-- dump date 20140620_041905 -- class Genbank::misc_feature -- table misc_feature_note -- id note 292414000001 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 292414000002 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 292414000003 Replication initiator protein A; Region: RPA; pfam10134 292414000004 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 292414000005 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 292414000006 P-loop; other site 292414000007 Magnesium ion binding site [ion binding]; other site 292414000008 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 292414000009 Magnesium ion binding site [ion binding]; other site 292414000010 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 292414000011 ParB-like nuclease domain; Region: ParBc; cl02129 292414000012 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 292414000013 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 292414000014 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 292414000015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 292414000016 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 292414000017 NAD(P) binding site [chemical binding]; other site 292414000018 active site 292414000019 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 292414000020 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 292414000021 non-specific DNA binding site [nucleotide binding]; other site 292414000022 salt bridge; other site 292414000023 sequence-specific DNA binding site [nucleotide binding]; other site 292414000024 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 292414000025 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 292414000026 Substrate binding site; other site 292414000027 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 292414000028 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 292414000029 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 292414000030 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 292414000031 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 292414000032 SelR domain; Region: SelR; pfam01641 292414000033 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 292414000034 Fasciclin domain; Region: Fasciclin; pfam02469 292414000035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 292414000036 Anti-sigma-K factor rskA; Region: RskA; pfam10099 292414000037 RNA polymerase sigma factor; Provisional; Region: PRK12514 292414000038 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 292414000039 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 292414000040 DNA binding residues [nucleotide binding] 292414000041 PA14 domain; Region: PA14; cl08459 292414000042 Hint domain; Region: Hint_2; pfam13403 292414000043 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 292414000044 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 292414000045 Catalytic site; other site 292414000046 Homeodomain-like domain; Region: HTH_23; cl17451 292414000047 type IV secretion system T-DNA border endonuclease VirD2; Provisional; Region: PRK13863 292414000048 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 292414000049 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 292414000050 Walker A motif; other site 292414000051 ATP binding site [chemical binding]; other site 292414000052 Walker B motif; other site 292414000053 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414000054 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 292414000055 substrate binding pocket [chemical binding]; other site 292414000056 membrane-bound complex binding site; other site 292414000057 hinge residues; other site 292414000058 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414000059 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 292414000060 dimer interface [polypeptide binding]; other site 292414000061 phosphorylation site [posttranslational modification] 292414000062 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 292414000063 Mg2+ binding site [ion binding]; other site 292414000064 G-X-G motif; other site 292414000065 Protein of unknown function (DUF1625); Region: DUF1625; pfam07787 292414000066 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 292414000067 Autoinducer binding domain; Region: Autoind_bind; pfam03472 292414000068 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 292414000069 DNA binding residues [nucleotide binding] 292414000070 dimerization interface [polypeptide binding]; other site 292414000071 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 292414000072 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 292414000073 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 292414000074 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 292414000075 Walker A motif; other site 292414000076 hexamer interface [polypeptide binding]; other site 292414000077 ATP binding site [chemical binding]; other site 292414000078 Walker B motif; other site 292414000079 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 292414000080 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 292414000081 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 292414000082 VirB7 interaction site; other site 292414000083 VirB8 protein; Region: VirB8; pfam04335 292414000084 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 292414000085 Type IV secretion system proteins; Region: T4SS; pfam07996 292414000086 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 292414000087 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 292414000088 N-acetyl-D-glucosamine binding site [chemical binding]; other site 292414000089 catalytic residue [active] 292414000090 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 292414000091 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 292414000092 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 292414000093 TrbC/VIRB2 family; Region: TrbC; pfam04956 292414000094 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 292414000095 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 292414000096 N-acetyl-D-glucosamine binding site [chemical binding]; other site 292414000097 catalytic residue [active] 292414000098 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 292414000099 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 292414000100 putative NAD(P) binding site [chemical binding]; other site 292414000101 putative active site [active] 292414000102 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 292414000103 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414000104 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 292414000105 dimerization interface [polypeptide binding]; other site 292414000106 substrate binding pocket [chemical binding]; other site 292414000107 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 292414000108 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 292414000109 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 292414000110 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 292414000111 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 292414000112 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 292414000113 lipoyl-biotinyl attachment site [posttranslational modification]; other site 292414000114 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 292414000115 HlyD family secretion protein; Region: HlyD_3; pfam13437 292414000116 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 292414000117 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 292414000118 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414000119 Walker A/P-loop; other site 292414000120 ATP binding site [chemical binding]; other site 292414000121 Q-loop/lid; other site 292414000122 ABC transporter signature motif; other site 292414000123 Walker B; other site 292414000124 D-loop; other site 292414000125 H-loop/switch region; other site 292414000126 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 292414000127 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 292414000128 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 292414000129 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 292414000130 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 292414000131 non-specific DNA binding site [nucleotide binding]; other site 292414000132 salt bridge; other site 292414000133 sequence-specific DNA binding site [nucleotide binding]; other site 292414000134 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 292414000135 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 292414000136 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 292414000137 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 292414000138 Methyltransferase domain; Region: Methyltransf_23; pfam13489 292414000139 Methyltransferase domain; Region: Methyltransf_11; pfam08241 292414000140 Methyltransferase domain; Region: Methyltransf_23; pfam13489 292414000141 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 292414000142 S-adenosylmethionine binding site [chemical binding]; other site 292414000143 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 292414000144 calcium binding site 1 [ion binding]; other site 292414000145 active site 292414000146 catalytic triad [active] 292414000147 calcium binding site 2 [ion binding]; other site 292414000148 calcium binding site 3 [ion binding]; other site 292414000149 Regulatory P domain of the subtilisin-like proprotein convertases and other proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG4935 292414000150 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 292414000151 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 292414000152 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 292414000153 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 292414000154 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 292414000155 Walker A/P-loop; other site 292414000156 ATP binding site [chemical binding]; other site 292414000157 Q-loop/lid; other site 292414000158 ABC transporter signature motif; other site 292414000159 Walker B; other site 292414000160 D-loop; other site 292414000161 H-loop/switch region; other site 292414000162 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 292414000163 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 292414000164 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 292414000165 putative active site [active] 292414000166 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 292414000167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 292414000168 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 292414000169 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 292414000170 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 292414000171 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 292414000172 binding surface 292414000173 TPR motif; other site 292414000174 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; cl17432 292414000175 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414000176 substrate binding pocket [chemical binding]; other site 292414000177 membrane-bound complex binding site; other site 292414000178 hinge residues; other site 292414000179 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 292414000180 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 292414000181 putative ADP-binding pocket [chemical binding]; other site 292414000182 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 292414000183 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 292414000184 substrate binding site; other site 292414000185 tetramer interface; other site 292414000186 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 292414000187 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 292414000188 NADP binding site [chemical binding]; other site 292414000189 active site 292414000190 putative substrate binding site [chemical binding]; other site 292414000191 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 292414000192 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 292414000193 NAD binding site [chemical binding]; other site 292414000194 substrate binding site [chemical binding]; other site 292414000195 homodimer interface [polypeptide binding]; other site 292414000196 active site 292414000197 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 292414000198 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 292414000199 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 292414000200 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 292414000201 substrate binding site [chemical binding]; other site 292414000202 ATP binding site [chemical binding]; other site 292414000203 Glucuronate isomerase; Region: UxaC; pfam02614 292414000204 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 292414000205 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 292414000206 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 292414000207 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 292414000208 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 292414000209 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 292414000210 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 292414000211 putative active site [active] 292414000212 putative catalytic site [active] 292414000213 DctM-like transporters; Region: DctM; pfam06808 292414000214 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 292414000215 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 292414000216 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 292414000217 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 292414000218 beta-D-glucuronidase; Provisional; Region: PRK10150 292414000219 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 292414000220 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 292414000221 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 292414000222 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 292414000223 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414000224 DNA-binding site [nucleotide binding]; DNA binding site 292414000225 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 292414000226 mannonate dehydratase; Provisional; Region: PRK03906 292414000227 mannonate dehydratase; Region: uxuA; TIGR00695 292414000228 PBP superfamily domain; Region: PBP_like_2; pfam12849 292414000229 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 292414000230 PBP superfamily domain; Region: PBP_like; pfam12727 292414000231 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 292414000232 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 292414000233 dimer interface [polypeptide binding]; other site 292414000234 conserved gate region; other site 292414000235 putative PBP binding loops; other site 292414000236 ABC-ATPase subunit interface; other site 292414000237 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 292414000238 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 292414000239 Walker A/P-loop; other site 292414000240 ATP binding site [chemical binding]; other site 292414000241 Q-loop/lid; other site 292414000242 ABC transporter signature motif; other site 292414000243 Walker B; other site 292414000244 D-loop; other site 292414000245 H-loop/switch region; other site 292414000246 NMT1/THI5 like; Region: NMT1; pfam09084 292414000247 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 292414000248 substrate binding pocket [chemical binding]; other site 292414000249 membrane-bound complex binding site; other site 292414000250 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414000251 DNA-binding site [nucleotide binding]; DNA binding site 292414000252 FCD domain; Region: FCD; pfam07729 292414000253 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414000254 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 292414000255 substrate binding pocket [chemical binding]; other site 292414000256 membrane-bound complex binding site; other site 292414000257 hinge residues; other site 292414000258 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 292414000259 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 292414000260 dimer interface [polypeptide binding]; other site 292414000261 conserved gate region; other site 292414000262 putative PBP binding loops; other site 292414000263 ABC-ATPase subunit interface; other site 292414000264 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 292414000265 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 292414000266 Walker A/P-loop; other site 292414000267 ATP binding site [chemical binding]; other site 292414000268 Q-loop/lid; other site 292414000269 ABC transporter signature motif; other site 292414000270 Walker B; other site 292414000271 D-loop; other site 292414000272 H-loop/switch region; other site 292414000273 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 292414000274 Hint domain; Region: Hint_2; pfam13403 292414000275 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 292414000276 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 292414000277 putative substrate binding site [chemical binding]; other site 292414000278 putative ATP binding site [chemical binding]; other site 292414000279 Protein of unknown function (DUF1625); Region: DUF1625; pfam07787 292414000280 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 292414000281 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 292414000282 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 292414000283 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 292414000284 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 292414000285 active site 292414000286 iron coordination sites [ion binding]; other site 292414000287 substrate binding pocket [chemical binding]; other site 292414000288 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 292414000289 FAD binding domain; Region: FAD_binding_4; pfam01565 292414000290 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 292414000291 active site 292414000292 Creatinine amidohydrolase; Region: Creatininase; pfam02633 292414000293 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 292414000294 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 292414000295 catalytic triad [active] 292414000296 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 292414000297 homotrimer interaction site [polypeptide binding]; other site 292414000298 putative active site [active] 292414000299 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 292414000300 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 292414000301 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 292414000302 active site 292414000303 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 292414000304 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 292414000305 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 292414000306 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 292414000307 Fe-S cluster binding site [ion binding]; other site 292414000308 active site 292414000309 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 292414000310 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 292414000311 active site 292414000312 metal binding site [ion binding]; metal-binding site 292414000313 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 292414000314 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 292414000315 MPT binding site; other site 292414000316 trimer interface [polypeptide binding]; other site 292414000317 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 292414000318 HlyD family secretion protein; Region: HlyD_3; pfam13437 292414000319 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 292414000320 Protein export membrane protein; Region: SecD_SecF; cl14618 292414000321 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_15; cd04673 292414000322 nudix motif; other site 292414000323 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 292414000324 Putative transcriptional regulator [Transcription]; Region: COG1678 292414000325 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 292414000326 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 292414000327 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 292414000328 dihydroorotase; Validated; Region: PRK09059 292414000329 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 292414000330 active site 292414000331 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 292414000332 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 292414000333 glutamate--cysteine ligase; Region: PLN02611 292414000334 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 292414000335 RNA methyltransferase, RsmE family; Region: TIGR00046 292414000336 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 292414000337 UbiA prenyltransferase family; Region: UbiA; pfam01040 292414000338 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 292414000339 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 292414000340 ligand binding site [chemical binding]; other site 292414000341 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 292414000342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 292414000343 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 292414000344 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 292414000345 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 292414000346 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 292414000347 S-adenosylmethionine binding site [chemical binding]; other site 292414000348 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 292414000349 Hint domain; Region: Hint_2; pfam13403 292414000350 lipoate-protein ligase B; Provisional; Region: PRK14341 292414000351 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 292414000352 GAF domain; Region: GAF; pfam01590 292414000353 Phytochrome region; Region: PHY; pfam00360 292414000354 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 292414000355 dimer interface [polypeptide binding]; other site 292414000356 phosphorylation site [posttranslational modification] 292414000357 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 292414000358 ATP binding site [chemical binding]; other site 292414000359 Mg2+ binding site [ion binding]; other site 292414000360 G-X-G motif; other site 292414000361 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; cl17299 292414000362 heme binding pocket [chemical binding]; other site 292414000363 heme ligand [chemical binding]; other site 292414000364 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 292414000365 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 292414000366 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 292414000367 Glycoprotease family; Region: Peptidase_M22; pfam00814 292414000368 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 292414000369 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414000370 Coenzyme A binding pocket [chemical binding]; other site 292414000371 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 292414000372 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 292414000373 ligand binding site [chemical binding]; other site 292414000374 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 292414000375 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 292414000376 Walker A/P-loop; other site 292414000377 ATP binding site [chemical binding]; other site 292414000378 Q-loop/lid; other site 292414000379 ABC transporter signature motif; other site 292414000380 Walker B; other site 292414000381 D-loop; other site 292414000382 H-loop/switch region; other site 292414000383 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 292414000384 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 292414000385 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 292414000386 TM-ABC transporter signature motif; other site 292414000387 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 292414000388 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 292414000389 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 292414000390 TM-ABC transporter signature motif; other site 292414000391 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 292414000392 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 292414000393 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 292414000394 classical (c) SDRs; Region: SDR_c; cd05233 292414000395 NAD(P) binding site [chemical binding]; other site 292414000396 active site 292414000397 AAA domain; Region: AAA_30; pfam13604 292414000398 Family description; Region: UvrD_C_2; pfam13538 292414000399 Autoinducer binding domain; Region: Autoind_bind; pfam03472 292414000400 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 292414000401 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 292414000402 DNA binding residues [nucleotide binding] 292414000403 dimerization interface [polypeptide binding]; other site 292414000404 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 292414000405 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 292414000406 putative NAD(P) binding site [chemical binding]; other site 292414000407 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 292414000408 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 292414000409 putative acyl-acceptor binding pocket; other site 292414000410 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 292414000411 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 292414000412 B12 binding site [chemical binding]; other site 292414000413 cobalt ligand [ion binding]; other site 292414000414 H-NS histone family; Region: Histone_HNS; pfam00816 292414000415 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 292414000416 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 292414000417 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 292414000418 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 292414000419 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 292414000420 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 292414000421 dimer interface [polypeptide binding]; other site 292414000422 active site 292414000423 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 292414000424 catalytic residues [active] 292414000425 substrate binding site [chemical binding]; other site 292414000426 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414000427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414000428 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 292414000429 substrate binding pocket [chemical binding]; other site 292414000430 dimerization interface [polypeptide binding]; other site 292414000431 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_10; cd08515 292414000432 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 292414000433 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 292414000434 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 292414000435 dimer interface [polypeptide binding]; other site 292414000436 conserved gate region; other site 292414000437 putative PBP binding loops; other site 292414000438 ABC-ATPase subunit interface; other site 292414000439 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 292414000440 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 292414000441 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 292414000442 dimer interface [polypeptide binding]; other site 292414000443 conserved gate region; other site 292414000444 putative PBP binding loops; other site 292414000445 ABC-ATPase subunit interface; other site 292414000446 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 292414000447 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414000448 Walker A/P-loop; other site 292414000449 ATP binding site [chemical binding]; other site 292414000450 Q-loop/lid; other site 292414000451 ABC transporter signature motif; other site 292414000452 Walker B; other site 292414000453 D-loop; other site 292414000454 H-loop/switch region; other site 292414000455 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414000456 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414000457 Walker A/P-loop; other site 292414000458 ATP binding site [chemical binding]; other site 292414000459 Q-loop/lid; other site 292414000460 ABC transporter signature motif; other site 292414000461 Walker B; other site 292414000462 D-loop; other site 292414000463 H-loop/switch region; other site 292414000464 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 292414000465 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 292414000466 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 292414000467 metal binding site [ion binding]; metal-binding site 292414000468 dimer interface [polypeptide binding]; other site 292414000469 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 292414000470 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 292414000471 putative active site [active] 292414000472 putative metal binding site [ion binding]; other site 292414000473 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 292414000474 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 292414000475 active site 292414000476 DNA binding site [nucleotide binding] 292414000477 Int/Topo IB signature motif; other site 292414000478 Protein of unknown function (DUF429); Region: DUF429; pfam04250 292414000479 putative transposase OrfB; Reviewed; Region: PHA02517 292414000480 HTH-like domain; Region: HTH_21; pfam13276 292414000481 Integrase core domain; Region: rve; pfam00665 292414000482 Integrase core domain; Region: rve_3; pfam13683 292414000483 Transposase; Region: HTH_Tnp_1; pfam01527 292414000484 Transcriptional regulators [Transcription]; Region: PurR; COG1609 292414000485 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 292414000486 DNA binding site [nucleotide binding] 292414000487 domain linker motif; other site 292414000488 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 292414000489 putative dimerization interface [polypeptide binding]; other site 292414000490 putative ligand binding site [chemical binding]; other site 292414000491 DctM-like transporters; Region: DctM; pfam06808 292414000492 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 292414000493 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 292414000494 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 292414000495 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 292414000496 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 292414000497 PAS domain; Region: PAS_9; pfam13426 292414000498 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 292414000499 metal binding site [ion binding]; metal-binding site 292414000500 active site 292414000501 I-site; other site 292414000502 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 292414000503 Sulfatase; Region: Sulfatase; cl17466 292414000504 choline-sulfatase; Region: chol_sulfatase; TIGR03417 292414000505 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 292414000506 flagellin; Reviewed; Region: PRK12687 292414000507 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 292414000508 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 292414000509 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 292414000510 Cytochrome c; Region: Cytochrom_C; pfam00034 292414000511 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 292414000512 dimerization interface [polypeptide binding]; other site 292414000513 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 292414000514 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 292414000515 metal binding site [ion binding]; metal-binding site 292414000516 active site 292414000517 I-site; other site 292414000518 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 292414000519 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 292414000520 Old yellow enzyme (OYE)-related FMN binding domain, group 3. 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_3_FMN; cd04734 292414000521 putative active site [active] 292414000522 putative FMN binding site [chemical binding]; other site 292414000523 putative substrate binding site [chemical binding]; other site 292414000524 putative catalytic residue [active] 292414000525 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 292414000526 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414000527 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 292414000528 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414000529 Walker A/P-loop; other site 292414000530 ATP binding site [chemical binding]; other site 292414000531 Q-loop/lid; other site 292414000532 ABC transporter signature motif; other site 292414000533 Walker B; other site 292414000534 D-loop; other site 292414000535 H-loop/switch region; other site 292414000536 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 292414000537 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 292414000538 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414000539 Walker A/P-loop; other site 292414000540 ATP binding site [chemical binding]; other site 292414000541 Q-loop/lid; other site 292414000542 ABC transporter signature motif; other site 292414000543 Walker B; other site 292414000544 D-loop; other site 292414000545 H-loop/switch region; other site 292414000546 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414000547 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 292414000548 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 292414000549 dimer interface [polypeptide binding]; other site 292414000550 conserved gate region; other site 292414000551 ABC-ATPase subunit interface; other site 292414000552 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 292414000553 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 292414000554 dimer interface [polypeptide binding]; other site 292414000555 conserved gate region; other site 292414000556 putative PBP binding loops; other site 292414000557 ABC-ATPase subunit interface; other site 292414000558 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 292414000559 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 292414000560 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 292414000561 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 292414000562 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 292414000563 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 292414000564 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 292414000565 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 292414000566 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 292414000567 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 292414000568 catalytic loop [active] 292414000569 iron binding site [ion binding]; other site 292414000570 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 292414000571 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 292414000572 Amidohydrolase; Region: Amidohydro_4; pfam13147 292414000573 active site 292414000574 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 292414000575 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 292414000576 dimer interface [polypeptide binding]; other site 292414000577 active site 292414000578 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 292414000579 dimer interface [polypeptide binding]; other site 292414000580 active site 292414000581 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 292414000582 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414000583 DNA-binding site [nucleotide binding]; DNA binding site 292414000584 UTRA domain; Region: UTRA; pfam07702 292414000585 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 292414000586 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 292414000587 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 292414000588 putative active site [active] 292414000589 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 292414000590 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 292414000591 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 292414000592 dimer interface [polypeptide binding]; other site 292414000593 conserved gate region; other site 292414000594 putative PBP binding loops; other site 292414000595 ABC-ATPase subunit interface; other site 292414000596 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 292414000597 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 292414000598 dimer interface [polypeptide binding]; other site 292414000599 conserved gate region; other site 292414000600 putative PBP binding loops; other site 292414000601 ABC-ATPase subunit interface; other site 292414000602 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 292414000603 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 292414000604 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 292414000605 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 292414000606 Walker A/P-loop; other site 292414000607 ATP binding site [chemical binding]; other site 292414000608 Q-loop/lid; other site 292414000609 ABC transporter signature motif; other site 292414000610 Walker B; other site 292414000611 D-loop; other site 292414000612 H-loop/switch region; other site 292414000613 TOBE domain; Region: TOBE_2; pfam08402 292414000614 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 292414000615 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414000616 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 292414000617 Hint domain; Region: Hint_2; pfam13403 292414000618 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 292414000619 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 292414000620 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 292414000621 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414000622 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 292414000623 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 292414000624 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414000625 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 292414000626 putative DNA binding site [nucleotide binding]; other site 292414000627 putative Zn2+ binding site [ion binding]; other site 292414000628 AsnC family; Region: AsnC_trans_reg; pfam01037 292414000629 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 292414000630 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 292414000631 active site 292414000632 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 292414000633 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 292414000634 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 292414000635 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 292414000636 active site 292414000637 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 292414000638 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 292414000639 homodimer interface [polypeptide binding]; other site 292414000640 substrate-cofactor binding pocket; other site 292414000641 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414000642 catalytic residue [active] 292414000643 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 292414000644 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 292414000645 putative active site [active] 292414000646 metal binding site [ion binding]; metal-binding site 292414000647 Protein of