site 595494001586 eyelet of channel; other site 595494001587 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 595494001588 putative active site [active] 595494001589 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 595494001590 Coenzyme A binding pocket [chemical binding]; other site 595494001591 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 595494001592 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 595494001593 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 595494001594 active site 595494001595 dimer interface [polypeptide binding]; other site 595494001596 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 595494001597 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 595494001598 active site 595494001599 FMN binding site [chemical binding]; other site 595494001600 substrate binding site [chemical binding]; other site 595494001601 3Fe-4S cluster binding site [ion binding]; other site 595494001602 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 595494001603 domain interface; other site 595494001604 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 595494001605 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494001606 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 595494001607 dimerization interface [polypeptide binding]; other site 595494001608 substrate binding pocket [chemical binding]; other site 595494001609 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 595494001610 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; cl12011 595494001611 flap endonuclease-like protein; Provisional; Region: PRK09482 595494001612 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 595494001613 active site 595494001614 metal binding site 1 [ion binding]; metal-binding site 595494001615 putative 5' ssDNA interaction site; other site 595494001616 metal binding site 3; metal-binding site 595494001617 metal binding site 2 [ion binding]; metal-binding site 595494001618 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 595494001619 putative DNA binding site [nucleotide binding]; other site 595494001620 putative metal binding site [ion binding]; other site 595494001621 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 595494001622 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 595494001623 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 595494001624 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 595494001625 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 595494001626 Syd protein; Region: Syd; cl06405 595494001627 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 595494001628 Domain of unknown function, DUF446; Region: DUF446; cl01187 595494001629 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 595494001630 probable active site [active] 595494001631 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 595494001632 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 595494001633 nitrite reductase subunit NirD; Provisional; Region: PRK14989 595494001634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494001635 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 595494001636 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 595494001637 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 595494001638 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 595494001639 FAD binding pocket [chemical binding]; other site 595494001640 FAD binding motif [chemical binding]; other site 595494001641 phosphate binding motif [ion binding]; other site 595494001642 beta-alpha-beta structure motif; other site 595494001643 NAD binding pocket [chemical binding]; other site 595494001644 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 595494001645 catalytic loop [active] 595494001646 iron binding site [ion binding]; other site 595494001647 hybrid cluster protein; Provisional; Region: PRK05290 595494001648 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 595494001649 ACS interaction site; other site 595494001650 CODH interaction site; other site 595494001651 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 595494001652 hybrid metal cluster; other site 595494001653 AmiB activator; Provisional; Region: PRK11637 595494001654 Sulfatase; Region: Sulfatase; cl10460 595494001655 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 595494001656 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 595494001657 active site residue [active] 595494001658 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 595494001659 SecA binding site; other site 595494001660 Preprotein binding site; other site 595494001661 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 595494001662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494001663 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 595494001664 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 595494001665 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 595494001666 NifU-like domain; Region: NifU; cl00484 595494001667 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 595494001668 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 595494001669 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 595494001670 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 595494001671 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 595494001672 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 595494001673 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 595494001674 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 595494001675 RNA binding site [nucleotide binding]; other site 595494001676 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 595494001677 domain; Region: GreA_GreB_N; pfam03449 595494001678 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 595494001679 cell division protein MraZ; Reviewed; Region: PRK00326 595494001680 MraZ protein; Region: MraZ; pfam02381 595494001681 MraZ protein; Region: MraZ; pfam02381 595494001682 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; cl12011 595494001683 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 595494001684 Septum formation initiator; Region: DivIC; cl11433 595494001685 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 595494001686 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 595494001687 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 595494001688 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 595494001689 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 595494001690 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 595494001691 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 595494001692 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 595494001693 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 595494001694 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 595494001695 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 595494001696 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 595494001697 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 595494001698 Mg++ binding site [ion binding]; other site 595494001699 putative catalytic motif [active] 595494001700 putative substrate binding site [chemical binding]; other site 595494001701 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 595494001702 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 595494001703 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 595494001704 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 595494001705 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 595494001706 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 595494001707 active site 595494001708 homodimer interface [polypeptide binding]; other site 595494001709 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 595494001710 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 595494001711 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 595494001712 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 595494001713 cell division protein FtsQ; Provisional; Region: PRK10775 595494001714 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 595494001715 Cell division protein FtsQ; Region: FtsQ; pfam03799 595494001716 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 595494001717 Cell division protein FtsA; Region: FtsA; cl11496 595494001718 Cell division protein FtsA; Region: FtsA; cl11496 595494001719 cell division protein FtsZ; Validated; Region: PRK09330 595494001720 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 595494001721 nucleotide binding site [chemical binding]; other site 595494001722 SulA interaction site; other site 595494001723 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 595494001724 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 595494001725 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 595494001726 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 595494001727 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494001728 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 595494001729 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 595494001730 nucleotide binding region [chemical binding]; other site 595494001731 ATP-binding site [chemical binding]; other site 595494001732 SEC-C motif; Region: SEC-C; pfam02810 595494001733 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 595494001734 active site 595494001735 8-oxo-dGMP binding site [chemical binding]; other site 595494001736 nudix motif; other site 595494001737 metal binding site [ion binding]; metal-binding site 595494001738 Domain of unknown function (DUF329); Region: DUF329; cl01144 595494001739 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 595494001740 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 595494001741 CoA-binding site [chemical binding]; other site 595494001742 ATP-binding [chemical binding]; other site 595494001743 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 595494001744 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 595494001745 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 595494001746 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 595494001747 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 595494001748 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 595494001749 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 595494001750 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 595494001751 Walker A motif; other site 595494001752 ATP binding site [chemical binding]; other site 595494001753 Walker B motif; other site 595494001754 putative major pilin subunit; Provisional; Region: PRK10574 595494001755 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 595494001756 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 595494001757 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 595494001758 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 595494001759 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 595494001760 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 595494001761 purine monophosphate binding site [chemical binding]; other site 595494001762 dimer interface [polypeptide binding]; other site 595494001763 putative catalytic residues [active] 595494001764 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 595494001765 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 595494001766 Phd_YefM; Region: PhdYeFM; cl09153 595494001767 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 595494001768 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 595494001769 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 595494001770 putative DNA binding site [nucleotide binding]; other site 595494001771 putative Zn2+ binding site [ion binding]; other site 595494001772 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494001773 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 595494001774 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494001775 Walker A/P-loop; other site 595494001776 ATP binding site [chemical binding]; other site 595494001777 Q-loop/lid; other site 595494001778 ABC transporter signature motif; other site 595494001779 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 595494001780 ABC transporter; Region: ABC_tran_2; pfam12848 595494001781 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 595494001782 RDD family; Region: RDD; cl00746 595494001783 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 595494001784 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 595494001785 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 595494001786 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 595494001787 multifunctional aminopeptidase A; Provisional; Region: PRK00913 595494001788 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 595494001789 interface (dimer of trimers) [polypeptide binding]; other site 595494001790 Substrate-binding/catalytic site; other site 595494001791 Zn-binding sites [ion binding]; other site 595494001792 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 595494001793 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 595494001794 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 595494001795 HIGH motif; other site 595494001796 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 595494001797 active site 595494001798 KMSKS motif; other site 595494001799 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 595494001800 tRNA binding surface [nucleotide binding]; other site 595494001801 anticodon binding site; other site 595494001802 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 595494001803 LysR family transcriptional regulator; Provisional; Region: PRK14997 595494001804 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494001805 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 595494001806 putative effector binding pocket; other site 595494001807 dimerization interface [polypeptide binding]; other site 595494001808 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 595494001809 YceI-like domain; Region: YceI; cl01001 595494001810 YceI-like domain; Region: YceI; cl01001 595494001811 Pirin-related protein [General function prediction only]; Region: COG1741 595494001812 Cupin domain; Region: Cupin_2; cl09118 595494001813 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 595494001814 metal binding site [ion binding]; metal-binding site 595494001815 dimer interface [polypeptide binding]; other site 595494001816 alanine racemase; Reviewed; Region: alr; PRK00053 595494001817 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 595494001818 active site 595494001819 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 595494001820 substrate binding site [chemical binding]; other site 595494001821 catalytic residues [active] 595494001822 dimer interface [polypeptide binding]; other site 595494001823 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 595494001824 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 595494001825 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 595494001826 active site 595494001827 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 595494001828 homodimer interface [polypeptide binding]; other site 595494001829 substrate-cofactor binding pocket; other site 595494001830 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494001831 Aminotransferase class IV; Region: Aminotran_4; pfam01063 595494001832 catalytic residue [active] 595494001833 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 595494001834 peroxiredoxin; Region: AhpC; TIGR03137 595494001835 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 595494001836 dimer interface [polypeptide binding]; other site 595494001837 decamer (pentamer of dimers) interface [polypeptide binding]; other site 595494001838 catalytic triad [active] 595494001839 peroxidatic and resolving cysteines [active] 595494001840 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 595494001841 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 595494001842 catalytic residue [active] 595494001843 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 595494001844 catalytic residues [active] 595494001845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494001846 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 595494001847 DNA-binding site [nucleotide binding]; DNA binding site 595494001848 RNA-binding motif; other site 595494001849 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 595494001850 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 595494001851 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 595494001852 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 595494001853 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 595494001854 substrate binding site [chemical binding]; other site 595494001855 dimer interface [polypeptide binding]; other site 595494001856 ATP binding site [chemical binding]; other site 595494001857 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 595494001858 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 595494001859 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 595494001860 Walker A/P-loop; other site 595494001861 ATP binding site [chemical binding]; other site 595494001862 Q-loop/lid; other site 595494001863 ABC transporter signature motif; other site 595494001864 Walker B; other site 595494001865 D-loop; other site 595494001866 H-loop/switch region; other site 595494001867 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 595494001868 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 595494001869 TM-ABC transporter signature motif; other site 595494001870 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 595494001871 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 595494001872 ligand binding site [chemical binding]; other site 595494001873 dimerization interface [polypeptide binding]; other site 595494001874 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 595494001875 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 595494001876 substrate binding site [chemical binding]; other site 595494001877 dimer interface [polypeptide binding]; other site 595494001878 ATP binding site [chemical binding]; other site 595494001879 transcriptional repressor RbsR; Provisional; Region: PRK10423 595494001880 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494001881 DNA binding site [nucleotide binding] 595494001882 domain linker motif; other site 595494001883 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 595494001884 dimerization interface [polypeptide binding]; other site 595494001885 ligand binding site [chemical binding]; other site 595494001886 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 595494001887 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 595494001888 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 595494001889 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 595494001890 inhibitor-cofactor binding pocket; inhibition site 595494001891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494001892 catalytic residue [active] 595494001893 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 595494001894 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 595494001895 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 595494001896 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 595494001897 active site 595494001898 HIGH motif; other site 595494001899 dimer interface [polypeptide binding]; other site 595494001900 KMSKS motif; other site 595494001901 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 595494001902 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 595494001903 nudix motif; other site 595494001904 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 595494001905 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 595494001906 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 595494001907 active site 595494001908 (T/H)XGH motif; other site 595494001909 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 595494001910 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 595494001911 active site 595494001912 NAD+ synthase (glutamine-hydrolysing); Region: PLN02339 595494001913 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 595494001914 multimer interface [polypeptide binding]; other site 595494001915 active site 595494001916 catalytic triad [active] 595494001917 protein interface 1 [polypeptide binding]; other site 595494001918 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 595494001919 Ligand Binding Site [chemical binding]; other site 595494001920 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 595494001921 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 595494001922 metal-binding site [ion binding] 595494001923 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 595494001924 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 595494001925 metal-binding site [ion binding] 595494001926 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 595494001927 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 595494001928 motif II; other site 595494001929 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 595494001930 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 595494001931 DNA binding residues [nucleotide binding] 595494001932 dimer interface [polypeptide binding]; other site 595494001933 copper binding site [ion binding]; other site 595494001934 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 595494001935 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494001936 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 595494001937 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 595494001938 ABC-2 type transporter; Region: ABC2_membrane; cl11417 595494001939 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 595494001940 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494001941 Walker A/P-loop; other site 595494001942 ATP binding site [chemical binding]; other site 595494001943 Q-loop/lid; other site 595494001944 ABC transporter signature motif; other site 595494001945 Walker B; other site 595494001946 D-loop; other site 595494001947 H-loop/switch region; other site 595494001948 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 595494001949 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494001950 Walker A/P-loop; other site 595494001951 ATP binding site [chemical binding]; other site 595494001952 Q-loop/lid; other site 595494001953 ABC transporter signature motif; other site 595494001954 Walker B; other site 595494001955 D-loop; other site 595494001956 H-loop/switch region; other site 595494001957 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 595494001958 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 595494001959 ABC-2 type transporter; Region: ABC2_membrane; cl11417 595494001960 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 595494001961 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 595494001962 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 595494001963 FAD binding domain; Region: FAD_binding_4; pfam01565 595494001964 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 595494001965 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 595494001966 CoenzymeA binding site [chemical binding]; other site 595494001967 subunit interaction site [polypeptide binding]; other site 595494001968 PHB binding site; other site 595494001969 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 595494001970 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 595494001971 ATP binding site [chemical binding]; other site 595494001972 Mg++ binding site [ion binding]; other site 595494001973 motif III; other site 595494001974 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 595494001975 nucleotide binding region [chemical binding]; other site 595494001976 ATP-binding site [chemical binding]; other site 595494001977 DbpA RNA binding domain; Region: DbpA; pfam03880 595494001978 16S rRNA methyltransferase B; Provisional; Region: PRK14902 595494001979 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 595494001980 S-adenosylmethionine binding site [chemical binding]; other site 595494001981 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 595494001982 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 595494001983 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 595494001984 hypothetical protein; Provisional; Region: PRK11281 595494001985 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 595494001986 Mechanosensitive ion channel; Region: MS_channel; pfam00924 595494001987 pyruvate kinase; Provisional; Region: PRK09206 595494001988 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 595494001989 domain interfaces; other site 595494001990 active site 595494001991 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 595494001992 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 595494001993 FeS/SAM binding site; other site 595494001994 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 595494001995 hypothetical protein; Provisional; Region: PRK13795 595494001996 NifQ; Region: NifQ; pfam04891 595494001997 LysE type translocator; Region: LysE; cl00565 595494001998 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 595494001999 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 595494002000 active site 595494002001 conserved hypothetical protein; Region: MJ1255; TIGR00661 595494002002 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 595494002003 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 595494002004 PYR/PP interface [polypeptide binding]; other site 595494002005 dimer interface [polypeptide binding]; other site 595494002006 TPP binding site [chemical binding]; other site 595494002007 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 595494002008 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 595494002009 TPP-binding site [chemical binding]; other site 595494002010 dimer interface [polypeptide binding]; other site 595494002011 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 595494002012 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 595494002013 putative valine binding site [chemical binding]; other site 595494002014 dimer interface [polypeptide binding]; other site 595494002015 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 595494002016 Predicted membrane protein [Function unknown]; Region: COG2860 595494002017 UPF0126 domain; Region: UPF0126; pfam03458 595494002018 UPF0126 domain; Region: UPF0126; pfam03458 595494002019 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 595494002020 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 595494002021 cobalamin binding residues [chemical binding]; other site 595494002022 putative BtuC binding residues; other site 595494002023 dimer interface [polypeptide binding]; other site 595494002024 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 595494002025 radical SAM protein, TIGR01212 family; Region: TIGR01212 595494002026 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 595494002027 FeS/SAM binding site; other site 595494002028 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 595494002029 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 595494002030 putative active site [active] 595494002031 heme pocket [chemical binding]; other site 595494002032 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 595494002033 dimer interface [polypeptide binding]; other site 595494002034 phosphorylation site [posttranslational modification] 595494002035 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 595494002036 ATP binding site [chemical binding]; other site 595494002037 Mg2+ binding site [ion binding]; other site 595494002038 G-X-G motif; other site 595494002039 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 595494002040 active site 595494002041 phosphorylation site [posttranslational modification] 595494002042 intermolecular recognition site; other site 595494002043 dimerization interface [polypeptide binding]; other site 595494002044 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 595494002045 putative binding surface; other site 595494002046 active site 595494002047 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 595494002048 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 595494002049 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 595494002050 two-component response regulator; Provisional; Region: PRK11173 595494002051 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 595494002052 active site 595494002053 phosphorylation site [posttranslational modification] 595494002054 intermolecular recognition site; other site 595494002055 dimerization interface [polypeptide binding]; other site 595494002056 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 595494002057 DNA binding site [nucleotide binding] 595494002058 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 595494002059 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 595494002060 putative catalytic residues [active] 595494002061 putative nucleotide binding site [chemical binding]; other site 595494002062 putative aspartate binding site [chemical binding]; other site 595494002063 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 595494002064 dimer interface [polypeptide binding]; other site 595494002065 putative threonine allosteric regulatory site; other site 595494002066 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 595494002067 putative threonine allosteric regulatory site; other site 595494002068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494002069 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 595494002070 homoserine kinase; Provisional; Region: PRK01212 595494002071 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 595494002072 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 595494002073 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 595494002074 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 595494002075 catalytic residue [active] 595494002076 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 595494002077 HPr interaction site; other site 595494002078 glycerol kinase (GK) interaction site [polypeptide binding]; other site 595494002079 active site 595494002080 phosphorylation site [posttranslational modification] 595494002081 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 595494002082 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 595494002083 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 595494002084 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 595494002085 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 595494002086 dimerization domain swap beta strand [polypeptide binding]; other site 595494002087 regulatory protein interface [polypeptide binding]; other site 595494002088 active site 595494002089 regulatory phosphorylation site [posttranslational modification]; other site 595494002090 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 595494002091 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 595494002092 dimer interface [polypeptide binding]; other site 595494002093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494002094 catalytic residue [active] 595494002095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 595494002096 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 595494002097 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 595494002098 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 595494002099 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 595494002100 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 595494002101 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 595494002102 FtsZ protein binding site [polypeptide binding]; other site 595494002103 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 595494002104 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 595494002105 nucleotide binding pocket [chemical binding]; other site 595494002106 K-X-D-G motif; other site 595494002107 catalytic site [active] 595494002108 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 595494002109 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 595494002110 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; cl00038 595494002111 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 595494002112 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 595494002113 dimerization interface [polypeptide binding]; other site 595494002114 ATP binding site [chemical binding]; other site 595494002115 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 595494002116 dimerization interface [polypeptide binding]; other site 595494002117 ATP binding site [chemical binding]; other site 595494002118 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 595494002119 putative active site [active] 595494002120 catalytic triad [active] 595494002121 NlpC/P60 family; Region: NLPC_P60; cl11438 595494002122 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 595494002123 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 595494002124 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 595494002125 putative active site [active] 595494002126 catalytic site [active] 595494002127 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 595494002128 putative active site [active] 595494002129 catalytic site [active] 595494002130 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 595494002131 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 595494002132 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 595494002133 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 595494002134 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 595494002135 putative active site [active] 595494002136 putative substrate binding site [chemical binding]; other site 595494002137 putative cosubstrate binding site; other site 595494002138 catalytic site [active] 595494002139 LEA14-like dessication related protein [Defense mechanisms]; Region: COG5608 595494002140 Late embryogenesis abundant protein; Region: LEA_2; cl12118 595494002141 glycerate dehydrogenase; Provisional; Region: PRK06436 595494002142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494002143 DNA polymerase II large subunit; Provisional; Region: PRK14714 595494002144 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 595494002145 N-glycosyltransferase; Provisional; Region: PRK11204 595494002146 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 595494002147 DXD motif; other site 595494002148 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 595494002149 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 595494002150 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 595494002151 active site 595494002152 catalytic residues [active] 595494002153 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 595494002154 dimer interface [polypeptide binding]; other site 595494002155 catalytic triad [active] 595494002156 peroxidatic and resolving cysteines [active] 595494002157 alpha-amylase; Reviewed; Region: malS; PRK09505 595494002158 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 595494002159 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 595494002160 nitrogenase iron protein; Region: nifH; TIGR01287 595494002161 Nucleotide-binding sites [chemical binding]; other site 595494002162 Walker A motif; other site 595494002163 Switch I region of nucleotide binding site; other site 595494002164 Fe4S4 binding sites [ion binding]; other site 595494002165 Switch II region of nucleotide binding site; other site 595494002166 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 595494002167 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 595494002168 MoFe protein alpha/beta subunit interactions; other site 595494002169 Alpha subunit P cluster binding residues; other site 595494002170 FeMoco binding residues [chemical binding]; other site 595494002171 MoFe protein alpha subunit/Fe protein contacts; other site 595494002172 MoFe protein dimer/ dimer interactions; other site 595494002173 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 595494002174 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 595494002175 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 595494002176 MoFe protein beta/alpha subunit interactions; other site 595494002177 Beta subunit P cluster binding residues; other site 595494002178 MoFe protein beta subunit/Fe protein contacts; other site 595494002179 MoFe protein dimer/ dimer interactions; other site 595494002180 NifT/FixU protein; Region: NifT; cl02351 595494002181 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 595494002182 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 595494002183 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 595494002184 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 595494002185 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 595494002186 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 595494002187 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 595494002188 Predicted flavoproteins [General function prediction only]; Region: COG2081 595494002189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494002190 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 595494002191 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 595494002192 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 595494002193 trimerization site [polypeptide binding]; other site 595494002194 active site 595494002195 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 595494002196 NifU-like domain; Region: NifU; cl00484 595494002197 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 595494002198 Aminotransferase class-V; Region: Aminotran_5; pfam00266 595494002199 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 595494002200 catalytic residue [active] 595494002201 Phd_YefM; Region: PhdYeFM; cl09153 595494002202 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 595494002203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494002204 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494002205 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 595494002206 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 595494002207 putative active site [active] 595494002208 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494002209 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 595494002210 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494002211 Q-loop/lid; other site 595494002212 ABC transporter signature motif; other site 595494002213 Walker B; other site 595494002214 D-loop; other site 595494002215 H-loop/switch region; other site 595494002216 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 595494002217 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 595494002218 dimer interface [polypeptide binding]; other site 595494002219 conserved gate region; other site 595494002220 putative PBP binding loops; other site 595494002221 ABC-ATPase subunit interface; other site 595494002222 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 595494002223 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 595494002224 PilZ domain; Region: PilZ; cl01260 595494002225 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 595494002226 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 595494002227 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 595494002228 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 595494002229 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 595494002230 Walker A/P-loop; other site 595494002231 ATP binding site [chemical binding]; other site 595494002232 Q-loop/lid; other site 595494002233 ABC transporter signature motif; other site 595494002234 Walker B; other site 595494002235 D-loop; other site 595494002236 H-loop/switch region; other site 595494002237 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 595494002238 ABC-ATPase subunit interface; other site 595494002239 dimer interface [polypeptide binding]; other site 595494002240 putative PBP binding regions; other site 595494002241 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 595494002242 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 595494002243 ABC-ATPase subunit interface; other site 595494002244 dimer interface [polypeptide binding]; other site 595494002245 putative PBP binding regions; other site 595494002246 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 595494002247 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 595494002248 putative ligand binding residues [chemical binding]; other site 595494002249 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 595494002250 N-terminal plug; other site 595494002251 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 595494002252 ligand-binding site [chemical binding]; other site 595494002253 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 595494002254 substrate binding site [chemical binding]; other site 595494002255 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 595494002256 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 595494002257 substrate binding site [chemical binding]; other site 595494002258 ligand binding site [chemical binding]; other site 595494002259 tartrate dehydrogenase; Provisional; Region: PRK08194 595494002260 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 595494002261 2-isopropylmalate synthase; Validated; Region: PRK00915 595494002262 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 595494002263 active site 595494002264 catalytic residues [active] 595494002265 metal binding site [ion binding]; metal-binding site 595494002266 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 595494002267 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 595494002268 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 595494002269 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494002270 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 595494002271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 595494002272 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 595494002273 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 595494002274 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 595494002275 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 595494002276 PhnA protein; Region: PhnA; pfam03831 595494002277 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 595494002278 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 595494002279 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 595494002280 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 595494002281 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 595494002282 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 595494002283 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 595494002284 active site 595494002285 catalytic residues [active] 595494002286 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 595494002287 S-adenosylmethionine binding site [chemical binding]; other site 595494002288 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 595494002289 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 595494002290 HSP90 family protein; Provisional; Region: PRK14083 595494002291 putative transposase OrfB; Reviewed; Region: PHA02517 595494002292 Integrase core domain; Region: rve; cl01316 595494002293 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494002294 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 595494002295 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 595494002296 putative active site [active] 595494002297 putative NTP binding site [chemical binding]; other site 595494002298 putative nucleic acid binding site [nucleotide binding]; other site 595494002299 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 595494002300 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494002301 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 595494002302 Catalytic site [active] 595494002303 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 595494002304 Integrase core domain; Region: rve; cl01316 595494002305 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 595494002306 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 595494002307 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 595494002308 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 595494002309 IHF - DNA interface [nucleotide binding]; other site 595494002310 IHF dimer interface [polypeptide binding]; other site 595494002311 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 595494002312 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 595494002313 Mor transcription activator family; Region: Mor; cl02360 595494002314 Predicted lysozyme (DUF847); Region: DUF847; pfam05838 595494002315 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 595494002316 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 595494002317 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 595494002318 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 595494002319 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 595494002320 Protein of unknown function (DUF935); Region: DUF935; cl15409 595494002321 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 595494002322 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 595494002323 Mu-like prophage I protein [General function prediction only]; Region: COG4388 595494002324 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 595494002325 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 595494002326 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 595494002327 Mu-like prophage protein [General function prediction only]; Region: COG3941 595494002328 tape measure domain; Region: tape_meas_nterm; TIGR02675 595494002329 rod shape-determining protein MreC; Provisional; Region: PRK13922 595494002330 potential frameshift: common BLAST hit: gi|17545594|ref|NP_518996.1| putative transmembrane protein 595494002331 AMP nucleosidase; Region: AMP-nucleosdse; TIGR01717 595494002332 dihydroorotase; Reviewed; Region: PRK09236 595494002333 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 595494002334 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 595494002335 active site 595494002336 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 595494002337 Tubulin [Cytoskeleton]; Region: COG5023 595494002338 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 595494002339 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 595494002340 nucleotide binding site/active site [active] 595494002341 HIT family signature motif; other site 595494002342 catalytic residue [active] 595494002343 TolB amino-terminal domain; Region: TolB_N; cl00639 595494002344 Phosphotransferase enzyme family; Region: APH; pfam01636 595494002345 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 595494002346 active site 595494002347 substrate binding site [chemical binding]; other site 595494002348 ATP binding site [chemical binding]; other site 595494002349 dimer interface [polypeptide binding]; other site 595494002350 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 595494002351 30S subunit binding site; other site 595494002352 lytic murein transglycosylase; Provisional; Region: PRK11619 595494002353 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 595494002354 N-acetyl-D-glucosamine binding site [chemical binding]; other site 595494002355 catalytic residue [active] 595494002356 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 595494002357 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 595494002358 putative NAD(P) binding site [chemical binding]; other site 595494002359 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 595494002360 hypothetical protein; Provisional; Region: PRK01254 595494002361 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 595494002362 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 595494002363 Colicin V production protein; Region: Colicin_V; cl00567 595494002364 amidophosphoribosyltransferase; Provisional; Region: PRK09246 595494002365 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 595494002366 active site 595494002367 tetramer interface [polypeptide binding]; other site 595494002368 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 595494002369 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 595494002370 Ferritin-like domain; Region: Ferritin; pfam00210 595494002371 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 595494002372 dimerization interface [polypeptide binding]; other site 595494002373 DPS ferroxidase diiron center [ion binding]; other site 595494002374 ion pore; other site 595494002375 Phosphate-starvation-inducible E; Region: PsiE; cl01264 595494002376 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 595494002377 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494002378 DNA binding site [nucleotide binding] 595494002379 domain linker motif; other site 595494002380 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 595494002381 putative ligand binding site [chemical binding]; other site 595494002382 putative dimerization interface [polypeptide binding]; other site 595494002383 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 595494002384 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 595494002385 active site 595494002386 intersubunit interface [polypeptide binding]; other site 595494002387 catalytic residue [active] 595494002388 Dehydratase family; Region: ILVD_EDD; cl00340 595494002389 6-phosphogluconate dehydratase; Region: edd; TIGR01196 595494002390 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 595494002391 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 595494002392 ATP-binding site [chemical binding]; other site 595494002393 Gluconate-6-phosphate binding site [chemical binding]; other site 595494002394 GntP family permease; Region: GntP_permease; cl15264 595494002395 gluconate transporter; Region: gntP; TIGR00791 595494002396 Integral membrane protein TerC family; Region: TerC; cl10468 595494002397 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 595494002398 Transporter associated domain; Region: CorC_HlyC; cl08393 595494002399 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 595494002400 Protein of unknown function (DUF785); Region: DUF785; cl01682 595494002401 tRNA mo(5)U34 methyltransferase; Provisional; Region: PRK15068 595494002402 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 595494002403 S-adenosylmethionine binding site [chemical binding]; other site 595494002404 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 595494002405 S-adenosylmethionine binding site [chemical binding]; other site 595494002406 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 595494002407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494002408 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 595494002409 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494002410 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 595494002411 putative dimerization interface [polypeptide binding]; other site 595494002412 glutathionine S-transferase; Provisional; Region: PRK10542 595494002413 GST_N family, Class Beta 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_Beta; cd03057 595494002414 C-terminal domain interface [polypeptide binding]; other site 595494002415 GSH binding site (G-site) [chemical binding]; other site 595494002416 dimer interface [polypeptide binding]; other site 595494002417 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 595494002418 N-terminal domain interface [polypeptide binding]; other site 595494002419 dimer interface [polypeptide binding]; other site 595494002420 substrate binding pocket (H-site) [chemical binding]; other site 595494002421 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 595494002422 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 595494002423 ATP binding site [chemical binding]; other site 595494002424 putative Mg++ binding site [ion binding]; other site 595494002425 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 595494002426 nucleotide binding region [chemical binding]; other site 595494002427 ATP-binding site [chemical binding]; other site 595494002428 Helicase associated domain (HA2); Region: HA2; cl04503 595494002429 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 595494002430 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 595494002431 Transglycosylase; Region: Transgly; cl07896 595494002432 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 595494002433 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 595494002434 conserved cys residue [active] 595494002435 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 595494002436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494002437 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 595494002438 Protein of unknown function (DUF520); Region: DUF520; cl00723 595494002439 muropeptide transporter; Validated; Region: ampG; PRK11010 595494002440 AmpG-related permease; Region: 2A0125; TIGR00901 595494002441 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 595494002442 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 595494002443 active site 595494002444 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 595494002445 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 595494002446 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 595494002447 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 595494002448 S-adenosylmethionine binding site [chemical binding]; other site 595494002449 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 595494002450 BolA-like protein; Region: BolA; cl00386 595494002451 ApbE family; Region: ApbE; cl00643 595494002452 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 595494002453 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 595494002454 active site 595494002455 catalytic tetrad [active] 595494002456 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 595494002457 active site 595494002458 DNA polymerase IV; Validated; Region: PRK02406 595494002459 DNA binding site [nucleotide binding] 595494002460 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 595494002461 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 595494002462 metal binding site [ion binding]; metal-binding site 595494002463 dimer interface [polypeptide binding]; other site 595494002464 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 595494002465 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 595494002466 active site 595494002467 metal binding site [ion binding]; metal-binding site 595494002468 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 595494002469 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 595494002470 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 595494002471 gamma-glutamyl kinase; Provisional; Region: PRK05429 595494002472 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 595494002473 nucleotide binding site [chemical binding]; other site 595494002474 homotetrameric interface [polypeptide binding]; other site 595494002475 putative phosphate binding site [ion binding]; other site 595494002476 putative allosteric binding site; other site 595494002477 PUA domain; Region: PUA; cl00607 595494002478 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 595494002479 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 595494002480 putative catalytic cysteine [active] 595494002481 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 595494002482 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 595494002483 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494002484 DNA binding site [nucleotide binding] 595494002485 domain linker motif; other site 595494002486 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 595494002487 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 595494002488 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 595494002489 substrate binding [chemical binding]; other site 595494002490 active site 595494002491 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 595494002492 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 595494002493 active site turn [active] 595494002494 phosphorylation site [posttranslational modification] 595494002495 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494002496 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 595494002497 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494002498 Walker A/P-loop; other site 595494002499 ATP binding site [chemical binding]; other site 595494002500 Q-loop/lid; other site 595494002501 ABC transporter signature motif; other site 595494002502 Walker B; other site 595494002503 D-loop; other site 595494002504 H-loop/switch region; other site 595494002505 ABC-2 type transporter; Region: ABC2_membrane; cl11417 595494002506 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK04923 595494002507 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 595494002508 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 595494002509 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 595494002510 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 595494002511 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 595494002512 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 595494002513 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 595494002514 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 595494002515 tRNA; other site 595494002516 putative tRNA binding site [nucleotide binding]; other site 595494002517 putative NADP binding site [chemical binding]; other site 595494002518 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 595494002519 peptide chain release factor 1; Validated; Region: prfA; PRK00591 595494002520 RF-1 domain; Region: RF-1; cl02875 595494002521 RF-1 domain; Region: RF-1; cl02875 595494002522 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 595494002523 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; cl12011 595494002524 Uncharacterized conserved protein [Function unknown]; Region: COG2912 595494002525 hypothetical protein; Provisional; Region: PRK10941 595494002526 NeuB family; Region: NeuB; cl00496 595494002527 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 595494002528 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 595494002529 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 595494002530 Ligand Binding Site [chemical binding]; other site 595494002531 TilS substrate binding domain; Region: TilS; pfam09179 595494002532 B3/4 domain; Region: B3_4; cl11458 595494002533 prolyl-tRNA synthetase; Provisional; Region: PRK09194 595494002534 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 595494002535 dimer interface [polypeptide binding]; other site 595494002536 motif 1; other site 595494002537 active site 595494002538 motif 2; other site 595494002539 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 595494002540 putative deacylase active site [active] 595494002541 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 595494002542 active site 595494002543 motif 3; other site 595494002544 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 595494002545 anticodon binding site; other site 595494002546 putative hydrolase; Validated; Region: PRK09248 595494002547 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 595494002548 RNase P subunit p30; Region: RNase_P_p30; cl03389 595494002549 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 595494002550 homodimer interaction site [polypeptide binding]; other site 595494002551 cofactor binding site; other site 595494002552 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 595494002553 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 595494002554 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494002555 Walker A/P-loop; other site 595494002556 ATP binding site [chemical binding]; other site 595494002557 Q-loop/lid; other site 595494002558 ABC transporter signature motif; other site 595494002559 Walker B; other site 595494002560 D-loop; other site 595494002561 H-loop/switch region; other site 595494002562 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 595494002563 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 595494002564 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494002565 Walker A/P-loop; other site 595494002566 ATP binding site [chemical binding]; other site 595494002567 Q-loop/lid; other site 595494002568 ABC transporter signature motif; other site 595494002569 Walker B; other site 595494002570 D-loop; other site 595494002571 H-loop/switch region; other site 595494002572 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 595494002573 Tim44-like domain; Region: Tim44; cl09208 595494002574 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 595494002575 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494002576 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 595494002577 active site turn [active] 595494002578 phosphorylation site [posttranslational modification] 595494002579 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 595494002580 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494002581 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 595494002582 active site turn [active] 595494002583 phosphorylation site [posttranslational modification] 595494002584 putative global regulator; Reviewed; Region: PRK09559 595494002585 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 595494002586 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 595494002587 L-aspartate oxidase; Provisional; Region: PRK09077 595494002588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494002589 domain; Region: Succ_DH_flav_C; pfam02910 595494002590 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 595494002591 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 595494002592 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 595494002593 DNA binding residues [nucleotide binding] 595494002594 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 595494002595 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 595494002596 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 595494002597 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 595494002598 GTP-binding protein LepA; Provisional; Region: PRK05433 595494002599 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 595494002600 G1 box; other site 595494002601 putative GEF interaction site [polypeptide binding]; other site 595494002602 GTP/Mg2+ binding site [chemical binding]; other site 595494002603 Switch I region; other site 595494002604 G2 box; other site 595494002605 G3 box; other site 595494002606 Switch II region; other site 595494002607 G4 box; other site 595494002608 G5 box; other site 595494002609 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 595494002610 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 595494002611 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 595494002612 signal peptidase I; Provisional; Region: PRK10861 595494002613 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 595494002614 Catalytic site [active] 595494002615 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 595494002616 ribonuclease III; Reviewed; Region: rnc; PRK00102 595494002617 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 595494002618 dimerization interface [polypeptide binding]; other site 595494002619 active site 595494002620 metal binding site [ion binding]; metal-binding site 595494002621 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 595494002622 dsRNA binding site [nucleotide binding]; other site 595494002623 GTPase Era; Reviewed; Region: era; PRK00089 595494002624 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly...; Region: Era; cd04163 595494002625 G1 box; other site 595494002626 GTP/Mg2+ binding site [chemical binding]; other site 595494002627 Switch I region; other site 595494002628 G2 box; other site 595494002629 Switch II region; other site 595494002630 G3 box; other site 595494002631 G4 box; other site 595494002632 G5 box; other site 595494002633 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 595494002634 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 595494002635 Recombination protein O N terminal; Region: RecO_N; pfam11967 595494002636 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 595494002637 active site 595494002638 hydrophilic channel; other site 595494002639 dimerization interface [polypeptide binding]; other site 595494002640 catalytic residues [active] 595494002641 active site lid [active] 595494002642 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 595494002643 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 595494002644 dimer interface [polypeptide binding]; other site 595494002645 active site 595494002646 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 595494002647 catalytic residues [active] 595494002648 substrate binding site [chemical binding]; other site 595494002649 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 595494002650 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 595494002651 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 595494002652 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 595494002653 ABC transporter; Region: ABC_tran_2; pfam12848 595494002654 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 595494002655 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 595494002656 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 595494002657 metal binding site 2 [ion binding]; metal-binding site 595494002658 putative DNA binding helix; other site 595494002659 metal binding site 1 [ion binding]; metal-binding site 595494002660 dimer interface [polypeptide binding]; other site 595494002661 structural Zn2+ binding site [ion binding]; other site 595494002662 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 595494002663 LexA regulated protein; Provisional; Region: PRK11675 595494002664 acyl-CoA esterase; Provisional; Region: PRK10673 595494002665 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 595494002666 SeqA protein; Region: SeqA; cl11470 595494002667 phosphoglucomutase; Validated; Region: PRK07564 595494002668 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 595494002669 active site 595494002670 substrate binding site [chemical binding]; other site 595494002671 metal binding site [ion binding]; metal-binding site 595494002672 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 595494002673 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 595494002674 Walker A/P-loop; other site 595494002675 ATP binding site [chemical binding]; other site 595494002676 Q-loop/lid; other site 595494002677 ABC transporter signature motif; other site 595494002678 Walker B; other site 595494002679 D-loop; other site 595494002680 H-loop/switch region; other site 595494002681 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 595494002682 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 595494002683 Walker A/P-loop; other site 595494002684 ATP binding site [chemical binding]; other site 595494002685 Q-loop/lid; other site 595494002686 ABC transporter signature motif; other site 595494002687 Walker B; other site 595494002688 D-loop; other site 595494002689 H-loop/switch region; other site 595494002690 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 595494002691 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 595494002692 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 595494002693 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 595494002694 dimer interface [polypeptide binding]; other site 595494002695 conserved gate region; other site 595494002696 putative PBP binding loops; other site 595494002697 ABC-ATPase subunit interface; other site 595494002698 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 595494002699 dimer interface [polypeptide binding]; other site 595494002700 conserved gate region; other site 595494002701 putative PBP binding loops; other site 595494002702 ABC-ATPase subunit interface; other site 595494002703 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 595494002704 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 595494002705 peptide binding site [polypeptide binding]; other site 595494002706 YcjX-like family, DUF463; Region: DUF463; cl01193 595494002707 hypothetical protein; Provisional; Region: PRK05415 595494002708 Domain of unknown function (DUF697); Region: DUF697; cl12064 595494002709 sensor protein ZraS; Provisional; Region: PRK10364 595494002710 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 595494002711 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 595494002712 dimer interface [polypeptide binding]; other site 595494002713 phosphorylation site [posttranslational modification] 595494002714 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 595494002715 ATP binding site [chemical binding]; other site 595494002716 Mg2+ binding site [ion binding]; other site 595494002717 G-X-G motif; other site 595494002718 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 595494002719 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 595494002720 active site 595494002721 phosphorylation site [posttranslational modification] 595494002722 intermolecular recognition site; other site 595494002723 dimerization interface [polypeptide binding]; other site 595494002724 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 595494002725 DNA binding site [nucleotide binding] 595494002726 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 595494002727 active site 595494002728 catalytic triad [active] 595494002729 oxyanion hole [active] 595494002730 switch loop; other site 595494002731 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 595494002732 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 595494002733 Walker A/P-loop; other site 595494002734 ATP binding site [chemical binding]; other site 595494002735 Q-loop/lid; other site 595494002736 ABC transporter signature motif; other site 595494002737 Walker B; other site 595494002738 D-loop; other site 595494002739 H-loop/switch region; other site 595494002740 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 595494002741 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 595494002742 FtsX-like permease family; Region: FtsX; pfam02687 595494002743 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 595494002744 TIGR01777 family protein; Region: yfcH 595494002745 putative NAD(P) binding site [chemical binding]; other site 595494002746 putative active site [active] 595494002747 phosphate acetyltransferase; Reviewed; Region: PRK05632 595494002748 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494002749 DRTGG domain; Region: DRTGG; cl12147 595494002750 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 595494002751 Acetokinase family; Region: Acetate_kinase; cl01029 595494002752 Protein of unknown function, DUF412; Region: DUF412; cl01183 595494002753 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 595494002754 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 595494002755 FeS/SAM binding site; other site 595494002756 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 595494002757 Pyruvate formate lyase 1; Region: PFL1; cd01678 595494002758 coenzyme A binding site [chemical binding]; other site 595494002759 active site 595494002760 catalytic residues [active] 595494002761 glycine loop; other site 595494002762 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 595494002763 YcaO-like family; Region: YcaO; cl09146 595494002764 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 595494002765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494002766 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 595494002767 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 595494002768 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 595494002769 FeS/SAM binding site; other site 595494002770 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 595494002771 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 595494002772 binding surface 595494002773 TPR motif; other site 595494002774 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 595494002775 binding surface 595494002776 TPR motif; other site 595494002777 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 595494002778 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494002779 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 595494002780 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 595494002781 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 595494002782 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 595494002783 dimer interface [polypeptide binding]; other site 595494002784 motif 1; other site 595494002785 active site 595494002786 motif 2; other site 595494002787 motif 3; other site 595494002788 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 595494002789 anticodon binding site; other site 595494002790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 595494002791 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 595494002792 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 595494002793 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 595494002794 Trp docking motif [polypeptide binding]; other site 595494002795 GTP-binding protein Der; Reviewed; Region: PRK00093 595494002796 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 595494002797 G1 box; other site 595494002798 GTP/Mg2+ binding site [chemical binding]; other site 595494002799 Switch I region; other site 595494002800 G2 box; other site 595494002801 Switch II region; other site 595494002802 G3 box; other site 595494002803 G4 box; other site 595494002804 G5 box; other site 595494002805 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 595494002806 G1 box; other site 595494002807 GTP/Mg2+ binding site [chemical binding]; other site 595494002808 Switch I region; other site 595494002809 G2 box; other site 595494002810 G3 box; other site 595494002811 Switch II region; other site 595494002812 G4 box; other site 595494002813 G5 box; other site 595494002814 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 595494002815 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 595494002816 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 595494002817 ligand binding site [chemical binding]; other site 595494002818 active site 595494002819 UGI interface [polypeptide binding]; other site 595494002820 catalytic site [active] 595494002821 Uncharacterized conserved protein [Function unknown]; Region: COG3945 595494002822 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 595494002823 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 595494002824 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494002825 Walker A/P-loop; other site 595494002826 ATP binding site [chemical binding]; other site 595494002827 Q-loop/lid; other site 595494002828 ABC transporter signature motif; other site 595494002829 Walker B; other site 595494002830 D-loop; other site 595494002831 H-loop/switch region; other site 595494002832 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 595494002833 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 595494002834 substrate binding pocket [chemical binding]; other site 595494002835 membrane-bound complex binding site; other site 595494002836 hinge residues; other site 595494002837 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 595494002838 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 595494002839 dimer interface [polypeptide binding]; other site 595494002840 conserved gate region; other site 595494002841 putative PBP binding loops; other site 595494002842 ABC-ATPase subunit interface; other site 595494002843 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 595494002844 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 595494002845 dimer interface [polypeptide binding]; other site 595494002846 conserved gate region; other site 595494002847 putative PBP binding loops; other site 595494002848 ABC-ATPase subunit interface; other site 595494002849 Domain of Unknown Function with PDB structure; Region: DUF3857; pfam12969 595494002850 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 595494002851 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 595494002852 putative phosphate binding site [ion binding]; other site 595494002853 putative catalytic site [active] 595494002854 active site 595494002855 metal binding site A [ion binding]; metal-binding site 595494002856 DNA binding site [nucleotide binding] 595494002857 putative AP binding site [nucleotide binding]; other site 595494002858 putative metal binding site B [ion binding]; other site 595494002859 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 595494002860 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 595494002861 active site 595494002862 Zn binding site [ion binding]; other site 595494002863 TraB family; Region: TraB; cl12050 595494002864 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 595494002865 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 595494002866 short chain dehydrogenase; Provisional; Region: PRK05693 595494002867 NADP binding site [chemical binding]; other site 595494002868 active site 595494002869 steroid binding site; other site 595494002870 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 595494002871 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 595494002872 N-acetyl-D-glucosamine binding site [chemical binding]; other site 595494002873 catalytic residue [active] 595494002874 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 595494002875 putative peptidoglycan binding site; other site 595494002876 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 595494002877 putative peptidoglycan binding site; other site 595494002878 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494002879 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 595494002880 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; cl12011 595494002881 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 595494002882 RNA/DNA hybrid binding site [nucleotide binding]; other site 595494002883 active site 595494002884 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 595494002885 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 595494002886 active site 595494002887 substrate binding site [chemical binding]; other site 595494002888 catalytic site [active] 595494002889 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 595494002890 dimer interface [polypeptide binding]; other site 595494002891 active site 595494002892 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 595494002893 putative active site [active] 595494002894 putative dimer interface [polypeptide binding]; other site 595494002895 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 595494002896 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 595494002897 active site 595494002898 substrate binding site [chemical binding]; other site 595494002899 cosubstrate binding site; other site 595494002900 catalytic site [active] 595494002901 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 595494002902 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 595494002903 dimerization interface [polypeptide binding]; other site 595494002904 putative ATP binding site [chemical binding]; other site 595494002905 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 595494002906 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494002907 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 595494002908 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 595494002909 Peptidase family M48; Region: Peptidase_M48; cl12018 595494002910 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 595494002911 Domain of unknown function DUF20; Region: UPF0118; cl00465 595494002912 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 595494002913 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 595494002914 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 595494002915 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 595494002916 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 595494002917 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 595494002918 Sulfatase; Region: Sulfatase; cl10460 595494002919 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 595494002920 Nucleoid-associated protein [General function prediction only]; Region: COG3081 595494002921 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 595494002922 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 595494002923 Cell division protein ZapA; Region: ZapA; cl01146 595494002924 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 595494002925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494002926 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 595494002927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494002928 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 595494002929 DNA replication protein DnaC; Validated; Region: PRK07952 595494002930 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 595494002931 Walker A motif; other site 595494002932 ATP binding site [chemical binding]; other site 595494002933 Walker B motif; other site 595494002934 Phd_YefM; Region: PhdYeFM; cl09153 595494002935 Response regulator receiver domain; Region: Response_reg; pfam00072 595494002936 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 595494002937 active site 595494002938 phosphorylation site [posttranslational modification] 595494002939 intermolecular recognition site; other site 595494002940 dimerization interface [polypeptide binding]; other site 595494002941 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 595494002942 active site 595494002943 tetramer interface; other site 595494002944 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 595494002945 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 595494002946 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 595494002947 active site 595494002948 YCII-related domain; Region: YCII; cl00999 595494002949 Intracellular septation protein A; Region: IspA; cl01098 595494002950 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 595494002951 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 595494002952 substrate binding site [chemical binding]; other site 595494002953 active site 595494002954 catalytic residues [active] 595494002955 heterodimer interface [polypeptide binding]; other site 595494002956 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 595494002957 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 595494002958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494002959 catalytic residue [active] 595494002960 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 595494002961 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 595494002962 active site 595494002963 ribulose/triose binding site [chemical binding]; other site 595494002964 phosphate binding site [ion binding]; other site 595494002965 substrate (anthranilate) binding pocket [chemical binding]; other site 595494002966 product (indole) binding pocket [chemical binding]; other site 595494002967 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 595494002968 active site 595494002969 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 595494002970 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 595494002971 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 595494002972 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 595494002973 Glutamine amidotransferase class-I; Region: GATase; pfam00117 595494002974 glutamine binding [chemical binding]; other site 595494002975 catalytic triad [active] 595494002976 anthranilate synthase component I; Provisional; Region: PRK13564 595494002977 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 595494002978 chorismate binding enzyme; Region: Chorismate_bind; cl10555 595494002979 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 595494002980 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 595494002981 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 595494002982 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 595494002983 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 595494002984 RNA binding surface [nucleotide binding]; other site 595494002985 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 595494002986 probable active site [active] 595494002987 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 595494002988 Ligand Binding Site [chemical binding]; other site 595494002989 GAF domain; Region: GAF; cl00853 595494002990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 595494002991 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 595494002992 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 595494002993 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 595494002994 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 595494002995 Walker A motif; other site 595494002996 ATP binding site [chemical binding]; other site 595494002997 Walker B motif; other site 595494002998 arginine finger; other site 595494002999 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494003000 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 595494003001 adenine DNA glycosylase; Provisional; Region: PRK10880 595494003002 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 595494003003 minor groove reading motif; other site 595494003004 helix-hairpin-helix signature motif; other site 595494003005 substrate binding pocket [chemical binding]; other site 595494003006 active site 595494003007 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 595494003008 DNA binding and oxoG recognition site [nucleotide binding] 595494003009 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; cl12011 595494003010 HemN family oxidoreductase; Provisional; Region: PRK05660 595494003011 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 595494003012 FeS/SAM binding site; other site 595494003013 HemN C-terminal region; Region: HemN_C; pfam06969 595494003014 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 595494003015 active site 595494003016 dimerization interface [polypeptide binding]; other site 595494003017 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 595494003018 YGGT family; Region: YGGT; cl00508 595494003019 YGGT family; Region: YGGT; cl00508 595494003020 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 595494003021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494003022 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 595494003023 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 595494003024 catalytic residue [active] 595494003025 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 595494003026 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 595494003027 Walker A motif; other site 595494003028 ATP binding site [chemical binding]; other site 595494003029 Walker B motif; other site 595494003030 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 595494003031 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494003032 Walker A motif; other site 595494003033 ATP binding site [chemical binding]; other site 595494003034 Walker B motif; other site 595494003035 Protein of unknown function (DUF328); Region: DUF328; cl01143 595494003036 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 595494003037 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 595494003038 ATP binding site [chemical binding]; other site 595494003039 Mg++ binding site [ion binding]; other site 595494003040 motif III; other site 595494003041 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 595494003042 nucleotide binding region [chemical binding]; other site 595494003043 ATP-binding site [chemical binding]; other site 595494003044 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 595494003045 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 595494003046 S-adenosylmethionine binding site [chemical binding]; other site 595494003047 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 595494003048 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 595494003049 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 595494003050 Int/Topo IB signature motif; other site 595494003051 active site 595494003052 conserved hypothetical protein; Region: TIGR02231 595494003053 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 595494003054 DHH family; Region: DHH; pfam01368 595494003055 DHHA1 domain; Region: DHHA1; pfam02272 595494003056 peptide chain release factor 2; Validated; Region: prfB; PRK00578 595494003057 RF-1 domain; Region: RF-1; cl02875 595494003058 RF-1 domain; Region: RF-1; cl02875 595494003059 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 595494003060 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 595494003061 dimer interface [polypeptide binding]; other site 595494003062 putative anticodon binding site; other site 595494003063 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 595494003064 motif 1; other site 595494003065 active site 595494003066 motif 2; other site 595494003067 motif 3; other site 595494003068 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 595494003069 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494003070 Walker A/P-loop; other site 595494003071 ATP binding site [chemical binding]; other site 595494003072 Q-loop/lid; other site 595494003073 ABC transporter signature motif; other site 595494003074 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 595494003075 Walker B; other site 595494003076 D-loop; other site 595494003077 H-loop/switch region; other site 595494003078 ABC transporter; Region: ABC_tran_2; pfam12848 595494003079 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 595494003080 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 595494003081 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 595494003082 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 595494003083 FeS/SAM binding site; other site 595494003084 DGC domain; Region: DGC; cl01742 595494003085 Flavin Reductases; Region: FlaRed; cl00801 595494003086 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494003087 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 595494003088 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 595494003089 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 595494003090 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 595494003091 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494003092 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 595494003093 dimerization interface [polypeptide binding]; other site 595494003094 substrate binding pocket [chemical binding]; other site 595494003095 dihydrodipicolinate reductase; Provisional; Region: PRK00048 595494003096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494003097 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 595494003098 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 595494003099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494003100 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 595494003101 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 595494003102 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494003103 Walker A/P-loop; other site 595494003104 ATP binding site [chemical binding]; other site 595494003105 Q-loop/lid; other site 595494003106 ABC transporter signature motif; other site 595494003107 Walker B; other site 595494003108 D-loop; other site 595494003109 H-loop/switch region; other site 595494003110 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 595494003111 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 595494003112 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 595494003113 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 595494003114 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 595494003115 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 595494003116 mercuric reductase; Validated; Region: PRK06370 595494003117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494003118 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494003119 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 595494003120 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 595494003121 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 595494003122 dimer interface [polypeptide binding]; other site 595494003123 active site 595494003124 heme binding site [chemical binding]; other site 595494003125 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 595494003126 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 595494003127 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 595494003128 NADP binding site [chemical binding]; other site 595494003129 dimer interface [polypeptide binding]; other site 595494003130 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 595494003131 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494003132 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 595494003133 SelR domain; Region: SelR; cl00369 595494003134 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 595494003135 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 595494003136 active site 595494003137 Predicted permease; Region: DUF318; cl00487 595494003138 Predicted permease; Region: DUF318; cl00487 595494003139 Protein of unknown function (DUF2703); Region: DUF2703; pfam10865 595494003140 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 595494003141 Predicted permease; Region: DUF318; cl00487 595494003142 RNA polymerase sigma factor, SigZ family; Region: SigZ; TIGR02959 595494003143 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 595494003144 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 595494003145 DNA binding residues [nucleotide binding] 595494003146 Membrane transport protein; Region: Mem_trans; cl09117 595494003147 Protein of unknown function (DUF454); Region: DUF454; cl01063 595494003148 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 595494003149 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 595494003150 putative substrate binding site [chemical binding]; other site 595494003151 putative ATP binding site [chemical binding]; other site 595494003152 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 595494003153 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 595494003154 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 595494003155 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 595494003156 dimer interface [polypeptide binding]; other site 595494003157 conserved gate region; other site 595494003158 putative PBP binding loops; other site 595494003159 ABC-ATPase subunit interface; other site 595494003160 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 595494003161 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 595494003162 dimer interface [polypeptide binding]; other site 595494003163 conserved gate region; other site 595494003164 putative PBP binding loops; other site 595494003165 ABC-ATPase subunit interface; other site 595494003166 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 595494003167 substrate binding [chemical binding]; other site 595494003168 active site 595494003169 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 595494003170 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 595494003171 Walker A/P-loop; other site 595494003172 ATP binding site [chemical binding]; other site 595494003173 Q-loop/lid; other site 595494003174 ABC transporter signature motif; other site 595494003175 Walker B; other site 595494003176 D-loop; other site 595494003177 H-loop/switch region; other site 595494003178 TOBE domain; Region: TOBE_2; cl01440 595494003179 Transcriptional regulators [Transcription]; Region: PurR; COG1609 595494003180 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494003181 DNA binding site [nucleotide binding] 595494003182 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 595494003183 ligand binding site [chemical binding]; other site 595494003184 dimerization interface [polypeptide binding]; other site 595494003185 pyruvate kinase; Provisional; Region: PRK05826 595494003186 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 595494003187 domain interfaces; other site 595494003188 active site 595494003189 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 595494003190 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 595494003191 putative active site [active] 595494003192 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 595494003193 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 595494003194 putative acyl-acceptor binding pocket; other site 595494003195 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 595494003196 Peptidase family M48; Region: Peptidase_M48; cl12018 595494003197 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 595494003198 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 595494003199 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 595494003200 dihydrodipicolinate reductase; Provisional; Region: PRK00048 595494003201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494003202 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 595494003203 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 595494003204 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 595494003205 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 595494003206 catalytic site [active] 595494003207 subunit interface [polypeptide binding]; other site 595494003208 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 595494003209 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 595494003210 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 595494003211 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 595494003212 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 595494003213 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 595494003214 IMP binding site; other site 595494003215 dimer interface [polypeptide binding]; other site 595494003216 interdomain contacts; other site 595494003217 partial ornithine binding site; other site 595494003218 threonine and homoserine efflux system; Provisional; Region: PRK10532 595494003219 EamA-like transporter family; Region: EamA; cl01037 595494003220 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 595494003221 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 595494003222 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494003223 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 595494003224 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 595494003225 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 595494003226 Major Facilitator Superfamily; Region: MFS_1; pfam07690 595494003227 putative substrate translocation pore; other site 595494003228 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 595494003229 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 595494003230 intersubunit interface [polypeptide binding]; other site 595494003231 active site 595494003232 Zn2+ binding site [ion binding]; other site 595494003233 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 595494003234 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 595494003235 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 595494003236 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 595494003237 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494003238 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 595494003239 active site turn [active] 595494003240 phosphorylation site [posttranslational modification] 595494003241 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 595494003242 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 595494003243 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 595494003244 transcriptional activator RhaR; Provisional; Region: PRK13501 595494003245 Cupin domain; Region: Cupin_2; cl09118 595494003246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494003247 Domain of unknown function (DUF718); Region: DUF718; cl01281 595494003248 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 595494003249 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 595494003250 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 595494003251 L-rhamnulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 595494003252 N- and C-terminal domain interface [polypeptide binding]; other site 595494003253 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 595494003254 active site 595494003255 catalytic site [active] 595494003256 metal binding site [ion binding]; metal-binding site 595494003257 ATP binding site [chemical binding]; other site 595494003258 carbohydrate binding site [chemical binding]; other site 595494003259 transcriptional activator RhaS; Provisional; Region: PRK13503 595494003260 Cupin domain; Region: Cupin_2; cl09118 595494003261 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494003262 lactaldehyde reductase; Region: lactal_redase; TIGR02638 595494003263 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 595494003264 dimer interface [polypeptide binding]; other site 595494003265 active site 595494003266 metal binding site [ion binding]; metal-binding site 595494003267 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 595494003268 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 595494003269 Walker A motif; other site 595494003270 ATP binding site [chemical binding]; other site 595494003271 Walker B motif; other site 595494003272 arginine finger; other site 595494003273 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 595494003274 SpoVR family protein; Provisional; Region: PRK11767 595494003275 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 595494003276 Uncharacterized conserved protein [Function unknown]; Region: COG2718 595494003277 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 595494003278 PrkA family serine protein kinase; Provisional; Region: PRK15455 595494003279 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494003280 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 595494003281 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 595494003282 homodimer interface [polypeptide binding]; other site 595494003283 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 595494003284 active site pocket [active] 595494003285 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 595494003286 Lumazine binding domain; Region: Lum_binding; pfam00677 595494003287 Lumazine binding domain; Region: Lum_binding; pfam00677 595494003288 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 595494003289 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 595494003290 ATP binding site [chemical binding]; other site 595494003291 Mg++ binding site [ion binding]; other site 595494003292 motif III; other site 595494003293 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 595494003294 nucleotide binding region [chemical binding]; other site 595494003295 ATP-binding site [chemical binding]; other site 595494003296 Integrase core domain; Region: rve; cl01316 595494003297 putative transposase OrfB; Reviewed; Region: PHA02517 595494003298 Integrase core domain; Region: rve; cl01316 595494003299 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494003300 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 595494003301 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 595494003302 motif II; other site 595494003303 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 595494003304 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 595494003305 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 595494003306 active site 595494003307 metal binding site [ion binding]; metal-binding site 595494003308 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 595494003309 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494003310 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 595494003311 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 595494003312 ThiC family; Region: ThiC; cl08031 595494003313 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 595494003314 thiamine phosphate binding site [chemical binding]; other site 595494003315 active site 595494003316 pyrophosphate binding site [ion binding]; other site 595494003317 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 595494003318 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 595494003319 ATP binding site [chemical binding]; other site 595494003320 substrate interface [chemical binding]; other site 595494003321 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 595494003322 thiS-thiF/thiG interaction site; other site 595494003323 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 595494003324 ThiS interaction site; other site 595494003325 putative active site [active] 595494003326 tetramer interface [polypeptide binding]; other site 595494003327 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 595494003328 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 595494003329 FeS/SAM binding site; other site 595494003330 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 595494003331 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 595494003332 anti sigma factor interaction site; other site 595494003333 regulatory phosphorylation site [posttranslational modification]; other site 595494003334 Transglycosylase; Region: Transgly; cl07896 595494003335 trigger factor; Provisional; Region: tig; PRK01490 595494003336 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 595494003337 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 595494003338 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 595494003339 oligomer interface [polypeptide binding]; other site 595494003340 active site residues [active] 595494003341 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 595494003342 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 595494003343 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 595494003344 Walker A motif; other site 595494003345 ATP binding site [chemical binding]; other site 595494003346 Walker B motif; other site 595494003347 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 595494003348 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 595494003349 Found in ATP-dependent protease La (LON); Region: LON; smart00464 595494003350 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 595494003351 Walker A motif; other site 595494003352 ATP binding site [chemical binding]; other site 595494003353 Walker B motif; other site 595494003354 arginine finger; other site 595494003355 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 595494003356 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 595494003357 IHF dimer interface [polypeptide binding]; other site 595494003358 IHF - DNA interface [nucleotide binding]; other site 595494003359 periplasmic folding chaperone; Provisional; Region: PRK10788 595494003360 SurA N-terminal domain; Region: SurA_N; pfam09312 595494003361 PPIC-type PPIASE domain; Region: Rotamase; cl08278 595494003362 ProP expression regulator; Provisional; Region: PRK04950 595494003363 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 595494003364 carboxy-terminal protease; Provisional; Region: PRK11186 595494003365 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 595494003366 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 595494003367 protein binding site [polypeptide binding]; other site 595494003368 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 595494003369 Catalytic dyad [active] 595494003370 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 595494003371 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 595494003372 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 595494003373 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 595494003374 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 595494003375 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 595494003376 DNA binding site [nucleotide binding] 595494003377 active site 595494003378 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 595494003379 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 595494003380 putative dimer interface [polypeptide binding]; other site 595494003381 putative anticodon binding site; other site 595494003382 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 595494003383 homodimer interface [polypeptide binding]; other site 595494003384 motif 1; other site 595494003385 motif 2; other site 595494003386 active site 595494003387 motif 3; other site 595494003388 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 595494003389 dimerization interface [polypeptide binding]; other site 595494003390 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 595494003391 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 595494003392 NAD binding site [chemical binding]; other site 595494003393 sugar binding site [chemical binding]; other site 595494003394 divalent metal binding site [ion binding]; other site 595494003395 tetramer (dimer of dimers) interface [polypeptide binding]; other site 595494003396 dimer interface [polypeptide binding]; other site 595494003397 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 595494003398 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494003399 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 595494003400 dimerization interface [polypeptide binding]; other site 595494003401 substrate binding pocket [chemical binding]; other site 595494003402 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 595494003403 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 595494003404 inhibitor-cofactor binding pocket; inhibition site 595494003405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494003406 catalytic residue [active] 595494003407 biotin synthase; Provisional; Region: PRK15108 595494003408 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 595494003409 FeS/SAM binding site; other site 595494003410 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 595494003411 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 595494003412 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 595494003413 substrate-cofactor binding pocket; other site 595494003414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494003415 catalytic residue [active] 595494003416 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 595494003417 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 595494003418 S-adenosylmethionine binding site [chemical binding]; other site 595494003419 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494003420 Peptidase family M48; Region: Peptidase_M48; cl12018 595494003421 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 595494003422 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 595494003423 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 595494003424 Surface antigen; Region: Bac_surface_Ag; cl03097 595494003425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 595494003426 Family of unknown function (DUF490); Region: DUF490; pfam04357 595494003427 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 595494003428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494003429 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 595494003430 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 595494003431 active site residue [active] 595494003432 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 595494003433 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 595494003434 inhibitor-cofactor binding pocket; inhibition site 595494003435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494003436 catalytic residue [active] 595494003437 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 595494003438 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 595494003439 tetramerization interface [polypeptide binding]; other site 595494003440 NAD(P) binding site [chemical binding]; other site 595494003441 catalytic residues [active] 595494003442 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494003443 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494003444 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 595494003445 dimerization interface [polypeptide binding]; other site 595494003446 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 595494003447 dimer interface [polypeptide binding]; other site 595494003448 conserved gate region; other site 595494003449 putative PBP binding loops; other site 595494003450 ABC-ATPase subunit interface; other site 595494003451 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 595494003452 dimer interface [polypeptide binding]; other site 595494003453 conserved gate region; other site 595494003454 putative PBP binding loops; other site 595494003455 ABC-ATPase subunit interface; other site 595494003456 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 595494003457 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 595494003458 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 595494003459 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 595494003460 Walker A/P-loop; other site 595494003461 ATP binding site [chemical binding]; other site 595494003462 Q-loop/lid; other site 595494003463 ABC transporter signature motif; other site 595494003464 Walker B; other site 595494003465 D-loop; other site 595494003466 H-loop/switch region; other site 595494003467 TOBE domain; Region: TOBE_2; cl01440 595494003468 Protein of unknown function (DUF523); Region: DUF523; cl00733 595494003469 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 595494003470 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 595494003471 DNA photolyase; Region: DNA_photolyase; pfam00875 595494003472 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 595494003473 excinuclease ABC subunit B; Provisional; Region: PRK05298 595494003474 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 595494003475 ATP binding site [chemical binding]; other site 595494003476 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 595494003477 nucleotide binding region [chemical binding]; other site 595494003478 ATP-binding site [chemical binding]; other site 595494003479 Ultra-violet resistance protein B; Region: UvrB; pfam12344 595494003480 UvrB/uvrC motif; Region: UVR; pfam02151 595494003481 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 595494003482 active site 595494003483 exonuclease I; Provisional; Region: sbcB; PRK11779 595494003484 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 595494003485 active site 595494003486 substrate binding site [chemical binding]; other site 595494003487 catalytic site [active] 595494003488 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 595494003489 YfbU domain; Region: YfbU; cl01137 595494003490 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 595494003491 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 595494003492 Ligand binding site; other site 595494003493 Putative Catalytic site; other site 595494003494 DXD motif; other site 595494003495 GtrA-like protein; Region: GtrA; cl00971 595494003496 Site-specific recombinase; Region: SpecificRecomb; cl15411 595494003497 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 595494003498 catalytic triad [active] 595494003499 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 595494003500 dihydrodipicolinate synthase; Region: dapA; TIGR00674 595494003501 dimer interface [polypeptide binding]; other site 595494003502 active site 595494003503 catalytic residue [active] 595494003504 lipoprotein; Provisional; Region: PRK11679 595494003505 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 595494003506 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 595494003507 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 595494003508 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 595494003509 metal binding site [ion binding]; metal-binding site 595494003510 dimer interface [polypeptide binding]; other site 595494003511 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 595494003512 ArsC family; Region: ArsC; pfam03960 595494003513 putative catalytic residues [active] 595494003514 Protein of unknown function (DUF2498); Region: DUF2498; cl11671 595494003515 Surface antigen; Region: Surface_Ag_2; cl01155 595494003516 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 595494003517 ligand binding site [chemical binding]; other site 595494003518 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 595494003519 non-specific DNA binding site [nucleotide binding]; other site 595494003520 salt bridge; other site 595494003521 sequence-specific DNA binding site [nucleotide binding]; other site 595494003522 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 595494003523 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494003524 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 595494003525 substrate binding site [chemical binding]; other site 595494003526 dimerization interface [polypeptide binding]; other site 595494003527 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 595494003528 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 595494003529 dimer interface [polypeptide binding]; other site 595494003530 active site 595494003531 metal binding site [ion binding]; metal-binding site 595494003532 Domain of unknown function (DUF932); Region: DUF932; cl12129 595494003533 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 595494003534 NC domain; Region: NC; pfam04970 595494003535 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 595494003536 MPN+ (JAMM) motif; other site 595494003537 Zinc-binding site [ion binding]; other site 595494003538 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 595494003539 DNA polymerase II large subunit; Provisional; Region: PRK14714 595494003540 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 595494003541 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 595494003542 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 595494003543 DXD motif; other site 595494003544 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 595494003545 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 595494003546 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 595494003547 active site 595494003548 catalytic residues [active] 595494003549 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 595494003550 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 595494003551 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 595494003552 ATP binding site [chemical binding]; other site 595494003553 putative Mg++ binding site [ion binding]; other site 595494003554 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 595494003555 nucleotide binding region [chemical binding]; other site 595494003556 ATP-binding site [chemical binding]; other site 595494003557 HsdM N-terminal domain; Region: HsdM_N; pfam12161 595494003558 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 595494003559 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; cl12011 595494003560 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 595494003561 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 595494003562 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 595494003563 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 595494003564 Uncharacterized conserved protein [Function unknown]; Region: COG4938 595494003565 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 595494003566 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09741 595494003567 tellurium resistance terB-like protein; Region: terB_like; cd07177 595494003568 metal binding site [ion binding]; metal-binding site 595494003569 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 595494003570 G1 box; other site 595494003571 GTP/Mg2+ binding site [chemical binding]; other site 595494003572 Switch I region; other site 595494003573 G2 box; other site 595494003574 Switch II region; other site 595494003575 G3 box; other site 595494003576 G4 box; other site 595494003577 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 595494003578 G1 box; other site 595494003579 GTP/Mg2+ binding site [chemical binding]; other site 595494003580 Switch I region; other site 595494003581 G2 box; other site 595494003582 Switch II region; other site 595494003583 G3 box; other site 595494003584 G4 box; other site 595494003585 G5 box; other site 595494003586 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 595494003587 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 595494003588 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 595494003589 DNA binding site [nucleotide binding] 595494003590 Int/Topo IB signature motif; other site 595494003591 active site 595494003592 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494003593 Transcriptional regulator [Transcription]; Region: IclR; COG1414 595494003594 Bacterial transcriptional regulator; Region: IclR; pfam01614 595494003595 L-rhamnonate dehydratase; Provisional; Region: PRK15440 595494003596 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 595494003597 putative active site pocket [active] 595494003598 putative metal binding site [ion binding]; other site 595494003599 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 595494003600 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 595494003601 putative substrate translocation pore; other site 595494003602 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 595494003603 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 595494003604 lactaldehyde reductase; Region: lactal_redase; TIGR02638 595494003605 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 595494003606 dimer interface [polypeptide binding]; other site 595494003607 active site 595494003608 metal binding site [ion binding]; metal-binding site 595494003609 HsdM N-terminal domain; Region: HsdM_N; pfam12161 595494003610 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 595494003611 Protein of unknown function (DUF1016); Region: DUF1016; cl01979 595494003612 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 595494003613 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 595494003614 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 595494003615 Protein of unknown function DUF262; Region: DUF262; cl14890 595494003616 Protein of unknown function DUF262; Region: DUF262; cl14890 595494003617 Protein of unknown function DUF262; Region: DUF262; cl14890 595494003618 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 595494003619 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 595494003620 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494003621 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494003622 Protein of unknown function DUF45; Region: DUF45; cl00636 595494003623 DNA helicase IV; Provisional; Region: helD; PRK11054 595494003624 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494003625 DNA helicase IV; Provisional; Region: helD; PRK11054 595494003626 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494003627 DNA topoisomerase I; Validated; Region: PRK05582 595494003628 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 595494003629 HIRAN domain; Region: HIRAN; cl07418 595494003630 Fic family protein [Function unknown]; Region: COG3177 595494003631 Fic/DOC family; Region: Fic; cl00960 595494003632 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494003633 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 595494003634 GAF domain; Region: GAF; cl00853 595494003635 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494003636 metal binding site [ion binding]; metal-binding site 595494003637 active site 595494003638 I-site; other site 595494003639 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 595494003640 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 595494003641 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 595494003642 K+-transporting ATPase, c chain; Region: KdpC; cl00944 595494003643 sensor protein KdpD; Provisional; Region: PRK10490 595494003644 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 595494003645 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 595494003646 Ligand Binding Site [chemical binding]; other site 595494003647 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 595494003648 dimer interface [polypeptide binding]; other site 595494003649 phosphorylation site [posttranslational modification] 595494003650 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 595494003651 ATP binding site [chemical binding]; other site 595494003652 Mg2+ binding site [ion binding]; other site 595494003653 G-X-G motif; other site 595494003654 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 595494003655 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 595494003656 active site 595494003657 phosphorylation site [posttranslational modification] 595494003658 intermolecular recognition site; other site 595494003659 dimerization interface [polypeptide binding]; other site 595494003660 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 595494003661 DNA binding site [nucleotide binding] 595494003662 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494003663 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 595494003664 TOBE domain; Region: TOBE_2; cl01440 595494003665 TOBE domain; Region: TOBE_2; cl01440 595494003666 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 595494003667 TOBE domain; Region: TOBE_2; cl01440 595494003668 TOBE domain; Region: TOBE_2; cl01440 595494003669 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 595494003670 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 595494003671 Walker A motif; other site 595494003672 ATP binding site [chemical binding]; other site 595494003673 Walker B motif; other site 595494003674 arginine finger; other site 595494003675 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494003676 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 595494003677 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; cl15358 595494003678 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 595494003679 metal binding site 2 [ion binding]; metal-binding site 595494003680 putative DNA binding helix; other site 595494003681 metal binding site 1 [ion binding]; metal-binding site 595494003682 dimer interface [polypeptide binding]; other site 595494003683 structural Zn2+ binding site [ion binding]; other site 595494003684 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 595494003685 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 595494003686 CoenzymeA binding site [chemical binding]; other site 595494003687 subunit interaction site [polypeptide binding]; other site 595494003688 PHB binding site; other site 595494003689 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494003690 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 595494003691 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494003692 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 595494003693 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 595494003694 TOBE domain; Region: TOBE_2; cl01440 595494003695 