unknown function (DUF1244); Region: DUF1244; pfam06844 292414000648 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 292414000649 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 292414000650 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 292414000651 Family description; Region: VCBS; pfam13517 292414000652 Family description; Region: VCBS; pfam13517 292414000653 Family description; Region: VCBS; pfam13517 292414000654 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 292414000655 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 292414000656 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 292414000657 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 292414000658 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 292414000659 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 292414000660 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 292414000661 putative ligand binding site [chemical binding]; other site 292414000662 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 292414000663 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 292414000664 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 292414000665 TM-ABC transporter signature motif; other site 292414000666 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 292414000667 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414000668 Walker A/P-loop; other site 292414000669 ATP binding site [chemical binding]; other site 292414000670 Q-loop/lid; other site 292414000671 ABC transporter signature motif; other site 292414000672 Walker B; other site 292414000673 D-loop; other site 292414000674 H-loop/switch region; other site 292414000675 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414000676 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414000677 dimer interface [polypeptide binding]; other site 292414000678 putative CheW interface [polypeptide binding]; other site 292414000679 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 292414000680 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 292414000681 putative ligand binding site [chemical binding]; other site 292414000682 HAMP domain; Region: HAMP; pfam00672 292414000683 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414000684 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414000685 dimer interface [polypeptide binding]; other site 292414000686 putative CheW interface [polypeptide binding]; other site 292414000687 AAA domain; Region: AAA_33; pfam13671 292414000688 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 292414000689 active site 292414000690 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 292414000691 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 292414000692 DNA binding residues [nucleotide binding] 292414000693 dimerization interface [polypeptide binding]; other site 292414000694 EamA-like transporter family; Region: EamA; pfam00892 292414000695 EamA-like transporter family; Region: EamA; pfam00892 292414000696 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414000697 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414000698 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 292414000699 dimerization interface [polypeptide binding]; other site 292414000700 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414000701 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414000702 LysR substrate binding domain; Region: LysR_substrate; pfam03466 292414000703 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 292414000704 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414000705 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414000706 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 292414000707 dimerization interface [polypeptide binding]; other site 292414000708 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 292414000709 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 292414000710 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 292414000711 catalytic loop [active] 292414000712 iron binding site [ion binding]; other site 292414000713 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 292414000714 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 292414000715 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 292414000716 [4Fe-4S] binding site [ion binding]; other site 292414000717 molybdopterin cofactor binding site; other site 292414000718 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 292414000719 molybdopterin cofactor binding site; other site 292414000720 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 292414000721 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 292414000722 putative dimer interface [polypeptide binding]; other site 292414000723 [2Fe-2S] cluster binding site [ion binding]; other site 292414000724 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 292414000725 SLBB domain; Region: SLBB; pfam10531 292414000726 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 292414000727 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414000728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414000729 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 292414000730 dimerization interface [polypeptide binding]; other site 292414000731 HAMP domain; Region: HAMP; pfam00672 292414000732 dimerization interface [polypeptide binding]; other site 292414000733 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414000734 dimer interface [polypeptide binding]; other site 292414000735 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 292414000736 putative CheW interface [polypeptide binding]; other site 292414000737 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 292414000738 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 292414000739 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 292414000740 DctM-like transporters; Region: DctM; pfam06808 292414000741 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 292414000742 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 292414000743 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 292414000744 inhibitor site; inhibition site 292414000745 active site 292414000746 dimer interface [polypeptide binding]; other site 292414000747 catalytic residue [active] 292414000748 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 292414000749 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 292414000750 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 292414000751 hydroxyglutarate oxidase; Provisional; Region: PRK11728 292414000752 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 292414000753 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 292414000754 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 292414000755 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 292414000756 active site 292414000757 phosphorylation site [posttranslational modification] 292414000758 intermolecular recognition site; other site 292414000759 dimerization interface [polypeptide binding]; other site 292414000760 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 292414000761 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 292414000762 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 292414000763 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 292414000764 putative CheA interaction surface; other site 292414000765 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 292414000766 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 292414000767 putative binding surface; other site 292414000768 active site 292414000769 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 292414000770 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 292414000771 ATP binding site [chemical binding]; other site 292414000772 Mg2+ binding site [ion binding]; other site 292414000773 G-X-G motif; other site 292414000774 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 292414000775 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 292414000776 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 292414000777 active site 292414000778 phosphorylation site [posttranslational modification] 292414000779 intermolecular recognition site; other site 292414000780 dimerization interface [polypeptide binding]; other site 292414000781 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 292414000782 anti sigma factor interaction site; other site 292414000783 regulatory phosphorylation site [posttranslational modification]; other site 292414000784 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 292414000785 dimerization interface [polypeptide binding]; other site 292414000786 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414000787 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414000788 dimer interface [polypeptide binding]; other site 292414000789 putative CheW interface [polypeptide binding]; other site 292414000790 CheB methylesterase; Region: CheB_methylest; pfam01339 292414000791 CheD chemotactic sensory transduction; Region: CheD; cl00810 292414000792 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 292414000793 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414000794 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 292414000795 hypothetical protein; Provisional; Region: PRK07524 292414000796 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 292414000797 PYR/PP interface [polypeptide binding]; other site 292414000798 dimer interface [polypeptide binding]; other site 292414000799 TPP binding site [chemical binding]; other site 292414000800 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 292414000801 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 292414000802 TPP-binding site [chemical binding]; other site 292414000803 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 292414000804 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 292414000805 dimer interface [polypeptide binding]; other site 292414000806 conserved gate region; other site 292414000807 putative PBP binding loops; other site 292414000808 ABC-ATPase subunit interface; other site 292414000809 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 292414000810 dimer interface [polypeptide binding]; other site 292414000811 conserved gate region; other site 292414000812 putative PBP binding loops; other site 292414000813 ABC-ATPase subunit interface; other site 292414000814 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 292414000815 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 292414000816 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 292414000817 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414000818 Walker A/P-loop; other site 292414000819 ATP binding site [chemical binding]; other site 292414000820 Q-loop/lid; other site 292414000821 ABC transporter signature motif; other site 292414000822 Walker B; other site 292414000823 D-loop; other site 292414000824 H-loop/switch region; other site 292414000825 TOBE domain; Region: TOBE_2; pfam08402 292414000826 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 292414000827 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 292414000828 FAD binding pocket [chemical binding]; other site 292414000829 FAD binding motif [chemical binding]; other site 292414000830 phosphate binding motif [ion binding]; other site 292414000831 beta-alpha-beta structure motif; other site 292414000832 NAD binding pocket [chemical binding]; other site 292414000833 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 292414000834 catalytic loop [active] 292414000835 iron binding site [ion binding]; other site 292414000836 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 292414000837 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 292414000838 [2Fe-2S] cluster binding site [ion binding]; other site 292414000839 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 292414000840 putative alpha subunit interface [polypeptide binding]; other site 292414000841 putative active site [active] 292414000842 putative substrate binding site [chemical binding]; other site 292414000843 Fe binding site [ion binding]; other site 292414000844 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 292414000845 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 292414000846 DctM-like transporters; Region: DctM; pfam06808 292414000847 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 292414000848 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414000849 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 292414000850 substrate binding pocket [chemical binding]; other site 292414000851 membrane-bound complex binding site; other site 292414000852 von Willebrand factor type A domain; Region: VWA_2; pfam13519 292414000853 metal ion-dependent adhesion site (MIDAS); other site 292414000854 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 292414000855 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 292414000856 DNA binding residues [nucleotide binding] 292414000857 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 292414000858 Serine hydrolase (FSH1); Region: FSH1; pfam03959 292414000859 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 292414000860 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 292414000861 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414000862 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414000863 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 292414000864 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 292414000865 catalytic loop [active] 292414000866 iron binding site [ion binding]; other site 292414000867 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 292414000868 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 292414000869 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 292414000870 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 292414000871 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 292414000872 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 292414000873 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 292414000874 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 292414000875 dimerization interface [polypeptide binding]; other site 292414000876 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 292414000877 dimer interface [polypeptide binding]; other site 292414000878 phosphorylation site [posttranslational modification] 292414000879 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 292414000880 ATP binding site [chemical binding]; other site 292414000881 Mg2+ binding site [ion binding]; other site 292414000882 G-X-G motif; other site 292414000883 Response regulator receiver domain; Region: Response_reg; pfam00072 292414000884 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 292414000885 active site 292414000886 phosphorylation site [posttranslational modification] 292414000887 intermolecular recognition site; other site 292414000888 dimerization interface [polypeptide binding]; other site 292414000889 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 292414000890 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 292414000891 active site 292414000892 phosphorylation site [posttranslational modification] 292414000893 intermolecular recognition site; other site 292414000894 dimerization interface [polypeptide binding]; other site 292414000895 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 292414000896 DNA binding site [nucleotide binding] 292414000897 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 292414000898 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 292414000899 substrate binding pocket [chemical binding]; other site 292414000900 membrane-bound complex binding site; other site 292414000901 hinge residues; other site 292414000902 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 292414000903 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 292414000904 Walker A/P-loop; other site 292414000905 ATP binding site [chemical binding]; other site 292414000906 Q-loop/lid; other site 292414000907 ABC transporter signature motif; other site 292414000908 Walker B; other site 292414000909 D-loop; other site 292414000910 H-loop/switch region; other site 292414000911 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 292414000912 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 292414000913 dimer interface [polypeptide binding]; other site 292414000914 conserved gate region; other site 292414000915 ABC-ATPase subunit interface; other site 292414000916 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 292414000917 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 292414000918 dimer interface [polypeptide binding]; other site 292414000919 conserved gate region; other site 292414000920 putative PBP binding loops; other site 292414000921 ABC-ATPase subunit interface; other site 292414000922 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 292414000923 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 292414000924 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 292414000925 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 292414000926 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 292414000927 putative dimer interface [polypeptide binding]; other site 292414000928 N-terminal domain interface [polypeptide binding]; other site 292414000929 putative substrate binding pocket (H-site) [chemical binding]; other site 292414000930 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414000931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414000932 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 292414000933 putative effector binding pocket; other site 292414000934 dimerization interface [polypeptide binding]; other site 292414000935 PAS domain; Region: PAS_9; pfam13426 292414000936 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 292414000937 putative active site [active] 292414000938 heme pocket [chemical binding]; other site 292414000939 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 292414000940 PAS domain; Region: PAS_9; pfam13426 292414000941 putative active site [active] 292414000942 heme pocket [chemical binding]; other site 292414000943 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 292414000944 PAS domain; Region: PAS_9; pfam13426 292414000945 putative active site [active] 292414000946 heme pocket [chemical binding]; other site 292414000947 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 292414000948 PAS domain; Region: PAS_9; pfam13426 292414000949 putative active site [active] 292414000950 heme pocket [chemical binding]; other site 292414000951 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414000952 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414000953 dimer interface [polypeptide binding]; other site 292414000954 putative CheW interface [polypeptide binding]; other site 292414000955 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 292414000956 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 292414000957 CheD chemotactic sensory transduction; Region: CheD; cl00810 292414000958 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 292414000959 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 292414000960 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 292414000961 Transposase; Region: HTH_Tnp_1; pfam01527 292414000962 putative transposase OrfB; Reviewed; Region: PHA02517 292414000963 HTH-like domain; Region: HTH_21; pfam13276 292414000964 Integrase core domain; Region: rve; pfam00665 292414000965 Integrase core domain; Region: rve_3; pfam13683 292414000966 Integrase core domain; Region: rve; pfam00665 292414000967 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 292414000968 FOG: CBS domain [General function prediction only]; Region: COG0517 292414000969 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 292414000970 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 292414000971 TM-ABC transporter signature motif; other site 292414000972 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 292414000973 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 292414000974 Walker A/P-loop; other site 292414000975 ATP binding site [chemical binding]; other site 292414000976 Q-loop/lid; other site 292414000977 ABC transporter signature motif; other site 292414000978 Walker B; other site 292414000979 D-loop; other site 292414000980 H-loop/switch region; other site 292414000981 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 292414000982 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 292414000983 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 292414000984 putative ligand binding site [chemical binding]; other site 292414000985 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 292414000986 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 292414000987 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 292414000988 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 292414000989 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 292414000990 ATP-grasp domain; Region: ATP-grasp_4; cl17255 292414000991 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 292414000992 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 292414000993 carboxyltransferase (CT) interaction site; other site 292414000994 biotinylation site [posttranslational modification]; other site 292414000995 hypothetical protein; Provisional; Region: PRK12569 292414000996 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414000997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414000998 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 292414000999 putative substrate binding pocket [chemical binding]; other site 292414001000 dimerization interface [polypeptide binding]; other site 292414001001 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 292414001002 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 292414001003 non-specific DNA binding site [nucleotide binding]; other site 292414001004 salt bridge; other site 292414001005 sequence-specific DNA binding site [nucleotide binding]; other site 292414001006 Cupin domain; Region: Cupin_2; pfam07883 292414001007 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 292414001008 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 292414001009 inhibitor-cofactor binding pocket; inhibition site 292414001010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414001011 catalytic residue [active] 292414001012 succinic semialdehyde dehydrogenase; Region: PLN02278 292414001013 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 292414001014 tetramerization interface [polypeptide binding]; other site 292414001015 NAD(P) binding site [chemical binding]; other site 292414001016 catalytic residues [active] 292414001017 Transcriptional regulators [Transcription]; Region: MarR; COG1846 292414001018 MarR family; Region: MarR_2; pfam12802 292414001019 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 292414001020 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 292414001021 nucleotide binding site [chemical binding]; other site 292414001022 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 292414001023 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 292414001024 metal binding site [ion binding]; metal-binding site 292414001025 dimer interface [polypeptide binding]; other site 292414001026 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_7; cd06316 292414001027 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 292414001028 putative ligand binding site [chemical binding]; other site 292414001029 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 292414001030 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 292414001031 TM-ABC transporter signature motif; other site 292414001032 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 292414001033 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 292414001034 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 292414001035 catalytic residue [active] 292414001036 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 292414001037 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414001038 Walker A/P-loop; other site 292414001039 ATP binding site [chemical binding]; other site 292414001040 Q-loop/lid; other site 292414001041 ABC transporter signature motif; other site 292414001042 Walker B; other site 292414001043 D-loop; other site 292414001044 H-loop/switch region; other site 292414001045 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 292414001046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 292414001047 NAD(P) binding site [chemical binding]; other site 292414001048 active site 292414001049 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 292414001050 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 292414001051 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 292414001052 acyl-activating enzyme (AAE) consensus motif; other site 292414001053 acyl-activating enzyme (AAE) consensus motif; other site 292414001054 putative AMP binding site [chemical binding]; other site 292414001055 putative active site [active] 292414001056 putative CoA binding site [chemical binding]; other site 292414001057 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 292414001058 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 292414001059 active site 292414001060 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 292414001061 PAS domain; Region: PAS_9; pfam13426 292414001062 putative active site [active] 292414001063 heme pocket [chemical binding]; other site 292414001064 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 292414001065 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 292414001066 DNA binding residues [nucleotide binding] 292414001067 dimerization interface [polypeptide binding]; other site 292414001068 HTH-like domain; Region: HTH_21; pfam13276 292414001069 Integrase core domain; Region: rve; pfam00665 292414001070 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 292414001071 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 292414001072 dimer interface [polypeptide binding]; other site 292414001073 phosphorylation site [posttranslational modification] 292414001074 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 292414001075 ATP binding site [chemical binding]; other site 292414001076 Mg2+ binding site [ion binding]; other site 292414001077 G-X-G motif; other site 292414001078 Response regulator receiver domain; Region: Response_reg; pfam00072 292414001079 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 292414001080 active site 292414001081 phosphorylation site [posttranslational modification] 292414001082 intermolecular recognition site; other site 292414001083 dimerization interface [polypeptide binding]; other site 292414001084 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 292414001085 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414001086 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 292414001087 active site 1 [active] 292414001088 dimer interface [polypeptide binding]; other site 292414001089 hexamer interface [polypeptide binding]; other site 292414001090 active site 2 [active] 292414001091 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 292414001092 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414001093 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414001094 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 292414001095 dimerization interface [polypeptide binding]; other site 292414001096 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 292414001097 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 292414001098 Autotransporter beta-domain; Region: Autotransporter; smart00869 292414001099 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 292414001100 Phage Tail Collar Domain; Region: Collar; pfam07484 292414001101 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 292414001102 Phage Tail Collar Domain; Region: Collar; pfam07484 292414001103 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 292414001104 Phage Tail Collar Domain; Region: Collar; pfam07484 292414001105 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 292414001106 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414001107 Coenzyme A binding pocket [chemical binding]; other site 292414001108 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 292414001109 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 292414001110 conserved cys residue [active] 292414001111 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414001112 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 292414001113 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 292414001114 acyl-activating enzyme (AAE) consensus motif; other site 292414001115 AMP binding site [chemical binding]; other site 292414001116 active site 292414001117 CoA binding site [chemical binding]; other site 292414001118 Uncharacterized conserved protein [Function unknown]; Region: COG3246 292414001119 BCCT family transporter; Region: BCCT; pfam02028 292414001120 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 292414001121 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 292414001122 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 292414001123 putative active site [active] 292414001124 heme pocket [chemical binding]; other site 292414001125 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 292414001126 dimer interface [polypeptide binding]; other site 292414001127 phosphorylation site [posttranslational modification] 292414001128 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 292414001129 ATP binding site [chemical binding]; other site 292414001130 Mg2+ binding site [ion binding]; other site 292414001131 G-X-G motif; other site 292414001132 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 292414001133 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 292414001134 active site 292414001135 phosphorylation site [posttranslational modification] 292414001136 intermolecular recognition site; other site 292414001137 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414001138 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 292414001139 dimer interface [polypeptide binding]; other site 292414001140 phosphorylation site [posttranslational modification] 292414001141 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 292414001142 ATP binding site [chemical binding]; other site 292414001143 Mg2+ binding site [ion binding]; other site 292414001144 G-X-G motif; other site 292414001145 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 292414001146 homotrimer interaction site [polypeptide binding]; other site 292414001147 putative active site [active] 292414001148 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 292414001149 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 292414001150 Walker A/P-loop; other site 292414001151 ATP binding site [chemical binding]; other site 292414001152 Q-loop/lid; other site 292414001153 ABC transporter signature motif; other site 292414001154 Walker B; other site 292414001155 D-loop; other site 292414001156 H-loop/switch region; other site 292414001157 TOBE domain; Region: TOBE_2; pfam08402 292414001158 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 292414001159 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 292414001160 active site 292414001161 catalytic site [active] 292414001162 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 292414001163 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 292414001164 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 292414001165 dimer interface [polypeptide binding]; other site 292414001166 conserved gate region; other site 292414001167 putative PBP binding loops; other site 292414001168 ABC-ATPase subunit interface; other site 292414001169 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 292414001170 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 292414001171 putative PBP binding loops; other site 292414001172 dimer interface [polypeptide binding]; other site 292414001173 ABC-ATPase subunit interface; other site 292414001174 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 292414001175 Transcriptional regulators [Transcription]; Region: PurR; COG1609 292414001176 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 292414001177 DNA binding site [nucleotide binding] 292414001178 domain linker motif; other site 292414001179 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 292414001180 ligand binding site [chemical binding]; other site 292414001181 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 292414001182 beta-galactosidase; Region: BGL; TIGR03356 292414001183 riboflavin synthase subunit beta; Provisional; Region: PRK12419 292414001184 active site 292414001185 homopentamer interface [polypeptide binding]; other site 292414001186 Transcriptional regulators [Transcription]; Region: PurR; COG1609 292414001187 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 292414001188 DNA binding site [nucleotide binding] 292414001189 domain linker motif; other site 292414001190 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 292414001191 putative dimerization interface [polypeptide binding]; other site 292414001192 putative ligand binding site [chemical binding]; other site 292414001193 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 292414001194 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 292414001195 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 292414001196 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 292414001197 dimer interface [polypeptide binding]; other site 292414001198 conserved gate region; other site 292414001199 ABC-ATPase subunit interface; other site 292414001200 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 292414001201 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 292414001202 dimer interface [polypeptide binding]; other site 292414001203 conserved gate region; other site 292414001204 putative PBP binding loops; other site 292414001205 ABC-ATPase subunit interface; other site 292414001206 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 292414001207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414001208 Walker A/P-loop; other site 292414001209 ATP binding site [chemical binding]; other site 292414001210 Q-loop/lid; other site 292414001211 ABC transporter signature motif; other site 292414001212 Walker B; other site 292414001213 D-loop; other site 292414001214 H-loop/switch region; other site 292414001215 TOBE domain; Region: TOBE_2; pfam08402 292414001216 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 292414001217 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 292414001218 active site 292414001219 metal binding site [ion binding]; metal-binding site 292414001220 hexamer interface [polypeptide binding]; other site 292414001221 DctM-like transporters; Region: DctM; pfam06808 292414001222 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 292414001223 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 292414001224 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 292414001225 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 292414001226 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 292414001227 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 292414001228 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 292414001229 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 292414001230 NAD(P) binding site [chemical binding]; other site 292414001231 catalytic residues [active] 292414001232 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 292414001233 Transcriptional regulators [Transcription]; Region: GntR; COG1802 292414001234 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414001235 DNA-binding site [nucleotide binding]; DNA binding site 292414001236 FCD domain; Region: FCD; pfam07729 292414001237 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 292414001238 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 292414001239 dimer interface [polypeptide binding]; other site 292414001240 NADP binding site [chemical binding]; other site 292414001241 catalytic residues [active] 292414001242 Paraquat-inducible protein A; Region: PqiA; pfam04403 292414001243 Paraquat-inducible protein A; Region: PqiA; pfam04403 292414001244 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 292414001245 mce related protein; Region: MCE; pfam02470 292414001246 mce related protein; Region: MCE; pfam02470 292414001247 mce related protein; Region: MCE; pfam02470 292414001248 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 292414001249 Protein of unknown function (DUF330); Region: DUF330; pfam03886 292414001250 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 292414001251 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414001252 Walker A/P-loop; other site 292414001253 ATP binding site [chemical binding]; other site 292414001254 Q-loop/lid; other site 292414001255 ABC transporter signature motif; other site 292414001256 Walker B; other site 292414001257 D-loop; other site 292414001258 H-loop/switch region; other site 292414001259 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 292414001260 dimer interface [polypeptide binding]; other site 292414001261 conserved gate region; other site 292414001262 putative PBP binding loops; other site 292414001263 ABC-ATPase subunit interface; other site 292414001264 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 292414001265 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 292414001266 dimer interface [polypeptide binding]; other site 292414001267 conserved gate region; other site 292414001268 putative PBP binding loops; other site 292414001269 ABC-ATPase subunit interface; other site 292414001270 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 292414001271 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 292414001272 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 292414001273 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 292414001274 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 292414001275 active site 292414001276 phosphorylation site [posttranslational modification] 292414001277 intermolecular recognition site; other site 292414001278 dimerization interface [polypeptide binding]; other site 292414001279 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 292414001280 DNA binding site [nucleotide binding] 292414001281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414001282 HAMP domain; Region: HAMP; pfam00672 292414001283 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 292414001284 dimer interface [polypeptide binding]; other site 292414001285 phosphorylation site [posttranslational modification] 292414001286 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 292414001287 ATP binding site [chemical binding]; other site 292414001288 Mg2+ binding site [ion binding]; other site 292414001289 G-X-G motif; other site 292414001290 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 292414001291 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 292414001292 FMN binding site [chemical binding]; other site 292414001293 active site 292414001294 substrate binding site [chemical binding]; other site 292414001295 catalytic residue [active] 292414001296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414001297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414001298 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 292414001299 putative effector binding pocket; other site 292414001300 dimerization interface [polypeptide binding]; other site 292414001301 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414001302 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414001303 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 292414001304 putative dimerization interface [polypeptide binding]; other site 292414001305 Uncharacterized conserved protein [Function unknown]; Region: COG3777 292414001306 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 292414001307 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 292414001308 active site 2 [active] 292414001309 active site 1 [active] 292414001310 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 292414001311 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 292414001312 Walker A/P-loop; other site 292414001313 ATP binding site [chemical binding]; other site 292414001314 Q-loop/lid; other site 292414001315 ABC transporter signature motif; other site 292414001316 Walker B; other site 292414001317 D-loop; other site 292414001318 H-loop/switch region; other site 292414001319 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 292414001320 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 292414001321 TM-ABC transporter signature motif; other site 292414001322 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 292414001323 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 292414001324 putative ligand binding site [chemical binding]; other site 292414001325 Transcriptional regulators [Transcription]; Region: PurR; COG1609 292414001326 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 292414001327 DNA binding site [nucleotide binding] 292414001328 domain linker motif; other site 292414001329 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 292414001330 putative dimerization interface [polypeptide binding]; other site 292414001331 putative ligand binding site [chemical binding]; other site 292414001332 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 292414001333 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 292414001334 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 292414001335 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 292414001336 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 292414001337 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 292414001338 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 292414001339 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 292414001340 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 292414001341 PYR/PP interface [polypeptide binding]; other site 292414001342 dimer interface [polypeptide binding]; other site 292414001343 TPP binding site [chemical binding]; other site 292414001344 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 292414001345 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 292414001346 TPP-binding site [chemical binding]; other site 292414001347 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 292414001348 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 292414001349 substrate binding site [chemical binding]; other site 292414001350 ATP binding site [chemical binding]; other site 292414001351 KduI/IolB family; Region: KduI; pfam04962 292414001352 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 292414001353 intersubunit interface [polypeptide binding]; other site 292414001354 active site 292414001355 zinc binding site [ion binding]; other site 292414001356 Na+ binding site [ion binding]; other site 292414001357 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 292414001358 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 292414001359 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 292414001360 Predicted membrane protein [Function unknown]; Region: COG2855 292414001361 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 292414001362 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 292414001363 Sel1-like repeats; Region: SEL1; smart00671 292414001364 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 292414001365 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 292414001366 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 292414001367 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 292414001368 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 292414001369 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 292414001370 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 292414001371 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 292414001372 active site 292414001373 catalytic tetrad [active] 292414001374 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 292414001375 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 292414001376 active site 292414001377 dimer interface [polypeptide binding]; other site 292414001378 non-prolyl cis peptide bond; other site 292414001379 insertion regions; other site 292414001380 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 292414001381 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414001382 DNA-binding site [nucleotide binding]; DNA binding site 292414001383 UTRA domain; Region: UTRA; pfam07702 292414001384 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 292414001385 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 292414001386 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 292414001387 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 292414001388 LytTr DNA-binding domain; Region: LytTR; smart00850 292414001389 MltA-interacting protein MipA; Region: MipA; cl01504 292414001390 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 292414001391 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 292414001392 ABC1 family; Region: ABC1; pfam03109 292414001393 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 292414001394 PAS fold; Region: PAS_7; pfam12860 292414001395 PAS fold; Region: PAS_7; pfam12860 292414001396 PAS fold; Region: PAS_7; pfam12860 292414001397 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 292414001398 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 292414001399 dimer interface [polypeptide binding]; other site 292414001400 phosphorylation site [posttranslational modification] 292414001401 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 292414001402 ATP binding site [chemical binding]; other site 292414001403 Mg2+ binding site [ion binding]; other site 292414001404 G-X-G motif; other site 292414001405 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 292414001406 Response regulator receiver domain; Region: Response_reg; pfam00072 292414001407 active site 292414001408 phosphorylation site [posttranslational modification] 292414001409 intermolecular recognition site; other site 292414001410 dimerization interface [polypeptide binding]; other site 292414001411 osmolarity response regulator; Provisional; Region: ompR; PRK09468 292414001412 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 292414001413 active site 292414001414 phosphorylation site [posttranslational modification] 292414001415 intermolecular recognition site; other site 292414001416 dimerization interface [polypeptide binding]; other site 292414001417 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 292414001418 DNA binding site [nucleotide binding] 292414001419 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 292414001420 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 292414001421 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 292414001422 hydroxyglutarate oxidase; Provisional; Region: PRK11728 292414001423 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 292414001424 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 292414001425 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 292414001426 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 292414001427 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 292414001428 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 292414001429 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 292414001430 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 292414001431 conserved cys residue [active] 292414001432 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414001433 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414001434 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414001435 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414001436 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 292414001437 putative dimerization interface [polypeptide binding]; other site 292414001438 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 292414001439 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 292414001440 NAD(P) binding site [chemical binding]; other site 292414001441 catalytic residues [active] 292414001442 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 292414001443 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 292414001444 active site 292414001445 BCCT family transporter; Region: BCCT; pfam02028 292414001446 Protein of unknown function (DUF3726); Region: DUF3726; pfam12525 292414001447 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 292414001448 hypothetical protein; Provisional; Region: PRK06148 292414001449 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; cl17270 292414001450 active site 292414001451 ATP binding site [chemical binding]; other site 292414001452 Peptidase family M23; Region: Peptidase_M23; pfam01551 292414001453 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 292414001454 inhibitor-cofactor binding pocket; inhibition site 292414001455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414001456 catalytic residue [active] 292414001457 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414001458 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414001459 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 292414001460 dimerization interface [polypeptide binding]; other site 292414001461 choline dehydrogenase; Validated; Region: PRK02106 292414001462 lycopene cyclase; Region: lycopene_cycl; TIGR01789 292414001463 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 292414001464 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 292414001465 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 292414001466 active site 292414001467 catalytic tetrad [active] 292414001468 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 292414001469 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 292414001470 putative active site pocket [active] 292414001471 metal binding site [ion binding]; metal-binding site 292414001472 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 292414001473 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 292414001474 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 292414001475 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 292414001476 NAD binding site [chemical binding]; other site 292414001477 homotetramer interface [polypeptide binding]; other site 292414001478 homodimer interface [polypeptide binding]; other site 292414001479 active site 292414001480 Domain of unknown function (DUF718); Region: DUF718; pfam05336 292414001481 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 292414001482 Mandelate racemase (MR)-like subfamily of the enolase superfamily. 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 residues; Region: MR_like; cd03316 292414001483 active site pocket [active] 292414001484 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 292414001485 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 292414001486 Walker A/P-loop; other site 292414001487 ATP binding site [chemical binding]; other site 292414001488 Q-loop/lid; other site 292414001489 ABC transporter signature motif; other site 292414001490 Walker B; other site 292414001491 D-loop; other site 292414001492 H-loop/switch region; other site 292414001493 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 292414001494 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 292414001495 dimer interface [polypeptide binding]; other site 292414001496 conserved gate region; other site 292414001497 putative PBP binding loops; other site 292414001498 ABC-ATPase subunit interface; other site 292414001499 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 292414001500 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 292414001501 dimer interface [polypeptide binding]; other site 292414001502 conserved gate region; other site 292414001503 putative PBP binding loops; other site 292414001504 ABC-ATPase subunit interface; other site 292414001505 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 292414001506 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 292414001507 Transcriptional regulator [Transcription]; Region: IclR; COG1414 292414001508 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 292414001509 Bacterial transcriptional regulator; Region: IclR; pfam01614 292414001510 Amidohydrolase; Region: Amidohydro_2; pfam04909 292414001511 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 292414001512 Protein of unknown function (DUF1403); Region: DUF1403; pfam07183 292414001513 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 292414001514 active site 292414001515 Int/Topo IB signature motif; other site 292414001516 DNA binding site [nucleotide binding] 292414001517 ParB-like nuclease domain; Region: ParBc; pfam02195 292414001518 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 292414001519 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 292414001520 P-loop; other site 292414001521 Magnesium ion binding site [ion binding]; other site 292414001522 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 292414001523 Magnesium ion binding site [ion binding]; other site 292414001524 Initiator Replication protein; Region: Rep_3; pfam01051 292414001525 malonyl-CoA synthase; Validated; Region: PRK07514 292414001526 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 292414001527 acyl-activating enzyme (AAE) consensus motif; other site 292414001528 active site 292414001529 AMP binding site [chemical binding]; other site 292414001530 CoA binding site [chemical binding]; other site 292414001531 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 292414001532 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 292414001533 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414001534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 292414001535 NADH(P)-binding; Region: NAD_binding_10; pfam13460 292414001536 NAD(P) binding site [chemical binding]; other site 292414001537 active site 292414001538 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 292414001539 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 292414001540 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 292414001541 catalytic loop [active] 292414001542 iron binding site [ion binding]; other site 292414001543 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 292414001544 FAD binding pocket [chemical binding]; other site 292414001545 FAD binding motif [chemical binding]; other site 292414001546 phosphate binding motif [ion binding]; other site 292414001547 beta-alpha-beta structure motif; other site 292414001548 NAD binding pocket [chemical binding]; other site 292414001549 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 292414001550 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 292414001551 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 292414001552 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 292414001553 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 292414001554 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 292414001555 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 292414001556 lipoyl-biotinyl attachment site [posttranslational modification]; other site 292414001557 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 292414001558 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 292414001559 ApbE family; Region: ApbE; pfam02424 292414001560 Protein of unknown function (DUF539); Region: DUF539; cl01129 292414001561 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 292414001562 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 292414001563 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 292414001564 HlyD family secretion protein; Region: HlyD_3; pfam13437 292414001565 WxcM-like, C-terminal; Region: FdtA; pfam05523 292414001566 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 292414001567 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 292414001568 inhibitor-cofactor binding pocket; inhibition site 292414001569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414001570 catalytic residue [active] 292414001571 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 292414001572 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 292414001573 active site 292414001574 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 292414001575 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 292414001576 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 292414001577 putative trimer interface [polypeptide binding]; other site 292414001578 putative CoA binding site [chemical binding]; other site 292414001579 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 292414001580 TPR motif; other site 292414001581 TPR repeat; Region: TPR_11; pfam13414 292414001582 binding surface 292414001583 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 292414001584 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 292414001585 active site residue [active] 292414001586 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 292414001587 Isochorismatase family; Region: Isochorismatase; pfam00857 292414001588 catalytic triad [active] 292414001589 metal binding site [ion binding]; metal-binding site 292414001590 conserved cis-peptide bond; other site 292414001591 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 292414001592 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 292414001593 putative active site [active] 292414001594 heme pocket [chemical binding]; other site 292414001595 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 292414001596 dimer interface [polypeptide binding]; other site 292414001597 phosphorylation site [posttranslational modification] 292414001598 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 292414001599 ATP binding site [chemical binding]; other site 292414001600 Mg2+ binding site [ion binding]; other site 292414001601 G-X-G motif; other site 292414001602 Response regulator receiver domain; Region: Response_reg; pfam00072 292414001603 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 292414001604 active site 292414001605 phosphorylation site [posttranslational modification] 292414001606 intermolecular recognition site; other site 292414001607 dimerization interface [polypeptide binding]; other site 292414001608 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 292414001609 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 292414001610 active site 292414001611 Predicted acetyltransferase [General function prediction only]; Region: COG5628 292414001612 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 292414001613 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414001614 Walker A/P-loop; other site 292414001615 ATP binding site [chemical binding]; other site 292414001616 Q-loop/lid; other site 292414001617 ABC transporter signature motif; other site 292414001618 Walker B; other site 292414001619 D-loop; other site 292414001620 H-loop/switch region; other site 292414001621 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414001622 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414001623 Walker A/P-loop; other site 292414001624 ATP binding site [chemical binding]; other site 292414001625 Q-loop/lid; other site 292414001626 ABC transporter signature motif; other site 292414001627 Walker B; other site 292414001628 D-loop; other site 292414001629 H-loop/switch region; other site 292414001630 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414001631 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 292414001632 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 292414001633 dimer interface [polypeptide binding]; other site 292414001634 conserved gate region; other site 292414001635 putative PBP binding loops; other site 292414001636 ABC-ATPase subunit interface; other site 292414001637 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 292414001638 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 292414001639 dimer interface [polypeptide binding]; other site 292414001640 conserved gate region; other site 292414001641 putative PBP binding loops; other site 292414001642 ABC-ATPase subunit interface; other site 292414001643 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_6; cd08494 292414001644 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 292414001645 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 292414001646 active site 292414001647 oligomerization interface [polypeptide binding]; other site 292414001648 metal binding site [ion binding]; metal-binding site 292414001649 Pantoate-beta-alanine ligase; Region: PanC; cd00560 292414001650 pantoate--beta-alanine ligase; Region: panC; TIGR00018 292414001651 active site 292414001652 ATP-binding site [chemical binding]; other site 292414001653 pantoate-binding site; other site 292414001654 HXXH motif; other site 292414001655 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 292414001656 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 292414001657 N- and C-terminal domain interface [polypeptide binding]; other site 292414001658 active site 292414001659 MgATP binding site [chemical binding]; other site 292414001660 catalytic site [active] 292414001661 metal binding site [ion binding]; metal-binding site 292414001662 glycerol binding site [chemical binding]; other site 292414001663 homotetramer interface [polypeptide binding]; other site 292414001664 homodimer interface [polypeptide binding]; other site 292414001665 FBP binding site [chemical binding]; other site 292414001666 protein IIAGlc interface [polypeptide binding]; other site 292414001667 hypothetical protein; Provisional; Region: PRK07538 292414001668 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 292414001669 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 292414001670 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 292414001671 nudix motif; other site 292414001672 Cytochrome c; Region: Cytochrom_C; cl11414 292414001673 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 292414001674 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 292414001675 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 292414001676 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 292414001677 hydroxyglutarate oxidase; Provisional; Region: PRK11728 292414001678 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 292414001679 S-formylglutathione hydrolase; Region: PLN02442 292414001680 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 292414001681 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 292414001682 Predicted permeases [General function prediction only]; Region: COG0679 292414001683 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414001684 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414001685 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 292414001686 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 292414001687 dimerization interface [polypeptide binding]; other site 292414001688 putative DNA binding site [nucleotide binding]; other site 292414001689 putative Zn2+ binding site [ion binding]; other site 292414001690 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 292414001691 Bacterial SH3 domain; Region: SH3_4; pfam06347 292414001692 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 292414001693 NlpC/P60 family; Region: NLPC_P60; cl17555 292414001694 multifunctional aminopeptidase A; Provisional; Region: PRK00913 292414001695 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 292414001696 interface (dimer of trimers) [polypeptide binding]; other site 292414001697 Substrate-binding/catalytic site; other site 292414001698 Zn-binding sites [ion binding]; other site 292414001699 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_cladeB; cd00884 292414001700 active site clefts [active] 292414001701 zinc binding site [ion binding]; other site 292414001702 dimer interface [polypeptide binding]; other site 292414001703 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 292414001704 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 292414001705 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 292414001706 conserved hypothetical protein; Region: TIGR02231 292414001707 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 292414001708 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 292414001709 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 292414001710 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 292414001711 active site 292414001712 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 292414001713 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 292414001714 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 292414001715 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 292414001716 tyrosine decarboxylase; Region: PLN02880 292414001717 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 292414001718 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 292414001719 catalytic residue [active] 292414001720 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 292414001721 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 292414001722 tetramer interface [polypeptide binding]; other site 292414001723 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 292414001724 tetramer interface [polypeptide binding]; other site 292414001725 active site 292414001726 metal binding site [ion binding]; metal-binding site 292414001727 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 292414001728 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 292414001729 NAD binding site [chemical binding]; other site 292414001730 catalytic residues [active] 292414001731 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 292414001732 putative substrate binding pocket [chemical binding]; other site 292414001733 trimer interface [polypeptide binding]; other site 292414001734 MarR family; Region: MarR_2; cl17246 292414001735 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 292414001736 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 292414001737 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 292414001738 MOFRL family; Region: MOFRL; pfam05161 292414001739 hypothetical protein; Provisional; Region: PRK11171 292414001740 Cupin domain; Region: Cupin_2; pfam07883 292414001741 Cupin domain; Region: Cupin_2; cl17218 292414001742 xanthine permease; Region: pbuX; TIGR03173 292414001743 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 292414001744 ureidoglycolate hydrolase; Provisional; Region: PRK03606 292414001745 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 292414001746 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 292414001747 active site 292414001748 catalytic site [active] 292414001749 tetramer interface [polypeptide binding]; other site 292414001750 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 292414001751 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 292414001752 active site 292414001753 homotetramer interface [polypeptide binding]; other site 292414001754 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414001755 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414001756 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 292414001757 putative effector binding pocket; other site 292414001758 dimerization interface [polypeptide binding]; other site 292414001759 Predicted membrane protein [Function unknown]; Region: COG3748 292414001760 Protein of unknown function (DUF989); Region: DUF989; pfam06181 292414001761 Cytochrome c; Region: Cytochrom_C; pfam00034 292414001762 guanine deaminase; Provisional; Region: PRK09228 292414001763 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 292414001764 active site 292414001765 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 292414001766 Response regulator receiver domain; Region: Response_reg; pfam00072 292414001767 active site 292414001768 phosphorylation site [posttranslational modification] 292414001769 intermolecular recognition site; other site 292414001770 dimerization interface [polypeptide binding]; other site 292414001771 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 292414001772 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 292414001773 Walker A/P-loop; other site 292414001774 ATP binding site [chemical binding]; other site 292414001775 Q-loop/lid; other site 292414001776 ABC transporter signature motif; other site 292414001777 Walker B; other site 292414001778 D-loop; other site 292414001779 H-loop/switch region; other site 292414001780 TOBE domain; Region: TOBE_2; pfam08402 292414001781 Transcriptional regulator [Transcription]; Region: IclR; COG1414 292414001782 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 292414001783 Bacterial transcriptional regulator; Region: IclR; pfam01614 292414001784 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 292414001785 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 292414001786 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 292414001787 dimer interface [polypeptide binding]; other site 292414001788 conserved gate region; other site 292414001789 putative PBP binding loops; other site 292414001790 ABC-ATPase subunit interface; other site 292414001791 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 292414001792 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 292414001793 dimer interface [polypeptide binding]; other site 292414001794 conserved gate region; other site 292414001795 putative PBP binding loops; other site 292414001796 ABC-ATPase subunit interface; other site 292414001797 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 292414001798 Melibiase; Region: Melibiase; pfam02065 292414001799 dihydroxy-acid dehydratase; Validated; Region: PRK06131 292414001800 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 292414001801 classical (c) SDRs; Region: SDR_c; cd05233 292414001802 NAD(P) binding site [chemical binding]; other site 292414001803 active site 292414001804 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 292414001805 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 292414001806 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 292414001807 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 292414001808 active site 292414001809 intersubunit interface [polypeptide binding]; other site 292414001810 catalytic residue [active] 292414001811 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 292414001812 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 292414001813 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 292414001814 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 292414001815 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 292414001816 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 292414001817 active site 292414001818 metal binding site [ion binding]; metal-binding site 292414001819 DNA binding site [nucleotide binding] 292414001820 P-loop containing region of AAA domain; Region: AAA_29; cl17516 292414001821 AAA domain; Region: AAA_23; pfam13476 292414001822 AAA domain; Region: AAA_27; pfam13514 292414001823 diaminopimelate decarboxylase; Region: lysA; TIGR01048 292414001824 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 292414001825 active site 292414001826 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 292414001827 substrate binding site [chemical binding]; other site 292414001828 catalytic residues [active] 292414001829 dimer interface [polypeptide binding]; other site 292414001830 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 292414001831 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 292414001832 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 292414001833 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 292414001834 Walker A/P-loop; other site 292414001835 ATP binding site [chemical binding]; other site 292414001836 Q-loop/lid; other site 292414001837 ABC transporter signature motif; other site 292414001838 Walker B; other site 292414001839 D-loop; other site 292414001840 H-loop/switch region; other site 292414001841 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 292414001842 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 292414001843 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 292414001844 putative acyl-acceptor binding pocket; other site 292414001845 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 292414001846 EthD domain; Region: EthD; cl17553 292414001847 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 292414001848 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 292414001849 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 292414001850 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 292414001851 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 292414001852 MAPEG family; Region: MAPEG; pfam01124 292414001853 MAPEG family; Region: MAPEG; pfam01124 292414001854 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 292414001855 E3 interaction surface; other site 292414001856 lipoyl attachment site [posttranslational modification]; other site 292414001857 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 292414001858 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 292414001859 E3 interaction surface; other site 292414001860 lipoyl attachment site [posttranslational modification]; other site 292414001861 e3 binding domain; Region: E3_binding; pfam02817 292414001862 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 292414001863 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 292414001864 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 292414001865 TPP-binding site [chemical binding]; other site 292414001866 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 292414001867 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 292414001868 CoA binding domain; Region: CoA_binding; pfam02629 292414001869 CoA-ligase; Region: Ligase_CoA; pfam00549 292414001870 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 292414001871 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 292414001872 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 292414001873 CoA-ligase; Region: Ligase_CoA; pfam00549 292414001874 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 292414001875 malate dehydrogenase; Reviewed; Region: PRK06223 292414001876 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 292414001877 NAD(P) binding site [chemical binding]; other site 292414001878 dimer interface [polypeptide binding]; other site 292414001879 tetramer (dimer of dimers) interface [polypeptide binding]; other site 292414001880 substrate binding site [chemical binding]; other site 292414001881 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 292414001882 NnrU protein; Region: NnrU; pfam07298 292414001883 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 292414001884 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 292414001885 putative active site [active] 292414001886 putative catalytic site [active] 292414001887 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 292414001888 active site 2 [active] 292414001889 active site 1 [active] 292414001890 Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]; Region: phoE; COG0406 292414001891 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 292414001892 Iron-sulfur protein interface; other site 292414001893 proximal quinone binding site [chemical binding]; other site 292414001894 SdhD (CybS) interface [polypeptide binding]; other site 292414001895 proximal heme binding site [chemical binding]; other site 292414001896 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 292414001897 putative SdhC subunit interface [polypeptide binding]; other site 292414001898 putative proximal heme binding site [chemical binding]; other site 292414001899 putative Iron-sulfur protein interface [polypeptide binding]; other site 292414001900 putative proximal quinone binding site; other site 292414001901 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 292414001902 L-aspartate oxidase; Provisional; Region: PRK06175 292414001903 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 292414001904 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 292414001905 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 292414001906 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 292414001907 Transcriptional regulators [Transcription]; Region: PurR; COG1609 292414001908 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 292414001909 DNA binding site [nucleotide binding] 292414001910 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 292414001911 putative ligand binding site [chemical binding]; other site 292414001912 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 292414001913 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 292414001914 active site 292414001915 catalytic residues [active] 292414001916 DNA binding site [nucleotide binding] 292414001917 Int/Topo IB signature motif; other site 292414001918 Transposase; Region: HTH_Tnp_1; pfam01527 292414001919 putative transposase OrfB; Reviewed; Region: PHA02517 292414001920 HTH-like domain; Region: HTH_21; pfam13276 292414001921 Integrase core domain; Region: rve; pfam00665 292414001922 Integrase core domain; Region: rve_3; pfam13683 292414001923 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 292414001924 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 292414001925 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 292414001926 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 292414001927 ATP binding site [chemical binding]; other site 292414001928 putative Mg++ binding site [ion binding]; other site 292414001929 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; cl17351 292414001930 nucleotide binding region [chemical binding]; other site 292414001931 ATP-binding site [chemical binding]; other site 292414001932 Uncharacterized conserved protein [Function unknown]; Region: COG1479 292414001933 Protein of unknown function DUF262; Region: DUF262; pfam03235 292414001934 Protein of unknown function DUF262; Region: DUF262; pfam03235 292414001935 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 292414001936 Uncharacterized conserved protein [Function unknown]; Region: COG3586 292414001937 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 