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 595494003696 molybdenum transport protein ModD; Provisional; Region: PRK06096 595494003697 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 595494003698 dimerization interface [polypeptide binding]; other site 595494003699 active site 595494003700 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 595494003701 active site residue [active] 595494003702 Integral membrane protein TerC family; Region: TerC; cl10468 595494003703 DsrC like protein; Region: DsrC; cl01101 595494003704 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 595494003705 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 595494003706 HsdM N-terminal domain; Region: HsdM_N; pfam12161 595494003707 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 595494003708 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 595494003709 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 595494003710 Protein of unknown function (DUF511); Region: DUF511; cl01114 595494003711 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 595494003712 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 595494003713 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 595494003714 ATP binding site [chemical binding]; other site 595494003715 putative Mg++ binding site [ion binding]; other site 595494003716 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 595494003717 Sel1 repeat; Region: Sel1; cl02723 595494003718 Sel1 repeat; Region: Sel1; cl02723 595494003719 Sel1 repeat; Region: Sel1; cl02723 595494003720 Sel1 repeat; Region: Sel1; cl02723 595494003721 Sel1 repeat; Region: Sel1; cl02723 595494003722 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 595494003723 active site 595494003724 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 595494003725 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 595494003726 substrate binding pocket [chemical binding]; other site 595494003727 membrane-bound complex binding site; other site 595494003728 hinge residues; other site 595494003729 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 595494003730 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 595494003731 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 595494003732 putative PBP binding loops; other site 595494003733 dimer interface [polypeptide binding]; other site 595494003734 ABC-ATPase subunit interface; other site 595494003735 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 595494003736 dimer interface [polypeptide binding]; other site 595494003737 conserved gate region; other site 595494003738 putative PBP binding loops; other site 595494003739 ABC-ATPase subunit interface; other site 595494003740 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 595494003741 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 595494003742 Walker A/P-loop; other site 595494003743 ATP binding site [chemical binding]; other site 595494003744 Q-loop/lid; other site 595494003745 ABC transporter signature motif; other site 595494003746 Walker B; other site 595494003747 D-loop; other site 595494003748 H-loop/switch region; other site 595494003749 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 595494003750 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 595494003751 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 595494003752 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 595494003753 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 595494003754 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 595494003755 Walker A/P-loop; other site 595494003756 ATP binding site [chemical binding]; other site 595494003757 Q-loop/lid; other site 595494003758 ABC transporter signature motif; other site 595494003759 Walker B; other site 595494003760 D-loop; other site 595494003761 H-loop/switch region; other site 595494003762 TOBE domain; Region: TOBE_2; cl01440 595494003763 TOBE domain; Region: TOBE_2; cl01440 595494003764 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 595494003765 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 595494003766 dimer interface [polypeptide binding]; other site 595494003767 conserved gate region; other site 595494003768 putative PBP binding loops; other site 595494003769 ABC-ATPase subunit interface; other site 595494003770 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 595494003771 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 595494003772 dimer interface [polypeptide binding]; other site 595494003773 conserved gate region; other site 595494003774 putative PBP binding loops; other site 595494003775 ABC-ATPase subunit interface; other site 595494003776 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 595494003777 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 595494003778 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494003779 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494003780 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 595494003781 dimerization interface [polypeptide binding]; other site 595494003782 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 595494003783 active site turn [active] 595494003784 phosphorylation site [posttranslational modification] 595494003785 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 595494003786 classical (c) SDRs; Region: SDR_c; cd05233 595494003787 NAD(P) binding site [chemical binding]; other site 595494003788 active site 595494003789 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 595494003790 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 595494003791 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 595494003792 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 595494003793 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 595494003794 Walker A/P-loop; other site 595494003795 ATP binding site [chemical binding]; other site 595494003796 Q-loop/lid; other site 595494003797 ABC transporter signature motif; other site 595494003798 Walker B; other site 595494003799 D-loop; other site 595494003800 H-loop/switch region; other site 595494003801 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 595494003802 ATP binding site [chemical binding]; other site 595494003803 active site 595494003804 substrate binding site [chemical binding]; other site 595494003805 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 595494003806 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 595494003807 glutathione synthetase; Provisional; Region: PRK05246 595494003808 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 595494003809 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 595494003810 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 595494003811 Endonuclease I; Region: Endonuclease_1; cl01003 595494003812 SprT homologues; Region: SprT; cl01182 595494003813 SprT-like family; Region: SprT-like; pfam10263 595494003814 S-adenosylmethionine synthetase; Validated; Region: PRK05250 595494003815 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 595494003816 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 595494003817 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 595494003818 transketolase; Reviewed; Region: PRK12753 595494003819 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 595494003820 TPP-binding site [chemical binding]; other site 595494003821 dimer interface [polypeptide binding]; other site 595494003822 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 595494003823 PYR/PP interface [polypeptide binding]; other site 595494003824 dimer interface [polypeptide binding]; other site 595494003825 TPP binding site [chemical binding]; other site 595494003826 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 595494003827 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 595494003828 substrate binding site [chemical binding]; other site 595494003829 hinge regions; other site 595494003830 ADP binding site [chemical binding]; other site 595494003831 catalytic site [active] 595494003832 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 595494003833 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 595494003834 active site 595494003835 intersubunit interface [polypeptide binding]; other site 595494003836 zinc binding site [ion binding]; other site 595494003837 Na+ binding site [ion binding]; other site 595494003838 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 595494003839 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 595494003840 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 595494003841 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 595494003842 Walker A/P-loop; other site 595494003843 ATP binding site [chemical binding]; other site 595494003844 Q-loop/lid; other site 595494003845 ABC transporter signature motif; other site 595494003846 Walker B; other site 595494003847 D-loop; other site 595494003848 H-loop/switch region; other site 595494003849 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 595494003850 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 595494003851 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 595494003852 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 595494003853 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494003854 metal binding site [ion binding]; metal-binding site 595494003855 active site 595494003856 I-site; other site 595494003857 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 595494003858 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 595494003859 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 595494003860 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 595494003861 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 595494003862 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 595494003863 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 595494003864 dimerization interface [polypeptide binding]; other site 595494003865 active site 595494003866 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 595494003867 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 595494003868 Phosphate transporter family; Region: PHO4; cl00396 595494003869 Phosphate transporter family; Region: PHO4; cl00396 595494003870 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 595494003871 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 595494003872 Coenzyme A binding pocket [chemical binding]; other site 595494003873 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 595494003874 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_38; cd04697 595494003875 nudix motif; other site 595494003876 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 595494003877 Sulfatase; Region: Sulfatase; cl10460 595494003878 Cache domain; Region: Cache_1; pfam02743 595494003879 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 595494003880 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 595494003881 dimer interface [polypeptide binding]; other site 595494003882 phosphorylation site [posttranslational modification] 595494003883 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 595494003884 ATP binding site [chemical binding]; other site 595494003885 Mg2+ binding site [ion binding]; other site 595494003886 G-X-G motif; other site 595494003887 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 595494003888 active site 595494003889 phosphorylation site [posttranslational modification] 595494003890 intermolecular recognition site; other site 595494003891 dimerization interface [polypeptide binding]; other site 595494003892 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 595494003893 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 595494003894 ATP binding site [chemical binding]; other site 595494003895 putative Mg++ binding site [ion binding]; other site 595494003896 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 595494003897 nucleotide binding region [chemical binding]; other site 595494003898 ATP-binding site [chemical binding]; other site 595494003899 Helicase associated domain (HA2); Region: HA2; cl04503 595494003900 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 595494003901 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 595494003902 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 595494003903 DNA-binding site [nucleotide binding]; DNA binding site 595494003904 RNA-binding motif; other site 595494003905 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 595494003906 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 595494003907 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494003908 Walker A/P-loop; other site 595494003909 ATP binding site [chemical binding]; other site 595494003910 Q-loop/lid; other site 595494003911 ABC transporter signature motif; other site 595494003912 Walker B; other site 595494003913 D-loop; other site 595494003914 H-loop/switch region; other site 595494003915 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 595494003916 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 595494003917 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494003918 Walker A/P-loop; other site 595494003919 ATP binding site [chemical binding]; other site 595494003920 Q-loop/lid; other site 595494003921 ABC transporter signature motif; other site 595494003922 Walker B; other site 595494003923 D-loop; other site 595494003924 H-loop/switch region; other site 595494003925 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 595494003926 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 595494003927 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 595494003928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494003929 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 595494003930 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 595494003931 catalytic residues [active] 595494003932 pyruvate kinase; Validated; Region: PRK08187 595494003933 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 595494003934 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 595494003935 active site 595494003936 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 595494003937 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 595494003938 Domain of unknown function DUF21; Region: DUF21; pfam01595 595494003939 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 595494003940 Transporter associated domain; Region: CorC_HlyC; cl08393 595494003941 RF-1 domain; Region: RF-1; cl02875 595494003942 Uncharacterized conserved protein [Function unknown]; Region: COG1432 595494003943 LabA_like proteins; Region: LabA; cd10911 595494003944 putative metal binding site [ion binding]; other site 595494003945 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl01939 595494003946 Cupin domain; Region: Cupin_2; cl09118 595494003947 LysE type translocator; Region: LysE; cl00565 595494003948 LysE type translocator; Region: LysE; cl00565 595494003949 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 595494003950 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 595494003951 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 595494003952 Coenzyme A binding pocket [chemical binding]; other site 595494003953 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 595494003954 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSRA_1; cd02558 595494003955 probable active site [active] 595494003956 hypothetical protein; Provisional; Region: PRK09272 595494003957 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 595494003958 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 595494003959 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 595494003960 EamA-like transporter family; Region: EamA; cl01037 595494003961 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 595494003962 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 595494003963 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_21; cd04680 595494003964 nudix motif; other site 595494003965 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 595494003966 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 595494003967 active site residue [active] 595494003968 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 595494003969 active site residue [active] 595494003970 Stress responsive A/B Barrel Domain; Region: Dabb; cl06768 595494003971 FRG domain; Region: FRG; cl07460 595494003972 Uncharacterized conserved protein [Function unknown]; Region: COG1432 595494003973 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 595494003974 putative metal binding site [ion binding]; other site 595494003975 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 595494003976 Protein of unknown function (DUF2743); Region: DUF2743; pfam10899 595494003977 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 595494003978 PAS domain S-box; Region: sensory_box; TIGR00229 595494003979 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 595494003980 putative active site [active] 595494003981 heme pocket [chemical binding]; other site 595494003982 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 595494003983 GAF domain; Region: GAF; cl00853 595494003984 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494003985 metal binding site [ion binding]; metal-binding site 595494003986 active site 595494003987 I-site; other site 595494003988 YaeQ protein; Region: YaeQ; cl01913 595494003989 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 595494003990 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494003991 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 595494003992 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 595494003993 phosphoenolpyruvate synthase; Validated; Region: PRK06464 595494003994 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 595494003995 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 595494003996 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 595494003997 META domain; Region: META; cl01245 595494003998 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 595494003999 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 595494004000 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 595494004001 FAD binding pocket [chemical binding]; other site 595494004002 FAD binding motif [chemical binding]; other site 595494004003 phosphate binding motif [ion binding]; other site 595494004004 beta-alpha-beta structure motif; other site 595494004005 NAD binding pocket [chemical binding]; other site 595494004006 PAS domain S-box; Region: sensory_box; TIGR00229 595494004007 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 595494004008 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 595494004009 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494004010 metal binding site [ion binding]; metal-binding site 595494004011 active site 595494004012 I-site; other site 595494004013 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; cl11605 595494004014 octamerization interface [polypeptide binding]; other site 595494004015 hemerythrin-like metal-binding domain; Region: hemeryth_dom; TIGR02481 595494004016 diferric-oxygen binding site [ion binding]; other site 595494004017 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 595494004018 RmuC family; Region: RmuC; pfam02646 595494004019 putative transporter; Provisional; Region: PRK10504 595494004020 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 595494004021 putative substrate translocation pore; other site 595494004022 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 595494004023 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494004024 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494004025 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 595494004026 putative effector binding pocket; other site 595494004027 putative dimerization interface [polypeptide binding]; other site 595494004028 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 595494004029 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 595494004030 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 595494004031 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 595494004032 substrate binding pocket [chemical binding]; other site 595494004033 catalytic triad [active] 595494004034 Carboxylesterase family; Region: COesterase; pfam00135 595494004035 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 595494004036 substrate binding pocket [chemical binding]; other site 595494004037 catalytic triad [active] 595494004038 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 595494004039 catalytic tetrad [active] 595494004040 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 595494004041 active site 595494004042 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 595494004043 Cupin domain; Region: Cupin_2; cl09118 595494004044 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 595494004045 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 595494004046 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 595494004047 active site 595494004048 catalytic tetrad [active] 595494004049 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 595494004050 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 595494004051 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 595494004052 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 595494004053 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 595494004054 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 595494004055 dimer interface [polypeptide binding]; other site 595494004056 putative PBP binding loops; other site 595494004057 ABC-ATPase subunit interface; other site 595494004058 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 595494004059 dimer interface [polypeptide binding]; other site 595494004060 conserved gate region; other site 595494004061 putative PBP binding loops; other site 595494004062 ABC-ATPase subunit interface; other site 595494004063 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 595494004064 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 595494004065 Walker A/P-loop; other site 595494004066 ATP binding site [chemical binding]; other site 595494004067 Q-loop/lid; other site 595494004068 ABC transporter signature motif; other site 595494004069 Walker B; other site 595494004070 D-loop; other site 595494004071 H-loop/switch region; other site 595494004072 TOBE domain; Region: TOBE_2; cl01440 595494004073 trehalose synthase; Region: treS_nterm; TIGR02456 595494004074 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 595494004075 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 595494004076 DNA binding residues [nucleotide binding] 595494004077 dimerization interface [polypeptide binding]; other site 595494004078 Predicted amidohydrolase [General function prediction only]; Region: COG0388 595494004079 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 595494004080 putative active site [active] 595494004081 catalytic triad [active] 595494004082 putative dimer interface [polypeptide binding]; other site 595494004083 Amino acid permease; Region: AA_permease; cl00524 595494004084 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 595494004085 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 595494004086 putative metal binding site [ion binding]; other site 595494004087 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 595494004088 Domain of unknown function (DUF336); Region: DUF336; cl01249 595494004089 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 595494004090 PAS fold; Region: PAS_7; pfam12860 595494004091 PAS fold; Region: PAS_4; pfam08448 595494004092 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494004093 metal binding site [ion binding]; metal-binding site 595494004094 active site 595494004095 I-site; other site 595494004096 Domain of unknown function DUF20; Region: UPF0118; cl00465 595494004097 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 595494004098 Protein of unknown function (DUF330); Region: DUF330; cl01135 595494004099 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 595494004100 mce related protein; Region: MCE; cl15431 595494004101 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 595494004102 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494004103 Walker A/P-loop; other site 595494004104 ATP binding site [chemical binding]; other site 595494004105 Q-loop/lid; other site 595494004106 ABC transporter signature motif; other site 595494004107 Walker B; other site 595494004108 D-loop; other site 595494004109 H-loop/switch region; other site 595494004110 Domain of unknown function DUF140; Region: DUF140; cl00510 595494004111 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 595494004112 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 595494004113 Walker A/P-loop; other site 595494004114 ATP binding site [chemical binding]; other site 595494004115 Q-loop/lid; other site 595494004116 ABC transporter signature motif; other site 595494004117 Walker B; other site 595494004118 D-loop; other site 595494004119 H-loop/switch region; other site 595494004120 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 595494004121 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 595494004122 FtsX-like permease family; Region: FtsX; pfam02687 595494004123 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 595494004124 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-F; cd09718 595494004125 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494004126 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 595494004127 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 595494004128 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 595494004129 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 595494004130 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 595494004131 Aminotransferase class-V; Region: Aminotran_5; pfam00266 595494004132 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 595494004133 homodimer interface [polypeptide binding]; other site 595494004134 substrate-cofactor binding pocket; other site 595494004135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494004136 catalytic residue [active] 595494004137 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 595494004138 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 595494004139 hinge; other site 595494004140 active site 595494004141 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 595494004142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494004143 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 595494004144 L-serine binding site [chemical binding]; other site 595494004145 ACT domain interface; other site 595494004146 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 595494004147 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 595494004148 active site 595494004149 motif I; other site 595494004150 motif II; other site 595494004151 Acetokinase family; Region: Acetate_kinase; cl01029 595494004152 Carbon starvation protein CstA; Region: CstA; cl00856 595494004153 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 595494004154 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 595494004155 active site 595494004156 phosphorylation site [posttranslational modification] 595494004157 intermolecular recognition site; other site 595494004158 dimerization interface [polypeptide binding]; other site 595494004159 LytTr DNA-binding domain; Region: LytTR; cl04498 595494004160 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 595494004161 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 595494004162 GAF domain; Region: GAF; cl00853 595494004163 Histidine kinase; Region: His_kinase; pfam06580 595494004164 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 595494004165 ATP binding site [chemical binding]; other site 595494004166 Mg2+ binding site [ion binding]; other site 595494004167 G-X-G motif; other site 595494004168 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 595494004169 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 595494004170 ligand binding site [chemical binding]; other site 595494004171 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 595494004172 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 595494004173 Walker A/P-loop; other site 595494004174 ATP binding site [chemical binding]; other site 595494004175 Q-loop/lid; other site 595494004176 ABC transporter signature motif; other site 595494004177 Walker B; other site 595494004178 D-loop; other site 595494004179 H-loop/switch region; other site 595494004180 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 595494004181 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 595494004182 TM-ABC transporter signature motif; other site 595494004183 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 595494004184 TM-ABC transporter signature motif; other site 595494004185 NeuB family; Region: NeuB; cl00496 595494004186 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 595494004187 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 595494004188 Chorismate mutase type II; Region: CM_2; cl00693 595494004189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494004190 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 595494004191 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 595494004192 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 595494004193 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 595494004194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494004195 homodimer interface [polypeptide binding]; other site 595494004196 catalytic residue [active] 595494004197 sugar efflux transporter B; Provisional; Region: PRK15011 595494004198 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 595494004199 putative substrate translocation pore; other site 595494004200 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494004201 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494004202 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 595494004203 dimerization interface [polypeptide binding]; other site 595494004204 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 595494004205 putative inner membrane peptidase; Provisional; Region: PRK11778 595494004206 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 595494004207 tandem repeat interface [polypeptide binding]; other site 595494004208 oligomer interface [polypeptide binding]; other site 595494004209 active site residues [active] 595494004210 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 595494004211 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 595494004212 active site 595494004213 interdomain interaction site; other site 595494004214 putative metal-binding site [ion binding]; other site 595494004215 nucleotide binding site [chemical binding]; other site 595494004216 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 595494004217 domain I; other site 595494004218 DNA binding groove [nucleotide binding] 595494004219 phosphate binding site [ion binding]; other site 595494004220 domain II; other site 595494004221 domain III; other site 595494004222 nucleotide binding site [chemical binding]; other site 595494004223 catalytic site [active] 595494004224 domain IV; other site 595494004225 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 595494004226 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 595494004227 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 595494004228 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 595494004229 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 595494004230 putative active site [active] 595494004231 putative CoA binding site [chemical binding]; other site 595494004232 nudix motif; other site 595494004233 metal binding site [ion binding]; metal-binding site 595494004234 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 595494004235 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 595494004236 chorismate binding enzyme; Region: Chorismate_bind; cl10555 595494004237 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 595494004238 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 595494004239 active site 595494004240 phosphorylation site [posttranslational modification] 595494004241 intermolecular recognition site; other site 595494004242 dimerization interface [polypeptide binding]; other site 595494004243 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 595494004244 Walker A motif; other site 595494004245 ATP binding site [chemical binding]; other site 595494004246 Walker B motif; other site 595494004247 arginine finger; other site 595494004248 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494004249 FIST N domain; Region: FIST; cl10701 595494004250 FIST C domain; Region: FIST_C; pfam10442 595494004251 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 595494004252 dimer interface [polypeptide binding]; other site 595494004253 phosphorylation site [posttranslational modification] 595494004254 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 595494004255 ATP binding site [chemical binding]; other site 595494004256 Mg2+ binding site [ion binding]; other site 595494004257 G-X-G motif; other site 595494004258 Response regulator receiver domain; Region: Response_reg; pfam00072 595494004259 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 595494004260 active site 595494004261 phosphorylation site [posttranslational modification] 595494004262 intermolecular recognition site; other site 595494004263 dimerization interface [polypeptide binding]; other site 595494004264 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 595494004265 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 595494004266 ATP binding site [chemical binding]; other site 595494004267 Mg++ binding site [ion binding]; other site 595494004268 motif III; other site 595494004269 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 595494004270 nucleotide binding region [chemical binding]; other site 595494004271 ATP-binding site [chemical binding]; other site 595494004272 NeuB family; Region: NeuB; cl00496 595494004273 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 595494004274 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 595494004275 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 595494004276 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 595494004277 motif II; other site 595494004278 multidrug efflux protein; Reviewed; Region: PRK01766 595494004279 MatE; Region: MatE; cl10513 595494004280 MatE; Region: MatE; cl10513 595494004281 Uncharacterised protein family (UPF0253); Region: UPF0253; cl11640 595494004282 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 595494004283 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 595494004284 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494004285 Walker A motif; other site 595494004286 ATP binding site [chemical binding]; other site 595494004287 Walker B motif; other site 595494004288 EamA-like transporter family; Region: EamA; cl01037 595494004289 EamA-like transporter family; Region: EamA; cl01037 595494004290 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 595494004291 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 595494004292 RNA binding surface [nucleotide binding]; other site 595494004293 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 595494004294 active site 595494004295 uracil binding [chemical binding]; other site 595494004296 hypothetical protein; Provisional; Region: PRK11568 595494004297 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 595494004298 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 595494004299 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 595494004300 NAD binding site [chemical binding]; other site 595494004301 substrate binding site [chemical binding]; other site 595494004302 putative active site [active] 595494004303 transcriptional regulator; Provisional; Region: PRK10632 595494004304 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494004305 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 595494004306 putative effector binding pocket; other site 595494004307 dimerization interface [polypeptide binding]; other site 595494004308 hypothetical protein; Provisional; Region: PRK11770 595494004309 Domain of unknown function (DUF307); Region: DUF307; pfam03733 595494004310 Domain of unknown function (DUF307); Region: DUF307; pfam03733 595494004311 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 595494004312 Flagellin N-methylase; Region: FliB; cl00497 595494004313 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 595494004314 Radical SAM superfamily; Region: Radical_SAM; pfam04055 595494004315 FeS/SAM binding site; other site 595494004316 Domain of unknown function DUF; Region: DUF202; cl09954 595494004317 Alginate lyase; Region: Alginate_lyase2; pfam08787 595494004318 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 595494004319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494004320 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 595494004321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494004322 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 595494004323 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 595494004324 PilZ domain; Region: PilZ; cl01260 595494004325 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 595494004326 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 595494004327 active site 595494004328 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 595494004329 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 595494004330 Substrate binding site; other site 595494004331 Cupin domain; Region: Cupin_2; cl09118 595494004332 phosphomannomutase CpsG; Provisional; Region: PRK15414 595494004333 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 595494004334 active site 595494004335 substrate binding site [chemical binding]; other site 595494004336 metal binding site [ion binding]; metal-binding site 595494004337 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 595494004338 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 595494004339 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 595494004340 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 595494004341 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 595494004342 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 595494004343 THUMP domain; Region: THUMP; cl12076 595494004344 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; cl12011 595494004345 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; cl12011 595494004346 ABC transporter ATPase component; Reviewed; Region: PRK11147 595494004347 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 595494004348 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494004349 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 595494004350 ABC transporter; Region: ABC_tran_2; pfam12848 595494004351 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 595494004352 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 595494004353 Ribosome modulation factor; Region: RMF; cl01207 595494004354 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 595494004355 active site 1 [active] 595494004356 dimer interface [polypeptide binding]; other site 595494004357 active site 2 [active] 595494004358 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 595494004359 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 595494004360 DTW domain; Region: DTW; cl01221 595494004361 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 595494004362 catalytic loop [active] 595494004363 iron binding site [ion binding]; other site 595494004364 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 595494004365 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 595494004366 dimer interface [polypeptide binding]; other site 595494004367 putative radical transfer pathway; other site 595494004368 diiron center [ion binding]; other site 595494004369 tyrosyl radical; other site 595494004370 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 595494004371 ATP cone domain; Region: ATP-cone; pfam03477 595494004372 Class I ribonucleotide reductase; Region: RNR_I; cd01679 595494004373 active site 595494004374 dimer interface [polypeptide binding]; other site 595494004375 catalytic residues [active] 595494004376 effector binding site; other site 595494004377 R2 peptide binding site; other site 595494004378 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 595494004379 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 595494004380 motif II; other site 595494004381 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 595494004382 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 595494004383 S-adenosylmethionine binding site [chemical binding]; other site 595494004384 DNA gyrase subunit A; Validated; Region: PRK05560 595494004385 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 595494004386 CAP-like domain; other site 595494004387 active site 595494004388 primary dimer interface [polypeptide binding]; other site 595494004389 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 595494004390 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 595494004391 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 595494004392 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 595494004393 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 595494004394 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 595494004395 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 595494004396 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 595494004397 AIR carboxylase; Region: AIRC; cl00310 595494004398 Nitrogen regulatory protein P-II; Region: P-II; cl00412 595494004399 Domain of unknown function (DUF897); Region: DUF897; cl01312 595494004400 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 595494004401 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494004402 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 595494004403 putative dimerization interface [polypeptide binding]; other site 595494004404 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 595494004405 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 595494004406 FMN binding site [chemical binding]; other site 595494004407 active site 595494004408 catalytic residues [active] 595494004409 substrate binding site [chemical binding]; other site 595494004410 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 595494004411 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 595494004412 dimer interface [polypeptide binding]; other site 595494004413 putative active site [active] 595494004414 putative substrate binding site [chemical binding]; other site 595494004415 catalytic site [active] 595494004416 Permease family; Region: Xan_ur_permease; cl00967 595494004417 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 595494004418 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 595494004419 dimer interface [polypeptide binding]; other site 595494004420 active site 595494004421 metal binding site [ion binding]; metal-binding site 595494004422 glutathione binding site [chemical binding]; other site 595494004423 endonuclease III; Provisional; Region: PRK10702 595494004424 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 595494004425 minor groove reading motif; other site 595494004426 helix-hairpin-helix signature motif; other site 595494004427 substrate binding pocket [chemical binding]; other site 595494004428 active site 595494004429 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 595494004430 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 595494004431 FMN-binding domain; Region: FMN_bind; cl01081 595494004432 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 595494004433 electron transport complex protein RnfC; Provisional; Region: PRK05035 595494004434 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 595494004435 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 595494004436 SLBB domain; Region: SLBB; pfam10531 595494004437 4Fe-4S binding domain; Region: Fer4; cl02805 595494004438 electron transport complex protein RnfB; Provisional; Region: PRK05113 595494004439 Putative Fe-S cluster; Region: FeS; pfam04060 595494004440 4Fe-4S binding domain; Region: Fer4; cl02805 595494004441 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 595494004442 EamA-like transporter family; Region: EamA; cl01037 595494004443 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 595494004444 EamA-like transporter family; Region: EamA; cl01037 595494004445 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 595494004446 Protein of unknown function DUF45; Region: DUF45; cl00636 595494004447 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 595494004448 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 595494004449 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 595494004450 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 595494004451 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 595494004452 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 595494004453 putative active site [active] 595494004454 putative metal-binding site [ion binding]; other site 595494004455 6-phosphofructokinase; Provisional; Region: PRK03202 595494004456 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 595494004457 active site 595494004458 ADP/pyrophosphate binding site [chemical binding]; other site 595494004459 dimerization interface [polypeptide binding]; other site 595494004460 allosteric effector site; other site 595494004461 fructose-1,6-bisphosphate binding site; other site 595494004462 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 595494004463 substrate binding site [chemical binding]; other site 595494004464 dimer interface [polypeptide binding]; other site 595494004465 catalytic triad [active] 595494004466 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 595494004467 putative active site [active] 595494004468 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 595494004469 S-adenosylmethionine binding site [chemical binding]; other site 595494004470 KicB killing factor; Region: KicB; cl11468 595494004471 MukE-like family; Region: MukE; cl11471 595494004472 cell division protein MukB; Provisional; Region: mukB; PRK04863 595494004473 MukB N-terminal; Region: MukB; pfam04310 595494004474 Transposase [DNA replication, recombination, and repair]; Region: COG5433 595494004475 Transposase [DNA replication, recombination, and repair]; Region: COG5433 595494004476 Transposase [DNA replication, recombination, and repair]; Region: COG5433 595494004477 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 595494004478 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 595494004479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494004480 homodimer interface [polypeptide binding]; other site 595494004481 catalytic residue [active] 595494004482 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 595494004483 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 595494004484 putative ligand binding site [chemical binding]; other site 595494004485 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 595494004486 TM-ABC transporter signature motif; other site 595494004487 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 595494004488 TM-ABC transporter signature motif; other site 595494004489 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 595494004490 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 595494004491 Walker A/P-loop; other site 595494004492 ATP binding site [chemical binding]; other site 595494004493 Q-loop/lid; other site 595494004494 ABC transporter signature motif; other site 595494004495 Walker B; other site 595494004496 D-loop; other site 595494004497 H-loop/switch region; other site 595494004498 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 595494004499 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 595494004500 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494004501 DNA helicase IV; Provisional; Region: helD; PRK11054 595494004502 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 595494004503 Major Facilitator Superfamily; Region: MFS_1; pfam07690 595494004504 putative substrate translocation pore; other site 595494004505 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 595494004506 maltose O-acetyltransferase; Provisional; Region: PRK10092 595494004507 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 595494004508 active site 595494004509 substrate binding site [chemical binding]; other site 595494004510 trimer interface [polypeptide binding]; other site 595494004511 CoA binding site [chemical binding]; other site 595494004512 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; cl12011 595494004513 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 595494004514 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 595494004515 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 595494004516 active site 595494004517 putative substrate binding region [chemical binding]; other site 595494004518 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 595494004519 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 595494004520 active site 595494004521 P-loop; other site 595494004522 phosphorylation site [posttranslational modification] 595494004523 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 595494004524 PQ loop repeat; Region: PQ-loop; cl12056 595494004525 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 595494004526 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 595494004527 Ligand Binding Site [chemical binding]; other site 595494004528 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 595494004529 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 595494004530 Walker A/P-loop; other site 595494004531 ATP binding site [chemical binding]; other site 595494004532 Q-loop/lid; other site 595494004533 ABC transporter signature motif; other site 595494004534 Walker B; other site 595494004535 D-loop; other site 595494004536 H-loop/switch region; other site 595494004537 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 595494004538 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 595494004539 siderophore binding site; other site 595494004540 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 595494004541 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 595494004542 ABC-ATPase subunit interface; other site 595494004543 dimer interface [polypeptide binding]; other site 595494004544 putative PBP binding regions; other site 595494004545 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 595494004546 ABC-ATPase subunit interface; other site 595494004547 dimer interface [polypeptide binding]; other site 595494004548 putative PBP binding regions; other site 595494004549 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 595494004550 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 595494004551 N-terminal plug; other site 595494004552 ligand-binding site [chemical binding]; other site 595494004553 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 595494004554 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 595494004555 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 595494004556 Walker A/P-loop; other site 595494004557 ATP binding site [chemical binding]; other site 595494004558 Q-loop/lid; other site 595494004559 ABC transporter signature motif; other site 595494004560 Walker B; other site 595494004561 D-loop; other site 595494004562 H-loop/switch region; other site 595494004563 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494004564 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494004565 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 595494004566 putative effector binding pocket; other site 595494004567 dimerization interface [polypeptide binding]; other site 595494004568 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 595494004569 dimer interface [polypeptide binding]; other site 595494004570 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 595494004571 active site 595494004572 metal binding site [ion binding]; metal-binding site 595494004573 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 595494004574 Ligand Binding Site [chemical binding]; other site 595494004575 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 595494004576 Ligand Binding Site [chemical binding]; other site 595494004577 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 595494004578 Permease family; Region: Xan_ur_permease; cl00967 595494004579 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 595494004580 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 595494004581 active site 595494004582 FMN binding site [chemical binding]; other site 595494004583 substrate binding site [chemical binding]; other site 595494004584 homotetramer interface [polypeptide binding]; other site 595494004585 catalytic residue [active] 595494004586 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494004587 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494004588 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 595494004589 dimerization interface [polypeptide binding]; other site 595494004590 Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- , D-serine, or L-threonine to pyruvate/ketobutyrate and ammonia; Region: L-Ser-dehyd; cd06448 595494004591 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 595494004592 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494004593 catalytic residue [active] 595494004594 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494004595 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494004596 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 595494004597 putative effector binding pocket; other site 595494004598 putative dimerization interface [polypeptide binding]; other site 595494004599 Carboxylesterase family; Region: COesterase; pfam00135 595494004600 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 595494004601 substrate binding pocket [chemical binding]; other site 595494004602 catalytic triad [active] 595494004603 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494004604 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494004605 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 595494004606 putative effector binding pocket; other site 595494004607 putative dimerization interface [polypeptide binding]; other site 595494004608 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 595494004609 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 595494004610 active site 595494004611 catalytic tetrad [active] 595494004612 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 595494004613 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 595494004614 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 595494004615 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 595494004616 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 595494004617 catalytic loop [active] 595494004618 iron binding site [ion binding]; other site 595494004619 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 595494004620 hydrogenase, Fe-only; Region: Fe_only_hydrog; TIGR02512 595494004621 4Fe-4S binding domain; Region: Fer4; cl02805 595494004622 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 595494004623 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 595494004624 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 595494004625 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 595494004626 putative dimer interface [polypeptide binding]; other site 595494004627 [2Fe-2S] cluster binding site [ion binding]; other site 595494004628 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 595494004629 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 595494004630 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 595494004631 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494004632 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 595494004633 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 595494004634 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 595494004635 putative hydrophobic ligand binding site [chemical binding]; other site 595494004636 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494004637 Predicted dehydrogenase [General function prediction only]; Region: COG0579 595494004638 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 595494004639 lytic murein transglycosylase; Region: MltB_2; TIGR02283 595494004640 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 595494004641 N-acetyl-D-glucosamine binding site [chemical binding]; other site 595494004642 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 595494004643 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 595494004644 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 595494004645 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 595494004646 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 595494004647 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 595494004648 active site 595494004649 catalytic tetrad [active] 595494004650 Cullin protein neddylation domain; Region: Cullin_Nedd8; cl11186 595494004651 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 595494004652 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 595494004653 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 595494004654 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 595494004655 Phage integrase family; Region: Phage_integrase; pfam00589 595494004656 Int/Topo IB signature motif; other site 595494004657 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 595494004658 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 595494004659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494004660 homodimer interface [polypeptide binding]; other site 595494004661 catalytic residue [active] 595494004662 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 595494004663 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 595494004664 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 595494004665 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494004666 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 595494004667 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 595494004668 trimer interface [polypeptide binding]; other site 595494004669 active site 595494004670 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 595494004671 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 595494004672 ATP-binding site [chemical binding]; other site 595494004673 Sugar specificity; other site 595494004674 Pyrimidine base specificity; other site 595494004675 antiporter inner membrane protein; Provisional; Region: PRK11670 595494004676 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 595494004677 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 595494004678 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 595494004679 active site 595494004680 HIGH motif; other site 595494004681 KMSKS motif; other site 595494004682 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 595494004683 tRNA binding surface [nucleotide binding]; other site 595494004684 anticodon binding site; other site 595494004685 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 595494004686 dimer interface [polypeptide binding]; other site 595494004687 putative tRNA-binding site [nucleotide binding]; other site 595494004688 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 595494004689 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 595494004690 catalytic residues [active] 595494004691 Uncharacterized conserved protein [Function unknown]; Region: COG2850 595494004692 ethanolamine permease; Region: 2A0305; TIGR00908 595494004693 Amino acid permease; Region: AA_permease; cl00524 595494004694 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 595494004695 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 595494004696 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 595494004697 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 595494004698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494004699 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 595494004700 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 595494004701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494004702 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 595494004703 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 595494004704 Chorismate mutase type II; Region: CM_2; cl00693 595494004705 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 595494004706 Prephenate dehydratase; Region: PDT; pfam00800 595494004707 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 595494004708 putative L-Phe binding site [chemical binding]; other site 595494004709 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 595494004710 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 595494004711 quinone interaction residues [chemical binding]; other site 595494004712 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 595494004713 active site 595494004714 catalytic residues [active] 595494004715 FMN binding site [chemical binding]; other site 595494004716 substrate binding site [chemical binding]; other site 595494004717 aminopeptidase N; Provisional; Region: pepN; PRK14015 595494004718 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 595494004719 active site 595494004720 Zn binding site [ion binding]; other site 595494004721 response regulator; Provisional; Region: PRK09483 595494004722 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 595494004723 active site 595494004724 phosphorylation site [posttranslational modification] 595494004725 intermolecular recognition site; other site 595494004726 dimerization interface [polypeptide binding]; other site 595494004727 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 595494004728 DNA binding residues [nucleotide binding] 595494004729 dimerization interface [polypeptide binding]; other site 595494004730 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 595494004731 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 595494004732 GIY-YIG motif/motif A; other site 595494004733 active site 595494004734 catalytic site [active] 595494004735 putative DNA binding site [nucleotide binding]; other site 595494004736 metal binding site [ion binding]; metal-binding site 595494004737 UvrB/uvrC motif; Region: UVR; pfam02151 595494004738 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 595494004739 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 595494004740 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 595494004741 Integrase core domain; Region: rve; cl01316 595494004742 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 595494004743 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 595494004744 Rhomboid family; Region: Rhomboid; cl11446 595494004745 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 595494004746 active site 595494004747 dimer interface [polypeptide binding]; other site 595494004748 tetratricopeptide repeat protein; Provisional; Region: PRK11788 595494004749 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 595494004750 binding surface 595494004751 TPR motif; other site 595494004752 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 595494004753 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 595494004754 IHF dimer interface [polypeptide binding]; other site 595494004755 IHF - DNA interface [nucleotide binding]; other site 595494004756 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 595494004757 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 595494004758 RNA binding site [nucleotide binding]; other site 595494004759 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 595494004760 RNA binding site [nucleotide binding]; other site 595494004761 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 595494004762 RNA binding site [nucleotide binding]; other site 595494004763 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 595494004764 RNA binding site [nucleotide binding]; other site 595494004765 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 595494004766 RNA binding site [nucleotide binding]; other site 595494004767 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 595494004768 RNA binding site [nucleotide binding]; other site 595494004769 cytidylate kinase; Provisional; Region: cmk; PRK00023 595494004770 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 595494004771 CMP-binding site; other site 595494004772 The sites determining sugar specificity; other site 595494004773 Flagellin N-methylase; Region: FliB; cl00497 595494004774 YcgL domain; Region: YcgL; cl01189 595494004775 septum formation inhibitor; Reviewed; Region: minC; PRK04804 595494004776 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 595494004777 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 595494004778 cell division inhibitor MinD; Provisional; Region: PRK10818 595494004779 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 595494004780 Switch I; other site 595494004781 Switch II; other site 595494004782 Septum formation topological specificity factor MinE; Region: MinE; cl00538 595494004783 ribonuclease D; Region: rnd; TIGR01388 595494004784 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 595494004785 putative active site [active] 595494004786 catalytic site [active] 595494004787 putative substrate binding site [chemical binding]; other site 595494004788 HRDC domain; Region: HRDC; cl02578 595494004789 Uncharacterized conserved protein [Function unknown]; Region: COG0327 595494004790 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 595494004791 cell division protein DedD; Provisional; Region: PRK11633 595494004792 cell division protein DedD; Provisional; Region: PRK11633 595494004793 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 595494004794 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 595494004795 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 595494004796 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 595494004797 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 595494004798 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 595494004799 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 595494004800 dimerization interface 3.5A [polypeptide binding]; other site 595494004801 active site 595494004802 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 595494004803 rod shape-determining protein MreC; Provisional; Region: PRK13922 595494004804 ribonuclease E; Reviewed; Region: rne; PRK10811 595494004805 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 595494004806 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 595494004807 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 595494004808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494004809 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 595494004810 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 595494004811 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 595494004812 dimer interface [polypeptide binding]; other site 595494004813 active site 595494004814 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 595494004815 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; cl12011 595494004816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494004817 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 595494004818 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 595494004819 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 595494004820 fumarate hydratase; Reviewed; Region: fumC; PRK00485 595494004821 Class II fumarases; Region: Fumarase_classII; cd01362 595494004822 active site 595494004823 tetramer interface [polypeptide binding]; other site 595494004824 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 595494004825 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 595494004826 Walker A/P-loop; other site 595494004827 ATP binding site [chemical binding]; other site 595494004828 Q-loop/lid; other site 595494004829 ABC transporter signature motif; other site 595494004830 Walker B; other site 595494004831 D-loop; other site 595494004832 H-loop/switch region; other site 595494004833 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 595494004834 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 595494004835 dimer interface [polypeptide binding]; other site 595494004836 conserved gate region; other site 595494004837 putative PBP binding loops; other site 595494004838 ABC-ATPase subunit interface; other site 595494004839 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 595494004840 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 595494004841 dimer interface [polypeptide binding]; other site 595494004842 conserved gate region; other site 595494004843 putative PBP binding loops; other site 595494004844 ABC-ATPase subunit interface; other site 595494004845 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 595494004846 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 595494004847 substrate binding pocket [chemical binding]; other site 595494004848 membrane-bound complex binding site; other site 595494004849 hinge residues; other site 595494004850 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 595494004851 ADP-ribose binding site [chemical binding]; other site 595494004852 dimer interface [polypeptide binding]; other site 595494004853 active site 595494004854 nudix motif; other site 595494004855 metal binding site [ion binding]; metal-binding site 595494004856 Domain of unknown function; Region: DUF331; cl01149 595494004857 DGQHR domain; Region: DGQHR; cl14002 595494004858 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 595494004859 Active Sites [active] 595494004860 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 595494004861 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494004862 Walker A/P-loop; other site 595494004863 ATP binding site [chemical binding]; other site 595494004864 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494004865 ABC transporter signature motif; other site 595494004866 Walker B; other site 595494004867 D-loop; other site 595494004868 H-loop/switch region; other site 595494004869 Domain of unknown function (DUF1832); Region: DUF1832; cl07463 595494004870 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 595494004871 putative active site [active] 595494004872 catalytic site [active] 595494004873 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 595494004874 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 595494004875 ATP binding site [chemical binding]; other site 595494004876 putative Mg++ binding site [ion binding]; other site 595494004877 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 595494004878 nucleotide binding region [chemical binding]; other site 595494004879 ATP-binding site [chemical binding]; other site 595494004880 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; cl15358 595494004881 dnd system-associated protein 4; Region: dnd_assoc_4; TIGR04062 595494004882 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 595494004883 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494004884 Walker A/P-loop; other site 595494004885 ATP binding site [chemical binding]; other site 595494004886 DNA phosphorothioation-dependent restriction protein DptF; Region: dnd_assoc_3; TIGR03238 595494004887 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 595494004888 S-adenosylmethionine binding site [chemical binding]; other site 595494004889 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 595494004890 non-specific DNA binding site [nucleotide binding]; other site 595494004891 salt bridge; other site 595494004892 sequence-specific DNA binding site [nucleotide binding]; other site 595494004893 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 595494004894 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 595494004895 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 595494004896 DNA binding site [nucleotide binding] 595494004897 Int/Topo IB signature motif; other site 595494004898 active site 595494004899 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 595494004900 Zn2+ binding site [ion binding]; other site 595494004901 Mg2+ binding site [ion binding]; other site 595494004902 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 595494004903 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494004904 Integrase core domain; Region: rve; cl01316 595494004905 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 595494004906 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 595494004907 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 595494004908 Walker A motif; other site 595494004909 ATP binding site [chemical binding]; other site 595494004910 Walker B motif; other site 595494004911 arginine finger; other site 595494004912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494004913 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494004914 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 595494004915 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494004916 Walker A/P-loop; other site 595494004917 ATP binding site [chemical binding]; other site 595494004918 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 595494004919 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 595494004920 putative active site [active] 595494004921 putative metal-binding site [ion binding]; other site 595494004922 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 595494004923 Int/Topo IB signature motif; other site 595494004924 active site 595494004925 DNA binding site [nucleotide binding] 595494004926 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494004927 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 595494004928 UreF; Region: UreF; pfam01730 595494004929 HupE / UreJ protein; Region: HupE_UreJ; cl01011 595494004930 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 595494004931 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 595494004932 dimer interface [polypeptide binding]; other site 595494004933 catalytic residues [active] 595494004934 urease subunit alpha; Reviewed; Region: ureC; PRK13207 595494004935 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 595494004936 subunit interactions [polypeptide binding]; other site 595494004937 active site 595494004938 flap region; other site 595494004939 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 595494004940 gamma-beta subunit interface [polypeptide binding]; other site 595494004941 alpha-beta subunit interface [polypeptide binding]; other site 595494004942 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 595494004943 alpha-gamma subunit interface [polypeptide binding]; other site 595494004944 beta-gamma subunit interface [polypeptide binding]; other site 595494004945 UreD urease accessory protein; Region: UreD; cl00530 595494004946 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 595494004947 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 595494004948 Walker A/P-loop; other site 595494004949 ATP binding site [chemical binding]; other site 595494004950 Q-loop/lid; other site 595494004951 ABC transporter signature motif; other site 595494004952 Walker B; other site 595494004953 D-loop; other site 595494004954 H-loop/switch region; other site 595494004955 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 595494004956 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 595494004957 Walker A/P-loop; other site 595494004958 ATP binding site [chemical binding]; other site 595494004959 Q-loop/lid; other site 595494004960 ABC transporter signature motif; other site 595494004961 Walker B; other site 595494004962 D-loop; other site 595494004963 H-loop/switch region; other site 595494004964 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 595494004965 TM-ABC transporter signature motif; other site 595494004966 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 595494004967 TM-ABC transporter signature motif; other site 595494004968 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 595494004969 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 595494004970 putative ligand binding site [chemical binding]; other site 595494004971 Sodium:solute symporter family; Region: SSF; cl00456 595494004972 two component system sensor kinase SsrA; Provisional; Region: PRK15347 595494004973 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 595494004974 dimer interface [polypeptide binding]; other site 595494004975 phosphorylation site [posttranslational modification] 595494004976 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 595494004977 ATP binding site [chemical binding]; other site 595494004978 G-X-G motif; other site 595494004979 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 595494004980 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 595494004981 active site 595494004982 phosphorylation site [posttranslational modification] 595494004983 intermolecular recognition site; other site 595494004984 dimerization interface [polypeptide binding]; other site 595494004985 Response regulator receiver domain; Region: Response_reg; pfam00072 595494004986 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 595494004987 active site 595494004988 phosphorylation site [posttranslational modification] 595494004989 intermolecular recognition site; other site 595494004990 dimerization interface [polypeptide binding]; other site 595494004991 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 595494004992 DNA binding residues [nucleotide binding] 595494004993 dimerization interface [polypeptide binding]; other site 595494004994 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 595494004995 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 595494004996 putative DNA binding site [nucleotide binding]; other site 595494004997 putative Zn2+ binding site [ion binding]; other site 595494004998 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494004999 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 595494005000 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 595494005001 Walker A/P-loop; other site 595494005002 ATP binding site [chemical binding]; other site 595494005003 Q-loop/lid; other site 595494005004 ABC transporter signature motif; other site 595494005005 Walker B; other site 595494005006 D-loop; other site 595494005007 H-loop/switch region; other site 595494005008 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 595494005009 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 595494005010 substrate binding pocket [chemical binding]; other site 595494005011 membrane-bound complex binding site; other site 595494005012 hinge residues; other site 595494005013 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 595494005014 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 595494005015 dimer interface [polypeptide binding]; other site 595494005016 conserved gate region; other site 595494005017 putative PBP binding loops; other site 595494005018 ABC-ATPase subunit interface; other site 595494005019 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 595494005020 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 595494005021 dimer interface [polypeptide binding]; other site 595494005022 conserved gate region; other site 595494005023 putative PBP binding loops; other site 595494005024 ABC-ATPase subunit interface; other site 595494005025 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 595494005026 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 595494005027 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 595494005028 catalytic residue [active] 595494005029 EamA-like transporter family; Region: EamA; cl01037 595494005030 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 595494005031 EamA-like transporter family; Region: EamA; cl01037 595494005032 universal stress protein UspE; Provisional; Region: PRK11175 595494005033 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 595494005034 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 595494005035 Ligand Binding Site [chemical binding]; other site 595494005036 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 595494005037 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 595494005038 FeS/SAM binding site; other site 595494005039 transcriptional activator TtdR; Provisional; Region: PRK09801 595494005040 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005041 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 595494005042 putative effector binding pocket; other site 595494005043 putative dimerization interface [polypeptide binding]; other site 595494005044 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 595494005045 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494005046 NAD(P) binding pocket [chemical binding]; other site 595494005047 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 595494005048 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 595494005049 putative dimer interface [polypeptide binding]; other site 595494005050 N-terminal domain interface [polypeptide binding]; other site 595494005051 putative substrate binding pocket (H-site) [chemical binding]; other site 595494005052 DoxX; Region: DoxX; cl00976 595494005053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494005054 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005055 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 595494005056 putative effector binding pocket; other site 595494005057 dimerization interface [polypeptide binding]; other site 595494005058 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494005059 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005060 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 595494005061 putative effector binding pocket; other site 595494005062 putative dimerization interface [polypeptide binding]; other site 595494005063 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 595494005064 active site 1 [active] 595494005065 dimer interface [polypeptide binding]; other site 595494005066 hexamer interface [polypeptide binding]; other site 595494005067 active site 2 [active] 595494005068 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 595494005069 Carboxylesterase family; Region: COesterase; pfam00135 595494005070 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 595494005071 substrate binding pocket [chemical binding]; other site 595494005072 catalytic triad [active] 595494005073 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 595494005074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494005075 NAD(P) binding site [chemical binding]; other site 595494005076 active site 595494005077 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 595494005078 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 595494005079 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005080 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 595494005081 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 595494005082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494005083 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 595494005084 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 595494005085 putative DNA binding site [nucleotide binding]; other site 595494005086 putative Zn2+ binding site [ion binding]; other site 595494005087 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005088 LysE type translocator; Region: LysE; cl00565 595494005089 molybdenum transport protein ModD; Provisional; Region: PRK06096 595494005090 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 595494005091 dimerization interface [polypeptide binding]; other site 595494005092 active site 595494005093 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494005094 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 595494005095 CoenzymeA binding site [chemical binding]; other site 595494005096 subunit interaction site [polypeptide binding]; other site 595494005097 PHB binding site; other site 595494005098 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 595494005099 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; cl15358 595494005100 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 595494005101 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 595494005102 putative dimer interface [polypeptide binding]; other site 595494005103 active site pocket [active] 595494005104 putative cataytic base [active] 595494005105 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 595494005106 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 595494005107 homotrimer interface [polypeptide binding]; other site 595494005108 Walker A motif; other site 595494005109 GTP binding site [chemical binding]; other site 595494005110 Walker B motif; other site 595494005111 cobyric acid synthase; Provisional; Region: PRK00784 595494005112 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494005113 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494005114 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 595494005115 catalytic triad [active] 595494005116 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 595494005117 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 595494005118 Walker A/P-loop; other site 595494005119 ATP binding site [chemical binding]; other site 595494005120 Q-loop/lid; other site 595494005121 ABC transporter signature motif; other site 595494005122 Walker B; other site 595494005123 D-loop; other site 595494005124 H-loop/switch region; other site 595494005125 Cobalt transport protein; Region: CbiQ; cl00463 595494005126 Cobalt transport protein component CbiN; Region: CbiN; cl00842 595494005127 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 595494005128 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 595494005129 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 595494005130 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 595494005131 active site 595494005132 C-terminal domain interface [polypeptide binding]; other site 595494005133 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 595494005134 active site 595494005135 N-terminal domain interface [polypeptide binding]; other site 595494005136 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 595494005137 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 595494005138 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 595494005139 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 595494005140 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 595494005141 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 595494005142 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 595494005143 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 595494005144 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 595494005145 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 595494005146 S-adenosylmethionine binding site [chemical binding]; other site 595494005147 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 595494005148 CbiD; Region: CbiD; cl00828 595494005149 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 595494005150 Precorrin-8X methylmutase; Region: CbiC; pfam02570 595494005151 CobD/Cbib protein; Region: CobD_Cbib; cl00561 595494005152 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 595494005153 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494005154 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 595494005155 catalytic triad [active] 595494005156 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 595494005157 Predicted histidine kinase sensor domain; Region: Hist_Kin_Sens; pfam10114 595494005158 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494005159 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 595494005160 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494005161 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 595494005162 amphipathic channel; other site 595494005163 Asn-Pro-Ala signature motifs; other site 595494005164 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 595494005165 Hexamer interface [polypeptide binding]; other site 595494005166 Hexagonal pore residue; other site 595494005167 propanediol utilization protein PduB; Provisional; Region: PRK15415 595494005168 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 595494005169 putative hexamer interface [polypeptide binding]; other site 595494005170 putative hexagonal pore; other site 595494005171 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 595494005172 putative hexamer interface [polypeptide binding]; other site 595494005173 putative hexagonal pore; other site 595494005174 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cd03687 595494005175 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 595494005176 alpha-beta subunit interface [polypeptide binding]; other site 595494005177 alpha-gamma subunit interface [polypeptide binding]; other site 595494005178 active site 595494005179 substrate and K+ binding site; other site 595494005180 K+ binding site [ion binding]; other site 595494005181 cobalamin binding site [chemical binding]; other site 595494005182 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 595494005183 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 595494005184 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 595494005185 Dehydratase small subunit; Region: Dehydratase_SU; cl02055 595494005186 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 595494005187 Dehydratase medium subunit; Region: Dehydratase_MU; pfam02288 595494005188 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 595494005189 Hexamer interface [polypeptide binding]; other site 595494005190 Putative hexagonal pore residue; other site 595494005191 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 595494005192 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 595494005193 Hexamer interface [polypeptide binding]; other site 595494005194 Hexagonal pore residue; other site 595494005195 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 595494005196 Propanediol utilisation protein PduL; Region: PduL; pfam06130 595494005197 Propanediol utilisation protein PduL; Region: PduL; pfam06130 595494005198 putative propanediol utilization protein PduM; Provisional; Region: PRK15428 595494005199 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 595494005200 Hexamer/Pentamer interface [polypeptide binding]; other site 595494005201 central pore; other site 595494005202 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 595494005203 Domain of unknown function (DUF336); Region: DUF336; cl01249 595494005204 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 595494005205 putative catalytic cysteine [active] 595494005206 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 595494005207 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 595494005208 putative active site [active] 595494005209 metal binding site [ion binding]; metal-binding site 595494005210 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 595494005211 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 595494005212 SLBB domain; Region: SLBB; pfam10531 595494005213 ethanolamine utilization protein, PduT homolog; Region: eut_PduT; TIGR02526 595494005214 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 595494005215 putative hexamer interface [polypeptide binding]; other site 595494005216 putative hexagonal pore; other site 595494005217 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 595494005218 putative hexamer interface [polypeptide binding]; other site 595494005219 putative hexagonal pore; other site 595494005220 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 595494005221 putative hexamer interface [polypeptide binding]; other site 595494005222 putative hexagonal pore; other site 595494005223 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494005224 G3 box; other site 595494005225 Switch II region; other site 595494005226 GTP/Mg2+ binding site [chemical binding]; other site 595494005227 G4 box; other site 595494005228 G5 box; other site 595494005229 Acetokinase family; Region: Acetate_kinase; cl01029 595494005230 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 595494005231 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 595494005232 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 595494005233 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494005234 homodimer interface [polypeptide binding]; other site 595494005235 catalytic residue [active] 595494005236 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 595494005237 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 595494005238 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 595494005239 active site 595494005240 Transcriptional regulators [Transcription]; Region: PurR; COG1609 595494005241 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494005242 DNA binding site [nucleotide binding] 595494005243 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 595494005244 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 595494005245 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 595494005246 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 595494005247 dimer interface [polypeptide binding]; other site 595494005248 conserved gate region; other site 595494005249 putative PBP binding loops; other site 595494005250 ABC-ATPase subunit interface; other site 595494005251 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 595494005252 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 595494005253 dimer interface [polypeptide binding]; other site 595494005254 conserved gate region; other site 595494005255 putative PBP binding loops; other site 595494005256 ABC-ATPase subunit interface; other site 595494005257 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 595494005258 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 595494005259 Walker A/P-loop; other site 595494005260 ATP binding site [chemical binding]; other site 595494005261 Q-loop/lid; other site 595494005262 ABC transporter signature motif; other site 595494005263 Walker B; other site 595494005264 D-loop; other site 595494005265 H-loop/switch region; other site 595494005266 TOBE domain; Region: TOBE_2; cl01440 595494005267 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 595494005268 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 595494005269 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 595494005270 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 595494005271 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 595494005272 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 595494005273 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494005274 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 595494005275 MoxR-like ATPases [General function prediction only]; Region: COG0714 595494005276 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 595494005277 Walker A motif; other site 595494005278 ATP binding site [chemical binding]; other site 595494005279 Walker B motif; other site 595494005280 arginine finger; other site 595494005281 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 595494005282 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 595494005283 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 595494005284 metal ion-dependent adhesion site (MIDAS); other site 595494005285 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 595494005286 metal ion-dependent adhesion site (MIDAS); other site 595494005287 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 595494005288 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 595494005289 binding surface 595494005290 TPR motif; other site 595494005291 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 595494005292 IHF dimer interface [polypeptide binding]; other site 595494005293 IHF - DNA interface [nucleotide binding]; other site 595494005294 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 595494005295 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 595494005296 putative tRNA-binding site [nucleotide binding]; other site 595494005297 B3/4 domain; Region: B3_4; cl11458 595494005298 tRNA synthetase B5 domain; Region: B5; cl08394 595494005299 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 595494005300 dimer interface [polypeptide binding]; other site 595494005301 motif 1; other site 595494005302 motif 3; other site 595494005303 motif 2; other site 595494005304 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 595494005305 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 595494005306 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 595494005307 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 595494005308 dimer interface [polypeptide binding]; other site 595494005309 motif 1; other site 595494005310 active site 595494005311 motif 2; other site 595494005312 motif 3; other site 595494005313 ribosomal protein L20; Region: rpl20; CHL00068 595494005314 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 595494005315 23S rRNA binding site [nucleotide binding]; other site 595494005316 L21 binding site [polypeptide binding]; other site 595494005317 L13 binding site [polypeptide binding]; other site 595494005318 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 595494005319 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 595494005320 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 595494005321 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 595494005322 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 595494005323 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 595494005324 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 595494005325 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 595494005326 active site 595494005327 dimer interface [polypeptide binding]; other site 595494005328 motif 1; other site 595494005329 motif 2; other site 595494005330 motif 3; other site 595494005331 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 595494005332 anticodon binding site; other site 595494005333 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 595494005334 5S rRNA interface [nucleotide binding]; other site 595494005335 CTC domain interface [polypeptide binding]; other site 595494005336 L16 interface [polypeptide binding]; other site 595494005337 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 595494005338 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 595494005339 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494005340 Walker A/P-loop; other site 595494005341 ATP binding site [chemical binding]; other site 595494005342 Q-loop/lid; other site 595494005343 ABC transporter signature motif; other site 595494005344 Walker B; other site 595494005345 D-loop; other site 595494005346 H-loop/switch region; other site 595494005347 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 595494005348 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 595494005349 ABC-ATPase subunit interface; other site 595494005350 dimer interface [polypeptide binding]; other site 595494005351 putative PBP binding regions; other site 595494005352 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 595494005353 ATP phosphoribosyltransferase; Region: HisG; cl15266 595494005354 HisG, C-terminal domain; Region: HisG_C; cl06867 595494005355 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 595494005356 histidinol dehydrogenase; Region: hisD; TIGR00069 595494005357 NAD binding site [chemical binding]; other site 595494005358 dimerization interface [polypeptide binding]; other site 595494005359 product binding site; other site 595494005360 substrate binding site [chemical binding]; other site 595494005361 zinc binding site [ion binding]; other site 595494005362 catalytic residues [active] 595494005363 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 595494005364 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 595494005365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494005366 homodimer interface [polypeptide binding]; other site 595494005367 catalytic residue [active] 595494005368 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 595494005369 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 595494005370 active site 595494005371 motif I; other site 595494005372 motif II; other site 595494005373 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 595494005374 putative active site pocket [active] 595494005375 4-fold oligomerization interface [polypeptide binding]; other site 595494005376 metal binding residues [ion binding]; metal-binding site 595494005377 3-fold/trimer interface [polypeptide binding]; other site 595494005378 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 595494005379 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 595494005380 putative active site [active] 595494005381 oxyanion strand; other site 595494005382 catalytic triad [active] 595494005383 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 595494005384 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 595494005385 catalytic residues [active] 595494005386 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 595494005387 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 595494005388 substrate binding site [chemical binding]; other site 595494005389 glutamase interaction surface [polypeptide binding]; other site 595494005390 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 595494005391 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 595494005392 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 595494005393 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 595494005394 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 595494005395 active site 595494005396 phosphorylation site [posttranslational modification] 595494005397 intermolecular recognition site; other site 595494005398 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 595494005399 active site 595494005400 phosphorylation site [posttranslational modification] 595494005401 intermolecular recognition site; other site 595494005402 dimerization interface [polypeptide binding]; other site 595494005403 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494005404 metal binding site [ion binding]; metal-binding site 595494005405 active site 595494005406 I-site; other site 595494005407 Transcriptional regulators [Transcription]; Region: MarR; COG1846 595494005408 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005409 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 595494005410 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 595494005411 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 595494005412 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 595494005413 putative substrate translocation pore; other site 595494005414 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 595494005415 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 595494005416 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 595494005417 DNA binding residues [nucleotide binding] 595494005418 dimer interface [polypeptide binding]; other site 595494005419 putative metal binding site [ion binding]; other site 595494005420 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 595494005421 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 595494005422 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 595494005423 Malate/lactate dehydrogenases [Energy production and conversion]; Region: Mdh; COG0039 595494005424 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl11406 595494005425 LDH/MDH dimer interface [polypeptide binding]; other site 595494005426 NAD(P) binding site [chemical binding]; other site 595494005427 substrate binding site [chemical binding]; other site 595494005428 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 595494005429 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 595494005430 Dienelactone hydrolase family; Region: DLH; pfam01738 595494005431 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 595494005432 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 595494005433 MoaE homodimer interface [polypeptide binding]; other site 595494005434 MoaD interaction [polypeptide binding]; other site 595494005435 active site residues [active] 595494005436 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 595494005437 MoaE interaction surface [polypeptide binding]; other site 595494005438 MoeB interaction surface [polypeptide binding]; other site 595494005439 thiocarboxylated glycine; other site 595494005440 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 595494005441 trimer interface [polypeptide binding]; other site 595494005442 dimer interface [polypeptide binding]; other site 595494005443 putative active site [active] 595494005444 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 595494005445 MPT binding site; other site 595494005446 trimer interface [polypeptide binding]; other site 595494005447 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 595494005448 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 595494005449 GTP binding site; other site 595494005450 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 595494005451 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 595494005452 FeS/SAM binding site; other site 595494005453 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 595494005454 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 595494005455 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 595494005456 ATP binding site [chemical binding]; other site 595494005457 substrate interface [chemical binding]; other site 595494005458 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 595494005459 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 595494005460 dimer interface [polypeptide binding]; other site 595494005461 putative functional site; other site 595494005462 putative MPT binding site; other site 595494005463 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 595494005464 nitrite reductase subunit NirD; Provisional; Region: PRK14989 595494005465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494005466 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 595494005467 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 595494005468 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 595494005469 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 595494005470 active site 595494005471 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 595494005472 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 595494005473 Catalytic domain of Protein Kinases; Region: PKc; cd00180 595494005474 active site 595494005475 ATP binding site [chemical binding]; other site 595494005476 substrate binding site [chemical binding]; other site 595494005477 activation loop (A-loop); other site 595494005478 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 595494005479 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 595494005480 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494005481 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005482 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 595494005483 putative effector binding pocket; other site 595494005484 putative dimerization interface [polypeptide binding]; other site 595494005485 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 595494005486 FMN binding site [chemical binding]; other site 595494005487 active site 595494005488 substrate binding site [chemical binding]; other site 595494005489 catalytic residue [active] 595494005490 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 595494005491 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 595494005492 Walker A/P-loop; other site 595494005493 ATP binding site [chemical binding]; other site 595494005494 Q-loop/lid; other site 595494005495 ABC transporter signature motif; other site 595494005496 Walker B; other site 595494005497 D-loop; other site 595494005498 H-loop/switch region; other site 595494005499 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 595494005500 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 595494005501 dimer interface [polypeptide binding]; other site 595494005502 conserved gate region; other site 595494005503 putative PBP binding loops; other site 595494005504 ABC-ATPase subunit interface; other site 595494005505 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 595494005506 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 595494005507 ANTAR domain; Region: ANTAR; cl04297 595494005508 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 595494005509 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 595494005510 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 595494005511 [4Fe-4S] binding site [ion binding]; other site 595494005512 molybdopterin cofactor binding site; other site 595494005513 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 595494005514 molybdopterin cofactor binding site; other site 595494005515 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 595494005516 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 595494005517 putative uracil binding site [chemical binding]; other site 595494005518 putative active site [active] 595494005519 Cupin domain; Region: Cupin_2; cl09118 595494005520 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 595494005521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494005522 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 595494005523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494005524 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 595494005525 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 595494005526 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 595494005527 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 595494005528 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 595494005529 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 595494005530 Major Facilitator Superfamily; Region: MFS_1; pfam07690 595494005531 putative substrate translocation pore; other site 595494005532 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 595494005533 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 595494005534 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 595494005535 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005536 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 595494005537 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494005538 NAD(P) binding site [chemical binding]; other site 595494005539 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 595494005540 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 595494005541 active site 595494005542 catalytic tetrad [active] 595494005543 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494005544 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005545 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 595494005546 putative effector binding pocket; other site 595494005547 dimerization interface [polypeptide binding]; other site 595494005548 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 595494005549 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 595494005550 dimer interface [polypeptide binding]; other site 595494005551 active site 595494005552 metal binding site [ion binding]; metal-binding site 595494005553 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 595494005554 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 595494005555 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 595494005556 substrate binding site [chemical binding]; other site 595494005557 ATP binding site [chemical binding]; other site 595494005558 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 595494005559 D-galactonate transporter; Region: 2A0114; TIGR00893 595494005560 putative substrate translocation pore; other site 595494005561 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 595494005562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494005563 Dehydratase family; Region: ILVD_EDD; cl00340 595494005564 6-phosphogluconate dehydratase; Region: edd; TIGR01196 595494005565 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 595494005566 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 595494005567 active site 595494005568 intersubunit interface [polypeptide binding]; other site 595494005569 catalytic residue [active] 595494005570 Transcriptional regulators [Transcription]; Region: PurR; COG1609 595494005571 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494005572 DNA binding site [nucleotide binding] 595494005573 domain linker motif; other site 595494005574 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 595494005575 putative dimerization interface [polypeptide binding]; other site 595494005576 putative ligand binding site [chemical binding]; other site 595494005577 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 595494005578 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 595494005579 Gram-negative bacterial tonB protein; Region: TonB; cl10048 595494005580 putative selenium-binding protein YdfZ; Region: YdfZ_fam; TIGR03318 595494005581 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 595494005582 Putative ammonia monooxygenase; Region: AmoA; pfam05145 595494005583 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 595494005584 putative chaperone; Provisional; Region: PRK11678 595494005585 short chain dehydrogenase; Provisional; Region: PRK06924 595494005586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494005587 NAD(P) binding site [chemical binding]; other site 595494005588 active site 595494005589 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 595494005590 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 595494005591 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 595494005592 LabA_like proteins; Region: LabA_like/DUF88; cl10034 595494005593 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 595494005594 RelB antitoxin; Region: RelB; cl01171 595494005595 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 595494005596 dimer interface [polypeptide binding]; other site 595494005597 FMN binding site [chemical binding]; other site 595494005598 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 595494005599 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 595494005600 Predicted transcriptional regulator [Transcription]; Region: COG2944 595494005601 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005602 non-specific DNA binding site [nucleotide binding]; other site 595494005603 salt bridge; other site 595494005604 sequence-specific DNA binding site [nucleotide binding]; other site 595494005605 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 595494005606 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005607 Rrf2 family protein; Region: rrf2_super; TIGR00738 595494005608 ferredoxin-NADP reductase; Provisional; Region: PRK10926 595494005609 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 595494005610 FAD binding pocket [chemical binding]; other site 595494005611 FAD binding motif [chemical binding]; other site 595494005612 phosphate binding motif [ion binding]; other site 595494005613 beta-alpha-beta structure motif; other site 595494005614 NAD binding pocket [chemical binding]; other site 595494005615 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 595494005616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494005617 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 595494005618 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494005619 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 595494005620 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 595494005621 iron binding site [ion binding]; other site 595494005622 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 595494005623 S-adenosylmethionine binding site [chemical binding]; other site 595494005624 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 595494005625 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005626 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 595494005627 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 595494005628 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 595494005629 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 595494005630 dimerization interface [polypeptide binding]; other site 595494005631 active site 595494005632 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 595494005633 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 595494005634 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 595494005635 hexamer (dimer of trimers) interface [polypeptide binding]; other site 595494005636 substrate binding site [chemical binding]; other site 595494005637 trimer interface [polypeptide binding]; other site 595494005638 Mn binding site [ion binding]; other site 595494005639 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 595494005640 bacterial glycerol kinase 2-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK2_bacteria; cd07791 595494005641 putative N- and C-terminal domain interface [polypeptide binding]; other site 595494005642 putative active site [active] 595494005643 putative MgATP binding site [chemical binding]; other site 595494005644 catalytic site [active] 595494005645 metal binding site [ion binding]; metal-binding site 595494005646 putative homotetramer interface [polypeptide binding]; other site 595494005647 putative homodimer interface [polypeptide binding]; other site 595494005648 putative glycerol binding site [chemical binding]; other site 595494005649 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 595494005650 PYR/PP interface [polypeptide binding]; other site 595494005651 dimer interface [polypeptide binding]; other site 595494005652 TPP binding site [chemical binding]; other site 595494005653 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 595494005654 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 595494005655 TPP-binding site [chemical binding]; other site 595494005656 dimer interface [polypeptide binding]; other site 595494005657 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 595494005658 TM-ABC transporter signature motif; other site 595494005659 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 595494005660 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 595494005661 Walker A/P-loop; other site 595494005662 ATP binding site [chemical binding]; other site 595494005663 Q-loop/lid; other site 595494005664 ABC transporter signature motif; other site 595494005665 Walker B; other site 595494005666 D-loop; other site 595494005667 H-loop/switch region; other site 595494005668 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 595494005669 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 595494005670 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 595494005671 ligand binding site [chemical binding]; other site 595494005672 dimerization interface [polypeptide binding]; other site 595494005673 transaldolase-like protein; Provisional; Region: PTZ00411 595494005674 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 595494005675 active site 595494005676 dimer interface [polypeptide binding]; other site 595494005677 catalytic residue [active] 595494005678 transketolase; Reviewed; Region: PRK12753 595494005679 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 595494005680 TPP-binding site [chemical binding]; other site 595494005681 dimer interface [polypeptide binding]; other site 595494005682 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 595494005683 PYR/PP interface [polypeptide binding]; other site 595494005684 dimer interface [polypeptide binding]; other site 595494005685 TPP binding site [chemical binding]; other site 595494005686 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 595494005687 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 595494005688 GAF domain; Region: GAF; cl00853 595494005689 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 595494005690 Walker A motif; other site 595494005691 ATP binding site [chemical binding]; other site 595494005692 Walker B motif; other site 595494005693 arginine finger; other site 595494005694 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 595494005695 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 595494005696 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; cl11605 595494005697 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 595494005698 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 595494005699 heme-binding site [chemical binding]; other site 595494005700 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 595494005701 FAD binding pocket [chemical binding]; other site 595494005702 FAD binding motif [chemical binding]; other site 595494005703 phosphate binding motif [ion binding]; other site 595494005704 beta-alpha-beta structure motif; other site 595494005705 NAD binding pocket [chemical binding]; other site 595494005706 Heme binding pocket [chemical binding]; other site 595494005707 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494005708 metal binding site [ion binding]; metal-binding site 595494005709 active site 595494005710 I-site; other site 595494005711 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 595494005712 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 595494005713 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 595494005714 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 595494005715 motif II; other site 595494005716 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 595494005717 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 595494005718 nudix motif; other site 595494005719 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005720 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 595494005721 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 595494005722 putative dimerization interface [polypeptide binding]; other site 595494005723 pyruvate carboxylase subunit A; Validated; Region: PRK07178 595494005724 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 595494005725 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 595494005726 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 595494005727 pyruvate carboxylase subunit B; Validated; Region: PRK09282 595494005728 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 595494005729 active site 595494005730 catalytic residues [active] 595494005731 metal binding site [ion binding]; metal-binding site 595494005732 homodimer binding site [polypeptide binding]; other site 595494005733 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 595494005734 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 595494005735 carboxyltransferase (CT) interaction site; other site 595494005736 biotinylation site [posttranslational modification]; other site 595494005737 putative metal dependent hydrolase; Provisional; Region: PRK11598 595494005738 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 595494005739 Sulfatase; Region: Sulfatase; cl10460 595494005740 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 595494005741 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 595494005742 salt bridge; other site 595494005743 non-specific DNA binding site [nucleotide binding]; other site 595494005744 sequence-specific DNA binding site [nucleotide binding]; other site 595494005745 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494005746 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 595494005747 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 595494005748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494005749 homodimer interface [polypeptide binding]; other site 595494005750 catalytic residue [active] 595494005751 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 595494005752 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 595494005753 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 595494005754 putative substrate translocation pore; other site 595494005755 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 595494005756 LamB/YcsF family; Region: LamB_YcsF; cl00664 595494005757 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 595494005758 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 595494005759 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 595494005760 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005761 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 595494005762 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 595494005763 substrate binding pocket [chemical binding]; other site 595494005764 membrane-bound complex binding site; other site 595494005765 hinge residues; other site 595494005766 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 595494005767 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 595494005768 dimer interface [polypeptide binding]; other site 595494005769 conserved gate region; other site 595494005770 putative PBP binding loops; other site 595494005771 ABC-ATPase subunit interface; other site 595494005772 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 595494005773 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 595494005774 Walker A/P-loop; other site 595494005775 ATP binding site [chemical binding]; other site 595494005776 Q-loop/lid; other site 595494005777 ABC transporter signature motif; other site 595494005778 Walker B; other site 595494005779 D-loop; other site 595494005780 H-loop/switch region; other site 595494005781 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 595494005782 DNA-binding site [nucleotide binding]; DNA binding site 595494005783 Transcriptional regulators [Transcription]; Region: GntR; COG1802 595494005784 FCD domain; Region: FCD; cl11656 595494005785 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 595494005786 EamA-like transporter family; Region: EamA; cl01037 595494005787 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 595494005788 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494005789 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 595494005790 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494005791 HipA N-terminal domain; Region: couple_hipA; TIGR03071 595494005792 HipA-like N-terminal domain; Region: HipA_N; pfam07805 595494005793 HipA-like C-terminal domain; Region: HipA_C; pfam07804 595494005794 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 595494005795 non-specific DNA binding site [nucleotide binding]; other site 595494005796 salt bridge; other site 595494005797 sequence-specific DNA binding site [nucleotide binding]; other site 595494005798 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 595494005799 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005800 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 595494005801 Glucitol operon activator protein (GutM); Region: GutM; cl01890 595494005802 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 