292414001938 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 292414001939 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 292414001940 HsdM N-terminal domain; Region: HsdM_N; pfam12161 292414001941 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 292414001942 Methyltransferase domain; Region: Methyltransf_26; pfam13659 292414001943 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 292414001944 active site 292414001945 catalytic residues [active] 292414001946 DNA binding site [nucleotide binding] 292414001947 Int/Topo IB signature motif; other site 292414001948 Helix-turn-helix domain; Region: HTH_17; pfam12728 292414001949 BRO family, N-terminal domain; Region: Bro-N; pfam02498 292414001950 Protein of unknown function DUF45; Region: DUF45; pfam01863 292414001951 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 292414001952 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 292414001953 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 292414001954 ATP binding site [chemical binding]; other site 292414001955 putative Mg++ binding site [ion binding]; other site 292414001956 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 292414001957 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 292414001958 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 292414001959 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 292414001960 HsdM N-terminal domain; Region: HsdM_N; pfam12161 292414001961 Methyltransferase domain; Region: Methyltransf_26; pfam13659 292414001962 BRO family, N-terminal domain; Region: Bro-N; pfam02498 292414001963 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 292414001964 active site 292414001965 Int/Topo IB signature motif; other site 292414001966 catalytic residues [active] 292414001967 DNA binding site [nucleotide binding] 292414001968 Domain of unknown function (DUF329); Region: DUF329; cl01144 292414001969 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 292414001970 Maf-like protein; Region: Maf; pfam02545 292414001971 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 292414001972 active site 292414001973 dimer interface [polypeptide binding]; other site 292414001974 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 292414001975 rRNA binding site [nucleotide binding]; other site 292414001976 predicted 30S ribosome binding site; other site 292414001977 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 292414001978 Predicted amidohydrolase [General function prediction only]; Region: COG0388 292414001979 putative active site [active] 292414001980 catalytic triad [active] 292414001981 putative dimer interface [polypeptide binding]; other site 292414001982 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 292414001983 Coenzyme A binding pocket [chemical binding]; other site 292414001984 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 292414001985 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 292414001986 Low molecular weight phosphatase family; Region: LMWPc; cd00115 292414001987 active site 292414001988 hypothetical protein; Provisional; Region: PRK02853 292414001989 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 292414001990 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 292414001991 NAD binding site [chemical binding]; other site 292414001992 dimerization interface [polypeptide binding]; other site 292414001993 product binding site; other site 292414001994 substrate binding site [chemical binding]; other site 292414001995 zinc binding site [ion binding]; other site 292414001996 catalytic residues [active] 292414001997 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 292414001998 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 292414001999 hinge; other site 292414002000 active site 292414002001 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 292414002002 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 292414002003 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 292414002004 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 292414002005 tetramer interface [polypeptide binding]; other site 292414002006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414002007 catalytic residue [active] 292414002008 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 292414002009 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 292414002010 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 292414002011 motif II; other site 292414002012 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 292414002013 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 292414002014 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 292414002015 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 292414002016 Transglycosylase SLT domain; Region: SLT_2; pfam13406 292414002017 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 292414002018 N-acetyl-D-glucosamine binding site [chemical binding]; other site 292414002019 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 292414002020 Domain of unknown function (DUF4383); Region: DUF4383; pfam14325 292414002021 FAD binding domain; Region: FAD_binding_4; pfam01565 292414002022 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 292414002023 reductive dehalogenase; Region: RDH; TIGR02486 292414002024 reductive dehalogenase; Region: RDH; TIGR02486 292414002025 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 292414002026 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 292414002027 FMN-binding pocket [chemical binding]; other site 292414002028 flavin binding motif; other site 292414002029 phosphate binding motif [ion binding]; other site 292414002030 beta-alpha-beta structure motif; other site 292414002031 NAD binding pocket [chemical binding]; other site 292414002032 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 292414002033 catalytic loop [active] 292414002034 iron binding site [ion binding]; other site 292414002035 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 292414002036 Helix-turn-helix domain; Region: HTH_17; pfam12728 292414002037 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 292414002038 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 292414002039 active site 292414002040 Int/Topo IB signature motif; other site 292414002041 DNA binding site [nucleotide binding] 292414002042 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 292414002043 active site 292414002044 catalytic residues [active] 292414002045 DNA binding site [nucleotide binding] 292414002046 Int/Topo IB signature motif; other site 292414002047 Sporulation related domain; Region: SPOR; pfam05036 292414002048 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 292414002049 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 292414002050 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 292414002051 thymidylate kinase; Validated; Region: tmk; PRK00698 292414002052 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 292414002053 TMP-binding site; other site 292414002054 ATP-binding site [chemical binding]; other site 292414002055 DNA polymerase III subunit delta'; Validated; Region: PRK07471 292414002056 DNA polymerase III subunit delta'; Validated; Region: PRK08485 292414002057 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 292414002058 active site 292414002059 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 292414002060 putative hydrolase; Provisional; Region: PRK02113 292414002061 Predicted permeases [General function prediction only]; Region: COG0679 292414002062 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 292414002063 catalytic triad [active] 292414002064 dimer interface [polypeptide binding]; other site 292414002065 hypothetical protein; Provisional; Region: PRK07079 292414002066 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 292414002067 metal binding site [ion binding]; metal-binding site 292414002068 putative dimer interface [polypeptide binding]; other site 292414002069 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 292414002070 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 292414002071 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 292414002072 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414002073 Walker A/P-loop; other site 292414002074 ATP binding site [chemical binding]; other site 292414002075 Q-loop/lid; other site 292414002076 ABC transporter signature motif; other site 292414002077 Walker B; other site 292414002078 D-loop; other site 292414002079 H-loop/switch region; other site 292414002080 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414002081 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 292414002082 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414002083 Walker A/P-loop; other site 292414002084 ATP binding site [chemical binding]; other site 292414002085 Q-loop/lid; other site 292414002086 ABC transporter signature motif; other site 292414002087 Walker B; other site 292414002088 D-loop; other site 292414002089 H-loop/switch region; other site 292414002090 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414002091 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 292414002092 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 292414002093 dimer interface [polypeptide binding]; other site 292414002094 conserved gate region; other site 292414002095 putative PBP binding loops; other site 292414002096 ABC-ATPase subunit interface; other site 292414002097 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 292414002098 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 292414002099 dimer interface [polypeptide binding]; other site 292414002100 conserved gate region; other site 292414002101 putative PBP binding loops; other site 292414002102 ABC-ATPase subunit interface; other site 292414002103 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 292414002104 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_10; cd08515 292414002105 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 292414002106 Transcriptional regulator [Transcription]; Region: IclR; COG1414 292414002107 Bacterial transcriptional regulator; Region: IclR; pfam01614 292414002108 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 292414002109 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 292414002110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414002111 homodimer interface [polypeptide binding]; other site 292414002112 catalytic residue [active] 292414002113 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 292414002114 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 292414002115 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 292414002116 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 292414002117 active site 292414002118 homodimer interface [polypeptide binding]; other site 292414002119 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 292414002120 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 292414002121 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 292414002122 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 292414002123 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 292414002124 putative active site [active] 292414002125 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 292414002126 active site residue [active] 292414002127 Rhodanese-like domain; Region: Rhodanese; pfam00581 292414002128 active site residue [active] 292414002129 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 292414002130 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 292414002131 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 292414002132 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 292414002133 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 292414002134 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 292414002135 dimer interface [polypeptide binding]; other site 292414002136 phosphorylation site [posttranslational modification] 292414002137 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 292414002138 ATP binding site [chemical binding]; other site 292414002139 Mg2+ binding site [ion binding]; other site 292414002140 G-X-G motif; other site 292414002141 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 292414002142 Response regulator receiver domain; Region: Response_reg; pfam00072 292414002143 active site 292414002144 phosphorylation site [posttranslational modification] 292414002145 intermolecular recognition site; other site 292414002146 dimerization interface [polypeptide binding]; other site 292414002147 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 292414002148 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 292414002149 active site 292414002150 phosphorylation site [posttranslational modification] 292414002151 intermolecular recognition site; other site 292414002152 dimerization interface [polypeptide binding]; other site 292414002153 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 292414002154 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 292414002155 ABC-ATPase subunit interface; other site 292414002156 dimer interface [polypeptide binding]; other site 292414002157 putative PBP binding regions; other site 292414002158 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 292414002159 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 292414002160 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 292414002161 metal binding site 2 [ion binding]; metal-binding site 292414002162 putative DNA binding helix; other site 292414002163 metal binding site 1 [ion binding]; metal-binding site 292414002164 dimer interface [polypeptide binding]; other site 292414002165 structural Zn2+ binding site [ion binding]; other site 292414002166 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 292414002167 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 292414002168 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 292414002169 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 292414002170 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 292414002171 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 292414002172 substrate binding pocket [chemical binding]; other site 292414002173 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 292414002174 B12 binding site [chemical binding]; other site 292414002175 cobalt ligand [ion binding]; other site 292414002176 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 292414002177 Protein of unknown function, DUF393; Region: DUF393; pfam04134 292414002178 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 292414002179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 292414002180 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 292414002181 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 292414002182 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 292414002183 NAD(P) binding site [chemical binding]; other site 292414002184 catalytic residues [active] 292414002185 GAF domain; Region: GAF; pfam01590 292414002186 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 292414002187 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 292414002188 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 292414002189 putative tRNA-binding site [nucleotide binding]; other site 292414002190 B3/4 domain; Region: B3_4; pfam03483 292414002191 tRNA synthetase B5 domain; Region: B5; smart00874 292414002192 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 292414002193 dimer interface [polypeptide binding]; other site 292414002194 motif 1; other site 292414002195 motif 3; other site 292414002196 motif 2; other site 292414002197 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 292414002198 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 292414002199 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 292414002200 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 292414002201 Mechanosensitive ion channel; Region: MS_channel; pfam00924 292414002202 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 292414002203 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 292414002204 hexamer interface [polypeptide binding]; other site 292414002205 ligand binding site [chemical binding]; other site 292414002206 putative active site [active] 292414002207 NAD(P) binding site [chemical binding]; other site 292414002208 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414002209 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 292414002210 putative DNA binding site [nucleotide binding]; other site 292414002211 putative Zn2+ binding site [ion binding]; other site 292414002212 AsnC family; Region: AsnC_trans_reg; pfam01037 292414002213 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 292414002214 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 292414002215 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 292414002216 MoaE interaction surface [polypeptide binding]; other site 292414002217 MoeB interaction surface [polypeptide binding]; other site 292414002218 thiocarboxylated glycine; other site 292414002219 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 292414002220 MoaD interaction [polypeptide binding]; other site 292414002221 active site residues [active] 292414002222 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 292414002223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414002224 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 292414002225 putative dimerization interface [polypeptide binding]; other site 292414002226 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 292414002227 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 292414002228 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 292414002229 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414002230 Walker A/P-loop; other site 292414002231 ATP binding site [chemical binding]; other site 292414002232 Q-loop/lid; other site 292414002233 ABC transporter signature motif; other site 292414002234 Walker B; other site 292414002235 D-loop; other site 292414002236 H-loop/switch region; other site 292414002237 TOBE domain; Region: TOBE_2; pfam08402 292414002238 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 292414002239 dimer interface [polypeptide binding]; other site 292414002240 conserved gate region; other site 292414002241 putative PBP binding loops; other site 292414002242 ABC-ATPase subunit interface; other site 292414002243 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 292414002244 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 292414002245 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 292414002246 putative PBP binding loops; other site 292414002247 ABC-ATPase subunit interface; other site 292414002248 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 292414002249 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 292414002250 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 292414002251 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 292414002252 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414002253 DNA-binding site [nucleotide binding]; DNA binding site 292414002254 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 292414002255 UTRA domain; Region: UTRA; pfam07702 292414002256 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 292414002257 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 292414002258 ligand binding site [chemical binding]; other site 292414002259 flexible hinge region; other site 292414002260 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 292414002261 putative switch regulator; other site 292414002262 non-specific DNA interactions [nucleotide binding]; other site 292414002263 DNA binding site [nucleotide binding] 292414002264 sequence specific DNA binding site [nucleotide binding]; other site 292414002265 putative cAMP binding site [chemical binding]; other site 292414002266 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 292414002267 Predicted transporter component [General function prediction only]; Region: COG2391 292414002268 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 292414002269 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 292414002270 high affinity sulphate transporter 1; Region: sulP; TIGR00815 292414002271 Sulfate transporter family; Region: Sulfate_transp; pfam00916 292414002272 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 292414002273 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 292414002274 dimer interface [polypeptide binding]; other site 292414002275 substrate binding site [chemical binding]; other site 292414002276 ATP binding site [chemical binding]; other site 292414002277 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 292414002278 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 292414002279 thiS-thiF/thiG interaction site; other site 292414002280 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 292414002281 ThiS interaction site; other site 292414002282 putative active site [active] 292414002283 tetramer interface [polypeptide binding]; other site 292414002284 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 292414002285 active site 292414002286 thiamine phosphate binding site [chemical binding]; other site 292414002287 pyrophosphate binding site [ion binding]; other site 292414002288 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 292414002289 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 292414002290 ATP binding site [chemical binding]; other site 292414002291 substrate interface [chemical binding]; other site 292414002292 NMT1/THI5 like; Region: NMT1; pfam09084 292414002293 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; cl17432 292414002294 membrane-bound complex binding site; other site 292414002295 Putative transcription activator [Transcription]; Region: TenA; COG0819 292414002296 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 292414002297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414002298 Walker A/P-loop; other site 292414002299 ATP binding site [chemical binding]; other site 292414002300 Q-loop/lid; other site 292414002301 ABC transporter signature motif; other site 292414002302 Walker B; other site 292414002303 D-loop; other site 292414002304 H-loop/switch region; other site 292414002305 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 292414002306 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 292414002307 dimer interface [polypeptide binding]; other site 292414002308 conserved gate region; other site 292414002309 putative PBP binding loops; other site 292414002310 ABC-ATPase subunit interface; other site 292414002311 BioY family; Region: BioY; pfam02632 292414002312 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 292414002313 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 292414002314 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 292414002315 Walker A/P-loop; other site 292414002316 ATP binding site [chemical binding]; other site 292414002317 Q-loop/lid; other site 292414002318 ABC transporter signature motif; other site 292414002319 Walker B; other site 292414002320 D-loop; other site 292414002321 H-loop/switch region; other site 292414002322 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 292414002323 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414002324 Walker A/P-loop; other site 292414002325 ATP binding site [chemical binding]; other site 292414002326 Q-loop/lid; other site 292414002327 ABC transporter signature motif; other site 292414002328 Walker B; other site 292414002329 D-loop; other site 292414002330 H-loop/switch region; other site 292414002331 TOBE domain; Region: TOBE; cl01440 292414002332 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 292414002333 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 292414002334 dimer interface [polypeptide binding]; other site 292414002335 conserved gate region; other site 292414002336 putative PBP binding loops; other site 292414002337 ABC-ATPase subunit interface; other site 292414002338 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 292414002339 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 292414002340 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 292414002341 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 292414002342 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 292414002343 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 292414002344 Na binding site [ion binding]; other site 292414002345 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 292414002346 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 292414002347 ligand binding site [chemical binding]; other site 292414002348 flexible hinge region; other site 292414002349 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 292414002350 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 292414002351 metal binding triad; other site 292414002352 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 292414002353 active site 292414002354 catalytic site [active] 292414002355 substrate binding site [chemical binding]; other site 292414002356 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 292414002357 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 292414002358 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 292414002359 putative DNA binding site [nucleotide binding]; other site 292414002360 putative Zn2+ binding site [ion binding]; other site 292414002361 WYL domain; Region: WYL; pfam13280 292414002362 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 292414002363 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 292414002364 NAD binding site [chemical binding]; other site 292414002365 catalytic Zn binding site [ion binding]; other site 292414002366 substrate binding site [chemical binding]; other site 292414002367 structural Zn binding site [ion binding]; other site 292414002368 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 292414002369 Mandelate racemase (MR)-like subfamily of the enolase superfamily. 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 residues; Region: MR_like; cd03316 292414002370 active site pocket [active] 292414002371 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 292414002372 dimerization interface [polypeptide binding]; other site 292414002373 putative DNA binding site [nucleotide binding]; other site 292414002374 putative Zn2+ binding site [ion binding]; other site 292414002375 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 292414002376 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 292414002377 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 292414002378 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 292414002379 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 292414002380 Walker A/P-loop; other site 292414002381 ATP binding site [chemical binding]; other site 292414002382 Q-loop/lid; other site 292414002383 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414002384 Q-loop/lid; other site 292414002385 ABC transporter signature motif; other site 292414002386 Walker B; other site 292414002387 D-loop; other site 292414002388 H-loop/switch region; other site 292414002389 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 292414002390 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 292414002391 ligand binding site [chemical binding]; other site 292414002392 flexible hinge region; other site 292414002393 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 292414002394 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 292414002395 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 292414002396 conserved cys residue [active] 292414002397 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414002398 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 292414002399 putative DNA binding site [nucleotide binding]; other site 292414002400 putative Zn2+ binding site [ion binding]; other site 292414002401 AsnC family; Region: AsnC_trans_reg; pfam01037 292414002402 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 292414002403 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 292414002404 dimer interface [polypeptide binding]; other site 292414002405 PYR/PP interface [polypeptide binding]; other site 292414002406 TPP binding site [chemical binding]; other site 292414002407 substrate binding site [chemical binding]; other site 292414002408 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 292414002409 TPP-binding site [chemical binding]; other site 292414002410 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 292414002411 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414002412 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414002413 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 292414002414 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414002415 Walker A/P-loop; other site 292414002416 ATP binding site [chemical binding]; other site 292414002417 Q-loop/lid; other site 292414002418 ABC transporter signature motif; other site 292414002419 Walker B; other site 292414002420 D-loop; other site 292414002421 H-loop/switch region; other site 292414002422 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414002423 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414002424 Walker A/P-loop; other site 292414002425 ATP binding site [chemical binding]; other site 292414002426 Q-loop/lid; other site 292414002427 ABC transporter signature motif; other site 292414002428 Walker B; other site 292414002429 D-loop; other site 292414002430 H-loop/switch region; other site 292414002431 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414002432 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 292414002433 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 292414002434 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 292414002435 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 292414002436 dimer interface [polypeptide binding]; other site 292414002437 conserved gate region; other site 292414002438 putative PBP binding loops; other site 292414002439 ABC-ATPase subunit interface; other site 292414002440 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 292414002441 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 292414002442 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 292414002443 dimer interface [polypeptide binding]; other site 292414002444 conserved gate region; other site 292414002445 putative PBP binding loops; other site 292414002446 ABC-ATPase subunit interface; other site 292414002447 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 292414002448 CoA-transferase family III; Region: CoA_transf_3; pfam02515 292414002449 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 292414002450 Mechanosensitive ion channel; Region: MS_channel; pfam00924 292414002451 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 292414002452 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 292414002453 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 292414002454 putative ADP-binding pocket [chemical binding]; other site 292414002455 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 292414002456 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 292414002457 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 292414002458 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 292414002459 catalytic core [active] 292414002460 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 292414002461 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 292414002462 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 292414002463 NodB motif; other site 292414002464 putative active site [active] 292414002465 putative catalytic site [active] 292414002466 putative Zn binding site [ion binding]; other site 292414002467 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 292414002468 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 292414002469 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 292414002470 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 292414002471 active site 292414002472 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 292414002473 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 292414002474 AAA domain; Region: AAA_18; pfam13238 292414002475 active site 292414002476 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 292414002477 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 292414002478 Walker A/P-loop; other site 292414002479 ATP binding site [chemical binding]; other site 292414002480 Q-loop/lid; other site 292414002481 ABC transporter signature motif; other site 292414002482 Walker B; other site 292414002483 D-loop; other site 292414002484 H-loop/switch region; other site 292414002485 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 292414002486 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414002487 Walker A/P-loop; other site 292414002488 ATP binding site [chemical binding]; other site 292414002489 Q-loop/lid; other site 292414002490 ABC transporter signature motif; other site 292414002491 Walker B; other site 292414002492 D-loop; other site 292414002493 H-loop/switch region; other site 292414002494 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414002495 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 292414002496 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 292414002497 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 292414002498 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 292414002499 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 292414002500 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414002501 DNA-binding site [nucleotide binding]; DNA binding site 292414002502 UTRA domain; Region: UTRA; pfam07702 292414002503 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 292414002504 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 292414002505 trimer interface [polypeptide binding]; other site 292414002506 active site 292414002507 substrate binding site [chemical binding]; other site 292414002508 CoA binding site [chemical binding]; other site 292414002509 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 292414002510 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 292414002511 dimer interface [polypeptide binding]; other site 292414002512 conserved gate region; other site 292414002513 ABC-ATPase subunit interface; other site 292414002514 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 292414002515 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 292414002516 dimer interface [polypeptide binding]; other site 292414002517 conserved gate region; other site 292414002518 putative PBP binding loops; other site 292414002519 ABC-ATPase subunit interface; other site 292414002520 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 292414002521 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 292414002522 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 292414002523 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 292414002524 Walker A/P-loop; other site 292414002525 ATP binding site [chemical binding]; other site 292414002526 Q-loop/lid; other site 292414002527 ABC transporter signature motif; other site 292414002528 Walker B; other site 292414002529 D-loop; other site 292414002530 H-loop/switch region; other site 292414002531 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 292414002532 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 292414002533 substrate binding site [chemical binding]; other site 292414002534 hexamer interface [polypeptide binding]; other site 292414002535 metal binding site [ion binding]; metal-binding site 292414002536 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 292414002537 CoenzymeA binding site [chemical binding]; other site 292414002538 subunit interaction site [polypeptide binding]; other site 292414002539 PHB binding site; other site 292414002540 hypothetical protein; Provisional; Region: PRK02399 292414002541 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 292414002542 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 292414002543 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 292414002544 NAD(P) binding site [chemical binding]; other site 292414002545 catalytic residues [active] 292414002546 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 292414002547 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 292414002548 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 292414002549 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 292414002550 Transcriptional regulator [Transcription]; Region: IclR; COG1414 292414002551 Bacterial transcriptional regulator; Region: IclR; pfam01614 292414002552 hypothetical protein; Provisional; Region: PRK07481 292414002553 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 292414002554 inhibitor-cofactor binding pocket; inhibition site 292414002555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414002556 catalytic residue [active] 292414002557 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 292414002558 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 292414002559 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 292414002560 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 292414002561 Cytochrome P450; Region: p450; cl12078 292414002562 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 292414002563 catalytic triad [active] 292414002564 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414002565 Transcriptional regulators [Transcription]; Region: GntR; COG1802 292414002566 DNA-binding site [nucleotide binding]; DNA binding site 292414002567 FCD domain; Region: FCD; pfam07729 292414002568 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 292414002569 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 292414002570 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 292414002571 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 292414002572 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 292414002573 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 292414002574 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 292414002575 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 292414002576 FAD binding pocket [chemical binding]; other site 292414002577 FAD binding motif [chemical binding]; other site 292414002578 phosphate binding motif [ion binding]; other site 292414002579 beta-alpha-beta structure motif; other site 292414002580 NAD(p) ribose binding residues [chemical binding]; other site 292414002581 NAD binding pocket [chemical binding]; other site 292414002582 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 292414002583 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 292414002584 catalytic loop [active] 292414002585 iron binding site [ion binding]; other site 292414002586 aminotransferase; Provisional; Region: PRK13356 292414002587 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 292414002588 homodimer interface [polypeptide binding]; other site 292414002589 substrate-cofactor binding pocket; other site 292414002590 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414002591 catalytic residue [active] 292414002592 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 