595494005803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494005804 NAD(P) binding site [chemical binding]; other site 595494005805 active site 595494005806 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 595494005807 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 595494005808 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 595494005809 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 595494005810 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 595494005811 YcfA-like protein; Region: YcfA; cl00752 595494005812 Integrase core domain; Region: rve; cl01316 595494005813 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 595494005814 Predicted histidine kinase sensor domain; Region: Hist_Kin_Sens; pfam10114 595494005815 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494005816 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 595494005817 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494005818 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 595494005819 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 595494005820 putative active site [active] 595494005821 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 595494005822 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 595494005823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494005824 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 595494005825 Domain of unknown function (DUF299); Region: DUF299; cl00780 595494005826 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 595494005827 AMP binding site [chemical binding]; other site 595494005828 metal binding site [ion binding]; metal-binding site 595494005829 active site 595494005830 phosphoenolpyruvate synthase; Validated; Region: PRK06464 595494005831 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 595494005832 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 595494005833 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 595494005834 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 595494005835 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 595494005836 dimer interface [polypeptide binding]; other site 595494005837 active site 595494005838 metal binding site [ion binding]; metal-binding site 595494005839 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 595494005840 active site 595494005841 intersubunit interactions; other site 595494005842 catalytic residue [active] 595494005843 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 595494005844 amphipathic channel; other site 595494005845 Asn-Pro-Ala signature motifs; other site 595494005846 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 595494005847 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494005848 Acetokinase family; Region: Acetate_kinase; cl01029 595494005849 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 595494005850 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494005851 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 595494005852 P-loop; other site 595494005853 active site 595494005854 phosphorylation site [posttranslational modification] 595494005855 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494005856 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 595494005857 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 595494005858 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 595494005859 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 595494005860 FeS/SAM binding site; other site 595494005861 pyruvate formate lyase II activase; Provisional; Region: PRK10076 595494005862 putative formate acetyltransferase 2; Provisional; Region: pflD; PRK09983 595494005863 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 595494005864 dimer interface [polypeptide binding]; other site 595494005865 active site 595494005866 glycine loop; other site 595494005867 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 595494005868 P-loop; other site 595494005869 active site 595494005870 phosphorylation site [posttranslational modification] 595494005871 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494005872 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 595494005873 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494005874 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 595494005875 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 595494005876 P-loop; other site 595494005877 active site 595494005878 phosphorylation site [posttranslational modification] 595494005879 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 595494005880 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 595494005881 dimerization domain swap beta strand [polypeptide binding]; other site 595494005882 regulatory protein interface [polypeptide binding]; other site 595494005883 active site 595494005884 regulatory phosphorylation site [posttranslational modification]; other site 595494005885 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 595494005886 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 595494005887 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 595494005888 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 595494005889 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 595494005890 active site 595494005891 phosphorylation site [posttranslational modification] 595494005892 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005893 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 595494005894 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 595494005895 Phage integrase family; Region: Phage_integrase; pfam00589 595494005896 DNA binding site [nucleotide binding] 595494005897 Int/Topo IB signature motif; other site 595494005898 active site 595494005899 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 595494005900 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 595494005901 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 595494005902 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 595494005903 Int/Topo IB signature motif; other site 595494005904 active site 595494005905 catalytic residues [active] 595494005906 DNA binding site [nucleotide binding] 595494005907 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 595494005908 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 595494005909 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 595494005910 homodimer interface [polypeptide binding]; other site 595494005911 NADP binding site [chemical binding]; other site 595494005912 substrate binding site [chemical binding]; other site 595494005913 sensor protein BasS/PmrB; Provisional; Region: PRK10755 595494005914 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 595494005915 dimer interface [polypeptide binding]; other site 595494005916 phosphorylation site [posttranslational modification] 595494005917 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 595494005918 ATP binding site [chemical binding]; other site 595494005919 G-X-G motif; other site 595494005920 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 595494005921 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 595494005922 active site 595494005923 phosphorylation site [posttranslational modification] 595494005924 intermolecular recognition site; other site 595494005925 dimerization interface [polypeptide binding]; other site 595494005926 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 595494005927 DNA binding site [nucleotide binding] 595494005928 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 595494005929 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 595494005930 active site 595494005931 HIGH motif; other site 595494005932 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 595494005933 KMSKS motif; other site 595494005934 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 595494005935 tRNA binding surface [nucleotide binding]; other site 595494005936 anticodon binding site; other site 595494005937 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 595494005938 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 595494005939 substrate binding site [chemical binding]; other site 595494005940 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 595494005941 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 595494005942 putative active site [active] 595494005943 putative metal binding site [ion binding]; other site 595494005944 Nuclease-related domain; Region: NERD; pfam08378 595494005945 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 595494005946 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 595494005947 substrate binding site [chemical binding]; other site 595494005948 activation loop (A-loop); other site 595494005949 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 595494005950 active site 595494005951 ATP binding site [chemical binding]; other site 595494005952 substrate binding site [chemical binding]; other site 595494005953 DNA helicase, putative; Region: TIGR00376 595494005954 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494005955 DNA helicase, putative; Region: TIGR00376 595494005956 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 595494005957 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 595494005958 putative aromatic amino acid binding site; other site 595494005959 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 595494005960 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 595494005961 Walker A motif; other site 595494005962 ATP binding site [chemical binding]; other site 595494005963 Walker B motif; other site 595494005964 arginine finger; other site 595494005965 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 595494005966 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 595494005967 dimer interface [polypeptide binding]; other site 595494005968 active site 595494005969 metal binding site [ion binding]; metal-binding site 595494005970 Domain of unknown function (DUF369); Region: DUF369; cl00950 595494005971 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 595494005972 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 595494005973 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 595494005974 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494005975 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494005976 HipA N-terminal domain; Region: couple_hipA; TIGR03071 595494005977 HipA-like N-terminal domain; Region: HipA_N; pfam07805 595494005978 Phosphotransferase enzyme family; Region: APH; pfam01636 595494005979 HipA-like C-terminal domain; Region: HipA_C; pfam07804 595494005980 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 595494005981 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 595494005982 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 595494005983 substrate binding site [chemical binding]; other site 595494005984 dimer interface [polypeptide binding]; other site 595494005985 ATP binding site [chemical binding]; other site 595494005986 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 595494005987 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 595494005988 putative active site [active] 595494005989 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 595494005990 TM-ABC transporter signature motif; other site 595494005991 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 595494005992 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 595494005993 Walker A/P-loop; other site 595494005994 ATP binding site [chemical binding]; other site 595494005995 Q-loop/lid; other site 595494005996 ABC transporter signature motif; other site 595494005997 Walker B; other site 595494005998 D-loop; other site 595494005999 H-loop/switch region; other site 595494006000 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 595494006001 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 595494006002 Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis; Region: PBP1_allose_binding; cd06320 595494006003 ligand binding site [chemical binding]; other site 595494006004 dimerization interface [polypeptide binding]; other site 595494006005 zinc binding site [ion binding]; other site 595494006006 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 595494006007 Cupin domain; Region: Cupin_2; cl09118 595494006008 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 595494006009 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494006010 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 595494006011 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 595494006012 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; cl06815 595494006013 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 595494006014 TPR motif; other site 595494006015 binding surface 595494006016 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 595494006017 classical (c) SDRs; Region: SDR_c; cd05233 595494006018 NAD(P) binding site [chemical binding]; other site 595494006019 active site 595494006020 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; cd00232 595494006021 heme binding pocket [chemical binding]; other site 595494006022 heme ligand [chemical binding]; other site 595494006023 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 595494006024 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 595494006025 Thermostable hemolysin; Region: T_hemolysin; pfam12261 595494006026 PAS fold; Region: PAS_4; pfam08448 595494006027 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 595494006028 putative active site [active] 595494006029 heme pocket [chemical binding]; other site 595494006030 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 595494006031 GAF domain; Region: GAF; cl00853 595494006032 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494006033 metal binding site [ion binding]; metal-binding site 595494006034 active site 595494006035 I-site; other site 595494006036 allantoate amidohydrolase; Reviewed; Region: PRK09290 595494006037 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 595494006038 active site 595494006039 metal binding site [ion binding]; metal-binding site 595494006040 dimer interface [polypeptide binding]; other site 595494006041 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 595494006042 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 595494006043 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 595494006044 catalytic residue [active] 595494006045 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 595494006046 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 595494006047 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 595494006048 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 595494006049 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; cl11426 595494006050 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 595494006051 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 595494006052 putative active site [active] 595494006053 Transcriptional regulators [Transcription]; Region: FadR; COG2186 595494006054 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 595494006055 DNA-binding site [nucleotide binding]; DNA binding site 595494006056 FCD domain; Region: FCD; cl11656 595494006057 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 595494006058 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494006059 Walker A/P-loop; other site 595494006060 ATP binding site [chemical binding]; other site 595494006061 Q-loop/lid; other site 595494006062 ABC transporter signature motif; other site 595494006063 Walker B; other site 595494006064 D-loop; other site 595494006065 H-loop/switch region; other site 595494006066 TOBE domain; Region: TOBE_2; cl01440 595494006067 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 595494006068 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 595494006069 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 595494006070 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 595494006071 dimer interface [polypeptide binding]; other site 595494006072 conserved gate region; other site 595494006073 putative PBP binding loops; other site 595494006074 ABC-ATPase subunit interface; other site 595494006075 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 595494006076 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 595494006077 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 595494006078 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 595494006079 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 595494006080 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 595494006081 D-allose kinase; Provisional; Region: PRK09698 595494006082 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 595494006083 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 595494006084 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 595494006085 substrate binding site [chemical binding]; other site 595494006086 hexamer interface [polypeptide binding]; other site 595494006087 metal binding site [ion binding]; metal-binding site 595494006088 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 595494006089 TM-ABC transporter signature motif; other site 595494006090 D-allose transporter ATP-binding protein; Provisional; Region: PRK09700 595494006091 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494006092 Walker A/P-loop; other site 595494006093 ATP binding site [chemical binding]; other site 595494006094 Q-loop/lid; other site 595494006095 ABC transporter signature motif; other site 595494006096 Walker B; other site 595494006097 D-loop; other site 595494006098 H-loop/switch region; other site 595494006099 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 595494006100 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 595494006101 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 595494006102 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 595494006103 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 595494006104 putative active site [active] 595494006105 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494006106 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 595494006107 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 595494006108 active site turn [active] 595494006109 phosphorylation site [posttranslational modification] 595494006110 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 595494006111 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 595494006112 substrate binding site [chemical binding]; other site 595494006113 hexamer interface [polypeptide binding]; other site 595494006114 metal binding site [ion binding]; metal-binding site 595494006115 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 595494006116 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 595494006117 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 595494006118 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 595494006119 substrate binding pocket [chemical binding]; other site 595494006120 membrane-bound complex binding site; other site 595494006121 hinge residues; other site 595494006122 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 595494006123 dimer interface [polypeptide binding]; other site 595494006124 conserved gate region; other site 595494006125 putative PBP binding loops; other site 595494006126 ABC-ATPase subunit interface; other site 595494006127 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 595494006128 dimer interface [polypeptide binding]; other site 595494006129 conserved gate region; other site 595494006130 putative PBP binding loops; other site 595494006131 ABC-ATPase subunit interface; other site 595494006132 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 595494006133 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 595494006134 Walker A/P-loop; other site 595494006135 ATP binding site [chemical binding]; other site 595494006136 Q-loop/lid; other site 595494006137 ABC transporter signature motif; other site 595494006138 Walker B; other site 595494006139 D-loop; other site 595494006140 H-loop/switch region; other site 595494006141 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 595494006142 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 595494006143 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 595494006144 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 595494006145 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 595494006146 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 595494006147 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 595494006148 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 595494006149 LysR family transcriptional regulator; Provisional; Region: PRK14997 595494006150 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494006151 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 595494006152 putative effector binding pocket; other site 595494006153 dimerization interface [polypeptide binding]; other site 595494006154 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 595494006155 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 595494006156 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494006157 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494006158 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 595494006159 putative effector binding pocket; other site 595494006160 putative dimerization interface [polypeptide binding]; other site 595494006161 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 595494006162 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 595494006163 active site 595494006164 catalytic tetrad [active] 595494006165 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 595494006166 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 595494006167 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 595494006168 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 595494006169 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494006170 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494006171 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 595494006172 putative effector binding pocket; other site 595494006173 putative dimerization interface [polypeptide binding]; other site 595494006174 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 595494006175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494006176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494006177 4Fe-4S binding domain; Region: Fer4; cl02805 595494006178 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 595494006179 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 595494006180 dimer interface [polypeptide binding]; other site 595494006181 PYR/PP interface [polypeptide binding]; other site 595494006182 TPP binding site [chemical binding]; other site 595494006183 substrate binding site [chemical binding]; other site 595494006184 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 595494006185 Domain of unknown function; Region: EKR; cl11037 595494006186 4Fe-4S binding domain; Region: Fer4; cl02805 595494006187 4Fe-4S binding domain; Region: Fer4; cl02805 595494006188 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 595494006189 TPP-binding site [chemical binding]; other site 595494006190 dimer interface [polypeptide binding]; other site 595494006191 DsrE/DsrF-like family; Region: DrsE; cl00672 595494006192 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 595494006193 PAS domain S-box; Region: sensory_box; TIGR00229 595494006194 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 595494006195 putative active site [active] 595494006196 heme pocket [chemical binding]; other site 595494006197 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494006198 metal binding site [ion binding]; metal-binding site 595494006199 active site 595494006200 I-site; other site 595494006201 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; cl11605 595494006202 octamerization interface [polypeptide binding]; other site 595494006203 hemerythrin-like metal-binding domain; Region: hemeryth_dom; TIGR02481 595494006204 diferric-oxygen binding site [ion binding]; other site 595494006205 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 595494006206 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 595494006207 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 595494006208 active site 595494006209 substrate binding site [chemical binding]; other site 595494006210 ATP binding site [chemical binding]; other site 595494006211 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 595494006212 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 595494006213 active site 595494006214 catalytic tetrad [active] 595494006215 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494006216 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 595494006217 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 595494006218 dimer interface [polypeptide binding]; other site 595494006219 active site 595494006220 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 595494006221 PUA domain; Region: PUA; cl00607 595494006222 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 595494006223 S-adenosylmethionine binding site [chemical binding]; other site 595494006224 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 595494006225 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 595494006226 putative dimer interface [polypeptide binding]; other site 595494006227 active site pocket [active] 595494006228 putative cataytic base [active] 595494006229 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 595494006230 catalytic core [active] 595494006231 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 595494006232 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 595494006233 homodimer interface [polypeptide binding]; other site 595494006234 Walker A motif; other site 595494006235 ATP binding site [chemical binding]; other site 595494006236 hydroxycobalamin binding site [chemical binding]; other site 595494006237 Walker B motif; other site 595494006238 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494006239 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494006240 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494006241 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 595494006242 dimerization interface [polypeptide binding]; other site 595494006243 alpha-galactosidase; Provisional; Region: PRK15076 595494006244 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl11406 595494006245 NAD(P) binding site [chemical binding]; other site 595494006246 LDH/MDH dimer interface [polypeptide binding]; other site 595494006247 substrate binding site [chemical binding]; other site 595494006248 VacJ like lipoprotein; Region: VacJ; cl01073 595494006249 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 595494006250 active site 595494006251 multimer interface [polypeptide binding]; other site 595494006252 aminopeptidase B; Provisional; Region: PRK05015 595494006253 Peptidase; Region: DUF3663; pfam12404 595494006254 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 595494006255 interface (dimer of trimers) [polypeptide binding]; other site 595494006256 Substrate-binding/catalytic site; other site 595494006257 Zn-binding sites [ion binding]; other site 595494006258 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 595494006259 catalytic loop [active] 595494006260 iron binding site [ion binding]; other site 595494006261 chaperone protein HscA; Provisional; Region: hscA; PRK05183 595494006262 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 595494006263 co-chaperone HscB; Provisional; Region: hscB; PRK05014 595494006264 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 595494006265 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 595494006266 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 595494006267 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 595494006268 trimerization site [polypeptide binding]; other site 595494006269 active site 595494006270 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 595494006271 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 595494006272 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 595494006273 catalytic residue [active] 595494006274 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494006275 Rrf2 family protein; Region: rrf2_super; TIGR00738 595494006276 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 595494006277 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 595494006278 SCP-2 sterol transfer family; Region: SCP2; cl01225 595494006279 Peptidase family U32; Region: Peptidase_U32; cl03113 595494006280 Peptidase family U32; Region: Peptidase_U32; cl03113 595494006281 lipoprotein NlpI; Provisional; Region: PRK11189 595494006282 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 595494006283 binding surface 595494006284 TPR motif; other site 595494006285 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 595494006286 active site residue [active] 595494006287 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 595494006288 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 595494006289 Protein export membrane protein; Region: SecD_SecF; cl14618 595494006290 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 595494006291 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 595494006292 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 595494006293 Protein export membrane protein; Region: SecD_SecF; cl14618 595494006294 Preprotein translocase subunit; Region: YajC; cl00806 595494006295 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 595494006296 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 595494006297 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 595494006298 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 595494006299 cleavage site 595494006300 active site 595494006301 substrate binding sites [chemical binding]; other site 595494006302 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 595494006303 tetramer (dimer of dimers) interface [polypeptide binding]; other site 595494006304 active site 595494006305 dimer interface [polypeptide binding]; other site 595494006306 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 595494006307 Mg++ binding site [ion binding]; other site 595494006308 putative catalytic motif [active] 595494006309 putative substrate binding site [chemical binding]; other site 595494006310 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 595494006311 active site 595494006312 NTP binding site [chemical binding]; other site 595494006313 metal binding triad [ion binding]; metal-binding site 595494006314 antibiotic binding site [chemical binding]; other site 595494006315 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 595494006316 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 595494006317 NAD binding site [chemical binding]; other site 595494006318 substrate binding site [chemical binding]; other site 595494006319 homodimer interface [polypeptide binding]; other site 595494006320 active site 595494006321 Cupin domain; Region: Cupin_2; cl09118 595494006322 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 595494006323 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 595494006324 substrate binding site; other site 595494006325 tetramer interface; other site 595494006326 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 595494006327 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 595494006328 NADP binding site [chemical binding]; other site 595494006329 active site 595494006330 putative substrate binding site [chemical binding]; other site 595494006331 O-Antigen ligase; Region: Wzy_C; cl04850 595494006332 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 595494006333 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 595494006334 Bacterial sugar transferase; Region: Bac_transf; cl00939 595494006335 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 595494006336 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 595494006337 active site 595494006338 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 595494006339 Rhamnan synthesis protein F; Region: RgpF; cl01529 595494006340 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 595494006341 metal-binding site 595494006342 phosphomannomutase CpsG; Provisional; Region: PRK15414 595494006343 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 595494006344 active site 595494006345 substrate binding site [chemical binding]; other site 595494006346 metal binding site [ion binding]; metal-binding site 595494006347 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 595494006348 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 595494006349 Substrate binding site; other site 595494006350 Cupin domain; Region: Cupin_2; cl09118 595494006351 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 595494006352 active site 595494006353 GDP-Mannose binding site [chemical binding]; other site 595494006354 dimer interface [polypeptide binding]; other site 595494006355 modified nudix motif 595494006356 metal binding site [ion binding]; metal-binding site 595494006357 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 595494006358 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 595494006359 NADP binding site [chemical binding]; other site 595494006360 active site 595494006361 putative substrate binding site [chemical binding]; other site 595494006362 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 595494006363 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 595494006364 NADP-binding site; other site 595494006365 homotetramer interface [polypeptide binding]; other site 595494006366 substrate binding site [chemical binding]; other site 595494006367 homodimer interface [polypeptide binding]; other site 595494006368 active site 595494006369 Chain length determinant protein; Region: Wzz; cl01623 595494006370 UDP-glucose 4-epimerase; Region: PLN02240 595494006371 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 595494006372 NAD binding site [chemical binding]; other site 595494006373 homodimer interface [polypeptide binding]; other site 595494006374 active site 595494006375 substrate binding site [chemical binding]; other site 595494006376 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 595494006377 active site 595494006378 NTP binding site [chemical binding]; other site 595494006379 metal binding triad [ion binding]; metal-binding site 595494006380 antibiotic binding site [chemical binding]; other site 595494006381 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 595494006382 transcriptional regulator PhoU; Provisional; Region: PRK11115 595494006383 PhoU domain; Region: PhoU; pfam01895 595494006384 PhoU domain; Region: PhoU; pfam01895 595494006385 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 595494006386 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 595494006387 Walker A/P-loop; other site 595494006388 ATP binding site [chemical binding]; other site 595494006389 Q-loop/lid; other site 595494006390 ABC transporter signature motif; other site 595494006391 Walker B; other site 595494006392 D-loop; other site 595494006393 H-loop/switch region; other site 595494006394 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 595494006395 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 595494006396 dimer interface [polypeptide binding]; other site 595494006397 conserved gate region; other site 595494006398 putative PBP binding loops; other site 595494006399 ABC-ATPase subunit interface; other site 595494006400 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 595494006401 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 595494006402 conserved gate region; other site 595494006403 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 595494006404 ABC-ATPase subunit interface; other site 595494006405 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 595494006406 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 595494006407 domain interface [polypeptide binding]; other site 595494006408 active site 595494006409 catalytic site [active] 595494006410 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 595494006411 domain interface [polypeptide binding]; other site 595494006412 active site 595494006413 catalytic site [active] 595494006414 exopolyphosphatase; Provisional; Region: PRK10854 595494006415 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 595494006416 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 595494006417 nucleoside/Zn binding site; other site 595494006418 dimer interface [polypeptide binding]; other site 595494006419 catalytic motif [active] 595494006420 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 595494006421 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 595494006422 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 595494006423 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 595494006424 dimer interface [polypeptide binding]; other site 595494006425 phosphorylation site [posttranslational modification] 595494006426 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 595494006427 ATP binding site [chemical binding]; other site 595494006428 Mg2+ binding site [ion binding]; other site 595494006429 G-X-G motif; other site 595494006430 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 595494006431 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 595494006432 active site 595494006433 phosphorylation site [posttranslational modification] 595494006434 intermolecular recognition site; other site 595494006435 dimerization interface [polypeptide binding]; other site 595494006436 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 595494006437 DNA binding site [nucleotide binding] 595494006438 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 595494006439 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494006440 Walker A/P-loop; other site 595494006441 ATP binding site [chemical binding]; other site 595494006442 Q-loop/lid; other site 595494006443 exonuclease subunit SbcC; Provisional; Region: PRK10246 595494006444 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494006445 Q-loop/lid; other site 595494006446 ABC transporter signature motif; other site 595494006447 Walker B; other site 595494006448 D-loop; other site 595494006449 H-loop/switch region; other site 595494006450 exonuclease subunit SbcD; Provisional; Region: PRK10966 595494006451 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 595494006452 active site 595494006453 metal binding site [ion binding]; metal-binding site 595494006454 DNA binding site [nucleotide binding] 595494006455 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 595494006456 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 595494006457 Putative exonuclease, RdgC; Region: RdgC; cl01122 595494006458 putative protease; Provisional; Region: PRK15452 595494006459 Peptidase family U32; Region: Peptidase_U32; cl03113 595494006460 ferredoxin; Validated; Region: PRK07118 595494006461 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 595494006462 GSH binding site [chemical binding]; other site 595494006463 catalytic residues [active] 595494006464 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 595494006465 active site 595494006466 dimerization interface [polypeptide binding]; other site 595494006467 Benzoate membrane transport protein; Region: BenE; cl15432 595494006468 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 595494006469 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 595494006470 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 595494006471 non-specific DNA binding site [nucleotide binding]; other site 595494006472 salt bridge; other site 595494006473 sequence-specific DNA binding site [nucleotide binding]; other site 595494006474 Cupin domain; Region: Cupin_2; cl09118 595494006475 CHASE domain; Region: CHASE; cl01369 595494006476 PAS domain S-box; Region: sensory_box; TIGR00229 595494006477 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 595494006478 putative active site [active] 595494006479 heme pocket [chemical binding]; other site 595494006480 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494006481 metal binding site [ion binding]; metal-binding site 595494006482 active site 595494006483 I-site; other site 595494006484 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 595494006485 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 595494006486 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 595494006487 shikimate binding site; other site 595494006488 NAD(P) binding site [chemical binding]; other site 595494006489 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 595494006490 Major Facilitator Superfamily; Region: MFS_1; pfam07690 595494006491 putative substrate translocation pore; other site 595494006492 UbiA prenyltransferase family; Region: UbiA; cl00337 595494006493 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 595494006494 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 595494006495 Subunit I/III interface [polypeptide binding]; other site 595494006496 Subunit III/IV interface [polypeptide binding]; other site 595494006497 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 595494006498 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 595494006499 D-pathway; other site 595494006500 Putative ubiquinol binding site [chemical binding]; other site 595494006501 Low-spin heme (heme b) binding site [chemical binding]; other site 595494006502 Putative water exit pathway; other site 595494006503 Binuclear center (heme o3/CuB) [ion binding]; other site 595494006504 K-pathway; other site 595494006505 Putative proton exit pathway; other site 595494006506 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 595494006507 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 595494006508 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 595494006509 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 595494006510 GAF domain; Region: GAF; cl00853 595494006511 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 595494006512 Zn2+ binding site [ion binding]; other site 595494006513 Mg2+ binding site [ion binding]; other site 595494006514 Domain of unknown function DUF21; Region: DUF21; pfam01595 595494006515 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 595494006516 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 595494006517 Transporter associated domain; Region: CorC_HlyC; cl08393 595494006518 Predicted membrane protein [Function unknown]; Region: COG2119 595494006519 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 595494006520 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 595494006521 CHAD domain; Region: CHAD; cl10506 595494006522 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 595494006523 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 595494006524 active site 595494006525 phosphorylation site [posttranslational modification] 595494006526 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 595494006527 P-loop; other site 595494006528 active site 595494006529 phosphorylation site [posttranslational modification] 595494006530 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494006531 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 595494006532 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 595494006533 FeS/SAM binding site; other site 595494006534 Ribosomal L37ae protein family; Region: Ribosomal_L37ae; cl00875 595494006535 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 595494006536 putative ligand binding pocket/active site [active] 595494006537 putative metal binding site [ion binding]; other site 595494006538 AMMECR1; Region: AMMECR1; cl00911 595494006539 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 595494006540 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 595494006541 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 595494006542 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 595494006543 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 595494006544 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 595494006545 generic binding surface II; other site 595494006546 generic binding surface I; other site 595494006547 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 595494006548 RNA/DNA hybrid binding site [nucleotide binding]; other site 595494006549 active site 595494006550 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 595494006551 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 595494006552 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 595494006553 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 595494006554 active site 595494006555 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 595494006556 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 595494006557 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 595494006558 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 595494006559 trimer interface [polypeptide binding]; other site 595494006560 active site 595494006561 UDP-GlcNAc binding site [chemical binding]; other site 595494006562 lipid binding site [chemical binding]; lipid-binding site 595494006563 periplasmic chaperone; Provisional; Region: PRK10780 595494006564 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 595494006565 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 595494006566 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 595494006567 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 595494006568 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 595494006569 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 595494006570 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 595494006571 Surface antigen; Region: Bac_surface_Ag; cl03097 595494006572 zinc metallopeptidase RseP; Provisional; Region: PRK10779 595494006573 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 595494006574 active site 595494006575 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 595494006576 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 595494006577 protein binding site [polypeptide binding]; other site 595494006578 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 595494006579 putative substrate binding region [chemical binding]; other site 595494006580 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 595494006581 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 595494006582 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 595494006583 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 595494006584 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 595494006585 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 595494006586 catalytic residue [active] 595494006587 putative FPP diphosphate binding site; other site 595494006588 putative FPP binding hydrophobic cleft; other site 595494006589 dimer interface [polypeptide binding]; other site 595494006590 putative IPP diphosphate binding site; other site 595494006591 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 595494006592 hinge region; other site 595494006593 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 595494006594 putative nucleotide binding site [chemical binding]; other site 595494006595 uridine monophosphate binding site [chemical binding]; other site 595494006596 homohexameric interface [polypeptide binding]; other site 595494006597 elongation factor Ts; Provisional; Region: tsf; PRK09377 595494006598 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 595494006599 Elongation factor TS; Region: EF_TS; pfam00889 595494006600 Elongation factor TS; Region: EF_TS; pfam00889 595494006601 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 595494006602 rRNA interaction site [nucleotide binding]; other site 595494006603 S8 interaction site; other site 595494006604 putative laminin-1 binding site; other site 595494006605 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 595494006606 active site 595494006607 PII uridylyl-transferase; Provisional; Region: PRK05007 595494006608 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 595494006609 metal binding triad; other site 595494006610 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 595494006611 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 595494006612 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 595494006613 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 595494006614 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 595494006615 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 595494006616 trimer interface [polypeptide binding]; other site 595494006617 active site 595494006618 substrate binding site [chemical binding]; other site 595494006619 CoA binding site [chemical binding]; other site 595494006620 Transcriptional regulators [Transcription]; Region: PurR; COG1609 595494006621 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494006622 DNA binding site [nucleotide binding] 595494006623 domain linker motif; other site 595494006624 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 595494006625 ligand binding site [chemical binding]; other site 595494006626 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 595494006627 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 595494006628 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_4; cd08500 595494006629 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 595494006630 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 595494006631 dimer interface [polypeptide binding]; other site 595494006632 conserved gate region; other site 595494006633 putative PBP binding loops; other site 595494006634 ABC-ATPase subunit interface; other site 595494006635 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 595494006636 microcin C ABC transporter permease; Provisional; Region: PRK15021 595494006637 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 595494006638 dimer interface [polypeptide binding]; other site 595494006639 conserved gate region; other site 595494006640 putative PBP binding loops; other site 595494006641 ABC-ATPase subunit interface; other site 595494006642 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 595494006643 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 595494006644 Walker A/P-loop; other site 595494006645 ATP binding site [chemical binding]; other site 595494006646 Q-loop/lid; other site 595494006647 ABC transporter signature motif; other site 595494006648 Walker B; other site 595494006649 D-loop; other site 595494006650 H-loop/switch region; other site 595494006651 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 595494006652 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 595494006653 Walker A/P-loop; other site 595494006654 ATP binding site [chemical binding]; other site 595494006655 Q-loop/lid; other site 595494006656 ABC transporter signature motif; other site 595494006657 Walker B; other site 595494006658 D-loop; other site 595494006659 H-loop/switch region; other site 595494006660 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 595494006661 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 595494006662 active site 595494006663 catalytic tetrad [active] 595494006664 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 595494006665 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494006666 alpha-galactosidase; Provisional; Region: PRK15076 595494006667 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 595494006668 NAD binding site [chemical binding]; other site 595494006669 sugar binding site [chemical binding]; other site 595494006670 divalent metal binding site [ion binding]; other site 595494006671 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 595494006672 dimer interface [polypeptide binding]; other site 595494006673 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 595494006674 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 595494006675 Coenzyme A binding pocket [chemical binding]; other site 595494006676 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 595494006677 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 595494006678 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 595494006679 substrate binding pocket [chemical binding]; other site 595494006680 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 595494006681 B12 binding site [chemical binding]; other site 595494006682 cobalt ligand [ion binding]; other site 595494006683 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 595494006684 homoserine O-succinyltransferase; Provisional; Region: PRK05368 595494006685 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 595494006686 proposed active site lysine [active] 595494006687 conserved cys residue [active] 595494006688 hypothetical protein; Provisional; Region: PRK03673 595494006689 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 595494006690 putative MPT binding site; other site 595494006691 YCII-related domain; Region: YCII; cl00999 595494006692 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 595494006693 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 595494006694 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 595494006695 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 595494006696 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 595494006697 SlyX; Region: SlyX; cl01090 595494006698 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 595494006699 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 595494006700 active site 595494006701 HIGH motif; other site 595494006702 nucleotide binding site [chemical binding]; other site 595494006703 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 595494006704 KMSKS motif; other site 595494006705 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 595494006706 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 595494006707 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494006708 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 595494006709 active site turn [active] 595494006710 phosphorylation site [posttranslational modification] 595494006711 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 595494006712 active site 595494006713 trimer interface [polypeptide binding]; other site 595494006714 allosteric site; other site 595494006715 active site lid [active] 595494006716 hexamer (dimer of trimers) interface [polypeptide binding]; other site 595494006717 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 595494006718 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 595494006719 active site 595494006720 dimer interface [polypeptide binding]; other site 595494006721 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494006722 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 595494006723 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 595494006724 Protein of unknown function, DUF; Region: DUF413; cl10479 595494006725 transcriptional regulator HdfR; Provisional; Region: PRK03601 595494006726 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494006727 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 595494006728 dimerization interface [polypeptide binding]; other site 595494006729 Transcriptional regulators [Transcription]; Region: PurR; COG1609 595494006730 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494006731 DNA binding site [nucleotide binding] 595494006732 domain linker motif; other site 595494006733 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 595494006734 ligand binding site [chemical binding]; other site 595494006735 dimerization interface [polypeptide binding]; other site 595494006736 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 595494006737 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 595494006738 substrate binding [chemical binding]; other site 595494006739 active site 595494006740 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 595494006741 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 595494006742 active site 595494006743 metal binding site [ion binding]; metal-binding site 595494006744 homotetramer interface [polypeptide binding]; other site 595494006745 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494006746 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 595494006747 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 595494006748 G1 box; other site 595494006749 GTP/Mg2+ binding site [chemical binding]; other site 595494006750 Switch I region; other site 595494006751 G2 box; other site 595494006752 G3 box; other site 595494006753 Switch II region; other site 595494006754 G4 box; other site 595494006755 G5 box; other site 595494006756 Nucleoside recognition; Region: Gate; cl00486 595494006757 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 595494006758 Nucleoside recognition; Region: Gate; cl00486 595494006759 FeoA domain; Region: FeoA; cl00838 595494006760 DNA polymerase II; Reviewed; Region: PRK05762 595494006761 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 595494006762 active site 595494006763 catalytic site [active] 595494006764 substrate binding site [chemical binding]; other site 595494006765 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 595494006766 active site 595494006767 metal-binding site 595494006768 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 595494006769 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 595494006770 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 595494006771 motif II; other site 595494006772 N-acetylglutamate synthase; Validated; Region: PRK05279 595494006773 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 595494006774 putative feedback inhibition sensing region; other site 595494006775 putative nucleotide binding site [chemical binding]; other site 595494006776 putative substrate binding site [chemical binding]; other site 595494006777 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 595494006778 Coenzyme A binding pocket [chemical binding]; other site 595494006779 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 595494006780 aspartate kinase III; Validated; Region: PRK09084 595494006781 nucleotide binding site [chemical binding]; other site 595494006782 substrate binding site [chemical binding]; other site 595494006783 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 595494006784 lysine allosteric regulatory site; other site 595494006785 dimer interface [polypeptide binding]; other site 595494006786 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 595494006787 dimer interface [polypeptide binding]; other site 595494006788 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 595494006789 AzlC protein; Region: AzlC; cl00570 595494006790 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 595494006791 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 595494006792 Cupin domain; Region: Cupin_2; cl09118 595494006793 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494006794 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494006795 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 595494006796 TM-ABC transporter signature motif; other site 595494006797 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 595494006798 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 595494006799 Walker A/P-loop; other site 595494006800 ATP binding site [chemical binding]; other site 595494006801 Q-loop/lid; other site 595494006802 ABC transporter signature motif; other site 595494006803 Walker B; other site 595494006804 D-loop; other site 595494006805 H-loop/switch region; other site 595494006806 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 595494006807 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 595494006808 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 595494006809 ligand binding site [chemical binding]; other site 595494006810 ribulokinase; Provisional; Region: PRK04123 595494006811 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 595494006812 putative N- and C-terminal domain interface [polypeptide binding]; other site 595494006813 putative active site [active] 595494006814 putative MgATP binding site [chemical binding]; other site 595494006815 catalytic site [active] 595494006816 metal binding site [ion binding]; metal-binding site 595494006817 carbohydrate binding site [chemical binding]; other site 595494006818 homodimer interface [polypeptide binding]; other site 595494006819 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 595494006820 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 595494006821 intersubunit interface [polypeptide binding]; other site 595494006822 active site 595494006823 Zn2+ binding site [ion binding]; other site 595494006824 L-arabinose isomerase; Provisional; Region: PRK02929 595494006825 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 595494006826 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 595494006827 trimer interface [polypeptide binding]; other site 595494006828 putative substrate binding site [chemical binding]; other site 595494006829 putative metal binding site [ion binding]; other site 595494006830 transaldolase-like protein; Provisional; Region: PTZ00411 595494006831 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 595494006832 active site 595494006833 dimer interface [polypeptide binding]; other site 595494006834 catalytic residue [active] 595494006835 transketolase; Reviewed; Region: PRK12753 595494006836 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 595494006837 TPP-binding site [chemical binding]; other site 595494006838 dimer interface [polypeptide binding]; other site 595494006839 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 595494006840 PYR/PP interface [polypeptide binding]; other site 595494006841 dimer interface [polypeptide binding]; other site 595494006842 TPP binding site [chemical binding]; other site 595494006843 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 595494006844 putative transporter; Validated; Region: PRK03818 595494006845 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 595494006846 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 595494006847 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 595494006848 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 595494006849 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 595494006850 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 595494006851 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 595494006852 active site 595494006853 ATP binding site [chemical binding]; other site 595494006854 substrate binding site [chemical binding]; other site 595494006855 activation loop (A-loop); other site 595494006856 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 595494006857 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 595494006858 putative substrate translocation pore; other site 595494006859 GMP synthase; Reviewed; Region: guaA; PRK00074 595494006860 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 595494006861 AMP/PPi binding site [chemical binding]; other site 595494006862 candidate oxyanion hole; other site 595494006863 catalytic triad [active] 595494006864 potential glutamine specificity residues [chemical binding]; other site 595494006865 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 595494006866 ATP Binding subdomain [chemical binding]; other site 595494006867 Ligand Binding sites [chemical binding]; other site 595494006868 Dimerization subdomain; other site 595494006869 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 595494006870 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 595494006871 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 595494006872 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 595494006873 active site 595494006874 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 595494006875 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 595494006876 generic binding surface II; other site 595494006877 generic binding surface I; other site 595494006878 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 595494006879 MarC family integral membrane protein; Region: MarC; cl00919 595494006880 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 595494006881 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 595494006882 putative catalytic cysteine [active] 595494006883 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 595494006884 putative active site [active] 595494006885 metal binding site [ion binding]; metal-binding site 595494006886 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 595494006887 dimer interface [polypeptide binding]; other site 595494006888 FMN binding site [chemical binding]; other site 595494006889 NADPH bind site [chemical binding]; other site 595494006890 Integral membrane protein TerC family; Region: TerC; cl10468 595494006891 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 595494006892 Tetramer interface [polypeptide binding]; other site 595494006893 active site 595494006894 FMN-binding site [chemical binding]; other site 595494006895 HemK family putative methylases; Region: hemK_fam; TIGR00536 595494006896 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 595494006897 S-adenosylmethionine binding site [chemical binding]; other site 595494006898 hypothetical protein; Provisional; Region: PRK04946 595494006899 Smr domain; Region: Smr; cl02619 595494006900 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 595494006901 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 595494006902 catalytic core [active] 595494006903 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 595494006904 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 595494006905 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 595494006906 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 595494006907 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 595494006908 active site 595494006909 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 595494006910 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494006911 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 595494006912 thymidylate kinase; Validated; Region: tmk; PRK00698 595494006913 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 595494006914 TMP-binding site; other site 595494006915 ATP-binding site [chemical binding]; other site 595494006916 YceG-like family; Region: YceG; pfam02618 595494006917 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 595494006918 dimerization interface [polypeptide binding]; other site 595494006919 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 595494006920 Aminotransferase class IV; Region: Aminotran_4; pfam01063 595494006921 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494006922 catalytic residue [active] 595494006923 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 595494006924 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 595494006925 dimer interface [polypeptide binding]; other site 595494006926 active site 595494006927 Phosphopantetheine attachment site; Region: PP-binding; cl09936 595494006928 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 595494006929 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 595494006930 NAD(P) binding site [chemical binding]; other site 595494006931 homotetramer interface [polypeptide binding]; other site 595494006932 homodimer interface [polypeptide binding]; other site 595494006933 active site 595494006934 Acyl transferase domain; Region: Acyl_transf_1; cl08282 595494006935 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 595494006936 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 595494006937 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 595494006938 dimer interface [polypeptide binding]; other site 595494006939 active site 595494006940 CoA binding pocket [chemical binding]; other site 595494006941 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 595494006942 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 595494006943 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 595494006944 Maf-like protein; Region: Maf; pfam02545 595494006945 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 595494006946 active site 595494006947 dimer interface [polypeptide binding]; other site 595494006948 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 595494006949 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 595494006950 motif II; other site 595494006951 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 595494006952 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 595494006953 RNA binding surface [nucleotide binding]; other site 595494006954 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 595494006955 active site 595494006956 ribonuclease E; Reviewed; Region: rne; PRK10811 595494006957 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 595494006958 homodimer interface [polypeptide binding]; other site 595494006959 oligonucleotide binding site [chemical binding]; other site 595494006960 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 595494006961 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 595494006962 ligand binding site [chemical binding]; other site 595494006963 flexible hinge region; other site 595494006964 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 595494006965 putative switch regulator; other site 595494006966 non-specific DNA interactions [nucleotide binding]; other site 595494006967 DNA binding site [nucleotide binding] 595494006968 sequence specific DNA binding site [nucleotide binding]; other site 595494006969 putative cAMP binding site [chemical binding]; other site 595494006970 universal stress protein UspE; Provisional; Region: PRK11175 595494006971 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 595494006972 Ligand Binding Site [chemical binding]; other site 595494006973 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 595494006974 Ligand Binding Site [chemical binding]; other site 595494006975 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 595494006976 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 595494006977 Ligand Binding Site [chemical binding]; other site 595494006978 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 595494006979 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 595494006980 putative acyl-acceptor binding pocket; other site 595494006981 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 595494006982 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 595494006983 active site 595494006984 purine riboside binding site [chemical binding]; other site 595494006985 asparagine synthetase B; Provisional; Region: asnB; PRK09431 595494006986 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 595494006987 active site 595494006988 dimer interface [polypeptide binding]; other site 595494006989 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 595494006990 Ligand Binding Site [chemical binding]; other site 595494006991 Molecular Tunnel; other site 595494006992 LrgA family; Region: LrgA; cl00608 595494006993 LrgB-like family; Region: LrgB; cl00596 595494006994 ferrochelatase; Reviewed; Region: hemH; PRK00035 595494006995 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 595494006996 C-terminal domain interface [polypeptide binding]; other site 595494006997 active site 595494006998 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 595494006999 active site 595494007000 N-terminal domain interface [polypeptide binding]; other site 595494007001 adenylate kinase; Reviewed; Region: adk; PRK00279 595494007002 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 595494007003 AMP-binding site [chemical binding]; other site 595494007004 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 595494007005 heat shock protein 90; Provisional; Region: PRK05218 595494007006 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 595494007007 ATP binding site [chemical binding]; other site 595494007008 Mg2+ binding site [ion binding]; other site 595494007009 G-X-G motif; other site 595494007010 recombination protein RecR; Reviewed; Region: recR; PRK00076 595494007011 RecR protein; Region: RecR; pfam02132 595494007012 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 595494007013 putative active site [active] 595494007014 putative metal-binding site [ion binding]; other site 595494007015 tetramer interface [polypeptide binding]; other site 595494007016 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 595494007017 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 595494007018 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 595494007019 Walker A motif; other site 595494007020 ATP binding site [chemical binding]; other site 595494007021 Walker B motif; other site 595494007022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494007023 arginine finger; other site 595494007024 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 595494007025 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 595494007026 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 595494007027 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 595494007028 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 595494007029 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 595494007030 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 595494007031 ligand binding site; other site 595494007032 oligomer interface; other site 595494007033 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 595494007034 N-terminal domain interface [polypeptide binding]; other site 595494007035 sulfate 1 binding site; other site 595494007036 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494007037 metal binding site [ion binding]; metal-binding site 595494007038 active site 595494007039 I-site; other site 595494007040 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 595494007041 fatty acid metabolism regulator; Provisional; Region: PRK04984 595494007042 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 595494007043 DNA-binding site [nucleotide binding]; DNA binding site 595494007044 FCD domain; Region: FCD; cl11656 595494007045 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 595494007046 putative GSH binding site [chemical binding]; other site 595494007047 catalytic residues [active] 595494007048 superoxide dismutase; Provisional; Region: PRK10543 595494007049 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 595494007050 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 595494007051 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 595494007052 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494007053 CoA-ligase; Region: Ligase_CoA; pfam00549 595494007054 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 595494007055 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 595494007056 CoA-ligase; Region: Ligase_CoA; pfam00549 595494007057 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 595494007058 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 595494007059 E3 interaction surface; other site 595494007060 lipoyl attachment site [posttranslational modification]; other site 595494007061 e3 binding domain; Region: E3_binding; pfam02817 595494007062 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 595494007063 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 595494007064 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 595494007065 TPP-binding site [chemical binding]; other site 595494007066 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 595494007067 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 595494007068 dimer interface [polypeptide binding]; other site 595494007069 Citrate synthase; Region: Citrate_synt; pfam00285 595494007070 active site 595494007071 citrylCoA binding site [chemical binding]; other site 595494007072 NADH binding [chemical binding]; other site 595494007073 cationic pore residues; other site 595494007074 oxalacetate/citrate binding site [chemical binding]; other site 595494007075 coenzyme A binding site [chemical binding]; other site 595494007076 catalytic triad [active] 595494007077 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 595494007078 AMP binding site [chemical binding]; other site 595494007079 metal binding site [ion binding]; metal-binding site 595494007080 active site 595494007081 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 595494007082 Ligand binding site; other site 595494007083 oligomer interface; other site 595494007084 Trm112p-like protein; Region: Trm112p; cl01066 595494007085 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 595494007086 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 595494007087 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 595494007088 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 595494007089 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 595494007090 Walker A/P-loop; other site 595494007091 ATP binding site [chemical binding]; other site 595494007092 Q-loop/lid; other site 595494007093 ABC transporter signature motif; other site 595494007094 Walker B; other site 595494007095 D-loop; other site 595494007096 H-loop/switch region; other site 595494007097 ComEC family competence protein; Provisional; Region: PRK11539 595494007098 Competence protein; Region: Competence; cl00471 595494007099 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494007100 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 595494007101 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 595494007102 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 595494007103 FtsX-like permease family; Region: FtsX; pfam02687 595494007104 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 595494007105 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 595494007106 Walker A/P-loop; other site 595494007107 ATP binding site [chemical binding]; other site 595494007108 Q-loop/lid; other site 595494007109 ABC transporter signature motif; other site 595494007110 Walker B; other site 595494007111 D-loop; other site 595494007112 H-loop/switch region; other site 595494007113 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 595494007114 FtsX-like permease family; Region: FtsX; pfam02687 595494007115 transcription-repair coupling factor; Provisional; Region: PRK10689 595494007116 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 595494007117 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 595494007118 ATP binding site [chemical binding]; other site 595494007119 putative Mg++ binding site [ion binding]; other site 595494007120 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 595494007121 nucleotide binding region [chemical binding]; other site 595494007122 ATP-binding site [chemical binding]; other site 595494007123 TRCF domain; Region: TRCF; cl04088 595494007124 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 595494007125 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 595494007126 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 595494007127 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 595494007128 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 595494007129 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 595494007130 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 595494007131 putative nucleic acid binding region [nucleotide binding]; other site 595494007132 G-X-X-G motif; other site 595494007133 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 595494007134 RNA binding site [nucleotide binding]; other site 595494007135 domain interface; other site 595494007136 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 595494007137 16S/18S rRNA binding site [nucleotide binding]; other site 595494007138 S13e-L30e interaction site [polypeptide binding]; other site 595494007139 25S rRNA binding site [nucleotide binding]; other site 595494007140 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 595494007141 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 595494007142 RNA binding site [nucleotide binding]; other site 595494007143 active site 595494007144 Ribosome-binding factor A; Region: RBFA; cl00542 595494007145 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 595494007146 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 595494007147 translation initiation factor IF-2; Validated; Region: infB; PRK05306 595494007148 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 595494007149 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 595494007150 G1 box; other site 595494007151 putative GEF interaction site [polypeptide binding]; other site 595494007152 GTP/Mg2+ binding site [chemical binding]; other site 595494007153 Switch I region; other site 595494007154 G2 box; other site 595494007155 G3 box; other site 595494007156 Switch II region; other site 595494007157 G4 box; other site 595494007158 G5 box; other site 595494007159 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 595494007160 Translation-initiation factor 2; Region: IF-2; pfam11987 595494007161 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 595494007162 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 595494007163 NusA N-terminal domain; Region: NusA_N; pfam08529 595494007164 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 595494007165 RNA binding site [nucleotide binding]; other site 595494007166 homodimer interface [polypeptide binding]; other site 595494007167 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 595494007168 G-X-X-G motif; other site 595494007169 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 595494007170 G-X-X-G motif; other site 595494007171 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 595494007172 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 595494007173 ribosome maturation protein RimP; Reviewed; Region: PRK00092 595494007174 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 595494007175 Sm1 motif; other site 595494007176 predicted subunit interaction site [polypeptide binding]; other site 595494007177 RNA binding pocket [nucleotide binding]; other site 595494007178 Sm2 motif; other site 595494007179 Preprotein translocase SecG subunit; Region: SecG; cl09123 595494007180 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 595494007181 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 595494007182 active site 595494007183 substrate binding site [chemical binding]; other site 595494007184 metal binding site [ion binding]; metal-binding site 595494007185 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 595494007186 dihydropteroate synthase; Region: DHPS; TIGR01496 595494007187 substrate binding pocket [chemical binding]; other site 595494007188 dimer interface [polypeptide binding]; other site 595494007189 inhibitor binding site; inhibition site 595494007190 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 595494007191 FtsH Extracellular; Region: FtsH_ext; pfam06480 595494007192 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 595494007193 Walker A motif; other site 595494007194 ATP binding site [chemical binding]; other site 595494007195 Walker B motif; other site 595494007196 arginine finger; other site 595494007197 Peptidase family M41; Region: Peptidase_M41; pfam01434 595494007198 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 595494007199 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 595494007200 S-adenosylmethionine binding site [chemical binding]; other site 595494007201 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 595494007202 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 595494007203 domain; Region: GreA_GreB_N; pfam03449 595494007204 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 595494007205 chaperone protein DnaJ; Provisional; Region: PRK10767 595494007206 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 595494007207 HSP70 interaction site [polypeptide binding]; other site 595494007208 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 595494007209 substrate binding site [polypeptide binding]; other site 595494007210 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 595494007211 Zn binding sites [ion binding]; other site 595494007212 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 595494007213 dimer interface [polypeptide binding]; other site 595494007214 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 595494007215 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 595494007216 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 595494007217 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 595494007218 dimer interface [polypeptide binding]; other site 595494007219 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 595494007220 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 595494007221 recombination and repair protein; Provisional; Region: PRK10869 595494007222 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 595494007223 Walker A/P-loop; other site 595494007224 ATP binding site [chemical binding]; other site 595494007225 Q-loop/lid; other site 595494007226 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 595494007227 ABC transporter signature motif; other site 595494007228 Walker B; other site 595494007229 D-loop; other site 595494007230 H-loop/switch region; other site 595494007231 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 595494007232 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; cl03735 595494007233 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 595494007234 putative coenzyme Q binding site [chemical binding]; other site 595494007235 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 595494007236 SmpB-tmRNA interface; other site 595494007237 integrase; Provisional; Region: PRK09692 595494007238 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 595494007239 active site 595494007240 Int/Topo IB signature motif; other site 595494007241 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 595494007242 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 595494007243 active site 595494007244 NTP binding site [chemical binding]; other site 595494007245 metal binding triad [ion binding]; metal-binding site 595494007246 antibiotic binding site [chemical binding]; other site 595494007247 HerA helicase [Replication, recombination, and repair]; Region: COG0433 595494007248 Domain of unknown function DUF87; Region: DUF87; pfam01935 595494007249 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 595494007250 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 595494007251 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 595494007252 ATP binding site [chemical binding]; other site 595494007253 putative Mg++ binding site [ion binding]; other site 595494007254 Fic family protein [Function unknown]; Region: COG3177 595494007255 Fic/DOC family; Region: Fic; cl00960 595494007256 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494007257 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 595494007258 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 595494007259 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 595494007260 HsdM N-terminal domain; Region: HsdM_N; pfam12161 595494007261 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; cl12011 595494007262 Predicted transcriptional regulator [Transcription]; Region: COG2378 595494007263 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 595494007264 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 595494007265 Domain of unknown function (DUF932); Region: DUF932; cl12129 595494007266 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 595494007267 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 595494007268 non-specific DNA binding site [nucleotide binding]; other site 595494007269 salt bridge; other site 595494007270 sequence-specific DNA binding site [nucleotide binding]; other site 595494007271 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 595494007272 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 595494007273 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 595494007274 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 595494007275 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 595494007276 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 595494007277 putative active site [active] 595494007278 metal binding site [ion binding]; metal-binding site 595494007279 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 595494007280 nucleoside/Zn binding site; other site 595494007281 dimer interface [polypeptide binding]; other site 595494007282 catalytic motif [active] 595494007283 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 595494007284 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 595494007285 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 595494007286 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 595494007287 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 595494007288 active site 595494007289 nucleotide binding site [chemical binding]; other site 595494007290 HIGH motif; other site 595494007291 KMSKS motif; other site 595494007292 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 595494007293 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 595494007294 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 595494007295 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 595494007296 active site 595494007297 NTP binding site [chemical binding]; other site 595494007298 metal binding triad [ion binding]; metal-binding site 595494007299 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 595494007300 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 595494007301 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 595494007302 catalytic center binding site [active] 595494007303 ATP binding site [chemical binding]; other site 595494007304 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 595494007305 oligomerization interface [polypeptide binding]; other site 595494007306 active site 595494007307 metal binding site [ion binding]; metal-binding site 595494007308 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 595494007309 Pantoate-beta-alanine ligase; Region: PanC; cd00560 595494007310 active site 595494007311 ATP-binding site [chemical binding]; other site 595494007312 pantoate-binding site; other site 595494007313 HXXH motif; other site 595494007314 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 595494007315 tetramerization interface [polypeptide binding]; other site 595494007316 active site 595494007317 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 595494007318 putative active site [active] 595494007319 catalytic residue [active] 595494007320 GTP-binding protein YchF; Reviewed; Region: PRK09601 595494007321 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 595494007322 G1 box; other site 595494007323 GTP/Mg2+ binding site [chemical binding]; other site 595494007324 Switch I region; other site 595494007325 G2 box; other site 595494007326 Switch II region; other site 595494007327 G3 box; other site 595494007328 G4 box; other site 595494007329 G5 box; other site 595494007330 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 595494007331 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 595494007332 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 595494007333 dimer interface [polypeptide binding]; other site 595494007334 active site 595494007335 glycine loop; other site 595494007336 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 595494007337 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 595494007338 active site 595494007339 intersubunit interactions; other site 595494007340 catalytic residue [active] 595494007341 seryl-tRNA synthetase; Provisional; Region: PRK05431 595494007342 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 595494007343 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 595494007344 dimer interface [polypeptide binding]; other site 595494007345 active site 595494007346 motif 1; other site 595494007347 motif 2; other site 595494007348 motif 3; other site 595494007349 recombination factor protein RarA; Reviewed; Region: PRK13342 595494007350 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 595494007351 Walker A motif; other site 595494007352 ATP binding site [chemical binding]; other site 595494007353 Walker B motif; other site 595494007354 arginine finger; other site 595494007355 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 595494007356 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 595494007357 VanZ like family; Region: VanZ; cl01971 595494007358 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494007359 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 595494007360 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494007361 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 595494007362 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 595494007363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494007364 thioredoxin reductase; Provisional; Region: PRK10262 595494007365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494007366 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 595494007367 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 595494007368 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 595494007369 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 595494007370 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 595494007371 rRNA binding site [nucleotide binding]; other site 595494007372 predicted 30S ribosome binding site; other site 595494007373 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 595494007374 Clp amino terminal domain; Region: Clp_N; pfam02861 595494007375 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 595494007376 Walker A motif; other site 595494007377 ATP binding site [chemical binding]; other site 595494007378 Walker B motif; other site 595494007379 arginine finger; other site 595494007380 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 595494007381 Walker A motif; other site 595494007382 ATP binding site [chemical binding]; other site 595494007383 Walker B motif; other site 595494007384 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 595494007385 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 595494007386 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 595494007387 DNA-binding site [nucleotide binding]; DNA binding site 595494007388 RNA-binding motif; other site 595494007389 isocitrate dehydrogenase; Validated; Region: PRK07362 595494007390 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 595494007391 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 595494007392 nudix motif; other site 595494007393 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 595494007394 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 595494007395 Protein of unknown function (DUF489); Region: DUF489; cl01097 595494007396 adenylosuccinate lyase; Provisional; Region: PRK09285 595494007397 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 595494007398 tetramer interface [polypeptide binding]; other site 595494007399 active site 595494007400 Nif-specific regulatory protein; Region: nifA; TIGR01817 595494007401 GAF domain; Region: GAF; cl00853 595494007402 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 595494007403 Walker A motif; other site 595494007404 ATP binding site [chemical binding]; other site 595494007405 Walker B motif; other site 595494007406 arginine finger; other site 595494007407 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494007408 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 595494007409 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 595494007410 putative active site [active] 595494007411 heme pocket [chemical binding]; other site 595494007412 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 595494007413 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 595494007414 electron transport complex protein RnfB; Provisional; Region: PRK05113 595494007415 Putative Fe-S cluster; Region: FeS; pfam04060 595494007416 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 595494007417 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 595494007418 SLBB domain; Region: SLBB; pfam10531 595494007419 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 595494007420 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 595494007421 FMN-binding domain; Region: FMN_bind; cl01081 595494007422 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 595494007423 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; cl03735 595494007424 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 595494007425 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 595494007426 Amino acid permease; Region: AA_permease; cl00524 595494007427 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 595494007428 active site 595494007429 metal binding site [ion binding]; metal-binding site 595494007430 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 595494007431 PPIC-type PPIASE domain; Region: Rotamase; cl08278 595494007432 NifZ domain; Region: NifZ; pfam04319 595494007433 Nitrogen fixation protein NifW; Region: NifW; cl03935 595494007434 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 595494007435 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 595494007436 active site 595494007437 catalytic residues [active] 595494007438 metal binding site [ion binding]; metal-binding site 595494007439 Amino acid permease; Region: AA_permease; cl00524 595494007440 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 595494007441 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 595494007442 Membrane transport protein; Region: Mem_trans; cl09117 595494007443 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 595494007444 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 595494007445 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 595494007446 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 595494007447 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 595494007448 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 595494007449 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 595494007450 motif II; other site 595494007451 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 595494007452 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 595494007453 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494007454 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 595494007455 dimerization interface [polypeptide binding]; other site 595494007456 substrate binding pocket [chemical binding]; other site 595494007457 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 595494007458 Active Sites [active] 595494007459 sulfite reductase subunit beta; Provisional; Region: PRK13504 595494007460 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 595494007461 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 595494007462 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 595494007463 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 595494007464 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 595494007465 FAD binding pocket [chemical binding]; other site 595494007466 FAD binding motif [chemical binding]; other site 595494007467 catalytic residues [active] 595494007468 NAD binding pocket [chemical binding]; other site 595494007469 phosphate binding motif [ion binding]; other site 595494007470 beta-alpha-beta structure motif; other site 595494007471 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 595494007472 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 595494007473 active site 595494007474 HIGH motif; other site 595494007475 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 595494007476 active site 595494007477 KMSKS motif; other site 595494007478 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494007479 metal binding site [ion binding]; metal-binding site 595494007480 active site 595494007481 I-site; other site 595494007482 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 595494007483 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 595494007484 dimerization interface [polypeptide binding]; other site 595494007485 two component system sensor kinase SsrA; Provisional; Region: PRK15347 595494007486 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; cl00120 595494007487 ATP-dependent helicase HepA; Validated; Region: PRK04914 595494007488 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 595494007489 ATP binding site [chemical binding]; other site 595494007490 putative Mg++ binding site [ion binding]; other site 595494007491 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 595494007492 nucleotide binding region [chemical binding]; other site 595494007493 ATP-binding site [chemical binding]; other site 595494007494 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 595494007495 active site 595494007496 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 595494007497 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 595494007498 putative metal binding site [ion binding]; other site 595494007499 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 595494007500 HSP70 interaction site [polypeptide binding]; other site 595494007501 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 595494007502 Substrate binding site; other site 595494007503 metal-binding site 595494007504 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 595494007505 Phosphotransferase enzyme family; Region: APH; pfam01636 595494007506 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 595494007507 OstA-like protein; Region: OstA; cl00844 595494007508 Organic solvent tolerance protein; Region: OstA_C; pfam04453 595494007509 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 595494007510 SurA N-terminal domain; Region: SurA_N; pfam09312 595494007511 PPIC-type PPIASE domain; Region: Rotamase; cl08278 595494007512 PPIC-type PPIASE domain; Region: Rotamase; cl08278 595494007513 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 595494007514 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 595494007515 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; cl12011 595494007516 Protein of unknown function (DUF525); Region: DUF525; cl01119 595494007517 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 595494007518 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 595494007519 active site 595494007520 metal binding site [ion binding]; metal-binding site 595494007521 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 595494007522 folate binding site [chemical binding]; other site 595494007523 NADP+ binding site [chemical binding]; other site 595494007524 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 595494007525 Uncharacterized conserved protein [Function unknown]; Region: COG2966 595494007526 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 595494007527 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 595494007528 GTPase CgtA; Reviewed; Region: obgE; PRK12298 595494007529 GTP1/OBG; Region: GTP1_OBG; pfam01018 595494007530 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 595494007531 G1 box; other site 595494007532 GTP/Mg2+ binding site [chemical binding]; other site 595494007533 Switch I region; other site 595494007534 G2 box; other site 595494007535 G3 box; other site 595494007536 Switch II region; other site 595494007537 G4 box; other site 595494007538 G5 box; other site 595494007539 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 595494007540 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 595494007541 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 595494007542 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 595494007543 substrate binding pocket [chemical binding]; other site 595494007544 chain length determination region; other site 595494007545 substrate-Mg2+ binding site; other site 595494007546 catalytic residues [active] 595494007547 aspartate-rich region 1; other site 595494007548 active site lid residues [active] 595494007549 aspartate-rich region 2; other site 595494007550 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 595494007551 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 595494007552 GDP-binding site [chemical binding]; other site 595494007553 ACT binding site; other site 595494007554 IMP binding site; other site 595494007555 FtsH protease regulator HflC; Provisional; Region: PRK11029 595494007556 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 595494007557 FtsH protease regulator HflK; Provisional; Region: PRK10930 595494007558 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 595494007559 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 595494007560 GTPase HflX; Provisional; Region: PRK11058 595494007561 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 595494007562 G1 box; other site 595494007563 GTP/Mg2+ binding site [chemical binding]; other site 595494007564 Switch I region; other site 595494007565 G2 box; other site 595494007566 G3 box; other site 595494007567 Switch II region; other site 595494007568 G4 box; other site 595494007569 G5 box; other site 595494007570 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 595494007571 Sm1 motif; other site 595494007572 intra - hexamer interaction site; other site 595494007573 inter - hexamer interaction site [polypeptide binding]; other site 595494007574 nucleotide binding pocket [chemical binding]; other site 595494007575 Sm2 motif; other site 595494007576 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 595494007577 IPP transferase; Region: IPPT; cl00403 595494007578 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 595494007579 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 595494007580 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 595494007581 ATP binding site [chemical binding]; other site 595494007582 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 595494007583 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 595494007584 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 595494007585 active site 595494007586 metal binding site [ion binding]; metal-binding site 595494007587 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 595494007588 putative peptidoglycan binding site; other site 595494007589 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 595494007590 putative carbohydrate kinase; Provisional; Region: PRK10565 595494007591 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 595494007592 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 595494007593 putative substrate binding site [chemical binding]; other site 595494007594 putative ATP binding site [chemical binding]; other site 595494007595 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 595494007596 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 595494007597 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 595494007598 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 595494007599 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 595494007600 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 595494007601 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 595494007602 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 595494007603 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 595494007604 P loop; other site 595494007605 P-loop; other site 595494007606 Nucleotide binding site [chemical binding]; other site 595494007607 Magnesium ion binding site [ion binding]; other site 595494007608 DTAP/Switch II; other site 595494007609 Switch I; other site 595494007610 YcfA-like protein; Region: YcfA; cl00752 595494007611 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 595494007612 ParB-like nuclease domain; Region: ParBc; cl02129 595494007613 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 595494007614 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 595494007615 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 595494007616 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 595494007617 ssDNA binding site [nucleotide binding]; other site 595494007618 dimer interface [polypeptide binding]; other site 595494007619 tetramer (dimer of dimers) interface [polypeptide binding]; other site 595494007620 DNA topoisomerase III; Provisional; Region: PRK07726 595494007621 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 595494007622 active site 595494007623 putative interdomain interaction site [polypeptide binding]; other site 595494007624 putative metal-binding site [ion binding]; other site 595494007625 putative nucleotide binding site [chemical binding]; other site 595494007626 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 595494007627 domain I; other site 595494007628 DNA binding groove [nucleotide binding] 595494007629 phosphate binding site [ion binding]; other site 595494007630 domain II; other site 595494007631 domain III; other site 595494007632 nucleotide binding site [chemical binding]; other site 595494007633 catalytic site [active] 595494007634 domain IV; other site 595494007635 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 595494007636 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 595494007637 HSP90 family protein; Provisional; Region: PRK14083 595494007638 Herpesvirus UL36 tegument protein; Region: Herpes_UL36; pfam03586 595494007639 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 595494007640 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 595494007641 Domain of unknown function (DUF932); Region: DUF932; cl12129 595494007642 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 595494007643 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; cl12011 595494007644 S-adenosylmethionine binding site [chemical binding]; other site 595494007645 DEAD-like helicases superfamily; Region: DEXDc; smart00487 595494007646 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 595494007647 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 595494007648 nucleotide binding region [chemical binding]; other site 595494007649 ATP-binding site [chemical binding]; other site 595494007650 Competence protein CoiA-like family; Region: CoiA; cl11541 595494007651 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 595494007652 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494007653 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494007654 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494007655 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 595494007656 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494007657 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 595494007658 putative active site [active] 595494007659 putative metal-binding site [ion binding]; other site 595494007660 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 595494007661 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 595494007662 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 595494007663 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 595494007664 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 595494007665 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl14888 595494007666 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 595494007667 Vacuolar import and degradation protein; Region: Vac_ImportDeg; cl02113 595494007668 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 595494007669 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 595494007670 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 595494007671 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 595494007672 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 595494007673 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 595494007674 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 595494007675 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 595494007676 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 595494007677 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 595494007678 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 595494007679 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 595494007680 catalytic residues [active] 595494007681 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 595494007682 MPN+ (JAMM) motif; other site 595494007683 Zinc-binding site [ion binding]; other site 595494007684 Protein of unknown function (DUF1525); Region: DUF1525; cl06515 595494007685 TraU protein; Region: TraU; cl06067 595494007686 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 595494007687 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 595494007688 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 595494007689 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 595494007690 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 595494007691 Putative helicase; Region: TraI_2; pfam07514 595494007692 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 595494007693 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 595494007694 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 595494007695 putative substrate binding site [chemical binding]; other site 595494007696 homodimer interface [polypeptide binding]; other site 595494007697 nucleotide binding site [chemical binding]; other site 595494007698 nucleotide binding site [chemical binding]; other site 595494007699 ornithine carbamoyltransferase; Validated; Region: PRK02102 595494007700 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 595494007701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494007702 Amidinotransferase; Region: Amidinotransf; cl12043 595494007703 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 595494007704 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 595494007705 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 595494007706 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494007707 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 595494007708 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 595494007709 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 595494007710 lipoyl-biotinyl attachment site [posttranslational modification]; other site 595494007711 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 595494007712 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 595494007713 Walker A/P-loop; other site 595494007714 ATP binding site [chemical binding]; other site 595494007715 Q-loop/lid; other site 595494007716 ABC transporter signature motif; other site 595494007717 Walker B; other site 595494007718 D-loop; other site 595494007719 H-loop/switch region; other site 595494007720 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494007721 Walker A/P-loop; other site 595494007722 ATP binding site [chemical binding]; other site 595494007723 Q-loop/lid; other site 595494007724 ABC transporter signature motif; other site 595494007725 Walker B; other site 595494007726 D-loop; other site 595494007727 H-loop/switch region; other site 595494007728 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 595494007729 ABC-2 type transporter; Region: ABC2_membrane; cl11417 595494007730 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 595494007731 ABC-2 type transporter; Region: ABC2_membrane; cl11417 595494007732 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 595494007733 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 595494007734 NAD(P) binding site [chemical binding]; other site 595494007735 homotetramer interface [polypeptide binding]; other site 595494007736 homodimer interface [polypeptide binding]; other site 595494007737 active site 595494007738 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 595494007739 tellurium resistance terB-like protein; Region: terB_like; cd07177 595494007740 metal binding site [ion binding]; metal-binding site 595494007741 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 595494007742 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 595494007743 dimer interaction site [polypeptide binding]; other site 595494007744 substrate-binding tunnel; other site 595494007745 active site 595494007746 catalytic site [active] 595494007747 substrate binding site [chemical binding]; other site 595494007748 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 595494007749 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 595494007750 classical (c) SDRs; Region: SDR_c; cd05233 595494007751 NAD(P) binding site [chemical binding]; other site 595494007752 active site 595494007753 Acetokinase family; Region: Acetate_kinase; cl01029 595494007754 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 595494007755 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 595494007756 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 595494007757 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 595494007758 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 595494007759 Ligand Binding Site [chemical binding]; other site 595494007760 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 595494007761 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 595494007762 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 595494007763 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 595494007764 TPP-binding site [chemical binding]; other site 595494007765 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 595494007766 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 595494007767 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494007768 Beta-Casp domain; Region: Beta-Casp; cl12567 595494007769 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 595494007770 thymidine phosphorylase; Provisional; Region: PRK04350 595494007771 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 595494007772 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 595494007773 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 595494007774 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 595494007775 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494007776 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 595494007777 dimerization interface [polypeptide binding]; other site 595494007778 substrate binding pocket [chemical binding]; other site 595494007779 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 595494007780 non-specific DNA binding site [nucleotide binding]; other site 595494007781 salt bridge; other site 595494007782 sequence-specific DNA binding site [nucleotide binding]; other site 595494007783 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 595494007784 dimerization interface [polypeptide binding]; other site 595494007785 substrate binding pocket [chemical binding]; other site 595494007786 integrase; Provisional; Region: PRK09692 595494007787 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 595494007788 active site 595494007789 Int/Topo IB signature motif; other site 595494007790 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 595494007791 putative active site [active] 595494007792 putative substrate binding site [chemical binding]; other site 595494007793 catalytic site [active] 595494007794 dimer interface [polypeptide binding]; other site 595494007795 GTPase RsgA; Reviewed; Region: PRK12288 595494007796 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 595494007797 GTPase/OB domain interface [polypeptide binding]; other site 595494007798 GTPase/Zn-binding domain interface [polypeptide binding]; other site 595494007799 GTP/Mg2+ binding site [chemical binding]; other site 595494007800 G4 box; other site 595494007801 G5 box; other site 595494007802 G1 box; other site 595494007803 Switch I region; other site 595494007804 G2 box; other site 595494007805 G3 box; other site 595494007806 Switch II region; other site 595494007807 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 595494007808 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 595494007809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494007810 domain; Region: Succ_DH_flav_C; pfam02910 595494007811 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 595494007812 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 595494007813 D-subunit interface [polypeptide binding]; other site 595494007814 Iron-sulfur protein interface; other site 595494007815 proximal quinone binding site [chemical binding]; other site 595494007816 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 595494007817 Iron-sulfur protein interface; other site 595494007818 proximal quinone binding site [chemical binding]; other site 595494007819 C-subunit interface; other site 595494007820 distal quinone binding site; other site 595494007821 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 595494007822 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 595494007823 active site 595494007824 Membrane transport protein; Region: Mem_trans; cl09117 595494007825 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 595494007826 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 595494007827 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 595494007828 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 595494007829 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 595494007830 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 595494007831 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 595494007832 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 595494007833 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 595494007834 THUMP domain; Region: THUMP; cl12076 595494007835 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 595494007836 Ligand Binding Site [chemical binding]; other site 595494007837 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 595494007838 active site residue [active] 595494007839 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 595494007840 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 595494007841 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 595494007842 substrate binding pocket [chemical binding]; other site 595494007843 chain length determination region; other site 595494007844 substrate-Mg2+ binding site; other site 595494007845 catalytic residues [active] 595494007846 aspartate-rich region 1; other site 595494007847 active site lid residues [active] 595494007848 aspartate-rich region 2; other site 595494007849 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 595494007850 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 595494007851 TPP-binding site; other site 595494007852 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 595494007853 PYR/PP interface [polypeptide binding]; other site 595494007854 dimer interface [polypeptide binding]; other site 595494007855 TPP binding site [chemical binding]; other site 595494007856 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 595494007857 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 595494007858 ArsC family; Region: ArsC; pfam03960 595494007859 catalytic residues [active] 595494007860 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 595494007861 dimerization interface [polypeptide binding]; other site 595494007862 putative DNA binding site [nucleotide binding]; other site 595494007863 putative Zn2+ binding site [ion binding]; other site 595494007864 Membrane transport protein; Region: Mem_trans; cl09117 595494007865 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 595494007866 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 595494007867 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 595494007868 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 595494007869 dimer interface [polypeptide binding]; other site 595494007870 conserved gate region; other site 595494007871 putative PBP binding loops; other site 595494007872 ABC-ATPase subunit interface; other site 595494007873 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 595494007874 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 595494007875 dimer interface [polypeptide binding]; other site 595494007876 conserved gate region; other site 595494007877 putative PBP binding loops; other site 595494007878 ABC-ATPase subunit interface; other site 595494007879 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 595494007880 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 595494007881 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 595494007882 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 595494007883 Walker A/P-loop; other site 595494007884 ATP binding site [chemical binding]; other site 595494007885 Q-loop/lid; other site 595494007886 ABC transporter signature motif; other site 595494007887 Walker B; other site 595494007888 D-loop; other site 595494007889 H-loop/switch region; other site 595494007890 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 595494007891 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 595494007892 Walker A/P-loop; other site 595494007893 ATP binding site [chemical binding]; other site 595494007894 Q-loop/lid; other site 595494007895 ABC transporter signature motif; other site 595494007896 Walker B; other site 595494007897 D-loop; other site 595494007898 H-loop/switch region; other site 595494007899 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 595494007900 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 595494007901 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 595494007902 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 595494007903 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 595494007904 Type II transport protein GspH; Region: GspH; pfam12019 595494007905 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 595494007906 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 595494007907 tetramer interfaces [polypeptide binding]; other site 595494007908 binuclear metal-binding site [ion binding]; other site 595494007909 thiamine monophosphate kinase; Provisional; Region: PRK05731 595494007910 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 595494007911 ATP binding site [chemical binding]; other site 595494007912 dimerization interface [polypeptide binding]; other site 595494007913 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 595494007914 putative RNA binding site [nucleotide binding]; other site 595494007915 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 595494007916 homopentamer interface [polypeptide binding]; other site 595494007917 active site 595494007918 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 595494007919 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 595494007920 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 595494007921 dimerization interface [polypeptide binding]; other site 595494007922 active site 595494007923 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 595494007924 Lumazine binding domain; Region: Lum_binding; pfam00677 595494007925 Lumazine binding domain; Region: Lum_binding; pfam00677 595494007926 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 595494007927 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 595494007928 catalytic motif [active] 595494007929 Zn binding site [ion binding]; other