292414002593 Ligand Binding Site [chemical binding]; other site 292414002594 argininosuccinate lyase; Provisional; Region: PRK00855 292414002595 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 292414002596 active sites [active] 292414002597 tetramer interface [polypeptide binding]; other site 292414002598 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 292414002599 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 292414002600 catalytic residues [active] 292414002601 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 292414002602 putative acyltransferase; Provisional; Region: PRK05790 292414002603 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 292414002604 dimer interface [polypeptide binding]; other site 292414002605 active site 292414002606 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 292414002607 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 292414002608 NAD(P) binding site [chemical binding]; other site 292414002609 homotetramer interface [polypeptide binding]; other site 292414002610 homodimer interface [polypeptide binding]; other site 292414002611 active site 292414002612 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 292414002613 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414002614 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 292414002615 dimerization interface [polypeptide binding]; other site 292414002616 substrate binding pocket [chemical binding]; other site 292414002617 aromatic amino acid exporter; Provisional; Region: PRK11689 292414002618 Protein of unknown function (DUF465); Region: DUF465; cl01070 292414002619 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 292414002620 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 292414002621 S-adenosylmethionine binding site [chemical binding]; other site 292414002622 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 292414002623 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 292414002624 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 292414002625 substrate binding pocket [chemical binding]; other site 292414002626 chain length determination region; other site 292414002627 substrate-Mg2+ binding site; other site 292414002628 catalytic residues [active] 292414002629 aspartate-rich region 1; other site 292414002630 active site lid residues [active] 292414002631 aspartate-rich region 2; other site 292414002632 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 292414002633 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 292414002634 TPR motif; other site 292414002635 binding surface 292414002636 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 292414002637 binding surface 292414002638 TPR repeat; Region: TPR_11; pfam13414 292414002639 TPR motif; other site 292414002640 TPR repeat; Region: TPR_11; pfam13414 292414002641 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 292414002642 binding surface 292414002643 TPR motif; other site 292414002644 TPR repeat; Region: TPR_11; pfam13414 292414002645 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 292414002646 hydroxyglutarate oxidase; Provisional; Region: PRK11728 292414002647 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 292414002648 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 292414002649 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 292414002650 DNA binding residues [nucleotide binding] 292414002651 dimer interface [polypeptide binding]; other site 292414002652 [2Fe-2S] cluster binding site [ion binding]; other site 292414002653 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 292414002654 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 292414002655 active site 292414002656 metal binding site [ion binding]; metal-binding site 292414002657 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 292414002658 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 292414002659 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 292414002660 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 292414002661 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK14690 292414002662 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 292414002663 dimer interface [polypeptide binding]; other site 292414002664 putative functional site; other site 292414002665 putative MPT binding site; other site 292414002666 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 292414002667 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 292414002668 Walker A motif; other site 292414002669 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 292414002670 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 292414002671 GTP binding site; other site 292414002672 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 292414002673 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 292414002674 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 292414002675 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 292414002676 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 292414002677 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414002678 tartrate dehydrogenase; Region: TTC; TIGR02089 292414002679 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 292414002680 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 292414002681 putative catalytic site [active] 292414002682 putative phosphate binding site [ion binding]; other site 292414002683 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 292414002684 dimer interface [polypeptide binding]; other site 292414002685 conserved gate region; other site 292414002686 ABC-ATPase subunit interface; other site 292414002687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414002688 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 292414002689 Walker A/P-loop; other site 292414002690 ATP binding site [chemical binding]; other site 292414002691 Q-loop/lid; other site 292414002692 ABC transporter signature motif; other site 292414002693 Walker B; other site 292414002694 D-loop; other site 292414002695 H-loop/switch region; other site 292414002696 DnaA N-terminal domain; Region: DnaA_N; pfam11638 292414002697 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 292414002698 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 292414002699 Walker A motif; other site 292414002700 ATP binding site [chemical binding]; other site 292414002701 Walker B motif; other site 292414002702 arginine finger; other site 292414002703 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 292414002704 DnaA box-binding interface [nucleotide binding]; other site 292414002705 DNA polymerase III subunit beta; Validated; Region: PRK05643 292414002706 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 292414002707 putative DNA binding surface [nucleotide binding]; other site 292414002708 dimer interface [polypeptide binding]; other site 292414002709 beta-clamp/clamp loader binding surface; other site 292414002710 beta-clamp/translesion DNA polymerase binding surface; other site 292414002711 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414002712 recombination protein F; Reviewed; Region: recF; PRK00064 292414002713 Walker A/P-loop; other site 292414002714 ATP binding site [chemical binding]; other site 292414002715 Q-loop/lid; other site 292414002716 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414002717 ABC transporter signature motif; other site 292414002718 Walker B; other site 292414002719 D-loop; other site 292414002720 H-loop/switch region; other site 292414002721 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 292414002722 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414002723 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414002724 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 292414002725 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 292414002726 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 292414002727 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 292414002728 Mg2+ binding site [ion binding]; other site 292414002729 G-X-G motif; other site 292414002730 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 292414002731 anchoring element; other site 292414002732 dimer interface [polypeptide binding]; other site 292414002733 ATP binding site [chemical binding]; other site 292414002734 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 292414002735 active site 292414002736 putative metal-binding site [ion binding]; other site 292414002737 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 292414002738 hypothetical protein; Reviewed; Region: PRK00024 292414002739 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 292414002740 MPN+ (JAMM) motif; other site 292414002741 Zinc-binding site [ion binding]; other site 292414002742 chaperone protein DnaJ; Provisional; Region: PRK10767 292414002743 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 292414002744 HSP70 interaction site [polypeptide binding]; other site 292414002745 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 292414002746 substrate binding site [polypeptide binding]; other site 292414002747 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 292414002748 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 292414002749 dimer interface [polypeptide binding]; other site 292414002750 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 292414002751 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 292414002752 nucleotide binding site [chemical binding]; other site 292414002753 NEF interaction site [polypeptide binding]; other site 292414002754 SBD interface [polypeptide binding]; other site 292414002755 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 292414002756 ABC-2 type transporter; Region: ABC2_membrane; cl17235 292414002757 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 292414002758 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...; Region: CysQ; cd01638 292414002759 active site 292414002760 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 292414002761 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 292414002762 Ligand binding site; other site 292414002763 oligomer interface; other site 292414002764 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 292414002765 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 292414002766 active site 292414002767 tetramer interface; other site 292414002768 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 292414002769 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 292414002770 NAD binding site [chemical binding]; other site 292414002771 homodimer interface [polypeptide binding]; other site 292414002772 active site 292414002773 substrate binding site [chemical binding]; other site 292414002774 active site 292414002775 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 292414002776 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 292414002777 Core-2/I-Branching enzyme; Region: Branch; pfam02485 292414002778 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 292414002779 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 292414002780 active site 292414002781 phosphorylation site [posttranslational modification] 292414002782 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 292414002783 30S subunit binding site; other site 292414002784 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 292414002785 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 292414002786 Walker A/P-loop; other site 292414002787 ATP binding site [chemical binding]; other site 292414002788 Q-loop/lid; other site 292414002789 ABC transporter signature motif; other site 292414002790 Walker B; other site 292414002791 D-loop; other site 292414002792 H-loop/switch region; other site 292414002793 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 292414002794 OstA-like protein; Region: OstA; pfam03968 292414002795 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 292414002796 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 292414002797 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 292414002798 catalytic site [active] 292414002799 putative active site [active] 292414002800 putative substrate binding site [chemical binding]; other site 292414002801 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 292414002802 N- and C-terminal domain interface [polypeptide binding]; other site 292414002803 D-xylulose kinase; Region: XylB; TIGR01312 292414002804 active site 292414002805 MgATP binding site [chemical binding]; other site 292414002806 catalytic site [active] 292414002807 metal binding site [ion binding]; metal-binding site 292414002808 xylulose binding site [chemical binding]; other site 292414002809 homodimer interface [polypeptide binding]; other site 292414002810 xylose isomerase; Provisional; Region: PRK05474 292414002811 xylose isomerase; Region: xylose_isom_A; TIGR02630 292414002812 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 292414002813 active site 292414002814 catalytic residues [active] 292414002815 His-Xaa-Ser system putative quinone modification maturase; Region: SAM_quin_mod; TIGR03981 292414002816 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 292414002817 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 292414002818 putative active site [active] 292414002819 catalytic site [active] 292414002820 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 292414002821 putative active site [active] 292414002822 catalytic site [active] 292414002823 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 292414002824 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 292414002825 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414002826 Walker A/P-loop; other site 292414002827 ATP binding site [chemical binding]; other site 292414002828 Q-loop/lid; other site 292414002829 ABC transporter signature motif; other site 292414002830 Walker B; other site 292414002831 D-loop; other site 292414002832 H-loop/switch region; other site 292414002833 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 292414002834 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414002835 Walker A/P-loop; other site 292414002836 ATP binding site [chemical binding]; other site 292414002837 Q-loop/lid; other site 292414002838 ABC transporter signature motif; other site 292414002839 Walker B; other site 292414002840 D-loop; other site 292414002841 H-loop/switch region; other site 292414002842 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414002843 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 292414002844 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 292414002845 dimer interface [polypeptide binding]; other site 292414002846 conserved gate region; other site 292414002847 ABC-ATPase subunit interface; other site 292414002848 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 292414002849 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 292414002850 dimer interface [polypeptide binding]; other site 292414002851 conserved gate region; other site 292414002852 putative PBP binding loops; other site 292414002853 ABC-ATPase subunit interface; other site 292414002854 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_7; cd08512 292414002855 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 292414002856 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 292414002857 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 292414002858 active site 292414002859 dimer interface [polypeptide binding]; other site 292414002860 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 292414002861 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 292414002862 putative NAD(P) binding site [chemical binding]; other site 292414002863 catalytic Zn binding site [ion binding]; other site 292414002864 structural Zn binding site [ion binding]; other site 292414002865 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 292414002866 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 292414002867 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 292414002868 putative C-terminal domain interface [polypeptide binding]; other site 292414002869 putative GSH binding site (G-site) [chemical binding]; other site 292414002870 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 292414002871 putative dimer interface [polypeptide binding]; other site 292414002872 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 292414002873 N-terminal domain interface [polypeptide binding]; other site 292414002874 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 292414002875 Lipopolysaccharide-assembly; Region: LptE; pfam04390 292414002876 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 292414002877 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 292414002878 HIGH motif; other site 292414002879 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 292414002880 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 292414002881 active site 292414002882 KMSKS motif; other site 292414002883 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 292414002884 tRNA binding surface [nucleotide binding]; other site 292414002885 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 292414002886 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 292414002887 Gram-negative porin; Region: Porin_4; pfam13609 292414002888 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 292414002889 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 292414002890 catalytic residue [active] 292414002891 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 292414002892 GTP cyclohydrolase; Provisional; Region: PRK08815 292414002893 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 292414002894 dimerization interface [polypeptide binding]; other site 292414002895 active site 292414002896 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 292414002897 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 292414002898 active site 292414002899 phosphorylation site [posttranslational modification] 292414002900 intermolecular recognition site; other site 292414002901 dimerization interface [polypeptide binding]; other site 292414002902 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 292414002903 DNA binding site [nucleotide binding] 292414002904 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 292414002905 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 292414002906 substrate binding pocket [chemical binding]; other site 292414002907 active site 292414002908 iron coordination sites [ion binding]; other site 292414002909 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 292414002910 putative catalytic site [active] 292414002911 putative phosphate binding site [ion binding]; other site 292414002912 active site 292414002913 metal binding site A [ion binding]; metal-binding site 292414002914 DNA binding site [nucleotide binding] 292414002915 putative AP binding site [nucleotide binding]; other site 292414002916 putative metal binding site B [ion binding]; other site 292414002917 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 292414002918 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 292414002919 catalytic residues [active] 292414002920 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 292414002921 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 292414002922 Uncharacterized conserved protein [Function unknown]; Region: COG2835 292414002923 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 292414002924 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 292414002925 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 292414002926 Amidase; Region: Amidase; cl11426 292414002927 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 292414002928 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 292414002929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414002930 homodimer interface [polypeptide binding]; other site 292414002931 catalytic residue [active] 292414002932 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 292414002933 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 292414002934 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 292414002935 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 292414002936 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 292414002937 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 292414002938 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 292414002939 N-acetyl-D-glucosamine binding site [chemical binding]; other site 292414002940 catalytic residue [active] 292414002941 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 292414002942 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 292414002943 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 292414002944 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 292414002945 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 292414002946 ATP binding site [chemical binding]; other site 292414002947 Mg2+ binding site [ion binding]; other site 292414002948 G-X-G motif; other site 292414002949 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 292414002950 anti sigma factor interaction site; other site 292414002951 regulatory phosphorylation site [posttranslational modification]; other site 292414002952 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 292414002953 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 292414002954 dimer interface [polypeptide binding]; other site 292414002955 active site 292414002956 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 292414002957 GAF domain; Region: GAF_2; pfam13185 292414002958 LysE type translocator; Region: LysE; cl00565 292414002959 Uncharacterized conserved protein [Function unknown]; Region: COG3791 292414002960 Predicted permeases [General function prediction only]; Region: RarD; COG2962 292414002961 EamA-like transporter family; Region: EamA; pfam00892 292414002962 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 292414002963 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 292414002964 active site 292414002965 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 292414002966 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414002967 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 292414002968 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 292414002969 NAD binding site [chemical binding]; other site 292414002970 catalytic residues [active] 292414002971 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 292414002972 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 292414002973 dimer interface [polypeptide binding]; other site 292414002974 decamer (pentamer of dimers) interface [polypeptide binding]; other site 292414002975 catalytic triad [active] 292414002976 Rhamnan synthesis protein F; Region: RgpF; pfam05045 292414002977 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 292414002978 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 292414002979 Probable Catalytic site; other site 292414002980 metal-binding site 292414002981 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 292414002982 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 292414002983 RNase E interface [polypeptide binding]; other site 292414002984 trimer interface [polypeptide binding]; other site 292414002985 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 292414002986 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 292414002987 RNase E interface [polypeptide binding]; other site 292414002988 trimer interface [polypeptide binding]; other site 292414002989 active site 292414002990 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 292414002991 putative nucleic acid binding region [nucleotide binding]; other site 292414002992 G-X-X-G motif; other site 292414002993 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 292414002994 RNA binding site [nucleotide binding]; other site 292414002995 domain interface; other site 292414002996 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 292414002997 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 292414002998 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 292414002999 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 292414003000 16S/18S rRNA binding site [nucleotide binding]; other site 292414003001 S13e-L30e interaction site [polypeptide binding]; other site 292414003002 25S rRNA binding site [nucleotide binding]; other site 292414003003 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 292414003004 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 292414003005 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 292414003006 RNA binding site [nucleotide binding]; other site 292414003007 active site 292414003008 Predicted periplasmic protein [Function unknown]; Region: COG3698 292414003009 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 292414003010 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 292414003011 dihydrodipicolinate reductase; Provisional; Region: PRK00048 292414003012 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 292414003013 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 292414003014 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 292414003015 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 292414003016 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cd00447 292414003017 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 292414003018 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 292414003019 S-adenosylmethionine binding site [chemical binding]; other site 292414003020 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 292414003021 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 292414003022 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 292414003023 purine monophosphate binding site [chemical binding]; other site 292414003024 dimer interface [polypeptide binding]; other site 292414003025 putative catalytic residues [active] 292414003026 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 292414003027 lipoprotein signal peptidase; Provisional; Region: PRK14782 292414003028 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 292414003029 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 292414003030 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 292414003031 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 292414003032 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 292414003033 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 292414003034 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 292414003035 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 292414003036 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 292414003037 NAD(P) binding site [chemical binding]; other site 292414003038 catalytic residues [active] 292414003039 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 292414003040 NAD(P) binding site [chemical binding]; other site 292414003041 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 292414003042 intersubunit interface [polypeptide binding]; other site 292414003043 active site 292414003044 catalytic residue [active] 292414003045 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 292414003046 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 292414003047 intersubunit interface [polypeptide binding]; other site 292414003048 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 292414003049 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 292414003050 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 292414003051 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 292414003052 ABC-ATPase subunit interface; other site 292414003053 dimer interface [polypeptide binding]; other site 292414003054 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 292414003055 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 292414003056 ABC-ATPase subunit interface; other site 292414003057 dimer interface [polypeptide binding]; other site 292414003058 putative PBP binding regions; other site 292414003059 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 292414003060 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 292414003061 ATP binding site [chemical binding]; other site 292414003062 Mg2+ binding site [ion binding]; other site 292414003063 G-X-G motif; other site 292414003064 DNA mismatch repair protein, C-terminal domain; Region: DNA_mis_repair; pfam01119 292414003065 ATP binding site [chemical binding]; other site 292414003066 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 292414003067 RmuC family; Region: RmuC; pfam02646 292414003068 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 292414003069 cyclase homology domain; Region: CHD; cd07302 292414003070 nucleotidyl binding site; other site 292414003071 metal binding site [ion binding]; metal-binding site 292414003072 dimer interface [polypeptide binding]; other site 292414003073 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 292414003074 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 292414003075 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 292414003076 Saccharopine Dehydrogenase NAD-binding and catalytic domains; Region: SDH; cd12188 292414003077 active site 292414003078 ligand binding site [chemical binding]; other site 292414003079 homodimer interface [polypeptide binding]; other site 292414003080 NAD(P) binding site [chemical binding]; other site 292414003081 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; pfam01262 292414003082 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 292414003083 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 292414003084 C-terminal domain interface [polypeptide binding]; other site 292414003085 GSH binding site (G-site) [chemical binding]; other site 292414003086 dimer interface [polypeptide binding]; other site 292414003087 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 292414003088 dimer interface [polypeptide binding]; other site 292414003089 substrate binding pocket (H-site) [chemical binding]; other site 292414003090 N-terminal domain interface [polypeptide binding]; other site 292414003091 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 292414003092 catalytic core [active] 292414003093 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 292414003094 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 292414003095 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 292414003096 active site 292414003097 phosphorylation site [posttranslational modification] 292414003098 intermolecular recognition site; other site 292414003099 dimerization interface [polypeptide binding]; other site 292414003100 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 292414003101 DNA binding site [nucleotide binding] 292414003102 PAS fold; Region: PAS_7; pfam12860 292414003103 PAS fold; Region: PAS_4; pfam08448 292414003104 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 292414003105 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 292414003106 ATP binding site [chemical binding]; other site 292414003107 Mg2+ binding site [ion binding]; other site 292414003108 G-X-G motif; other site 292414003109 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 292414003110 Response regulator receiver domain; Region: Response_reg; pfam00072 292414003111 active site 292414003112 phosphorylation site [posttranslational modification] 292414003113 intermolecular recognition site; other site 292414003114 dimerization interface [polypeptide binding]; other site 292414003115 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 292414003116 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 292414003117 putative AMP binding site [chemical binding]; other site 292414003118 putative active site [active] 292414003119 putative CoA binding site [chemical binding]; other site 292414003120 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 292414003121 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 292414003122 Walker A/P-loop; other site 292414003123 ATP binding site [chemical binding]; other site 292414003124 Q-loop/lid; other site 292414003125 ABC transporter signature motif; other site 292414003126 Walker B; other site 292414003127 D-loop; other site 292414003128 H-loop/switch region; other site 292414003129 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 292414003130 TM-ABC transporter signature motif; other site 292414003131 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 292414003132 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 292414003133 TM-ABC transporter signature motif; other site 292414003134 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 292414003135 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 292414003136 putative ligand binding site [chemical binding]; other site 292414003137 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 292414003138 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 292414003139 Walker A/P-loop; other site 292414003140 ATP binding site [chemical binding]; other site 292414003141 Q-loop/lid; other site 292414003142 ABC transporter signature motif; other site 292414003143 Walker B; other site 292414003144 D-loop; other site 292414003145 H-loop/switch region; other site 292414003146 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 292414003147 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 292414003148 acyl-activating enzyme (AAE) consensus motif; other site 292414003149 active site 292414003150 AMP binding site [chemical binding]; other site 292414003151 CoA binding site [chemical binding]; other site 292414003152 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 292414003153 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 292414003154 dimer interface [polypeptide binding]; other site 292414003155 conserved gate region; other site 292414003156 putative PBP binding loops; other site 292414003157 ABC-ATPase subunit interface; other site 292414003158 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 292414003159 dimer interface [polypeptide binding]; other site 292414003160 conserved gate region; other site 292414003161 putative PBP binding loops; other site 292414003162 ABC-ATPase subunit interface; other site 292414003163 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 292414003164 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 292414003165 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 292414003166 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 292414003167 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 292414003168 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 292414003169 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 292414003170 DNA polymerase IV; Provisional; Region: PRK02794 292414003171 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 292414003172 active site 292414003173 DNA binding site [nucleotide binding] 292414003174 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_23; cd04682 292414003175 nudix motif; other site 292414003176 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 292414003177 active site 292414003178 dimer interface [polypeptide binding]; other site 292414003179 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 292414003180 Clp amino terminal domain; Region: Clp_N; pfam02861 292414003181 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 292414003182 Walker A motif; other site 292414003183 ATP binding site [chemical binding]; other site 292414003184 Walker B motif; other site 292414003185 arginine finger; other site 292414003186 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 292414003187 Walker A motif; other site 292414003188 ATP binding site [chemical binding]; other site 292414003189 Walker B motif; other site 292414003190 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 292414003191 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 292414003192 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 292414003193 active site 292414003194 FMN binding site [chemical binding]; other site 292414003195 substrate binding site [chemical binding]; other site 292414003196 3Fe-4S cluster binding site [ion binding]; other site 292414003197 TMAO/DMSO reductase; Reviewed; Region: PRK05363 292414003198 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 292414003199 Moco binding site; other site 292414003200 metal coordination site [ion binding]; other site 292414003201 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 292414003202 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 292414003203 Response regulator receiver domain; Region: Response_reg; pfam00072 292414003204 active site 292414003205 phosphorylation site [posttranslational modification] 292414003206 intermolecular recognition site; other site 292414003207 dimerization interface [polypeptide binding]; other site 292414003208 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 292414003209 dimer interface [polypeptide binding]; other site 292414003210 phosphorylation site [posttranslational modification] 292414003211 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 292414003212 ATP binding site [chemical binding]; other site 292414003213 Mg2+ binding site [ion binding]; other site 292414003214 G-X-G motif; other site 292414003215 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 292414003216 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 292414003217 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 292414003218 ATP binding site [chemical binding]; other site 292414003219 Mg2+ binding site [ion binding]; other site 292414003220 G-X-G motif; other site 292414003221 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 292414003222 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 292414003223 heme-binding site [chemical binding]; other site 292414003224 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 292414003225 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 292414003226 excinuclease ABC subunit B; Provisional; Region: PRK05298 292414003227 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 292414003228 ATP binding site [chemical binding]; other site 292414003229 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 292414003230 nucleotide binding region [chemical binding]; other site 292414003231 ATP-binding site [chemical binding]; other site 292414003232 Ultra-violet resistance protein B; Region: UvrB; pfam12344 292414003233 UvrB/uvrC motif; Region: UVR; pfam02151 292414003234 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 292414003235 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 292414003236 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 292414003237 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 292414003238 Uncharacterized conserved protein [Function unknown]; Region: COG4121 292414003239 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414003240 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 292414003241 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 292414003242 N-acetyl-D-glucosamine binding site [chemical binding]; other site 292414003243 catalytic residue [active] 292414003244 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 292414003245 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 