site 595494007930 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 595494007931 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 595494007932 ATP cone domain; Region: ATP-cone; pfam03477 595494007933 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 595494007934 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 595494007935 dimer interface [polypeptide binding]; other site 595494007936 glycine-pyridoxal phosphate binding site [chemical binding]; other site 595494007937 active site 595494007938 folate binding site [chemical binding]; other site 595494007939 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 595494007940 active site 595494007941 trimer interface [polypeptide binding]; other site 595494007942 dimer interface [polypeptide binding]; other site 595494007943 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 595494007944 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 595494007945 carboxyltransferase (CT) interaction site; other site 595494007946 biotinylation site [posttranslational modification]; other site 595494007947 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 595494007948 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 595494007949 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 595494007950 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 595494007951 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; cl00164 595494007952 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 595494007953 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; cl12011 595494007954 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 595494007955 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 595494007956 FMN binding site [chemical binding]; other site 595494007957 active site 595494007958 catalytic residues [active] 595494007959 substrate binding site [chemical binding]; other site 595494007960 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494007961 Sulfatase; Region: Sulfatase; cl10460 595494007962 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 595494007963 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494007964 Walker A/P-loop; other site 595494007965 ATP binding site [chemical binding]; other site 595494007966 Q-loop/lid; other site 595494007967 ABC transporter signature motif; other site 595494007968 Walker B; other site 595494007969 D-loop; other site 595494007970 H-loop/switch region; other site 595494007971 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494007972 Walker A/P-loop; other site 595494007973 ATP binding site [chemical binding]; other site 595494007974 Q-loop/lid; other site 595494007975 ABC transporter signature motif; other site 595494007976 Walker B; other site 595494007977 D-loop; other site 595494007978 H-loop/switch region; other site 595494007979 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 595494007980 Coenzyme A binding pocket [chemical binding]; other site 595494007981 aromatic acid decarboxylase; Validated; Region: PRK05920 595494007982 Flavoprotein; Region: Flavoprotein; cl08021 595494007983 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 595494007984 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 595494007985 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 595494007986 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 595494007987 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 595494007988 dimer interface [polypeptide binding]; other site 595494007989 substrate binding site [chemical binding]; other site 595494007990 metal binding sites [ion binding]; metal-binding site 595494007991 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 595494007992 ligand-binding site [chemical binding]; other site 595494007993 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 595494007994 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 595494007995 CysD dimerization site [polypeptide binding]; other site 595494007996 G1 box; other site 595494007997 putative GEF interaction site [polypeptide binding]; other site 595494007998 GTP/Mg2+ binding site [chemical binding]; other site 595494007999 Switch I region; other site 595494008000 G2 box; other site 595494008001 G3 box; other site 595494008002 Switch II region; other site 595494008003 G4 box; other site 595494008004 G5 box; other site 595494008005 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 595494008006 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 595494008007 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 595494008008 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 595494008009 Active Sites [active] 595494008010 siroheme synthase; Provisional; Region: cysG; PRK10637 595494008011 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494008012 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 595494008013 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 595494008014 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 595494008015 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 595494008016 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 595494008017 malate dehydrogenase; Provisional; Region: PRK05086 595494008018 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 595494008019 NAD binding site [chemical binding]; other site 595494008020 dimerization interface [polypeptide binding]; other site 595494008021 Substrate binding site [chemical binding]; other site 595494008022 arginine repressor; Provisional; Region: PRK05066 595494008023 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 595494008024 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 595494008025 sensory histidine kinase DcuS; Provisional; Region: PRK11086 595494008026 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 595494008027 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 595494008028 ATP binding site [chemical binding]; other site 595494008029 Mg2+ binding site [ion binding]; other site 595494008030 G-X-G motif; other site 595494008031 fumarate hydratase; Provisional; Region: PRK15389 595494008032 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 595494008033 Fumarase C-terminus; Region: Fumerase_C; cl00795 595494008034 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 595494008035 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 595494008036 transmembrane helices; other site 595494008037 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 595494008038 putative active site [active] 595494008039 putative FMN binding site [chemical binding]; other site 595494008040 putative substrate binding site [chemical binding]; other site 595494008041 putative catalytic residue [active] 595494008042 FMN-binding domain; Region: FMN_bind; cl01081 595494008043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494008044 FAD binding domain; Region: FAD_binding_2; pfam00890 595494008045 ApbE family; Region: ApbE; cl00643 595494008046 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 595494008047 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 595494008048 active site 595494008049 phosphorylation site [posttranslational modification] 595494008050 intermolecular recognition site; other site 595494008051 dimerization interface [polypeptide binding]; other site 595494008052 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 595494008053 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 595494008054 Walker A/P-loop; other site 595494008055 ATP binding site [chemical binding]; other site 595494008056 Q-loop/lid; other site 595494008057 ABC transporter signature motif; other site 595494008058 Walker B; other site 595494008059 D-loop; other site 595494008060 H-loop/switch region; other site 595494008061 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 595494008062 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 595494008063 dimer interface [polypeptide binding]; other site 595494008064 conserved gate region; other site 595494008065 putative PBP binding loops; other site 595494008066 ABC-ATPase subunit interface; other site 595494008067 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 595494008068 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 595494008069 Nitrogen regulatory protein P-II; Region: P-II; cl00412 595494008070 Uncharacterised protein family (UPF0231); Region: UPF0231; cl11474 595494008071 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 595494008072 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 595494008073 substrate binding site [chemical binding]; other site 595494008074 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 595494008075 substrate binding site [chemical binding]; other site 595494008076 ligand binding site [chemical binding]; other site 595494008077 CrcB-like protein; Region: CRCB; cl09114 595494008078 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 595494008079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494008080 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 595494008081 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 595494008082 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 595494008083 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 595494008084 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 595494008085 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 595494008086 Protein export membrane protein; Region: SecD_SecF; cl14618 595494008087 Chromate transporter; Region: Chromate_transp; pfam02417 595494008088 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 595494008089 Chromate transporter; Region: Chromate_transp; pfam02417 595494008090 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 595494008091 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 595494008092 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 595494008093 DNA-binding site [nucleotide binding]; DNA binding site 595494008094 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 595494008095 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494008096 homodimer interface [polypeptide binding]; other site 595494008097 catalytic residue [active] 595494008098 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 595494008099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494008100 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 595494008101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494008102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494008103 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 595494008104 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 595494008105 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 595494008106 E3 interaction surface; other site 595494008107 lipoyl attachment site [posttranslational modification]; other site 595494008108 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 595494008109 E3 interaction surface; other site 595494008110 lipoyl attachment site [posttranslational modification]; other site 595494008111 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 595494008112 E3 interaction surface; other site 595494008113 lipoyl attachment site [posttranslational modification]; other site 595494008114 e3 binding domain; Region: E3_binding; pfam02817 595494008115 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 595494008116 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 595494008117 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 595494008118 dimer interface [polypeptide binding]; other site 595494008119 TPP-binding site [chemical binding]; other site 595494008120 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 595494008121 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 595494008122 DNA-binding site [nucleotide binding]; DNA binding site 595494008123 FCD domain; Region: FCD; cl11656 595494008124 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 595494008125 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 595494008126 Glycerate kinase family; Region: Gly_kinase; cl00841 595494008127 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 595494008128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494008129 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 595494008130 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 595494008131 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 595494008132 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 595494008133 active site 595494008134 tetramer interface [polypeptide binding]; other site 595494008135 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 595494008136 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 595494008137 active site 595494008138 tetramer interface [polypeptide binding]; other site 595494008139 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 595494008140 D-galactonate transporter; Region: 2A0114; TIGR00893 595494008141 putative substrate translocation pore; other site 595494008142 galactarate dehydratase; Region: galactar-dH20; TIGR03248 595494008143 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 595494008144 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 595494008145 substrate binding site [chemical binding]; other site 595494008146 amidase catalytic site [active] 595494008147 Zn binding residues [ion binding]; other site 595494008148 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 595494008149 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 595494008150 dimerization interface [polypeptide binding]; other site 595494008151 active site 595494008152 sugar phosphate phosphatase; Provisional; Region: PRK10513 595494008153 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 595494008154 active site 595494008155 motif I; other site 595494008156 motif II; other site 595494008157 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 595494008158 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 595494008159 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 595494008160 IHF dimer interface [polypeptide binding]; other site 595494008161 IHF - DNA interface [nucleotide binding]; other site 595494008162 Protein of unknown function (DUF416); Region: DUF416; cl01166 595494008163 putative peptidase; Provisional; Region: PRK11649 595494008164 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 595494008165 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 595494008166 substrate binding site [chemical binding]; other site 595494008167 active site 595494008168 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; cl11478 595494008169 DNA repair protein RadA; Provisional; Region: PRK11823 595494008170 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 595494008171 Walker A motif/ATP binding site; other site 595494008172 ATP binding site [chemical binding]; other site 595494008173 Walker B motif; other site 595494008174 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 595494008175 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 595494008176 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 595494008177 motif II; other site 595494008178 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 595494008179 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 595494008180 Sulfatase; Region: Sulfatase; cl10460 595494008181 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 595494008182 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 595494008183 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 595494008184 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 595494008185 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 595494008186 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 595494008187 intersubunit interface [polypeptide binding]; other site 595494008188 catalytic residue [active] 595494008189 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 595494008190 active site 595494008191 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 595494008192 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 595494008193 G1 box; other site 595494008194 putative GEF interaction site [polypeptide binding]; other site 595494008195 GTP/Mg2+ binding site [chemical binding]; other site 595494008196 Switch I region; other site 595494008197 G2 box; other site 595494008198 G3 box; other site 595494008199 Switch II region; other site 595494008200 G4 box; other site 595494008201 G5 box; other site 595494008202 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 595494008203 Uncharacterized conserved protein [Function unknown]; Region: COG1284 595494008204 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 595494008205 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 595494008206 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 595494008207 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 595494008208 exoribonuclease R; Provisional; Region: PRK11642 595494008209 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 595494008210 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 595494008211 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 595494008212 RNB domain; Region: RNB; pfam00773 595494008213 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 595494008214 RNA binding site [nucleotide binding]; other site 595494008215 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 595494008216 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494008217 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 595494008218 dimerization interface [polypeptide binding]; other site 595494008219 Cytochrome b562; Region: Cytochrom_B562; cl01546 595494008220 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 595494008221 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 595494008222 active site 595494008223 HIGH motif; other site 595494008224 dimer interface [polypeptide binding]; other site 595494008225 KMSKS motif; other site 595494008226 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 595494008227 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 595494008228 active site 595494008229 motif I; other site 595494008230 motif II; other site 595494008231 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 595494008232 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 595494008233 substrate binding site [chemical binding]; other site 595494008234 hexamer interface [polypeptide binding]; other site 595494008235 metal binding site [ion binding]; metal-binding site 595494008236 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 595494008237 hypothetical protein; Reviewed; Region: PRK11901 595494008238 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 595494008239 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 595494008240 active site 595494008241 dimer interface [polypeptide binding]; other site 595494008242 metal binding site [ion binding]; metal-binding site 595494008243 shikimate kinase; Reviewed; Region: aroK; PRK00131 595494008244 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 595494008245 ADP binding site [chemical binding]; other site 595494008246 magnesium binding site [ion binding]; other site 595494008247 putative shikimate binding site; other site 595494008248 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 595494008249 dihydrodipicolinate synthase; Region: dapA; TIGR00674 595494008250 dimer interface [polypeptide binding]; other site 595494008251 active site 595494008252 catalytic residue [active] 595494008253 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 595494008254 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 595494008255 active site 595494008256 motif I; other site 595494008257 motif II; other site 595494008258 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 595494008259 Sm1 motif; other site 595494008260 D3 - B interaction site; other site 595494008261 D1 - D2 interaction site; other site 595494008262 Hfq - Hfq interaction site; other site 595494008263 RNA binding pocket [nucleotide binding]; other site 595494008264 Sm2 motif; other site 595494008265 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 595494008266 Transglycosylase; Region: Transgly; cl07896 595494008267 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 595494008268 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 595494008269 Competence protein A; Region: Competence_A; pfam11104 595494008270 catalytic site [active] 595494008271 metal binding site [ion binding]; metal-binding site 595494008272 Cell division protein FtsA; Region: FtsA; cl11496 595494008273 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 595494008274 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 595494008275 Pilus assembly protein, PilO; Region: PilO; cl01234 595494008276 Pilus assembly protein, PilP; Region: PilP; cl01235 595494008277 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 595494008278 Secretin and TonB N terminus short domain; Region: STN; cl06624 595494008279 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 595494008280 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 595494008281 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 595494008282 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 595494008283 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 595494008284 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 595494008285 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 595494008286 ligand binding site; other site 595494008287 oligomer interface; other site 595494008288 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 595494008289 N-terminal domain interface [polypeptide binding]; other site 595494008290 sulfate 1 binding site; other site 595494008291 glycogen synthase; Provisional; Region: glgA; PRK00654 595494008292 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 595494008293 ADP-binding pocket [chemical binding]; other site 595494008294 homodimer interface [polypeptide binding]; other site 595494008295 TRAM domain; Region: TRAM; cl01282 595494008296 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 595494008297 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 595494008298 S-adenosylmethionine binding site [chemical binding]; other site 595494008299 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 595494008300 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 595494008301 active site 595494008302 catalytic residues [active] 595494008303 galactokinase; Provisional; Region: PRK05101 595494008304 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 595494008305 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 595494008306 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 595494008307 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 595494008308 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 595494008309 dimer interface [polypeptide binding]; other site 595494008310 active site 595494008311 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 595494008312 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 595494008313 NAD binding site [chemical binding]; other site 595494008314 homodimer interface [polypeptide binding]; other site 595494008315 active site 595494008316 substrate binding site [chemical binding]; other site 595494008317 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 595494008318 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494008319 DNA binding site [nucleotide binding] 595494008320 domain linker motif; other site 595494008321 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 595494008322 dimerization interface (closed form) [polypeptide binding]; other site 595494008323 ligand binding site [chemical binding]; other site 595494008324 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 595494008325 TM-ABC transporter signature motif; other site 595494008326 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 595494008327 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 595494008328 Walker A/P-loop; other site 595494008329 ATP binding site [chemical binding]; other site 595494008330 Q-loop/lid; other site 595494008331 ABC transporter signature motif; other site 595494008332 Walker B; other site 595494008333 D-loop; other site 595494008334 H-loop/switch region; other site 595494008335 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 595494008336 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 595494008337 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 595494008338 ligand binding site [chemical binding]; other site 595494008339 calcium binding site [ion binding]; other site 595494008340 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 595494008341 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 595494008342 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 595494008343 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 595494008344 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 595494008345 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 595494008346 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 595494008347 putative dimer interface [polypeptide binding]; other site 595494008348 [2Fe-2S] cluster binding site [ion binding]; other site 595494008349 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 595494008350 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 595494008351 SLBB domain; Region: SLBB; pfam10531 595494008352 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 595494008353 NADH dehydrogenase subunit G; Validated; Region: PRK08166 595494008354 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 595494008355 catalytic loop [active] 595494008356 iron binding site [ion binding]; other site 595494008357 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 595494008358 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 595494008359 [4Fe-4S] binding site [ion binding]; other site 595494008360 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 595494008361 NADH dehydrogenase; Region: NADHdh; cl00469 595494008362 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 595494008363 4Fe-4S binding domain; Region: Fer4; cl02805 595494008364 4Fe-4S binding domain; Region: Fer4; cl02805 595494008365 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 595494008366 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 595494008367 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 595494008368 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 595494008369 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 595494008370 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 595494008371 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 595494008372 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 595494008373 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00200 595494008374 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 595494008375 Predicted transcriptional regulators [Transcription]; Region: COG1725 595494008376 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 595494008377 DNA-binding site [nucleotide binding]; DNA binding site 595494008378 UTRA domain; Region: UTRA; cl01230 595494008379 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 595494008380 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 595494008381 dimer interface [polypeptide binding]; other site 595494008382 active site 595494008383 metal binding site [ion binding]; metal-binding site 595494008384 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 595494008385 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 595494008386 NAD binding site [chemical binding]; other site 595494008387 sugar binding site [chemical binding]; other site 595494008388 divalent metal binding site [ion binding]; other site 595494008389 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 595494008390 dimer interface [polypeptide binding]; other site 595494008391 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 595494008392 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494008393 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 595494008394 active site turn [active] 595494008395 phosphorylation site [posttranslational modification] 595494008396 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 595494008397 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 595494008398 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 595494008399 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 595494008400 ATP binding site [chemical binding]; other site 595494008401 Mg++ binding site [ion binding]; other site 595494008402 motif III; other site 595494008403 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 595494008404 nucleotide binding region [chemical binding]; other site 595494008405 ATP-binding site [chemical binding]; other site 595494008406 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 595494008407 catalytic residues [active] 595494008408 transcription termination factor Rho; Provisional; Region: rho; PRK09376 595494008409 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 595494008410 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 595494008411 RNA binding site [nucleotide binding]; other site 595494008412 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 595494008413 multimer interface [polypeptide binding]; other site 595494008414 Walker A motif; other site 595494008415 ATP binding site [chemical binding]; other site 595494008416 Walker B motif; other site 595494008417 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 595494008418 putative active site [active] 595494008419 putative metal binding residues [ion binding]; other site 595494008420 signature motif; other site 595494008421 putative triphosphate binding site [ion binding]; other site 595494008422 CHAD domain; Region: CHAD; cl10506 595494008423 protein secretion protein GspB; Provisional; Region: PRK09697 595494008424 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 595494008425 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 595494008426 Walker A motif; other site 595494008427 ATP binding site [chemical binding]; other site 595494008428 Walker B motif; other site 595494008429 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 595494008430 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 595494008431 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 595494008432 active site 595494008433 NTP binding site [chemical binding]; other site 595494008434 metal binding triad [ion binding]; metal-binding site 595494008435 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 595494008436 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 595494008437 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 595494008438 catalytic center binding site [active] 595494008439 ATP binding site [chemical binding]; other site 595494008440 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 595494008441 homooctamer interface [polypeptide binding]; other site 595494008442 active site 595494008443 Domain of unknown function (DUF205); Region: DUF205; cl00410 595494008444 UGMP family protein; Validated; Region: PRK09604 595494008445 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 595494008446 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 595494008447 DNA primase; Validated; Region: dnaG; PRK05667 595494008448 CHC2 zinc finger; Region: zf-CHC2; cl15369 595494008449 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 595494008450 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 595494008451 active site 595494008452 metal binding site [ion binding]; metal-binding site 595494008453 interdomain interaction site; other site 595494008454 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 595494008455 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 595494008456 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 595494008457 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 595494008458 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 595494008459 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 595494008460 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 595494008461 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 595494008462 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 595494008463 DNA binding residues [nucleotide binding] 595494008464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 595494008465 CHC2 zinc finger; Region: zf-CHC2; cl15369 595494008466 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 595494008467 active site 595494008468 metal binding site [ion binding]; metal-binding site 595494008469 interdomain interaction site; other site 595494008470 Domain of unknown function (DUF927); Region: DUF927; cl12098 595494008471 AntA/AntB antirepressor; Region: AntA; cl01430 595494008472 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 595494008473 integrase; Provisional; Region: PRK09692 595494008474 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 595494008475 active site 595494008476 Int/Topo IB signature motif; other site 595494008477 Integrase core domain; Region: rve; cl01316 595494008478 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 595494008479 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 595494008480 Walker A motif; other site 595494008481 ATP binding site [chemical binding]; other site 595494008482 Walker B motif; other site 595494008483 arginine finger; other site 595494008484 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 595494008485 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 595494008486 MgtC family; Region: MgtC; cl12207 595494008487 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 595494008488 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 595494008489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494008490 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 595494008491 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 595494008492 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 595494008493 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 595494008494 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 595494008495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494008496 homodimer interface [polypeptide binding]; other site 595494008497 catalytic residue [active] 595494008498 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 595494008499 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 595494008500 putative FMN binding site [chemical binding]; other site 595494008501 protease 4; Provisional; Region: PRK10949 595494008502 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 595494008503 tandem repeat interface [polypeptide binding]; other site 595494008504 oligomer interface [polypeptide binding]; other site 595494008505 active site residues [active] 595494008506 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 595494008507 tandem repeat interface [polypeptide binding]; other site 595494008508 oligomer interface [polypeptide binding]; other site 595494008509 active site residues [active] 595494008510 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 595494008511 active site 595494008512 homodimer interface [polypeptide binding]; other site 595494008513 SelR domain; Region: SelR; cl00369 595494008514 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 595494008515 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 595494008516 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 595494008517 glycogen branching enzyme; Provisional; Region: PRK05402 595494008518 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 595494008519 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 595494008520 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 595494008521 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 595494008522 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 595494008523 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 595494008524 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 595494008525 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 595494008526 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 595494008527 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 595494008528 active site 595494008529 phosphate binding residues; other site 595494008530 catalytic residues [active] 595494008531 Quinolinate synthetase A protein; Region: NadA; cl00420 595494008532 tol-pal system protein YbgF; Provisional; Region: PRK10803 595494008533 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 595494008534 binding surface 595494008535 TPR motif; other site 595494008536 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 595494008537 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 595494008538 ligand binding site [chemical binding]; other site 595494008539 translocation protein TolB; Provisional; Region: tolB; PRK04792 595494008540 TolB amino-terminal domain; Region: TolB_N; cl00639 595494008541 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 595494008542 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 595494008543 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 595494008544 Gram-negative bacterial tonB protein; Region: TonB; cl10048 595494008545 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 595494008546 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 595494008547 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 595494008548 active site 595494008549 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 595494008550 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 595494008551 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 595494008552 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 595494008553 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 595494008554 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 595494008555 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 595494008556 Walker A motif; other site 595494008557 ATP binding site [chemical binding]; other site 595494008558 Walker B motif; other site 595494008559 arginine finger; other site 595494008560 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 595494008561 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 595494008562 RuvA N terminal domain; Region: RuvA_N; pfam01330 595494008563 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 595494008564 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 595494008565 active site 595494008566 putative DNA-binding cleft [nucleotide binding]; other site 595494008567 dimer interface [polypeptide binding]; other site 595494008568 Domain of unknown function DUF28; Region: DUF28; cl00361 595494008569 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 595494008570 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 595494008571 dimer interface [polypeptide binding]; other site 595494008572 anticodon binding site; other site 595494008573 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 595494008574 homodimer interface [polypeptide binding]; other site 595494008575 motif 1; other site 595494008576 active site 595494008577 motif 2; other site 595494008578 GAD domain; Region: GAD; pfam02938 595494008579 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 595494008580 active site 595494008581 motif 3; other site 595494008582 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 595494008583 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 595494008584 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 595494008585 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 595494008586 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 595494008587 FeS/SAM binding site; other site 595494008588 TRAM domain; Region: TRAM; cl01282 595494008589 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 595494008590 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494008591 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 595494008592 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 595494008593 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 595494008594 Transporter associated domain; Region: CorC_HlyC; cl08393 595494008595 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 595494008596 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 595494008597 putative active site [active] 595494008598 catalytic triad [active] 595494008599 putative dimer interface [polypeptide binding]; other site 595494008600 beta-phosphoglucomutase; Region: bPGM; TIGR01990 595494008601 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 595494008602 motif II; other site 595494008603 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 595494008604 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 595494008605 FMN binding site [chemical binding]; other site 595494008606 active site 595494008607 catalytic residues [active] 595494008608 substrate binding site [chemical binding]; other site 595494008609 alanine racemase; Reviewed; Region: alr; PRK00053 595494008610 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 595494008611 active site 595494008612 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 595494008613 substrate binding site [chemical binding]; other site 595494008614 catalytic residues [active] 595494008615 dimer interface [polypeptide binding]; other site 595494008616 replicative DNA helicase; Provisional; Region: PRK08006 595494008617 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 595494008618 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 595494008619 Walker A motif; other site 595494008620 ATP binding site [chemical binding]; other site 595494008621 Walker B motif; other site 595494008622 DNA binding loops [nucleotide binding] 595494008623 Global regulator protein family; Region: CsrA; cl00670 595494008624 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 595494008625 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 595494008626 motif 1; other site 595494008627 active site 595494008628 motif 2; other site 595494008629 motif 3; other site 595494008630 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 595494008631 DHHA1 domain; Region: DHHA1; pfam02272 595494008632 RecX family; Region: RecX; cl00936 595494008633 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 595494008634 protein RecA; Region: tigrfam_recA; TIGR02012 595494008635 hexamer interface [polypeptide binding]; other site 595494008636 Walker A motif; other site 595494008637 ATP binding site [chemical binding]; other site 595494008638 Walker B motif; other site 595494008639 Competence-damaged protein; Region: CinA; cl00666 595494008640 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 595494008641 MutS domain I; Region: MutS_I; pfam01624 595494008642 MutS domain II; Region: MutS_II; pfam05188 595494008643 MutS family domain IV; Region: MutS_IV; pfam05190 595494008644 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 595494008645 Walker A/P-loop; other site 595494008646 ATP binding site [chemical binding]; other site 595494008647 Q-loop/lid; other site 595494008648 ABC transporter signature motif; other site 595494008649 Walker B; other site 595494008650 D-loop; other site 595494008651 H-loop/switch region; other site 595494008652 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 595494008653 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 595494008654 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 595494008655 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 595494008656 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 595494008657 DNA binding residues [nucleotide binding] 595494008658 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 595494008659 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 595494008660 putative peptidoglycan binding site; other site 595494008661 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 595494008662 putative peptidoglycan binding site; other site 595494008663 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; cl12011 595494008664 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 595494008665 Survival protein SurE; Region: SurE; cl00448 595494008666 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 595494008667 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 595494008668 Permutation of conserved domain; other site 595494008669 active site 595494008670 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 595494008671 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 595494008672 homotrimer interaction site [polypeptide binding]; other site 595494008673 zinc binding site [ion binding]; other site 595494008674 CDP-binding sites; other site 595494008675 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 595494008676 substrate binding site; other site 595494008677 dimer interface; other site 595494008678 Septum formation initiator; Region: DivIC; cl11433 595494008679 enolase; Provisional; Region: eno; PRK00077 595494008680 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 595494008681 dimer interface [polypeptide binding]; other site 595494008682 metal binding site [ion binding]; metal-binding site 595494008683 substrate binding pocket [chemical binding]; other site 595494008684 CTP synthetase; Validated; Region: pyrG; PRK05380 595494008685 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 595494008686 Catalytic site [active] 595494008687 active site 595494008688 UTP binding site [chemical binding]; other site 595494008689 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 595494008690 active site 595494008691 putative oxyanion hole; other site 595494008692 catalytic triad [active] 595494008693 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 595494008694 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 595494008695 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 595494008696 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 595494008697 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 595494008698 synthetase active site [active] 595494008699 NTP binding site [chemical binding]; other site 595494008700 metal binding site [ion binding]; metal-binding site 595494008701 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 595494008702 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 595494008703 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 595494008704 TRAM domain; Region: TRAM; cl01282 595494008705 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 595494008706 S-adenosylmethionine binding site [chemical binding]; other site 595494008707 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 595494008708 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 595494008709 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 595494008710 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 595494008711 dimer interface [polypeptide binding]; other site 595494008712 phosphorylation site [posttranslational modification] 595494008713 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 595494008714 ATP binding site [chemical binding]; other site 595494008715 Mg2+ binding site [ion binding]; other site 595494008716 G-X-G motif; other site 595494008717 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 595494008718 active site 595494008719 phosphorylation site [posttranslational modification] 595494008720 intermolecular recognition site; other site 595494008721 dimerization interface [polypeptide binding]; other site 595494008722 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 595494008723 putative binding surface; other site 595494008724 active site 595494008725 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 595494008726 putative acyl-acceptor binding pocket; other site 595494008727 LysE type translocator; Region: LysE; cl00565 595494008728 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 595494008729 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 595494008730 DNA-binding site [nucleotide binding]; DNA binding site 595494008731 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 595494008732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494008733 homodimer interface [polypeptide binding]; other site 595494008734 catalytic residue [active] 595494008735 Uncharacterised protein family (UPF0270); Region: UPF0270; cl01180 595494008736 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 595494008737 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 595494008738 ligand binding site [chemical binding]; other site 595494008739 flexible hinge region; other site 595494008740 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 595494008741 putative switch regulator; other site 595494008742 non-specific DNA interactions [nucleotide binding]; other site 595494008743 DNA binding site [nucleotide binding] 595494008744 sequence specific DNA binding site [nucleotide binding]; other site 595494008745 putative cAMP binding site [chemical binding]; other site 595494008746 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 595494008747 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 595494008748 inhibitor-cofactor binding pocket; inhibition site 595494008749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494008750 catalytic residue [active] 595494008751 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 595494008752 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 595494008753 glutamine binding [chemical binding]; other site 595494008754 catalytic triad [active] 595494008755 hypothetical protein; Provisional; Region: PRK01617 595494008756 SEC-C motif; Region: SEC-C; pfam02810 595494008757 SEC-C motif; Region: SEC-C; pfam02810 595494008758 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 595494008759 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 595494008760 active site 595494008761 metal binding site [ion binding]; metal-binding site 595494008762 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 595494008763 metabolite-proton symporter; Region: 2A0106; TIGR00883 595494008764 putative substrate translocation pore; other site 595494008765 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 595494008766 Protein of unknown function (DUF904); Region: DUF904; cl11531 595494008767 serine acetyltransferase; Provisional; Region: cysE; PRK11132 595494008768 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 595494008769 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 595494008770 trimer interface [polypeptide binding]; other site 595494008771 active site 595494008772 substrate binding site [chemical binding]; other site 595494008773 CoA binding site [chemical binding]; other site 595494008774 Cation efflux family; Region: Cation_efflux; cl00316 595494008775 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 595494008776 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 595494008777 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 595494008778 dimer interface [polypeptide binding]; other site 595494008779 conserved gate region; other site 595494008780 putative PBP binding loops; other site 595494008781 ABC-ATPase subunit interface; other site 595494008782 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 595494008783 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 595494008784 dimer interface [polypeptide binding]; other site 595494008785 conserved gate region; other site 595494008786 putative PBP binding loops; other site 595494008787 ABC-ATPase subunit interface; other site 595494008788 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 595494008789 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 595494008790 Walker A/P-loop; other site 595494008791 ATP binding site [chemical binding]; other site 595494008792 Q-loop/lid; other site 595494008793 ABC transporter signature motif; other site 595494008794 Walker B; other site 595494008795 D-loop; other site 595494008796 H-loop/switch region; other site 595494008797 TOBE domain; Region: TOBE_2; cl01440 595494008798 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 595494008799 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 595494008800 hypothetical protein; Provisional; Region: PRK10756 595494008801 CreA protein; Region: CreA; pfam05981 595494008802 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 595494008803 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 595494008804 Clp amino terminal domain; Region: Clp_N; pfam02861 595494008805 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 595494008806 Walker A motif; other site 595494008807 ATP binding site [chemical binding]; other site 595494008808 Walker B motif; other site 595494008809 arginine finger; other site 595494008810 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 595494008811 Walker A motif; other site 595494008812 ATP binding site [chemical binding]; other site 595494008813 Walker B motif; other site 595494008814 arginine finger; other site 595494008815 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 595494008816 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 595494008817 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 595494008818 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 595494008819 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 595494008820 RNA binding surface [nucleotide binding]; other site 595494008821 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 595494008822 active site 595494008823 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 595494008824 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 595494008825 active site 595494008826 dimer interfaces [polypeptide binding]; other site 595494008827 catalytic residues [active] 595494008828 elongation factor Tu; Reviewed; Region: PRK00049 595494008829 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 595494008830 G1 box; other site 595494008831 GEF interaction site [polypeptide binding]; other site 595494008832 GTP/Mg2+ binding site [chemical binding]; other site 595494008833 Switch I region; other site 595494008834 G2 box; other site 595494008835 G3 box; other site 595494008836 Switch II region; other site 595494008837 G4 box; other site 595494008838 G5 box; other site 595494008839 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 595494008840 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 595494008841 Antibiotic Binding Site [chemical binding]; other site 595494008842 elongation factor G; Reviewed; Region: PRK00007 595494008843 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 595494008844 G1 box; other site 595494008845 putative GEF interaction site [polypeptide binding]; other site 595494008846 GTP/Mg2+ binding site [chemical binding]; other site 595494008847 Switch I region; other site 595494008848 G2 box; other site 595494008849 G3 box; other site 595494008850 Switch II region; other site 595494008851 G4 box; other site 595494008852 G5 box; other site 595494008853 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 595494008854 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 595494008855 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 595494008856 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 595494008857 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 595494008858 S17 interaction site [polypeptide binding]; other site 595494008859 S8 interaction site; other site 595494008860 16S rRNA interaction site [nucleotide binding]; other site 595494008861 streptomycin interaction site [chemical binding]; other site 595494008862 23S rRNA interaction site [nucleotide binding]; other site 595494008863 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 595494008864 DsrE/DsrF-like family; Region: DrsE; cl00672 595494008865 DsrE/DsrF-like family; Region: DrsE; cl00672 595494008866 DsrE/DsrF-like family; Region: DrsE; cl00672 595494008867 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 595494008868 homotrimer interaction site [polypeptide binding]; other site 595494008869 putative active site [active] 595494008870 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 595494008871 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 595494008872 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 595494008873 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 595494008874 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 595494008875 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 595494008876 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 595494008877 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 595494008878 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 595494008879 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 595494008880 DNA binding site [nucleotide binding] 595494008881 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 595494008882 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 595494008883 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 595494008884 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 595494008885 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 595494008886 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 595494008887 RPB11 interaction site [polypeptide binding]; other site 595494008888 RPB12 interaction site [polypeptide binding]; other site 595494008889 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 595494008890 RPB3 interaction site [polypeptide binding]; other site 595494008891 RPB1 interaction site [polypeptide binding]; other site 595494008892 RPB11 interaction site [polypeptide binding]; other site 595494008893 RPB10 interaction site [polypeptide binding]; other site 595494008894 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 595494008895 core dimer interface [polypeptide binding]; other site 595494008896 peripheral dimer interface [polypeptide binding]; other site 595494008897 L10 interface [polypeptide binding]; other site 595494008898 L11 interface [polypeptide binding]; other site 595494008899 putative EF-Tu interaction site [polypeptide binding]; other site 595494008900 putative EF-G interaction site [polypeptide binding]; other site 595494008901 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 595494008902 23S rRNA interface [nucleotide binding]; other site 595494008903 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 595494008904 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 595494008905 mRNA/rRNA interface [nucleotide binding]; other site 595494008906 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 595494008907 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 595494008908 23S rRNA interface [nucleotide binding]; other site 595494008909 L7/L12 interface [polypeptide binding]; other site 595494008910 putative thiostrepton binding site; other site 595494008911 L25 interface [polypeptide binding]; other site 595494008912 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 595494008913 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 595494008914 putative homodimer interface [polypeptide binding]; other site 595494008915 KOW motif; Region: KOW; cl00354 595494008916 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 595494008917 elongation factor Tu; Reviewed; Region: PRK00049 595494008918 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 595494008919 G1 box; other site 595494008920 GEF interaction site [polypeptide binding]; other site 595494008921 GTP/Mg2+ binding site [chemical binding]; other site 595494008922 Switch I region; other site 595494008923 G2 box; other site 595494008924 G3 box; other site 595494008925 Switch II region; other site 595494008926 G4 box; other site 595494008927 G5 box; other site 595494008928 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 595494008929 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 595494008930 Antibiotic Binding Site [chemical binding]; other site 595494008931 pantothenate kinase; Provisional; Region: PRK05439 595494008932 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 595494008933 ATP-binding site [chemical binding]; other site 595494008934 CoA-binding site [chemical binding]; other site 595494008935 Mg2+-binding site [ion binding]; other site 595494008936 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 595494008937 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494008938 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 595494008939 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 595494008940 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 595494008941 FAD binding domain; Region: FAD_binding_4; pfam01565 595494008942 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 595494008943 signal recognition particle protein; Provisional; Region: PRK10867 595494008944 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 595494008945 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 595494008946 P loop; other site 595494008947 GTP binding site [chemical binding]; other site 595494008948 Signal peptide binding domain; Region: SRP_SPB; pfam02978 595494008949 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 595494008950 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 595494008951 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 595494008952 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 595494008953 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 595494008954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494008955 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 595494008956 Peptidase family M23; Region: Peptidase_M23; pfam01551 595494008957 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 595494008958 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 595494008959 Coenzyme A binding pocket [chemical binding]; other site 595494008960 regulatory ATPase RavA; Provisional; Region: PRK13531 595494008961 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 595494008962 Walker A motif; other site 595494008963 ATP binding site [chemical binding]; other site 595494008964 Walker B motif; other site 595494008965 arginine finger; other site 595494008966 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 595494008967 hypothetical protein; Provisional; Region: yieM; PRK10997 595494008968 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 595494008969 metal ion-dependent adhesion site (MIDAS); other site 595494008970 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 595494008971 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 595494008972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494008973 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 595494008974 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 595494008975 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 595494008976 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 595494008977 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 595494008978 putative substrate translocation pore; other site 595494008979 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 595494008980 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 595494008981 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 595494008982 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 595494008983 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 595494008984 Peptidase family U32; Region: Peptidase_U32; cl03113 595494008985 Collagenase; Region: DUF3656; pfam12392 595494008986 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 595494008987 PAS domain S-box; Region: sensory_box; TIGR00229 595494008988 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 595494008989 putative active site [active] 595494008990 heme pocket [chemical binding]; other site 595494008991 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 595494008992 PAS fold; Region: PAS_3; pfam08447 595494008993 putative active site [active] 595494008994 heme pocket [chemical binding]; other site 595494008995 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 595494008996 putative active site [active] 595494008997 heme pocket [chemical binding]; other site 595494008998 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494008999 metal binding site [ion binding]; metal-binding site 595494009000 active site 595494009001 I-site; other site 595494009002 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 595494009003 putative active site [active] 595494009004 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 595494009005 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 595494009006 ring oligomerisation interface [polypeptide binding]; other site 595494009007 ATP/Mg binding site [chemical binding]; other site 595494009008 stacking interactions; other site 595494009009 hinge regions; other site 595494009010 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 595494009011 oligomerisation interface [polypeptide binding]; other site 595494009012 mobile loop; other site 595494009013 roof hairpin; other site 595494009014 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 595494009015 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 595494009016 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 595494009017 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 595494009018 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 595494009019 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 595494009020 DsbD alpha interface [polypeptide binding]; other site 595494009021 catalytic residues [active] 595494009022 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 595494009023 GIY-YIG motif/motif A; other site 595494009024 putative active site [active] 595494009025 putative metal binding site [ion binding]; other site 595494009026 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 595494009027 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 595494009028 hypothetical protein; Provisional; Region: PRK11032 595494009029 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 595494009030 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 595494009031 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 595494009032 HIGH motif; other site 595494009033 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 595494009034 active site 595494009035 KMSKS motif; other site 595494009036 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 595494009037 tRNA binding surface [nucleotide binding]; other site 595494009038 Lipopolysaccharide-assembly; Region: LptE; cl01125 595494009039 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 595494009040 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 595494009041 Domain of unknown function DUF143; Region: DUF143; cl00519 595494009042 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 595494009043 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 595494009044 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 595494009045 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 595494009046 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 595494009047 lytic murein transglycosylase; Region: MltB_2; TIGR02283 595494009048 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 595494009049 N-acetyl-D-glucosamine binding site [chemical binding]; other site 595494009050 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 595494009051 rare lipoprotein A; Provisional; Region: PRK10672 595494009052 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 595494009053 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 595494009054 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 595494009055 Protein of unknown function (DUF493); Region: DUF493; cl01102 595494009056 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 595494009057 lipoyl synthase; Provisional; Region: PRK05481 595494009058 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 595494009059 FeS/SAM binding site; other site 595494009060 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 595494009061 putative active site [active] 595494009062 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 595494009063 GAF domain; Region: GAF; cl00853 595494009064 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 595494009065 Walker A motif; other site 595494009066 ATP binding site [chemical binding]; other site 595494009067 Walker B motif; other site 595494009068 arginine finger; other site 595494009069 CHASE4 domain; Region: CHASE4; cl01308 595494009070 sensory histidine kinase AtoS; Provisional; Region: PRK11360 595494009071 PAS domain S-box; Region: sensory_box; TIGR00229 595494009072 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 595494009073 putative active site [active] 595494009074 heme pocket [chemical binding]; other site 595494009075 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494009076 metal binding site [ion binding]; metal-binding site 595494009077 active site 595494009078 I-site; other site 595494009079 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 595494009080 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 595494009081 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 595494009082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494009083 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 595494009084 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494009085 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 595494009086 Phd_YefM; Region: PhdYeFM; cl09153 595494009087 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 595494009088 Phd_YefM; Region: PhdYeFM; cl09153 595494009089 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 595494009090 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 595494009091 Phd_YefM; Region: PhdYeFM; cl09153 595494009092 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 595494009093 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 595494009094 non-specific DNA binding site [nucleotide binding]; other site 595494009095 salt bridge; other site 595494009096 sequence-specific DNA binding site [nucleotide binding]; other site 595494009097 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 595494009098 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 595494009099 active site 595494009100 substrate binding site [chemical binding]; other site 595494009101 metal binding site [ion binding]; metal-binding site 595494009102 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 595494009103 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 595494009104 putative NAD(P) binding site [chemical binding]; other site 595494009105 active site 595494009106 putative substrate binding site [chemical binding]; other site 595494009107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494009108 active site 595494009109 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 595494009110 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 595494009111 putative active site [active] 595494009112 putative metal binding site [ion binding]; other site 595494009113 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 595494009114 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 595494009115 Ligand binding site; other site 595494009116 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 595494009117 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 595494009118 Ligand binding site; other site 595494009119 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 595494009120 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 595494009121 putative ADP-binding pocket [chemical binding]; other site 595494009122 MatE; Region: MatE; cl10513 595494009123 colanic acid exporter; Provisional; Region: PRK10459 595494009124 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 595494009125 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 595494009126 Mg++ binding site [ion binding]; other site 595494009127 putative catalytic motif [active] 595494009128 substrate binding site [chemical binding]; other site 595494009129 tyrosine kinase; Provisional; Region: PRK11519 595494009130 Chain length determinant protein; Region: Wzz; cl01623 595494009131 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 595494009132 P loop; other site 595494009133 Nucleotide binding site [chemical binding]; other site 595494009134 DTAP/Switch II; other site 595494009135 Switch I; other site 595494009136 Low molecular weight phosphatase family; Region: LMWPc; cd00115 595494009137 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 595494009138 active site 595494009139 polysaccharide export protein Wza; Provisional; Region: PRK15078 595494009140 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 595494009141 SLBB domain; Region: SLBB; pfam10531 595494009142 SLBB domain; Region: SLBB; pfam10531 595494009143 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 595494009144 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 595494009145 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 595494009146 putative active site [active] 595494009147 metal binding site [ion binding]; metal-binding site 595494009148 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 595494009149 CcdB protein; Region: CcdB; cl03380 595494009150 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 595494009151 Predicted esterase [General function prediction only]; Region: COG0627 595494009152 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 595494009153 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 595494009154 substrate binding site [chemical binding]; other site 595494009155 catalytic Zn binding site [ion binding]; other site 595494009156 NAD binding site [chemical binding]; other site 595494009157 structural Zn binding site [ion binding]; other site 595494009158 dimer interface [polypeptide binding]; other site 595494009159 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494009160 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494009161 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 595494009162 dimerization interface [polypeptide binding]; other site 595494009163 Predicted transcriptional regulator [Transcription]; Region: COG2944 595494009164 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 595494009165 non-specific DNA binding site [nucleotide binding]; other site 595494009166 salt bridge; other site 595494009167 sequence-specific DNA binding site [nucleotide binding]; other site 595494009168 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 595494009169 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 595494009170 Protein of unknown function (DUF423); Region: DUF423; cl01008 595494009171 Glucuronate isomerase; Region: UxaC; cl00829 595494009172 D-mannonate oxidoreductase; Provisional; Region: PRK15037 595494009173 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 595494009174 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 595494009175 mannonate dehydratase; Provisional; Region: PRK03906 595494009176 mannonate dehydratase; Region: uxuA; TIGR00695 595494009177 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 595494009178 D-galactonate transporter; Region: 2A0114; TIGR00893 595494009179 putative substrate translocation pore; other site 595494009180 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 595494009181 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 595494009182 putative active site [active] 595494009183 putative catalytic site [active] 595494009184 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 595494009185 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 595494009186 DNA-binding site [nucleotide binding]; DNA binding site 595494009187 FCD domain; Region: FCD; cl11656 595494009188 putative outer membrane porin protein; Provisional; Region: PRK11379 595494009189 glucuronide transporter; Provisional; Region: PRK09848 595494009190 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 595494009191 glucuronide transporter; Provisional; Region: PRK09848 595494009192 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 595494009193 beta-D-glucuronidase; Provisional; Region: PRK10150 595494009194 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 595494009195 domain; Region: Glyco_hydro_2; pfam00703 595494009196 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 595494009197 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 595494009198 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494009199 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_Chlorocatechol; cd08446 595494009200 dimerization interface [polypeptide binding]; other site 595494009201 putative substrate binding pocket [chemical binding]; other site 595494009202 allophanate hydrolase; Provisional; Region: PRK08186 595494009203 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; cl11426 595494009204 urea carboxylase; Region: urea_carbox; TIGR02712 595494009205 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 595494009206 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 595494009207 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 595494009208 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 595494009209 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 595494009210 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 595494009211 carboxyltransferase (CT) interaction site; other site 595494009212 biotinylation site [posttranslational modification]; other site 595494009213 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 595494009214 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 595494009215 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 595494009216 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 595494009217 Walker A/P-loop; other site 595494009218 ATP binding site [chemical binding]; other site 595494009219 Q-loop/lid; other site 595494009220 ABC transporter signature motif; other site 595494009221 Walker B; other site 595494009222 D-loop; other site 595494009223 H-loop/switch region; other site 595494009224 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 595494009225 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 595494009226 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 595494009227 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 595494009228 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 595494009229 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 595494009230 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 595494009231 motif II; other site 595494009232 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 595494009233 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494009234 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 595494009235 multidrug efflux protein; Reviewed; Region: PRK09579 595494009236 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 595494009237 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 595494009238 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 595494009239 domain; Region: Glyco_hydro_2; pfam00703 595494009240 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 595494009241 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 595494009242 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 595494009243 metal binding triad; other site 595494009244 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 595494009245 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 595494009246 metal binding triad; other site 595494009247 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 595494009248 metal binding site 2 [ion binding]; metal-binding site 595494009249 putative DNA binding helix; other site 595494009250 metal binding site 1 [ion binding]; metal-binding site 595494009251 dimer interface [polypeptide binding]; other site 595494009252 structural Zn2+ binding site [ion binding]; other site 595494009253 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 595494009254 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 595494009255 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 595494009256 ABC-ATPase subunit interface; other site 595494009257 dimer interface [polypeptide binding]; other site 595494009258 putative PBP binding regions; other site 595494009259 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 595494009260 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 595494009261 metal binding site [ion binding]; metal-binding site 595494009262 Pirin-related protein [General function prediction only]; Region: COG1741 595494009263 Cupin domain; Region: Cupin_2; cl09118 595494009264 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 595494009265 RNase E inhibitor protein; Provisional; Region: PRK11191 595494009266 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 595494009267 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 595494009268 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 595494009269 N-acetyl-D-glucosamine binding site [chemical binding]; other site 595494009270 catalytic residue [active] 595494009271 Nitrogen regulatory protein P-II; Region: P-II; cl00412 595494009272 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 595494009273 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 595494009274 23S rRNA interface [nucleotide binding]; other site 595494009275 L3 interface [polypeptide binding]; other site 595494009276 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 595494009277 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 595494009278 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 595494009279 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 595494009280 protein binding site [polypeptide binding]; other site 595494009281 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 595494009282 serine endoprotease; Provisional; Region: PRK10898 595494009283 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 595494009284 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 595494009285 protein binding site [polypeptide binding]; other site 595494009286 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 595494009287 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 595494009288 hinge; other site 595494009289 active site 595494009290 BolA-like protein; Region: BolA; cl00386 595494009291 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 595494009292 anti sigma factor interaction site; other site 595494009293 regulatory phosphorylation site [posttranslational modification]; other site 595494009294 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 595494009295 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 595494009296 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 595494009297 mce related protein; Region: MCE; cl15431 595494009298 Domain of unknown function DUF140; Region: DUF140; cl00510 595494009299 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 595494009300 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 595494009301 Walker A/P-loop; other site 595494009302 ATP binding site [chemical binding]; other site 595494009303 Q-loop/lid; other site 595494009304 ABC transporter signature motif; other site 595494009305 Walker B; other site 595494009306 D-loop; other site 595494009307 H-loop/switch region; other site 595494009308 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 595494009309 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 595494009310 putative active site [active] 595494009311 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 595494009312 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 595494009313 active site 595494009314 motif I; other site 595494009315 motif II; other site 595494009316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 595494009317 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 595494009318 OstA-like protein; Region: OstA; cl00844 595494009319 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 595494009320 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 595494009321 Walker A/P-loop; other site 595494009322 ATP binding site [chemical binding]; other site 595494009323 Q-loop/lid; other site 595494009324 ABC transporter signature motif; other site 595494009325 Walker B; other site 595494009326 D-loop; other site 595494009327 H-loop/switch region; other site 595494009328 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 595494009329 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 595494009330 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 595494009331 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 595494009332 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 595494009333 30S subunit binding site; other site 595494009334 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 595494009335 active site 595494009336 phosphorylation site [posttranslational modification] 595494009337 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 595494009338 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494009339 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 595494009340 dimerization domain swap beta strand [polypeptide binding]; other site 595494009341 regulatory protein interface [polypeptide binding]; other site 595494009342 active site 595494009343 regulatory phosphorylation site [posttranslational modification]; other site 595494009344 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 595494009345 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494009346 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 595494009347 putative dimerization interface [polypeptide binding]; other site 595494009348 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 595494009349 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 595494009350 THF binding site; other site 595494009351 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 595494009352 substrate binding site [chemical binding]; other site 595494009353 THF binding site; other site 595494009354 zinc-binding site [ion binding]; other site 595494009355 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 595494009356 Type II transport protein GspH; Region: GspH; pfam12019 595494009357 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 595494009358 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 595494009359 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 595494009360 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 595494009361 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 595494009362 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 595494009363 LytB protein; Region: LYTB; cl00507 595494009364 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 595494009365 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 595494009366 lipoprotein signal peptidase; Provisional; Region: PRK14787 595494009367 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 595494009368 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 595494009369 active site 595494009370 HIGH motif; other site 595494009371 nucleotide binding site [chemical binding]; other site 595494009372 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 595494009373 active site 595494009374 KMSKS motif; other site 595494009375 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 595494009376 tRNA binding surface [nucleotide binding]; other site 595494009377 anticodon binding site; other site 595494009378 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 595494009379 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 595494009380 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 595494009381 active site 595494009382 Riboflavin kinase; Region: Flavokinase; cl03312 595494009383 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 595494009384 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 595494009385 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 595494009386 dimerization interface [polypeptide binding]; other site 595494009387 putative DNA binding site [nucleotide binding]; other site 595494009388 putative Zn2+ binding site [ion binding]; other site 595494009389 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 595494009390 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494009391 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 595494009392 putative dimerization interface [polypeptide binding]; other site 595494009393 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 595494009394 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 595494009395 dimerization interface [polypeptide binding]; other site 595494009396 active site 595494009397 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 595494009398 GAF domain; Region: GAF; cl00853 595494009399 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 595494009400 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 595494009401 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 595494009402 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 595494009403 putative active site [active] 595494009404 Ap4A binding site [chemical binding]; other site 595494009405 nudix motif; other site 595494009406 putative metal binding site [ion binding]; other site 595494009407 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 595494009408 putative DNA-binding cleft [nucleotide binding]; other site 595494009409 putative DNA clevage site; other site 595494009410 molecular lever; other site 595494009411 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 595494009412 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 595494009413 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 595494009414 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 595494009415 RimM N-terminal domain; Region: RimM; pfam01782 595494009416 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 595494009417 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 595494009418 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 595494009419 RNA/DNA binding site [nucleotide binding]; other site 595494009420 RRM dimerization site [polypeptide binding]; other site 595494009421 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 595494009422 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 595494009423 Phosphotransferase enzyme family; Region: APH; pfam01636 595494009424 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 595494009425 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 595494009426 active site lid residues [active] 595494009427 substrate binding pocket [chemical binding]; other site 595494009428 catalytic residues [active] 595494009429 substrate-Mg2+ binding site; other site 595494009430 aspartate-rich region 1; other site 595494009431 aspartate-rich region 2; other site 595494009432 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 595494009433 FMN reductase; Validated; Region: fre; PRK08051 595494009434 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 595494009435 FAD binding pocket [chemical binding]; other site 595494009436 FAD binding motif [chemical binding]; other site 595494009437 phosphate binding motif [ion binding]; other site 595494009438 beta-alpha-beta structure motif; other site 595494009439 NAD binding pocket [chemical binding]; other site 595494009440 Membrane fusogenic activity; Region: BMFP; cl01115 595494009441 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 595494009442 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 595494009443 ATP binding site [chemical binding]; other site 595494009444 putative Mg++ binding site [ion binding]; other site 595494009445 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 595494009446 nucleotide binding region [chemical binding]; other site 595494009447 ATP-binding site [chemical binding]; other site 595494009448 RQC domain; Region: RQC; cl09632 595494009449 HRDC domain; Region: HRDC; cl02578 595494009450 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 595494009451 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 595494009452 active site 595494009453 P-loop; other site 595494009454 phosphorylation site [posttranslational modification] 595494009455 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494009456 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 595494009457 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 595494009458 methionine cluster; other site 595494009459 active site 595494009460 phosphorylation site [posttranslational modification] 595494009461 metal binding site [ion binding]; metal-binding site 595494009462 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 595494009463 PQ loop repeat; Region: PQ-loop; cl12056 595494009464 Transcriptional regulators [Transcription]; Region: PurR; COG1609 595494009465 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494009466 DNA binding site [nucleotide binding] 595494009467 domain linker motif; other site 595494009468 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 595494009469 dimerization interface (closed form) [polypeptide binding]; other site 595494009470 ligand binding site [chemical binding]; other site 595494009471 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 595494009472 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 595494009473 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 595494009474 endonuclease IV; Provisional; Region: PRK01060 595494009475 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 595494009476 AP (apurinic/apyrimidinic) site pocket; other site 595494009477 DNA interaction; other site 595494009478 Metal-binding active site; metal-binding site 595494009479 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 595494009480 active site 595494009481 P-loop; other site 595494009482 phosphorylation site [posttranslational modification] 595494009483 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 595494009484 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 595494009485 E3 interaction surface; other site 595494009486 lipoyl attachment site [posttranslational modification]; other site 595494009487 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 595494009488 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 595494009489 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 595494009490 FMN-binding domain; Region: FMN_bind; cl01081 595494009491 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 595494009492 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 595494009493 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 595494009494 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 595494009495 FAD binding pocket [chemical binding]; other site 595494009496 FAD binding motif [chemical binding]; other site 595494009497 phosphate binding motif [ion binding]; other site 595494009498 beta-alpha-beta structure motif; other site 595494009499 NAD binding pocket [chemical binding]; other site 595494009500 Protein of unknown function (DUF539); Region: DUF539; cl01129 595494009501 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; cl12011 595494009502 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 595494009503 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 595494009504 active site 595494009505 Zn binding site [ion binding]; other site 595494009506 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 595494009507 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 595494009508 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 595494009509 active site 595494009510 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 595494009511 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 595494009512 domain interface [polypeptide binding]; other site 595494009513 putative active site [active] 595494009514 catalytic site [active] 595494009515 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 595494009516 domain interface [polypeptide binding]; other site 595494009517 putative active site [active] 595494009518 catalytic site [active] 595494009519 Sodium:solute symporter family; Region: SSF; cl00456 595494009520 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 595494009521 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 595494009522 Aspartase; Region: Aspartase; cd01357 595494009523 active sites [active] 595494009524 tetramer interface [polypeptide binding]; other site 595494009525 spermidine synthase; Provisional; Region: PRK00811 595494009526 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 595494009527 S-adenosylmethionine binding site [chemical binding]; other site 595494009528 Entericidin EcnA/B family; Region: Entericidin; cl02322 595494009529 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 595494009530 active site clefts [active] 595494009531 zinc binding site [ion binding]; other site 595494009532 dimer interface [polypeptide binding]; other site 595494009533 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 595494009534 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 595494009535 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 595494009536 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 595494009537 DNA binding residues [nucleotide binding] 595494009538 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 595494009539 FtsX-like permease family; Region: FtsX; pfam02687 595494009540 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 595494009541 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494009542 Walker A/P-loop; other site 595494009543 ATP binding site [chemical binding]; other site 595494009544 Q-loop/lid; other site 595494009545 ABC transporter signature motif; other site 595494009546 Walker B; other site 595494009547 D-loop; other site 595494009548 H-loop/switch region; other site 595494009549 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 595494009550 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 595494009551 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 595494009552 P loop; other site 595494009553 GTP binding site [chemical binding]; other site 595494009554 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 595494009555 S-adenosylmethionine binding site [chemical binding]; other site 595494009556 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 595494009557 exoribonuclease II; Provisional; Region: PRK05054 595494009558 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 595494009559 RNB domain; Region: RNB; pfam00773 595494009560 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 595494009561 dimer interface [polypeptide binding]; other site 595494009562 phosphorylation site [posttranslational modification] 595494009563 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 595494009564 ATP binding site [chemical binding]; other site 595494009565 Mg2+ binding site [ion binding]; other site 595494009566 G-X-G motif; other site 595494009567 osmolarity response regulator; Provisional; Region: ompR; PRK09468 595494009568 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 595494009569 active site 595494009570 phosphorylation site [posttranslational modification] 595494009571 intermolecular recognition site; other site 595494009572 dimerization interface [polypeptide binding]; other site 595494009573 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 595494009574 DNA binding site [nucleotide binding] 595494009575 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 595494009576 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 595494009577 Putative ATPase (DUF699); Region: DUF699; pfam05127 595494009578 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 595494009579 active site 595494009580 motif I; other site 595494009581 motif II; other site 595494009582 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 595494009583 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 595494009584 catalytic residues [active] 595494009585 hinge region; other site 595494009586 alpha helical domain; other site 595494009587 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 595494009588 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 595494009589 DNA-binding site [nucleotide binding]; DNA binding site 595494009590 FCD domain; Region: FCD; cl11656 595494009591 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 595494009592 D-galactonate transporter; Region: 2A0114; TIGR00893 595494009593 putative substrate translocation pore; other site 595494009594 Glucuronate isomerase; Region: UxaC; cl00829 595494009595 altronate oxidoreductase; Provisional; Region: PRK03643 595494009596 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 595494009597 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 595494009598 SAF domain; Region: SAF; cl00555 595494009599 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 595494009600 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 595494009601 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 595494009602 Protein of unknown function (DUF523); Region: DUF523; cl00733 595494009603 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494009604 PAAR motif; Region: PAAR_motif; pfam05488 595494009605 PAAR motif; Region: PAAR_motif; pfam05488 595494009606 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 595494009607 putative active site [active] 595494009608 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 595494009609 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494009610 Domain of unknown function (DUF955); Region: DUF955; cl01076 595494009611 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 595494009612 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 595494009613 Nuclease-related domain; Region: NERD; pfam08378 595494009614 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 595494009615 S-adenosylmethionine binding site [chemical binding]; other site 595494009616 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 595494009617 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 595494009618 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 595494009619 active site 595494009620 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 595494009621 Domain of unknown function (DUF386); Region: DUF386; cl01047 595494009622 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 595494009623 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494009624 Bacterial transcriptional regulator; Region: IclR; pfam01614 595494009625 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 595494009626 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 595494009627 substrate binding site [chemical binding]; other site 595494009628 ATP binding site [chemical binding]; other site 595494009629 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 595494009630 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 595494009631 active site 595494009632 intersubunit interface [polypeptide binding]; other site 595494009633 catalytic residue [active] 595494009634 KduI/IolB family; Region: KduI; cl01508 595494009635 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 595494009636 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 595494009637 NADP binding site [chemical binding]; other site 595494009638 homodimer interface [polypeptide binding]; other site 595494009639 active site 595494009640 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 595494009641 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494009642 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 595494009643 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 595494009644 putative acyl-acceptor binding pocket; other site 595494009645 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 595494009646 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 595494009647 Walker A motif; other site 595494009648 ATP binding site [chemical binding]; other site 595494009649 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 595494009650 Walker B motif; other site 595494009651 arginine finger; other site 595494009652 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 595494009653 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 595494009654 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 595494009655 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 595494009656 Protein of unknown function, DUF486; Region: DUF486; cl01236 595494009657 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 595494009658 Alkaline phosphatase homologues; Region: alkPPc; smart00098 595494009659 active site 595494009660 dimer interface [polypeptide binding]; other site 595494009661 Alkaline phosphatase homologues; Region: alkPPc; smart00098 595494009662 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 595494009663 active site 595494009664 dimer interface [polypeptide binding]; other site 595494009665 Mg chelatase-related protein; Region: TIGR00368 595494009666 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494009667 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494009668 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 595494009669 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 595494009670 conserved cys residue [active] 595494009671 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 595494009672 transcriptional repressor UlaR; Provisional; Region: PRK13509 595494009673 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494009674 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 595494009675 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 595494009676 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 595494009677 AP (apurinic/apyrimidinic) site pocket; other site 595494009678 DNA interaction; other site 595494009679 Metal-binding active site; metal-binding site 595494009680 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 595494009681 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 595494009682 active site 595494009683 motif I; other site 595494009684 motif II; other site 595494009685 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 595494009686 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 595494009687 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 595494009688 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 595494009689 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 595494009690 P-loop; other site 595494009691 active site 595494009692 phosphorylation site [posttranslational modification] 595494009693 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 595494009694 active site 595494009695 phosphorylation site [posttranslational modification] 595494009696 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 595494009697 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 595494009698 intersubunit interface [polypeptide binding]; other site 595494009699 active site 595494009700 Zn2+ binding site [ion binding]; other site 595494009701 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 595494009702 active site 595494009703 dimer interface [polypeptide binding]; other site 595494009704 magnesium binding site [ion binding]; other site 595494009705 transaldolase-like protein; Provisional; Region: PTZ00411 595494009706 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 595494009707 active site 595494009708 dimer interface [polypeptide binding]; other site 595494009709 catalytic residue [active] 595494009710 transketolase; Reviewed; Region: PRK12753 595494009711 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 595494009712 TPP-binding site [chemical binding]; other site 595494009713 dimer interface [polypeptide binding]; other site 595494009714 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 595494009715 PYR/PP interface [polypeptide binding]; other site 595494009716 dimer interface [polypeptide binding]; other site 595494009717 TPP binding site [chemical binding]; other site 595494009718 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 595494009719 Integrase core domain; Region: rve; cl01316 595494009720 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 595494009721 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 595494009722 potential frameshift: common BLAST hit: gi|82703906|ref|YP_413471.1| peptidase C39, bacteriocin processing 595494009723 RHS Repeat; Region: RHS_repeat; cl11982 595494009724 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 595494009725 RHS Repeat; Region: RHS_repeat; cl11982 595494009726 RHS Repeat; Region: RHS_repeat; cl11982 595494009727 RHS Repeat; Region: RHS_repeat; cl11982 595494009728 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 595494009729 potential frameshift: common BLAST hit: gi|17548372|ref|NP_521712.1| putative RHS-related protein 595494009730 tetratricopeptide repeat protein; Provisional; Region: PRK11788 595494009731 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 595494009732 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 595494009733 putative active site [active] 595494009734 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 595494009735 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 595494009736 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 595494009737 putative metal binding site [ion binding]; other site 595494009738 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 595494009739 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 595494009740 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 595494009741 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 595494009742 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 595494009743 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 595494009744 N- and C-terminal domain interface [polypeptide binding]; other site 595494009745 D-xylulose kinase; Region: XylB; TIGR01312 595494009746 active site 595494009747 catalytic site [active] 595494009748 metal binding site [ion binding]; metal-binding site 595494009749 xylulose binding site [chemical binding]; other site 595494009750 putative ATP binding site [chemical binding]; other site 595494009751 homodimer interface [polypeptide binding]; other site 595494009752 polyol permease family; Region: 2A0118; TIGR00897 595494009753 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 595494009754 putative substrate translocation pore; other site 595494009755 transaldolase-like protein; Provisional; Region: PTZ00411 595494009756 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 595494009757 active site 595494009758 dimer interface [polypeptide binding]; other site 595494009759 catalytic residue [active] 595494009760 transketolase; Reviewed; Region: PRK12753 595494009761 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 595494009762 TPP-binding site [chemical binding]; other site 595494009763 dimer interface [polypeptide binding]; other site 595494009764 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 595494009765 PYR/PP interface [polypeptide binding]; other site 595494009766 dimer interface [polypeptide binding]; other site 595494009767 TPP binding site [chemical binding]; other site 595494009768 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 595494009769 Protein of unknown function (DUF785); Region: DUF785; cl01682 595494009770 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 595494009771 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 595494009772 PYR/PP interface [polypeptide binding]; other site 595494009773 dimer interface [polypeptide binding]; other site 595494009774 TPP binding site [chemical binding]; other site 595494009775 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 595494009776 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 595494009777 TPP-binding site [chemical binding]; other site 595494009778 dimer interface [polypeptide binding]; other site 595494009779 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 595494009780 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 595494009781 homodimer interface [polypeptide binding]; other site 595494009782 substrate-cofactor binding pocket; other site 595494009783 Aminotransferase class IV; Region: Aminotran_4; pfam01063 595494009784 catalytic residue [active] 595494009785 Dehydratase family; Region: ILVD_EDD; cl00340 595494009786 threonine dehydratase; Reviewed; Region: PRK09224 595494009787 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 595494009788 tetramer interface [polypeptide binding]; other site 595494009789 pyridoxal 5'-phosphate binding site [chemical binding]; other site 595494009790 catalytic residue [active] 595494009791 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 595494009792 putative Ile/Val binding site [chemical binding]; other site 595494009793 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 595494009794 putative Ile/Val binding site [chemical binding]; other site 595494009795 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 595494009796 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 595494009797 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494009798 Transcriptional regulator [Transcription]; Region: LysR; COG0583 595494009799 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494009800 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 595494009801 substrate binding pocket [chemical binding]; other site 595494009802 dimerization interface [polypeptide binding]; other site 595494009803 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 595494009804 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 595494009805 Transcriptional regulators [Transcription]; Region: PurR; COG1609 595494009806 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 595494009807 DNA binding site [nucleotide binding] 595494009808 domain linker motif; other site 595494009809 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 595494009810 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 595494009811 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 595494009812 methionine cluster; other site 595494009813 active site 595494009814 phosphorylation site [posttranslational modification] 595494009815 metal binding site [ion binding]; metal-binding site 595494009816 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494009817 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 595494009818 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 595494009819 active site 595494009820 P-loop; other site 595494009821 phosphorylation site [posttranslational modification] 595494009822 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 595494009823 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 595494009824 active site turn [active] 595494009825 phosphorylation site [posttranslational modification] 595494009826 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 595494009827 Carboxylesterase family; Region: COesterase; pfam00135 595494009828 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 595494009829 substrate binding pocket [chemical binding]; other site 595494009830 catalytic triad [active] 595494009831 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 595494009832 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 595494009833 catalytic triad [active] 595494009834 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 595494009835 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 595494009836 heme binding site [chemical binding]; other site 595494009837 ferroxidase pore; other site 595494009838 ferroxidase diiron center [ion binding]; other site 595494009839 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 595494009840 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 595494009841 heme binding site [chemical binding]; other site 595494009842 ferroxidase pore; other site 595494009843 ferroxidase diiron center [ion binding]; other site 595494009844 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 595494009845 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 595494009846 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 595494009847 PAS fold; Region: PAS_4; pfam08448 595494009848 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 595494009849 metal binding site [ion binding]; metal-binding site 595494009850 active site 595494009851 I-site; other site 595494009852 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 595494009853 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 595494009854 putative homodimer interface [polypeptide binding]; other site 595494009855 putative active site [active] 595494009856 catalytic site [active] 595494009857 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 595494009858 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 595494009859 ATP binding site [chemical binding]; other site 595494009860 putative Mg++ binding site [ion binding]; other site 595494009861 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 595494009862 nucleotide binding region [chemical binding]; other site 595494009863 ATP-binding site [chemical binding]; other site 595494009864 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 595494009865 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494009866 HipA N-terminal domain; Region: couple_hipA; TIGR03071 595494009867 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 595494009868 HipA-like N-terminal domain; Region: HipA_N; pfam07805 595494009869 HipA-like C-terminal domain; Region: HipA_C; pfam07804 595494009870 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 595494009871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494009872 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 595494009873 catalytic triad [active] 595494009874 cobyric acid synthase; Provisional; Region: PRK00784 595494009875 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494009876 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 595494009877 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 595494009878 catalytic triad [active] 595494009879 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494009880 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 595494009881 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 595494009882 Int/Topo IB signature motif; other site 595494009883 active site 595494009884 Protein of unknown function, DUF484; Region: DUF484; cl01228 595494009885 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 595494009886 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 595494009887 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 595494009888 diaminopimelate decarboxylase; Region: lysA; TIGR01048 595494009889 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 595494009890 active site 595494009891 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 595494009892 substrate binding site [chemical binding]; other site 595494009893 catalytic residues [active] 595494009894 dimer interface [polypeptide binding]; other site 595494009895 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 595494009896 putative iron binding site [ion binding]; other site 595494009897 Rdx family; Region: Rdx; cl01407 595494009898 adenylate cyclase; Provisional; Region: cyaA; PRK09450 595494009899 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 595494009900 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 595494009901 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 595494009902 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 595494009903 domain interfaces; other site 595494009904 active site 595494009905 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 595494009906 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 595494009907 active site 595494009908 HemX; Region: HemX; cl14667 595494009909 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 595494009910 HemY protein N-terminus; Region: HemY_N; pfam07219 595494009911 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 595494009912 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 595494009913 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 595494009914 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 595494009915 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 595494009916 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 595494009917 alpha subunit interaction interface [polypeptide binding]; other site 595494009918 Walker A motif; other site 595494009919 ATP binding site [chemical binding]; other site 595494009920 Walker B motif; other site 595494009921 inhibitor binding site; inhibition site 595494009922 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 595494009923 ATP synthase; Region: ATP-synt; cl00365 595494009924 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 595494009925 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 595494009926 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 595494009927 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 595494009928 beta subunit interaction interface [polypeptide binding]; other site 595494009929 Walker A motif; other site 595494009930 ATP binding site [chemical binding]; other site 595494009931 Walker B motif; other site 595494009932 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 595494009933 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 595494009934 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 595494009935 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 595494009936 Plant ATP synthase F0; Region: YMF19; cl07975 595494009937 ATP synthase subunit C; Region: ATP-synt_C; cl00466 595494009938 ATP synthase A chain; Region: ATP-synt_A; cl00413 595494009939 ATP synthase I chain; Region: ATP_synt_I; cl09170 595494009940 ParB-like partition proteins; Region: parB_part; TIGR00180 595494009941 ParB-like nuclease domain; Region: ParBc; cl02129 595494009942 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 595494009943 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 595494009944 P-loop; other site 595494009945 Magnesium ion binding site [ion binding]; other site 595494009946 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 595494009947 Magnesium ion binding site [ion binding]; other site 595494009948 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 595494009949 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 595494009950 S-adenosylmethionine binding site [chemical binding]; other site 595494009951 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 595494009952 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 595494009953 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 595494009954 elongation factor P; Validated; Region: PRK00529 595494009955 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 595494009956 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 595494009957 RNA binding site [nucleotide binding]; other site 595494009958 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 595494009959 RNA binding site [nucleotide binding]; other site 595494009960 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 595494009961 EamA-like transporter family; Region: EamA; cl01037 595494009962 EamA-like transporter family; Region: EamA; cl01037 595494009963 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 595494009964 Domain of unknown function DUF20; Region: UPF0118; cl00465 595494009965 transcriptional regulator; Provisional; Region: PRK10632 595494009966 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 595494009967 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 595494009968 putative effector binding pocket; other site 595494009969 dimerization interface [polypeptide binding]; other site 595494009970 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 595494009971 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 595494009972 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 595494009973 dimerization interface [polypeptide binding]; other site 595494009974 putative DNA binding site [nucleotide binding]; other site 595494009975 putative Zn2+ binding site [ion binding]; other site 595494009976 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 595494009977 FMN binding site [chemical binding]; other site 595494009978 active site 595494009979 substrate binding site [chemical binding]; other site 595494009980 catalytic residue [active] 595494009981 transketolase; Reviewed; Region: PRK12753 595494009982 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 595494009983 TPP-binding site [chemical binding]; other site 595494009984 dimer interface [polypeptide binding]; other site 595494009985 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 595494009986 PYR/PP interface [polypeptide binding]; other site 595494009987 dimer interface [polypeptide binding]; other site 595494009988 TPP binding site [chemical binding]; other site 595494009989 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 595494009990 transaldolase-like protein; Provisional; Region: PTZ00411 595494009991 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 595494009992 active site 595494009993 dimer interface [polypeptide binding]; other site 595494009994 catalytic residue [active] 595494009995 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 595494009996 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 595494009997 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 595494009998 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 595494009999 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 595494010000 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 595494010001 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 595494010002 substrate binding site [chemical binding]; other site 595494010003 dimer interface [polypeptide binding]; other site 595494010004 catalytic triad [active] 595494010005 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 595494010006 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 595494010007 DNA binding residues [nucleotide binding] 595494010008 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 595494010009 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 595494010010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 595494010011 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 595494010012 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 595494010013 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 595494010014 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 595494010015 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 595494010016 G1 box; other site 595494010017 GTP/Mg2+ binding site [chemical binding]; other site 595494010018 Switch I region; other site 595494010019 G2 box; other site 595494010020 Switch II region; other site 595494010021 G3 box; other site 595494010022 G4 box; other site 595494010023 G5 box; other site 595494010024 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 595494010025 membrane protein insertase; Provisional; Region: PRK01318 595494010026 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 595494010027 Domain of unknown function DUF37; Region: DUF37; cl00506 595494010028 Ribonuclease P; Region: Ribonuclease_P; cl00457 595494010029 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 595494010030 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 595494010031 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 595494010032 putative substrate translocation pore; other site 595494010033 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 595494010034 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 595494010035 putative acyl-acceptor binding pocket; other site 595494010036 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355