292414003246 dimer interface [polypeptide binding]; other site 292414003247 active site 292414003248 catalytic residue [active] 292414003249 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 292414003250 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 292414003251 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 292414003252 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 292414003253 Uncharacterized conserved protein [Function unknown]; Region: COG2128 292414003254 Predicted membrane protein [Function unknown]; Region: COG2855 292414003255 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 292414003256 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 292414003257 PYR/PP interface [polypeptide binding]; other site 292414003258 dimer interface [polypeptide binding]; other site 292414003259 TPP binding site [chemical binding]; other site 292414003260 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 292414003261 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 292414003262 TPP-binding site [chemical binding]; other site 292414003263 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 292414003264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414003265 DNA-binding site [nucleotide binding]; DNA binding site 292414003266 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 292414003267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414003268 homodimer interface [polypeptide binding]; other site 292414003269 catalytic residue [active] 292414003270 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 292414003271 dimerization interface [polypeptide binding]; other site 292414003272 putative DNA binding site [nucleotide binding]; other site 292414003273 putative Zn2+ binding site [ion binding]; other site 292414003274 Predicted permease; Region: DUF318; cl17795 292414003275 aminotransferase; Validated; Region: PRK07678 292414003276 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 292414003277 inhibitor-cofactor binding pocket; inhibition site 292414003278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414003279 catalytic residue [active] 292414003280 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 292414003281 hypothetical protein; Provisional; Region: PRK07483 292414003282 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 292414003283 inhibitor-cofactor binding pocket; inhibition site 292414003284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414003285 catalytic residue [active] 292414003286 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 292414003287 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 292414003288 tetramer interface [polypeptide binding]; other site 292414003289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414003290 catalytic residue [active] 292414003291 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 292414003292 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 292414003293 tetramer interface [polypeptide binding]; other site 292414003294 active site 292414003295 Mg2+/Mn2+ binding site [ion binding]; other site 292414003296 recombination protein RecR; Reviewed; Region: recR; PRK00076 292414003297 RecR protein; Region: RecR; pfam02132 292414003298 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 292414003299 putative active site [active] 292414003300 putative metal-binding site [ion binding]; other site 292414003301 tetramer interface [polypeptide binding]; other site 292414003302 hypothetical protein; Validated; Region: PRK00153 292414003303 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 292414003304 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 292414003305 Walker A motif; other site 292414003306 ATP binding site [chemical binding]; other site 292414003307 Walker B motif; other site 292414003308 arginine finger; other site 292414003309 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 292414003310 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 292414003311 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 292414003312 active site 292414003313 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 292414003314 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 292414003315 active site 292414003316 metal binding site [ion binding]; metal-binding site 292414003317 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 292414003318 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 292414003319 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 292414003320 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 292414003321 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 292414003322 putative NADH binding site [chemical binding]; other site 292414003323 putative active site [active] 292414003324 nudix motif; other site 292414003325 putative metal binding site [ion binding]; other site 292414003326 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 292414003327 hydrophobic ligand binding site; other site 292414003328 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 292414003329 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 292414003330 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 292414003331 metal binding site [ion binding]; metal-binding site 292414003332 active site 292414003333 I-site; other site 292414003334 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 292414003335 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 292414003336 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 292414003337 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 292414003338 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 292414003339 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 292414003340 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 292414003341 putative active site [active] 292414003342 putative PHP Thumb interface [polypeptide binding]; other site 292414003343 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 292414003344 generic binding surface II; other site 292414003345 generic binding surface I; other site 292414003346 DNA Polymerase Y-family; Region: PolY_like; cd03468 292414003347 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 292414003348 DNA binding site [nucleotide binding] 292414003349 Uncharacterized conserved protein [Function unknown]; Region: COG4544 292414003350 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414003351 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414003352 HD domain protein, cyanamide hydratase family; Region: cyanamide_fam; TIGR03401 292414003353 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 292414003354 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 292414003355 NAD binding site [chemical binding]; other site 292414003356 homotetramer interface [polypeptide binding]; other site 292414003357 homodimer interface [polypeptide binding]; other site 292414003358 substrate binding site [chemical binding]; other site 292414003359 active site 292414003360 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 292414003361 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 292414003362 dimer interface [polypeptide binding]; other site 292414003363 active site 292414003364 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 292414003365 active site 1 [active] 292414003366 dimer interface [polypeptide binding]; other site 292414003367 active site 2 [active] 292414003368 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 292414003369 metal binding site 2 [ion binding]; metal-binding site 292414003370 putative DNA binding helix; other site 292414003371 metal binding site 1 [ion binding]; metal-binding site 292414003372 dimer interface [polypeptide binding]; other site 292414003373 structural Zn2+ binding site [ion binding]; other site 292414003374 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 292414003375 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 292414003376 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 292414003377 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 292414003378 FeS/SAM binding site; other site 292414003379 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 292414003380 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 292414003381 ligand binding site [chemical binding]; other site 292414003382 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 292414003383 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 292414003384 PhoH-like protein; Region: PhoH; pfam02562 292414003385 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 292414003386 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 292414003387 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 292414003388 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 292414003389 Transporter associated domain; Region: CorC_HlyC; smart01091 292414003390 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 292414003391 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 292414003392 putative active site [active] 292414003393 catalytic triad [active] 292414003394 putative dimer interface [polypeptide binding]; other site 292414003395 S-adenosylmethionine synthetase; Validated; Region: PRK05250 292414003396 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 292414003397 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 292414003398 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 292414003399 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 292414003400 active site 292414003401 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 292414003402 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 292414003403 dimer interface [polypeptide binding]; other site 292414003404 FMN binding site [chemical binding]; other site 292414003405 cytidylate kinase; Provisional; Region: cmk; PRK00023 292414003406 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 292414003407 CMP-binding site; other site 292414003408 The sites determining sugar specificity; other site 292414003409 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 292414003410 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414003411 Coenzyme A binding pocket [chemical binding]; other site 292414003412 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 292414003413 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 292414003414 hinge; other site 292414003415 active site 292414003416 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 292414003417 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 292414003418 RNA binding site [nucleotide binding]; other site 292414003419 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 292414003420 RNA binding site [nucleotide binding]; other site 292414003421 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 292414003422 RNA binding site [nucleotide binding]; other site 292414003423 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 292414003424 RNA binding site [nucleotide binding]; other site 292414003425 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 292414003426 RNA binding site [nucleotide binding]; other site 292414003427 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...; Region: S1_RPS1_repeat_ec6; cd05691 292414003428 RNA binding site [nucleotide binding]; other site 292414003429 YodA lipocalin-like domain; Region: YodA; pfam09223 292414003430 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 292414003431 IHF dimer interface [polypeptide binding]; other site 292414003432 IHF - DNA interface [nucleotide binding]; other site 292414003433 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 292414003434 active site 292414003435 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414003436 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414003437 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 292414003438 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 292414003439 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414003440 catalytic residue [active] 292414003441 Predicted transcriptional regulators [Transcription]; Region: COG1733 292414003442 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 292414003443 dimerization interface [polypeptide binding]; other site 292414003444 putative Zn2+ binding site [ion binding]; other site 292414003445 putative DNA binding site [nucleotide binding]; other site 292414003446 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 292414003447 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 292414003448 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 292414003449 C-terminal domain interface [polypeptide binding]; other site 292414003450 GSH binding site (G-site) [chemical binding]; other site 292414003451 dimer interface [polypeptide binding]; other site 292414003452 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 292414003453 N-terminal domain interface [polypeptide binding]; other site 292414003454 dimer interface [polypeptide binding]; other site 292414003455 substrate binding pocket (H-site) [chemical binding]; other site 292414003456 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 292414003457 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 292414003458 catalytic residues [active] 292414003459 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 292414003460 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 292414003461 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 292414003462 active site 292414003463 metal binding site [ion binding]; metal-binding site 292414003464 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414003465 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414003466 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 292414003467 dimerization interface [polypeptide binding]; other site 292414003468 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 292414003469 putative active site [active] 292414003470 catalytic residue [active] 292414003471 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 292414003472 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 292414003473 5S rRNA interface [nucleotide binding]; other site 292414003474 CTC domain interface [polypeptide binding]; other site 292414003475 L16 interface [polypeptide binding]; other site 292414003476 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 292414003477 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 292414003478 active site 292414003479 substrate binding site [chemical binding]; other site 292414003480 FMN binding site [chemical binding]; other site 292414003481 putative catalytic residues [active] 292414003482 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414003483 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 292414003484 dimer interface [polypeptide binding]; other site 292414003485 phosphorylation site [posttranslational modification] 292414003486 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 292414003487 ATP binding site [chemical binding]; other site 292414003488 Mg2+ binding site [ion binding]; other site 292414003489 G-X-G motif; other site 292414003490 Response regulator receiver domain; Region: Response_reg; pfam00072 292414003491 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 292414003492 active site 292414003493 phosphorylation site [posttranslational modification] 292414003494 intermolecular recognition site; other site 292414003495 dimerization interface [polypeptide binding]; other site 292414003496 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 292414003497 substrate binding site [chemical binding]; other site 292414003498 active site 292414003499 catalytic residues [active] 292414003500 heterodimer interface [polypeptide binding]; other site 292414003501 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 292414003502 GTP-binding protein YchF; Reviewed; Region: PRK09601 292414003503 YchF GTPase; Region: YchF; cd01900 292414003504 G1 box; other site 292414003505 GTP/Mg2+ binding site [chemical binding]; other site 292414003506 Switch I region; other site 292414003507 G2 box; other site 292414003508 Switch II region; other site 292414003509 G3 box; other site 292414003510 G4 box; other site 292414003511 G5 box; other site 292414003512 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 292414003513 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 292414003514 active site 292414003515 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 292414003516 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 292414003517 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 292414003518 putative homodimer interface [polypeptide binding]; other site 292414003519 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 292414003520 heterodimer interface [polypeptide binding]; other site 292414003521 homodimer interface [polypeptide binding]; other site 292414003522 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 292414003523 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 292414003524 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 292414003525 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 292414003526 23S rRNA interface [nucleotide binding]; other site 292414003527 L7/L12 interface [polypeptide binding]; other site 292414003528 putative thiostrepton binding site; other site 292414003529 L25 interface [polypeptide binding]; other site 292414003530 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 292414003531 mRNA/rRNA interface [nucleotide binding]; other site 292414003532 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 292414003533 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 292414003534 23S rRNA interface [nucleotide binding]; other site 292414003535 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 292414003536 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 292414003537 core dimer interface [polypeptide binding]; other site 292414003538 peripheral dimer interface [polypeptide binding]; other site 292414003539 L10 interface [polypeptide binding]; other site 292414003540 L11 interface [polypeptide binding]; other site 292414003541 putative EF-Tu interaction site [polypeptide binding]; other site 292414003542 putative EF-G interaction site [polypeptide binding]; other site 292414003543 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 292414003544 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 292414003545 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 292414003546 RPB11 interaction site [polypeptide binding]; other site 292414003547 RPB12 interaction site [polypeptide binding]; other site 292414003548 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 292414003549 RPB3 interaction site [polypeptide binding]; other site 292414003550 RPB1 interaction site [polypeptide binding]; other site 292414003551 RPB11 interaction site [polypeptide binding]; other site 292414003552 RPB10 interaction site [polypeptide binding]; other site 292414003553 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 292414003554 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 292414003555 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 292414003556 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 292414003557 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 292414003558 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 292414003559 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 292414003560 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 292414003561 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 292414003562 DNA binding site [nucleotide binding] 292414003563 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 292414003564 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 292414003565 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414003566 EamA-like transporter family; Region: EamA; cl17759 292414003567 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 292414003568 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 292414003569 S17 interaction site [polypeptide binding]; other site 292414003570 S8 interaction site; other site 292414003571 16S rRNA interaction site [nucleotide binding]; other site 292414003572 streptomycin interaction site [chemical binding]; other site 292414003573 23S rRNA interaction site [nucleotide binding]; other site 292414003574 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 292414003575 30S ribosomal protein S7; Validated; Region: PRK05302 292414003576 elongation factor G; Reviewed; Region: PRK00007 292414003577 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 292414003578 G1 box; other site 292414003579 putative GEF interaction site [polypeptide binding]; other site 292414003580 GTP/Mg2+ binding site [chemical binding]; other site 292414003581 Switch I region; other site 292414003582 G2 box; other site 292414003583 G3 box; other site 292414003584 Switch II region; other site 292414003585 G4 box; other site 292414003586 G5 box; other site 292414003587 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 292414003588 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 292414003589 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 292414003590 elongation factor Tu; Reviewed; Region: PRK00049 292414003591 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 292414003592 G1 box; other site 292414003593 GEF interaction site [polypeptide binding]; other site 292414003594 GTP/Mg2+ binding site [chemical binding]; other site 292414003595 Switch I region; other site 292414003596 G2 box; other site 292414003597 G3 box; other site 292414003598 Switch II region; other site 292414003599 G4 box; other site 292414003600 G5 box; other site 292414003601 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 292414003602 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 292414003603 Antibiotic Binding Site [chemical binding]; other site 292414003604 Zc3h12a-like Ribonuclease NYN domain; Region: RNase_Zc3h12a; pfam11977 292414003605 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 292414003606 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 292414003607 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 292414003608 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 292414003609 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 292414003610 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 292414003611 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 292414003612 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 292414003613 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 292414003614 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 292414003615 putative translocon binding site; other site 292414003616 protein-rRNA interface [nucleotide binding]; other site 292414003617 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 292414003618 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 292414003619 G-X-X-G motif; other site 292414003620 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 292414003621 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 292414003622 23S rRNA interface [nucleotide binding]; other site 292414003623 5S rRNA interface [nucleotide binding]; other site 292414003624 putative antibiotic binding site [chemical binding]; other site 292414003625 L25 interface [polypeptide binding]; other site 292414003626 L27 interface [polypeptide binding]; other site 292414003627 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 292414003628 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414003629 substrate binding pocket [chemical binding]; other site 292414003630 membrane-bound complex binding site; other site 292414003631 hinge residues; other site 292414003632 conserved hypothetical protein; Region: TIGR02466 292414003633 Predicted deacylase [General function prediction only]; Region: COG3608 292414003634 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 292414003635 putative active site [active] 292414003636 Zn binding site [ion binding]; other site 292414003637 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 292414003638 23S rRNA interface [nucleotide binding]; other site 292414003639 putative translocon interaction site; other site 292414003640 signal recognition particle (SRP54) interaction site; other site 292414003641 L23 interface [polypeptide binding]; other site 292414003642 trigger factor interaction site; other site 292414003643 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 292414003644 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 292414003645 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 292414003646 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 292414003647 RNA binding site [nucleotide binding]; other site 292414003648 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 292414003649 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 292414003650 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 292414003651 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 292414003652 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 292414003653 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 292414003654 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 292414003655 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 292414003656 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 292414003657 5S rRNA interface [nucleotide binding]; other site 292414003658 23S rRNA interface [nucleotide binding]; other site 292414003659 L5 interface [polypeptide binding]; other site 292414003660 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 292414003661 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 292414003662 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 292414003663 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 292414003664 23S rRNA binding site [nucleotide binding]; other site 292414003665 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 292414003666 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 292414003667 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 292414003668 SecY translocase; Region: SecY; pfam00344 292414003669 adenylate kinase; Reviewed; Region: adk; PRK00279 292414003670 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 292414003671 AMP-binding site [chemical binding]; other site 292414003672 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 292414003673 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 292414003674 30S ribosomal protein S13; Region: bact_S13; TIGR03631 292414003675 30S ribosomal protein S11; Validated; Region: PRK05309 292414003676 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 292414003677 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 292414003678 alphaNTD - beta interaction site [polypeptide binding]; other site 292414003679 alphaNTD homodimer interface [polypeptide binding]; other site 292414003680 alphaNTD - beta' interaction site [polypeptide binding]; other site 292414003681 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 292414003682 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 292414003683 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 292414003684 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 292414003685 PhnA protein; Region: PhnA; pfam03831 292414003686 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 292414003687 extended (e) SDRs; Region: SDR_e; cd08946 292414003688 NAD(P) binding site [chemical binding]; other site 292414003689 active site 292414003690 substrate binding site [chemical binding]; other site 292414003691 Uncharacterized conserved protein [Function unknown]; Region: COG1284 292414003692 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 292414003693 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 292414003694 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 292414003695 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 292414003696 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 292414003697 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 292414003698 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 292414003699 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 292414003700 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 292414003701 protein binding site [polypeptide binding]; other site 292414003702 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 292414003703 protein binding site [polypeptide binding]; other site 292414003704 recombination factor protein RarA; Reviewed; Region: PRK13342 292414003705 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 292414003706 Walker A motif; other site 292414003707 ATP binding site [chemical binding]; other site 292414003708 Walker B motif; other site 292414003709 arginine finger; other site 292414003710 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 292414003711 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 292414003712 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 292414003713 Multicopper oxidase; Region: Cu-oxidase; pfam00394 292414003714 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 292414003715 camphor resistance protein CrcB; Provisional; Region: PRK14195 292414003716 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 292414003717 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 292414003718 RNA binding surface [nucleotide binding]; other site 292414003719 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 292414003720 active site 292414003721 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 292414003722 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 292414003723 motif II; other site 292414003724 ATP12 chaperone protein; Region: ATP12; cl02228 292414003725 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 292414003726 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 292414003727 substrate binding pocket [chemical binding]; other site 292414003728 membrane-bound complex binding site; other site 292414003729 hinge residues; other site 292414003730 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 292414003731 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 292414003732 conserved gate region; other site 292414003733 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 292414003734 conserved gate region; other site 292414003735 dimer interface [polypeptide binding]; other site 292414003736 putative PBP binding loops; other site 292414003737 ABC-ATPase subunit interface; other site 292414003738 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 292414003739 dimer interface [polypeptide binding]; other site 292414003740 conserved gate region; other site 292414003741 putative PBP binding loops; other site 292414003742 ABC-ATPase subunit interface; other site 292414003743 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 292414003744 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 292414003745 Walker A/P-loop; other site 292414003746 ATP binding site [chemical binding]; other site 292414003747 Q-loop/lid; other site 292414003748 ABC transporter signature motif; other site 292414003749 Walker B; other site 292414003750 D-loop; other site 292414003751 H-loop/switch region; other site 292414003752 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 292414003753 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414003754 Coenzyme A binding pocket [chemical binding]; other site 292414003755 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 292414003756 catalytic core [active] 292414003757 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 292414003758 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 292414003759 feedback inhibition sensing region; other site 292414003760 homohexameric interface [polypeptide binding]; other site 292414003761 nucleotide binding site [chemical binding]; other site 292414003762 N-acetyl-L-glutamate binding site [chemical binding]; other site 292414003763 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 292414003764 classical (c) SDRs; Region: SDR_c; cd05233 292414003765 NAD(P) binding site [chemical binding]; other site 292414003766 active site 292414003767 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 292414003768 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 292414003769 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 292414003770 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 292414003771 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 292414003772 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 292414003773 G1 box; other site 292414003774 GTP/Mg2+ binding site [chemical binding]; other site 292414003775 Switch I region; other site 292414003776 G2 box; other site 292414003777 G3 box; other site 292414003778 Switch II region; other site 292414003779 G4 box; other site 292414003780 G5 box; other site 292414003781 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 292414003782 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 292414003783 MOSC domain; Region: MOSC; pfam03473 292414003784 membrane protein insertase; Provisional; Region: PRK01318 292414003785 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 292414003786 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 292414003787 metal binding site [ion binding]; metal-binding site 292414003788 active site 292414003789 I-site; other site 292414003790 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 292414003791 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 292414003792 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 292414003793 Ligand Binding Site [chemical binding]; other site 292414003794 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 292414003795 Haemolytic domain; Region: Haemolytic; pfam01809 292414003796 Ribonuclease P; Region: Ribonuclease_P; pfam00825 292414003797 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 292414003798 Uncharacterized conserved protein [Function unknown]; Region: COG0398 292414003799 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 292414003800 mercuric reductase; Validated; Region: PRK06370 292414003801 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 292414003802 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 292414003803 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 292414003804 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414003805 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 292414003806 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 292414003807 ATP binding site [chemical binding]; other site 292414003808 Mg2+ binding site [ion binding]; other site 292414003809 G-X-G motif; other site 292414003810 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414003811 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414003812 Uncharacterized conserved protein [Function unknown]; Region: COG2128 292414003813 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 292414003814 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 292414003815 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 292414003816 putative catalytic residue [active] 292414003817 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 292414003818 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414003819 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 292414003820 dimerization interface [polypeptide binding]; other site 292414003821 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 292414003822 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 292414003823 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 292414003824 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 292414003825 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 292414003826 ABC-ATPase subunit interface; other site 292414003827 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 292414003828 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414003829 Walker A/P-loop; other site 292414003830 ATP binding site [chemical binding]; other site 292414003831 Q-loop/lid; other site 292414003832 ABC transporter signature motif; other site 292414003833 Walker B; other site 292414003834 D-loop; other site 292414003835 H-loop/switch region; other site 292414003836 TOBE domain; Region: TOBE_2; pfam08402 292414003837 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 292414003838 Amidase; Region: Amidase; cl11426 292414003839 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 292414003840 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 292414003841 active site 292414003842 catalytic site [active] 292414003843 Zn binding site [ion binding]; other site 292414003844 tetramer interface [polypeptide binding]; other site 292414003845 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 292414003846 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 292414003847 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 292414003848 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 292414003849 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 292414003850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414003851 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 292414003852 dimerization interface [polypeptide binding]; other site 292414003853 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 292414003854 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414003855 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 292414003856 dimerization interface [polypeptide binding]; other site 292414003857 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 292414003858 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 292414003859 substrate binding pocket [chemical binding]; other site 292414003860 active site 292414003861 iron coordination sites [ion binding]; other site 292414003862 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 292414003863 Zn2+ binding site [ion binding]; other site 292414003864 Mg2+ binding site [ion binding]; other site 292414003865 Predicted membrane protein [Function unknown]; Region: COG1238 292414003866 H+ Antiporter protein; Region: 2A0121; TIGR00900 292414003867 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 292414003868 putative substrate translocation pore; other site 292414003869 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 292414003870 Dehydroquinase class II; Region: DHquinase_II; pfam01220 292414003871 trimer interface [polypeptide binding]; other site 292414003872 active site 292414003873 dimer interface [polypeptide binding]; other site 292414003874 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 292414003875 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 292414003876 Na binding site [ion binding]; other site 292414003877 putative substrate binding site [chemical binding]; other site 292414003878 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 292414003879 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 292414003880 substrate binding pocket [chemical binding]; other site 292414003881 membrane-bound complex binding site; other site 292414003882 hinge residues; other site 292414003883 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 292414003884 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414003885 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 292414003886 substrate binding pocket [chemical binding]; other site 292414003887 membrane-bound complex binding site; other site 292414003888 hinge residues; other site 292414003889 CHASE domain; Region: CHASE; cl01369 292414003890 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 292414003891 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 292414003892 putative active site [active] 292414003893 heme pocket [chemical binding]; other site 292414003894 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 292414003895 dimer interface [polypeptide binding]; other site 292414003896 phosphorylation site [posttranslational modification] 292414003897 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 292414003898 ATP binding site [chemical binding]; other site 292414003899 Mg2+ binding site [ion binding]; other site 292414003900 G-X-G motif; other site 292414003901 Response regulator receiver domain; Region: Response_reg; pfam00072 292414003902 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 292414003903 active site 292414003904 phosphorylation site [posttranslational modification] 292414003905 intermolecular recognition site; other site 292414003906 dimerization interface [polypeptide binding]; other site 292414003907 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 292414003908 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 292414003909 Walker A/P-loop; other site 292414003910 ATP binding site [chemical binding]; other site 292414003911 Q-loop/lid; other site 292414003912 ABC transporter signature motif; other site 292414003913 Walker B; other site 292414003914 D-loop; other site 292414003915 H-loop/switch region; other site 292414003916 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 292414003917 ABC-ATPase subunit interface; other site 292414003918 dimer interface [polypeptide binding]; other site 292414003919 putative PBP binding regions; other site 292414003920 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 292414003921 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 292414003922 putative hemin binding site; other site 292414003923 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 292414003924 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 292414003925 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 292414003926 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 292414003927 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 292414003928 N-terminal plug; other site 292414003929 ligand-binding site [chemical binding]; other site 292414003930 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 292414003931 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 292414003932 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 292414003933 TonB C terminal; Region: TonB_2; pfam13103 292414003934 hypothetical protein; Provisional; Region: PRK07475 292414003935 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 292414003936 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414003937 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 292414003938 putative dimerization interface [polypeptide binding]; other site 292414003939 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 292414003940 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 292414003941 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 292414003942 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 292414003943 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 292414003944 DctM-like transporters; Region: DctM; pfam06808 292414003945 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 292414003946 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414003947 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414003948 dimer interface [polypeptide binding]; other site 292414003949 putative CheW interface [polypeptide binding]; other site 292414003950 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 292414003951 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 292414003952 substrate binding site [chemical binding]; other site 292414003953 oxyanion hole (OAH) forming residues; other site 292414003954 trimer interface [polypeptide binding]; other site 292414003955 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 292414003956 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 292414003957 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 292414003958 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 292414003959 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 292414003960 dimer interface [polypeptide binding]; other site 292414003961 active site 292414003962 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 292414003963 Transcriptional regulator [Transcription]; Region: IclR; COG1414 292414003964 Glucokinase; Region: Glucokinase; cl17310 292414003965 glucokinase, proteobacterial type; Region: glk; TIGR00749 292414003966 ORF6N domain; Region: ORF6N; pfam10543 292414003967 Transcriptional regulators [Transcription]; Region: FadR; COG2186 292414003968 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414003969 DNA-binding site [nucleotide binding]; DNA binding site 292414003970 FCD domain; Region: FCD; pfam07729 292414003971 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 292414003972 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 292414003973 DNA binding site [nucleotide binding] 292414003974 sequence specific DNA binding site [nucleotide binding]; other site 292414003975 putative cAMP binding site [chemical binding]; other site 292414003976 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 292414003977 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 292414003978 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 292414003979 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 292414003980 ligand binding site [chemical binding]; other site 292414003981 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 292414003982 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 292414003983 TM-ABC transporter signature motif; other site 292414003984 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 292414003985 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 292414003986 Walker A/P-loop; other site 292414003987 ATP binding site [chemical binding]; other site 292414003988 Q-loop/lid; other site 292414003989 ABC transporter signature motif; other site 292414003990 Walker B; other site 292414003991 D-loop; other site 292414003992 H-loop/switch region; other site 292414003993 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 292414003994 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 292414003995 active site 292414003996 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 292414003997 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 292414003998 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 292414003999 NAD(P) binding site [chemical binding]; other site 292414004000 active site 292414004001 Uncharacterized conserved protein [Function unknown]; Region: COG3791 292414004002 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 292414004003 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 292414004004 active site 292414004005 intersubunit interface [polypeptide binding]; other site 292414004006 catalytic residue [active] 292414004007 phosphogluconate dehydratase; Validated; Region: PRK09054 292414004008 6-phosphogluconate dehydratase; Region: edd; TIGR01196 292414004009 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 292414004010 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 292414004011 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 292414004012 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 292414004013 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 292414004014 active site 292414004015 dimer interface [polypeptide binding]; other site 292414004016 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 292414004017 dimer interface [polypeptide binding]; other site 292414004018 active site 292414004019 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 292414004020 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 292414004021 UreF; Region: UreF; pfam01730 292414004022 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 292414004023 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 292414004024 dimer interface [polypeptide binding]; other site 292414004025 catalytic residues [active] 292414004026 urease subunit alpha; Reviewed; Region: ureC; PRK13207 292414004027 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 292414004028 subunit interactions [polypeptide binding]; other site 292414004029 active site 292414004030 flap region; other site 292414004031 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 292414004032 gamma-beta subunit interface [polypeptide binding]; other site 292414004033 alpha-beta subunit interface [polypeptide binding]; other site 292414004034 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 292414004035 alpha-gamma subunit interface [polypeptide binding]; other site 292414004036 beta-gamma subunit interface [polypeptide binding]; other site 292414004037 UreD urease accessory protein; Region: UreD; pfam01774 292414004038 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 292414004039 CoA-transferase family III; Region: CoA_transf_3; pfam02515 292414004040 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 292414004041 sequence-specific DNA binding site [nucleotide binding]; other site 292414004042 salt bridge; other site 292414004043 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 292414004044 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 292414004045 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 292414004046 Domain of unknown function DUF59; Region: DUF59; pfam01883 292414004047 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 292414004048 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 292414004049 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 292414004050 4Fe-4S binding domain; Region: Fer4; pfam00037 292414004051 Ferredoxin [Energy production and conversion]; Region: COG1146 292414004052 4Fe-4S binding domain; Region: Fer4; pfam00037 292414004053 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 292414004054 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 292414004055 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 292414004056 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 292414004057 [4Fe-4S] binding site [ion binding]; other site 292414004058 molybdopterin cofactor binding site; other site 292414004059 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 292414004060 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 292414004061 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 292414004062 molybdopterin cofactor binding site; other site 292414004063 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 292414004064 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 292414004065 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 292414004066 FOG: WD40 repeat [General function prediction only]; Region: COG2319 292414004067 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 292414004068 structural tetrad; other site 292414004069 Cytochrome c; Region: Cytochrom_C; cl11414 292414004070 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 292414004071 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 292414004072 active site 292414004073 phosphorylation site [posttranslational modification] 292414004074 intermolecular recognition site; other site 292414004075 dimerization interface [polypeptide binding]; other site 292414004076 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 292414004077 Walker A motif; other site 292414004078 ATP binding site [chemical binding]; other site 292414004079 Walker B motif; other site 292414004080 arginine finger; other site 292414004081 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 292414004082 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414004083 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 292414004084 dimerization interface [polypeptide binding]; other site 292414004085 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 292414004086 dimer interface [polypeptide binding]; other site 292414004087 phosphorylation site [posttranslational modification] 292414004088 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 292414004089 ATP binding site [chemical binding]; other site 292414004090 Mg2+ binding site [ion binding]; other site 292414004091 G-X-G motif; other site 292414004092 C factor cell-cell signaling protein; Provisional; Region: PRK09009 292414004093 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 292414004094 NADP binding site [chemical binding]; other site 292414004095 homodimer interface [polypeptide binding]; other site 292414004096 active site 292414004097 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 292414004098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 292414004099 NAD(P) binding site [chemical binding]; other site 292414004100 active site 292414004101 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 292414004102 MFS/sugar transport protein; Region: MFS_2; pfam13347 292414004103 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 292414004104 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 292414004105 S-adenosylmethionine binding site [chemical binding]; other site 292414004106 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 292414004107 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 292414004108 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 292414004109 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 292414004110 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 292414004111 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 292414004112 DNA binding residues [nucleotide binding] 292414004113 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 292414004114 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 292414004115 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 292414004116 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 292414004117 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 292414004118 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 292414004119 sucrose phosphorylase; Provisional; Region: PRK13840 292414004120 active site 292414004121 homodimer interface [polypeptide binding]; other site 292414004122 catalytic site [active] 292414004123 Uncharacterized protein conserved in bacteria (DUF2084); Region: DUF2084; pfam09857 292414004124 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 292414004125 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 292414004126 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 292414004127 active site 292414004128 motif I; other site 292414004129 motif II; other site 292414004130 BCCT family transporter; Region: BCCT; pfam02028 292414004131 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 292414004132 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 292414004133 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 292414004134 putative active site [active] 292414004135 putative metal binding site [ion binding]; other site 292414004136 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 292414004137 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 292414004138 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 292414004139 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 292414004140 sorbitol dehydrogenase; Provisional; Region: PRK07067 292414004141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 292414004142 NAD(P) binding site [chemical binding]; other site 292414004143 active site 292414004144 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 292414004145 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 292414004146 Walker A/P-loop; other site 292414004147 ATP binding site [chemical binding]; other site 292414004148 Q-loop/lid; other site 292414004149 ABC transporter signature motif; other site 292414004150 Walker B; other site 292414004151 D-loop; other site 292414004152 H-loop/switch region; other site 292414004153 TOBE domain; Region: TOBE_2; pfam08402 292414004154 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 292414004155 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 292414004156 dimer interface [polypeptide binding]; other site 292414004157 conserved gate region; other site 292414004158 putative PBP binding loops; other site 292414004159 ABC-ATPase subunit interface; other site 292414004160 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 292414004161 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 292414004162 putative PBP binding loops; other site 292414004163 dimer interface [polypeptide binding]; other site 292414004164 ABC-ATPase subunit interface; other site 292414004165 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 292414004166 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 292414004167 Transcriptional regulators [Transcription]; Region: PurR; COG1609 292414004168 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 292414004169 DNA binding site [nucleotide binding] 292414004170 domain linker motif; other site 292414004171 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 292414004172 dimerization interface [polypeptide binding]; other site 292414004173 ligand binding site [chemical binding]; other site 292414004174 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 292414004175 dimerization interface [polypeptide binding]; other site 292414004176 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414004177 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414004178 dimer interface [polypeptide binding]; other site 292414004179 putative CheW interface [polypeptide binding]; other site 292414004180 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 292414004181 hydroxyglutarate oxidase; Provisional; Region: PRK11728 292414004182 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 292414004183 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 292414004184 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 292414004185 transcriptional regulator BetI; Validated; Region: PRK00767 292414004186 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414004187 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 292414004188 PaaX-like protein; Region: PaaX; pfam07848 292414004189 Transcriptional regulator PadR-like family; Region: PadR; cl17335 292414004190 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 292414004191 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 292414004192 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 292414004193 substrate binding site [chemical binding]; other site 292414004194 dimer interface [polypeptide binding]; other site 292414004195 NADP binding site [chemical binding]; other site 292414004196 catalytic residues [active] 292414004197 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 292414004198 active site 2 [active] 292414004199 active site 1 [active] 292414004200 enoyl-CoA hydratase; Provisional; Region: PRK08140 292414004201 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 292414004202 substrate binding site [chemical binding]; other site 292414004203 oxyanion hole (OAH) forming residues; other site 292414004204 trimer interface [polypeptide binding]; other site 292414004205 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 292414004206 CoenzymeA binding site [chemical binding]; other site 292414004207 subunit interaction site [polypeptide binding]; other site 292414004208 PHB binding site; other site 292414004209 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 292414004210 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 292414004211 acyl-activating enzyme (AAE) consensus motif; other site 292414004212 AMP binding site [chemical binding]; other site 292414004213 active site 292414004214 CoA binding site [chemical binding]; other site 292414004215 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414004216 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414004217 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 292414004218 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 292414004219 active site 292414004220 HIGH motif; other site 292414004221 dimer interface [polypeptide binding]; other site 292414004222 KMSKS motif; other site 292414004223 Rhomboid family; Region: Rhomboid; cl11446 292414004224 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 292414004225 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 292414004226 PII uridylyl-transferase; Provisional; Region: PRK05092 292414004227 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 292414004228 metal binding triad; other site 292414004229 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 292414004230 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 292414004231 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 292414004232 Zn2+ binding site [ion binding]; other site 292414004233 Mg2+ binding site [ion binding]; other site 292414004234 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 292414004235 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 292414004236 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 292414004237 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 292414004238 putative ligand binding site [chemical binding]; other site 292414004239 Predicted methyltransferases [General function prediction only]; Region: COG0313 292414004240 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 292414004241 putative SAM binding site [chemical binding]; other site 292414004242 putative homodimer interface [polypeptide binding]; other site 292414004243 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 292414004244 glutathione synthetase; Provisional; Region: PRK05246 292414004245 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 292414004246 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 292414004247 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 292414004248 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 292414004249 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 292414004250 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 292414004251 Walker A motif; other site 292414004252 ATP binding site [chemical binding]; other site 292414004253 Walker B motif; other site 292414004254 arginine finger; other site 292414004255 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 292414004256 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 292414004257 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 292414004258 putative C-terminal domain interface [polypeptide binding]; other site 292414004259 putative GSH binding site (G-site) [chemical binding]; other site 292414004260 putative dimer interface [polypeptide binding]; other site 292414004261 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 292414004262 putative N-terminal domain interface [polypeptide binding]; other site 292414004263 putative dimer interface [polypeptide binding]; other site 292414004264 putative substrate binding pocket (H-site) [chemical binding]; other site 292414004265 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 292414004266 catalytic core [active] 292414004267 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 292414004268 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 292414004269 homotrimer interface [polypeptide binding]; other site 292414004270 Walker A motif; other site 292414004271 GTP binding site [chemical binding]; other site 292414004272 Walker B motif; other site 292414004273 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 292414004274 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 292414004275 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 292414004276 DNA binding residues [nucleotide binding] 292414004277 Protein of unknown function, DUF399; Region: DUF399; cl01139 292414004278 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 292414004279 Flavoprotein; Region: Flavoprotein; pfam02441 292414004280 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 292414004281 CheB methylesterase; Region: CheB_methylest; pfam01339 292414004282 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 292414004283 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 292414004284 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 292414004285 PAS domain; Region: PAS_10; pfam13596 292414004286 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 292414004287 trimer interface [polypeptide binding]; other site 292414004288 active site 292414004289 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 292414004290 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 292414004291 ATP binding site [chemical binding]; other site 292414004292 substrate interface [chemical binding]; other site 292414004293 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414004294 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 292414004295 substrate binding pocket [chemical binding]; other site 292414004296 membrane-bound complex binding site; other site 292414004297 hinge residues; other site 292414004298 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 292414004299 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 292414004300 dimer interface [polypeptide binding]; other site 292414004301 conserved gate region; other site 292414004302 putative PBP binding loops; other site 292414004303 ABC-ATPase subunit interface; other site 292414004304 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 292414004305 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 292414004306 active site 292414004307 Zn binding site [ion binding]; other site 292414004308 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 292414004309 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 292414004310 putative ligand binding site [chemical binding]; other site 292414004311 NAD binding site [chemical binding]; other site 292414004312 dimerization interface [polypeptide binding]; other site 292414004313 catalytic site [active] 292414004314 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 292414004315 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_18; cd08357 292414004316 putative metal binding site [ion binding]; other site 292414004317 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414004318 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414004319 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 292414004320 dimerization interface [polypeptide binding]; other site 292414004321 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 292414004322 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 292414004323 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 292414004324 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 292414004325 rod shape-determining protein MreC; Provisional; Region: PRK13922 292414004326 rod shape-determining protein MreC; Region: MreC; pfam04085 292414004327 rod shape-determining protein MreB; Provisional; Region: PRK13927 292414004328 MreB and similar proteins; Region: MreB_like; cd10225 292414004329 nucleotide binding site [chemical binding]; other site 292414004330 Mg binding site [ion binding]; other site 292414004331 putative protofilament interaction site [polypeptide binding]; other site 292414004332 RodZ interaction site [polypeptide binding]; other site 292414004333 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 292414004334 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 292414004335 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 292414004336 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 292414004337 dimerization interface [polypeptide binding]; other site 292414004338 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 292414004339 dimerization interface [polypeptide binding]; other site 292414004340 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414004341 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414004342 dimer interface [polypeptide binding]; other site 292414004343 putative CheW interface [polypeptide binding]; other site 292414004344 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 292414004345 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 292414004346 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 292414004347 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 292414004348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 292414004349 Bacterial SH3 domain; Region: SH3_4; pfam06347 292414004350 Bacterial SH3 domain; Region: SH3_4; pfam06347 292414004351 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 292414004352 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 292414004353 dimerization interface [polypeptide binding]; other site 292414004354 ligand binding site [chemical binding]; other site 292414004355 NADP binding site [chemical binding]; other site 292414004356 catalytic site [active] 292414004357 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 292414004358 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 292414004359 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 292414004360 FAD binding domain; Region: FAD_binding_4; pfam01565 292414004361 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 292414004362 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 292414004363 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 292414004364 hydroxyglutarate oxidase; Provisional; Region: PRK11728 292414004365 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 292414004366 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 292414004367 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 292414004368 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; cl17302 292414004369 Ca2+ binding site [ion binding]; other site 292414004370 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; cl17302 292414004371 EF-hand domain pair; Region: EF_hand_5; pfam13499 292414004372 Ca2+ binding site [ion binding]; other site 292414004373 Protein of unknown function (DUF938); Region: DUF938; pfam06080 292414004374 Methyltransferase domain; Region: Methyltransf_23; pfam13489 292414004375 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 292414004376 hydroxyglutarate oxidase; Provisional; Region: PRK11728 292414004377 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 292414004378 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 292414004379 active site 292414004380 catalytic tetrad [active] 292414004381 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 292414004382 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 292414004383 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 292414004384 putative ligand binding site [chemical binding]; other site 292414004385 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 292414004386 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 292414004387 TM-ABC transporter signature motif; other site 292414004388 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 292414004389 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 292414004390 TM-ABC transporter signature motif; other site 292414004391 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 292414004392 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 292414004393 Walker A/P-loop; other site 292414004394 ATP binding site [chemical binding]; other site 292414004395 Q-loop/lid; other site 292414004396 ABC transporter signature motif; other site 292414004397 Walker B; other site 292414004398 D-loop; other site 292414004399 H-loop/switch region; other site 292414004400 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 292414004401 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 292414004402 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 292414004403 XdhC Rossmann domain; Region: XdhC_C; pfam13478 292414004404 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 292414004405 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 292414004406 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 292414004407 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 292414004408 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 292414004409 catalytic loop [active] 292414004410 iron binding site [ion binding]; other site 292414004411 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 292414004412 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 292414004413 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 292414004414 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 292414004415 putative active site [active] 292414004416 putative PHP Thumb interface [polypeptide binding]; other site 292414004417 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 292414004418 generic binding surface II; other site 292414004419 generic binding surface I; other site 292414004420 Protein of unknown function (DUF995); Region: DUF995; pfam06191 292414004421 SlyX; Region: SlyX; pfam04102 292414004422 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 292414004423 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 292414004424 dimer interface [polypeptide binding]; other site 292414004425 motif 1; other site 292414004426 motif 2; other site 292414004427 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 292414004428 active site 292414004429 motif 3; other site 292414004430 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 292414004431 anticodon binding site; other site 292414004432 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 292414004433 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 292414004434 motif 1; other site 292414004435 dimer interface [polypeptide binding]; other site 292414004436 active site 292414004437 motif 2; other site 292414004438 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 292414004439 motif 3; other site 292414004440 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 292414004441 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 292414004442 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 292414004443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 292414004444 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 292414004445 Protein of unknown function DUF45; Region: DUF45; pfam01863 292414004446 Transcriptional regulators [Transcription]; Region: GntR; COG1802 292414004447 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414004448 DNA-binding site [nucleotide binding]; DNA binding site 292414004449 FCD domain; Region: FCD; pfam07729 292414004450 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 292414004451 serine O-acetyltransferase; Region: cysE; TIGR01172 292414004452 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 292414004453 trimer interface [polypeptide binding]; other site 292414004454 active site 292414004455 substrate binding site [chemical binding]; other site 292414004456 CoA binding site [chemical binding]; other site 292414004457 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 292414004458 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 292414004459 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 292414004460 metal binding site [ion binding]; metal-binding site 292414004461 putative dimer interface [polypeptide binding]; other site 292414004462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414004463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414004464 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 292414004465 dimerization interface [polypeptide binding]; other site 292414004466 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 292414004467 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 292414004468 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 292414004469 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 292414004470 NAD(P) binding site [chemical binding]; other site 292414004471 catalytic residues [active] 292414004472 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 292414004473 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 292414004474 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 292414004475 dimer interface [polypeptide binding]; other site 292414004476 putative radical transfer pathway; other site 292414004477 diiron center [ion binding]; other site 292414004478 tyrosyl radical; other site 292414004479 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 292414004480 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 292414004481 Class I ribonucleotide reductase; Region: RNR_I; cd01679 292414004482 active site 292414004483 dimer interface [polypeptide binding]; other site 292414004484 catalytic residues [active] 292414004485 effector binding site; other site 292414004486 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 292414004487 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 292414004488 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 292414004489 catalytic residues [active] 292414004490 Uncharacterized conserved protein [Function unknown]; Region: COG3791 292414004491 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 292414004492 arsenical-resistance protein; Region: acr3; TIGR00832 292414004493 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 292414004494 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 292414004495 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 292414004496 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 292414004497 dimerization interface [polypeptide binding]; other site 292414004498 putative DNA binding site [nucleotide binding]; other site 292414004499 putative Zn2+ binding site [ion binding]; other site 292414004500 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 292414004501 Low molecular weight phosphatase family; Region: LMWPc; cd00115 292414004502 active site 292414004503 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 292414004504 active site 292414004505 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 292414004506 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 292414004507 HlyD family secretion protein; Region: HlyD_3; pfam13437 292414004508 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 292414004509 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 292414004510 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 292414004511 Walker A/P-loop; other site 292414004512 ATP binding site [chemical binding]; other site 292414004513 Q-loop/lid; other site 292414004514 ABC transporter signature motif; other site 292414004515 Walker B; other site 292414004516 D-loop; other site 292414004517 H-loop/switch region; other site 292414004518 Outer membrane efflux protein; Region: OEP; pfam02321 292414004519 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 292414004520 PrkA family serine protein kinase; Provisional; Region: PRK15455 292414004521 AAA ATPase domain; Region: AAA_16; pfam13191 292414004522 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 292414004523 Protein of unknown function (DUF444); Region: DUF444; cl17371 292414004524 hypothetical protein; Provisional; Region: PRK05325 292414004525 SpoVR family protein; Provisional; Region: PRK11767 292414004526 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 292414004527 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 292414004528 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 292414004529 substrate binding site [chemical binding]; other site 292414004530 catalytic Zn binding site [ion binding]; other site 292414004531 NAD binding site [chemical binding]; other site 292414004532 structural Zn binding site [ion binding]; other site 292414004533 dimer interface [polypeptide binding]; other site 292414004534 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 292414004535 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 292414004536 DNA binding residues [nucleotide binding] 292414004537 dimer interface [polypeptide binding]; other site 292414004538 copper binding site [ion binding]; other site 292414004539 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 292414004540 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 292414004541 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 292414004542 binding surface 292414004543 TPR motif; other site 292414004544 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 292414004545 catalytic core [active] 292414004546 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 292414004547 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 292414004548 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 292414004549 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414004550 Walker A/P-loop; other site 292414004551 ATP binding site [chemical binding]; other site 292414004552 Q-loop/lid; other site 292414004553 ABC transporter signature motif; other site 292414004554 Walker B; other site 292414004555 D-loop; other site 292414004556 H-loop/switch region; other site 292414004557 TOBE domain; Region: TOBE_2; pfam08402 292414004558 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 292414004559 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 292414004560 dimer interface [polypeptide binding]; other site 292414004561 conserved gate region; other site 292414004562 putative PBP binding loops; other site 292414004563 ABC-ATPase subunit interface; other site 292414004564 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 292414004565 dimer interface [polypeptide binding]; other site 292414004566 conserved gate region; other site 292414004567 putative PBP binding loops; other site 292414004568 ABC-ATPase subunit interface; other site 292414004569 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 292414004570 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 292414004571 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 292414004572 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 292414004573 putative DNA binding site [nucleotide binding]; other site 292414004574 putative Zn2+ binding site [ion binding]; other site 292414004575 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 292414004576 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 292414004577 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 292414004578 active site 292414004579 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 292414004580 Catalytic NodB homology domain of uncharacterized bacterial glycosyl transferase, group 2-like family proteins; Region: CE4_GT2-like; cd10962 292414004581 NodB motif; other site 292414004582 putative active site [active] 292414004583 putative catalytic site [active] 292414004584 putative Zn binding site [ion binding]; other site 292414004585 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 292414004586 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 292414004587 DXD motif; other site 292414004588 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 292414004589 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 292414004590 Transcriptional regulators [Transcription]; Region: MarR; COG1846 292414004591 MarR family; Region: MarR_2; pfam12802 292414004592 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 292414004593 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414004594 Coenzyme A binding pocket [chemical binding]; other site 292414004595 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 292414004596 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 292414004597 inhibitor-cofactor binding pocket; inhibition site 292414004598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414004599 catalytic residue [active] 292414004600 Ectoine synthase; Region: Ectoine_synth; pfam06339 292414004601 aspartate kinase; Validated; Region: PRK09181 292414004602 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 292414004603 putative catalytic residues [active] 292414004604 putative nucleotide binding site [chemical binding]; other site 292414004605 putative aspartate binding site [chemical binding]; other site 292414004606 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 292414004607 allosteric regulatory residue; other site 292414004608 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 292414004609 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK05975 292414004610 tetramer interface [polypeptide binding]; other site 292414004611 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 292414004612 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 292414004613 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 292414004614 heterodimer interface [polypeptide binding]; other site 292414004615 active site 292414004616 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 292414004617 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 292414004618 active site 292414004619 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 292414004620 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 292414004621 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 292414004622 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 292414004623 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 292414004624 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414004625 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 292414004626 dimerization interface [polypeptide binding]; other site 292414004627 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 292414004628 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 292414004629 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 292414004630 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 292414004631 DNA binding residues [nucleotide binding] 292414004632 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 292414004633 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 292414004634 active site 292414004635 dimer interface [polypeptide binding]; other site 292414004636 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 292414004637 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 292414004638 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 292414004639 hypothetical protein; Provisional; Region: PRK11019 292414004640 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 292414004641 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 292414004642 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 292414004643 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 292414004644 active site 292414004645 Zn binding site [ion binding]; other site 292414004646 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 292414004647 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 292414004648 SCP-2 sterol transfer family; Region: SCP2; pfam02036 292414004649 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 292414004650 binding surface 292414004651 TPR repeat; Region: TPR_11; pfam13414 292414004652 TPR motif; other site 292414004653 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; cl17251 292414004654 ATP binding site [chemical binding]; other site 292414004655 putative Mg++ binding site [ion binding]; other site 292414004656 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 292414004657 nucleotide binding region [chemical binding]; other site 292414004658 ATP-binding site [chemical binding]; other site 292414004659 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 292414004660 RNA binding surface [nucleotide binding]; other site 292414004661 Ferredoxin [Energy production and conversion]; Region: COG1146 292414004662 4Fe-4S binding domain; Region: Fer4; pfam00037 292414004663 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 292414004664 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 292414004665 cobalamin synthase; Reviewed; Region: cobS; PRK00235 292414004666 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 292414004667 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 292414004668 putative dimer interface [polypeptide binding]; other site 292414004669 active site pocket [active] 292414004670 putative cataytic base [active] 292414004671 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 292414004672 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 292414004673 TrkA-N domain; Region: TrkA_N; pfam02254 292414004674 PAS domain; Region: PAS_9; pfam13426 292414004675 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414004676 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 292414004677 AsnC family; Region: AsnC_trans_reg; pfam01037 292414004678 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 292414004679 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 292414004680 dimer interface [polypeptide binding]; other site 292414004681 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 292414004682 active site 292414004683 Fe binding site [ion binding]; other site 292414004684 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 292414004685 Pilus assembly protein, PilP; Region: PilP; pfam04351 292414004686 Uncharacterized conserved protein [Function unknown]; Region: COG2968 292414004687 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 292414004688 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 292414004689 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 292414004690 homodimer interface [polypeptide binding]; other site 292414004691 substrate-cofactor binding pocket; other site 292414004692 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414004693 catalytic residue [active] 292414004694 (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 292414004695 dimer interaction site [polypeptide binding]; other site 292414004696 substrate-binding tunnel; other site 292414004697 active site 292414004698 catalytic site [active] 292414004699 substrate binding site [chemical binding]; other site 292414004700 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 292414004701 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 292414004702 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 292414004703 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 292414004704 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 292414004705 ATP binding site [chemical binding]; other site 292414004706 Mg++ binding site [ion binding]; other site 292414004707 motif III; other site 292414004708 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 292414004709 nucleotide binding region [chemical binding]; other site 292414004710 ATP-binding site [chemical binding]; other site 292414004711 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 292414004712 RNA binding site [nucleotide binding]; other site 292414004713 Peptidase family M48; Region: Peptidase_M48; cl12018 292414004714 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 292414004715 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 292414004716 DHHA2 domain; Region: DHHA2; pfam02833 292414004717 TraB family; Region: TraB; pfam01963 292414004718 TraB family; Region: TraB; pfam01963 292414004719 Uncharacterized conserved protein (DUF2161); Region: DUF2161; pfam09929 292414004720 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 292414004721 oligomerisation interface [polypeptide binding]; other site 292414004722 mobile loop; other site 292414004723 roof hairpin; other site 292414004724 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 292414004725 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 292414004726 ring oligomerisation interface [polypeptide binding]; other site 292414004727 ATP/Mg binding site [chemical binding]; other site 292414004728 stacking interactions; other site 292414004729 hinge regions; other site 292414004730 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 292414004731 EamA-like transporter family; Region: EamA; pfam00892 292414004732 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 292414004733 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 292414004734 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 292414004735 active site 292414004736 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 292414004737 ATP-grasp domain; Region: ATP-grasp; pfam02222 292414004738 AIR carboxylase; Region: AIRC; pfam00731 292414004739 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 292414004740 Uncharacterized conserved protein [Function unknown]; Region: COG3791 292414004741 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 292414004742 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 292414004743 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 292414004744 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 292414004745 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 292414004746 putative dimer interface [polypeptide binding]; other site 292414004747 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 292414004748 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 292414004749 ATP-sulfurylase; Region: ATPS; cd00517 292414004750 active site 292414004751 HXXH motif; other site 292414004752 flexible loop; other site 292414004753 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...; Region: APSK; cd02027 292414004754 ligand-binding site [chemical binding]; other site 292414004755 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 292414004756 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 292414004757 catalytic loop [active] 292414004758 iron binding site [ion binding]; other site 292414004759 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 292414004760 cyclase homology domain; Region: CHD; cd07302 292414004761 nucleotidyl binding site; other site 292414004762 metal binding site [ion binding]; metal-binding site 292414004763 dimer interface [polypeptide binding]; other site 292414004764 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 292414004765 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 292414004766 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 292414004767 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414004768 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 292414004769 putative DNA binding site [nucleotide binding]; other site 292414004770 putative Zn2+ binding site [ion binding]; other site 292414004771 AsnC family; Region: AsnC_trans_reg; pfam01037 292414004772 Hint domain; Region: Hint_2; pfam13403 292414004773 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 292414004774 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 292414004775 Uncharacterized conserved protein [Function unknown]; Region: COG1565 292414004776 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 292414004777 Membrane fusogenic activity; Region: BMFP; pfam04380 292414004778 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 292414004779 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 292414004780 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 292414004781 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 292414004782 dimer interface [polypeptide binding]; other site 292414004783 putative tRNA-binding site [nucleotide binding]; other site 292414004784 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 292414004785 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 292414004786 dimerization interface [polypeptide binding]; other site 292414004787 ligand binding site [chemical binding]; other site 292414004788 NADP binding site [chemical binding]; other site 292414004789 catalytic site [active] 292414004790 thymidine kinase; Provisional; Region: PRK04296 292414004791 acyl-CoA synthetase; Validated; Region: PRK08316 292414004792 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 292414004793 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 292414004794 dimer interface [polypeptide binding]; other site 292414004795 active site 292414004796 CoA binding pocket [chemical binding]; other site 292414004797 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 292414004798 MarR family; Region: MarR_2; pfam12802 292414004799 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 292414004800 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 292414004801 HlyD family secretion protein; Region: HlyD_3; pfam13437 292414004802 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 292414004803 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 292414004804 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 292414004805 ATP-grasp domain; Region: ATP-grasp_4; cl17255 292414004806 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 292414004807 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 292414004808 ATP-grasp domain; Region: ATP-grasp_4; cl17255 292414004809 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 292414004810 IMP binding site; other site 292414004811 dimer interface [polypeptide binding]; other site 292414004812 partial ornithine binding site; other site 292414004813 aminodeoxychorismate synthase; Provisional; Region: PRK07508 292414004814 chorismate binding enzyme; Region: Chorismate_bind; cl10555 292414004815 hypothetical protein; Provisional; Region: PRK07546 292414004816 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 292414004817 substrate-cofactor binding pocket; other site 292414004818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414004819 homodimer interface [polypeptide binding]; other site 292414004820 catalytic residue [active] 292414004821 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 292414004822 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 292414004823 dimer interface [polypeptide binding]; other site 292414004824 anticodon binding site; other site 292414004825 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 292414004826 motif 1; other site 292414004827 dimer interface [polypeptide binding]; other site 292414004828 active site 292414004829 motif 2; other site 292414004830 GAD domain; Region: GAD; pfam02938 292414004831 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 292414004832 active site 292414004833 motif 3; other site 292414004834 Response regulator receiver domain; Region: Response_reg; pfam00072 292414004835 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 292414004836 active site 292414004837 phosphorylation site [posttranslational modification] 292414004838 intermolecular recognition site; other site 292414004839 dimerization interface [polypeptide binding]; other site 292414004840 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 292414004841 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 292414004842 dimer interface [polypeptide binding]; other site 292414004843 substrate binding site [chemical binding]; other site 292414004844 metal binding site [ion binding]; metal-binding site 292414004845 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 292414004846 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414004847 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414004848 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 292414004849 substrate binding pocket [chemical binding]; other site 292414004850 dimerization interface [polypeptide binding]; other site 292414004851 Domain of unknown function (DUF427); Region: DUF427; pfam04248 292414004852 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 292414004853 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 292414004854 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 292414004855 active site 292414004856 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 292414004857 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 292414004858 metal ion-dependent adhesion site (MIDAS); other site 292414004859 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 292414004860 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 292414004861 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; cl17189 292414004862 Phospholipid methyltransferase; Region: PEMT; pfam04191 292414004863 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 292414004864 HSP70 interaction site [polypeptide binding]; other site 292414004865 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 292414004866 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 292414004867 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 292414004868 peptidase T; Region: peptidase-T; TIGR01882 292414004869 metal binding site [ion binding]; metal-binding site 292414004870 dimer interface [polypeptide binding]; other site 292414004871 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 292414004872 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 292414004873 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 292414004874 FeS/SAM binding site; other site 292414004875 AsmA family; Region: AsmA; pfam05170 292414004876 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 292414004877 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 292414004878 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 292414004879 active site 292414004880 substrate binding site [chemical binding]; other site 292414004881 metal binding site [ion binding]; metal-binding site 292414004882 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 292414004883 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 292414004884 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 292414004885 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414004886 Vi polysaccharide export ATP-binding protein VexC; Provisional; Region: PRK15177 292414004887 Walker A/P-loop; other site 292414004888 ATP binding site [chemical binding]; other site 292414004889 Q-loop/lid; other site 292414004890 ABC transporter signature motif; other site 292414004891 Walker B; other site 292414004892 D-loop; other site 292414004893 H-loop/switch region; other site 292414004894 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 292414004895 ligand binding site [chemical binding]; other site 292414004896 active site 292414004897 putative S-transferase; Provisional; Region: PRK11752 292414004898 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 292414004899 C-terminal domain interface [polypeptide binding]; other site 292414004900 GSH binding site (G-site) [chemical binding]; other site 292414004901 dimer interface [polypeptide binding]; other site 292414004902 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 292414004903 dimer interface [polypeptide binding]; other site 292414004904 N-terminal domain interface [polypeptide binding]; other site 292414004905 active site 292414004906 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 292414004907 putative metal binding site [ion binding]; other site 292414004908 Uncharacterized conserved protein [Function unknown]; Region: COG1432 292414004909 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 292414004910 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 292414004911 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 292414004912 GcrA cell cycle regulator; Region: GcrA; cl11564 292414004913 ABC-2 type transporter; Region: ABC2_membrane; cl17235 292414004914 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 292414004915 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414004916 EamA-like transporter family; Region: EamA; pfam00892 292414004917 EamA-like transporter family; Region: EamA; pfam00892 292414004918 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 292414004919 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 292414004920 inhibitor-cofactor binding pocket; inhibition site 292414004921 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414004922 catalytic residue [active] 292414004923 ornithine carbamoyltransferase; Provisional; Region: PRK00779 292414004924 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 292414004925 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 292414004926 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 292414004927 Phosphate transporter family; Region: PHO4; pfam01384 292414004928 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_9; cd04666 292414004929 nudix motif; other site 292414004930 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 292414004931 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 292414004932 ATP binding site [chemical binding]; other site 292414004933 putative Mg++ binding site [ion binding]; other site 292414004934 nucleotide binding region [chemical binding]; other site 292414004935 helicase superfamily c-terminal domain; Region: HELICc; smart00490 292414004936 ATP-binding site [chemical binding]; other site 292414004937 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 292414004938 membrane ATPase/protein kinase; Provisional; Region: PRK09435 292414004939 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 292414004940 Walker A; other site 292414004941 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 292414004942 Protein of unknown function (DUF461); Region: DUF461; pfam04314 292414004943 NAD-dependent deacetylase; Provisional; Region: PRK00481 292414004944 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 292414004945 NAD+ binding site [chemical binding]; other site 292414004946 substrate binding site [chemical binding]; other site 292414004947 Zn binding site [ion binding]; other site 292414004948 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 292414004949 Low molecular weight phosphatase family; Region: LMWPc; cd00115 292414004950 active site 292414004951 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 292414004952 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 292414004953 putative DNA binding site [nucleotide binding]; other site 292414004954 putative Zn2+ binding site [ion binding]; other site 292414004955 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 292414004956 dimerization interface [polypeptide binding]; other site 292414004957 GTP-binding protein LepA; Provisional; Region: PRK05433 292414004958 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 292414004959 G1 box; other site 292414004960 putative GEF interaction site [polypeptide binding]; other site 292414004961 GTP/Mg2+ binding site [chemical binding]; other site 292414004962 Switch I region; other site 292414004963 G2 box; other site 292414004964 G3 box; other site 292414004965 Switch II region; other site 292414004966 G4 box; other site 292414004967 G5 box; other site 292414004968 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 292414004969 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 292414004970 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 292414004971 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 292414004972 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 292414004973 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 292414004974 Predicted flavoproteins [General function prediction only]; Region: COG2081 292414004975 cell division protein FtsW; Region: ftsW; TIGR02614 292414004976 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 292414004977 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 292414004978 active site 292414004979 homodimer interface [polypeptide binding]; other site 292414004980 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 292414004981 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 292414004982 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 292414004983 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 292414004984 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 292414004985 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 292414004986 FAD binding domain; Region: FAD_binding_4; pfam01565 292414004987 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 292414004988 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 292414004989 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 292414004990 ATP-grasp domain; Region: ATP-grasp_4; cl17255 292414004991 Cell division protein FtsQ; Region: FtsQ; pfam03799 292414004992 Cell division protein FtsA; Region: FtsA; smart00842 292414004993 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 292414004994 Cell division protein FtsA; Region: FtsA; pfam14450 292414004995 cell division protein FtsZ; Validated; Region: PRK09330 292414004996 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 292414004997 nucleotide binding site [chemical binding]; other site 292414004998 SulA interaction site; other site 292414004999 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 292414005000 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 292414005001 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 292414005002 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 292414005003 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 292414005004 Walker A/P-loop; other site 292414005005 ATP binding site [chemical binding]; other site 292414005006 Q-loop/lid; other site 292414005007 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 292414005008 ABC transporter signature motif; other site 292414005009 Walker B; other site 292414005010 D-loop; other site 292414005011 H-loop/switch region; other site 292414005012 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 292414005013 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 292414005014 Cl- selectivity filter; other site 292414005015 Cl- binding residues [ion binding]; other site 292414005016 pore gating glutamate residue; other site 292414005017 dimer interface [polypeptide binding]; other site 292414005018 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 292414005019 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 292414005020 putative FMN binding site [chemical binding]; other site 292414005021 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 292414005022 Peptidase family M48; Region: Peptidase_M48; cl12018 292414005023 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 292414005024 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 292414005025 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 292414005026 GatB domain; Region: GatB_Yqey; smart00845 292414005027 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414005028 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 292414005029 substrate binding pocket [chemical binding]; other site 292414005030 membrane-bound complex binding site; other site 292414005031 hinge residues; other site 292414005032 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 292414005033 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 292414005034 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 292414005035 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 292414005036 RNA binding site [nucleotide binding]; other site 292414005037 aminopeptidase N; Provisional; Region: pepN; PRK14015 292414005038 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 292414005039 Zn binding site [ion binding]; other site 292414005040 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 292414005041 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 292414005042 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 292414005043 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 292414005044 ligand binding site [chemical binding]; other site 292414005045 homodimer interface [polypeptide binding]; other site 292414005046 NAD(P) binding site [chemical binding]; other site 292414005047 trimer interface B [polypeptide binding]; other site 292414005048 trimer interface A [polypeptide binding]; other site 292414005049 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 292414005050 Peptidase C26; Region: Peptidase_C26; pfam07722 292414005051 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 292414005052 catalytic triad [active] 292414005053 malate synthase G; Provisional; Region: PRK02999 292414005054 active site 292414005055 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 292414005056 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 292414005057 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 292414005058 dimer interface [polypeptide binding]; other site 292414005059 conserved gate region; other site 292414005060 putative PBP binding loops; other site 292414005061 ABC-ATPase subunit interface; other site 292414005062 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 292414005063 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 292414005064 dimer interface [polypeptide binding]; other site 292414005065 conserved gate region; other site 292414005066 putative PBP binding loops; other site 292414005067 ABC-ATPase subunit interface; other site 292414005068 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 292414005069 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 292414005070 peptide binding site [polypeptide binding]; other site 292414005071 dimer interface [polypeptide binding]; other site 292414005072 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414005073 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 292414005074 Walker A/P-loop; other site 292414005075 ATP binding site [chemical binding]; other site 292414005076 Q-loop/lid; other site 292414005077 ABC transporter signature motif; other site 292414005078 Walker B; other site 292414005079 D-loop; other site 292414005080 H-loop/switch region; other site 292414005081 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414005082 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414005083 Walker A/P-loop; other site 292414005084 ATP binding site [chemical binding]; other site 292414005085 Q-loop/lid; other site 292414005086 ABC transporter signature motif; other site 292414005087 Walker B; other site 292414005088 D-loop; other site 292414005089 H-loop/switch region; other site 292414005090 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 292414005091 acetylornithine deacetylase; Provisional; Region: PRK07522 292414005092 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 292414005093 metal binding site [ion binding]; metal-binding site 292414005094 putative dimer interface [polypeptide binding]; other site 292414005095 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 292414005096 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 292414005097 metal binding site [ion binding]; metal-binding site 292414005098 putative dimer interface [polypeptide binding]; other site 292414005099 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 292414005100 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 292414005101 metal binding site [ion binding]; metal-binding site 292414005102 putative dimer interface [polypeptide binding]; other site 292414005103 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 292414005104 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 292414005105 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 292414005106 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 292414005107 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 292414005108 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 292414005109 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 292414005110 FeS/SAM binding site; other site 292414005111 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 292414005112 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 292414005113 A new structural DNA glycosylase; Region: AlkD_like; cd06561 292414005114 active site 292414005115 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 292414005116 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 292414005117 glutaminase active site [active] 292414005118 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 292414005119 dimer interface [polypeptide binding]; other site 292414005120 active site 292414005121 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 292414005122 dimer interface [polypeptide binding]; other site 292414005123 active site 292414005124 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 292414005125 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 292414005126 Substrate binding site; other site 292414005127 Mg++ binding site; other site 292414005128 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 292414005129 active site 292414005130 substrate binding site [chemical binding]; other site 292414005131 CoA binding site [chemical binding]; other site 292414005132 phosphoglycolate phosphatase; Provisional; Region: PRK13222 292414005133 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 292414005134 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 292414005135 motif II; other site 292414005136 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 292414005137 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 292414005138 catalytic residue [active] 292414005139 isovaleryl-CoA dehydrogenase; Region: PLN02519 292414005140 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 292414005141 substrate binding site [chemical binding]; other site 292414005142 FAD binding site [chemical binding]; other site 292414005143 catalytic base [active] 292414005144 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 292414005145 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 292414005146 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 292414005147 active site 292414005148 acyl-activating enzyme (AAE) consensus motif; other site 292414005149 putative CoA binding site [chemical binding]; other site 292414005150 AMP binding site [chemical binding]; other site 292414005151 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 292414005152 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 292414005153 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 292414005154 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 292414005155 ATP-grasp domain; Region: ATP-grasp_4; cl17255 292414005156 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 292414005157 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 292414005158 carboxyltransferase (CT) interaction site; other site 292414005159 biotinylation site [posttranslational modification]; other site 292414005160 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 292414005161 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 292414005162 active site 292414005163 catalytic residues [active] 292414005164 metal binding site [ion binding]; metal-binding site 292414005165 enoyl-CoA hydratase; Provisional; Region: PRK07468 292414005166 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 292414005167 substrate binding site [chemical binding]; other site 292414005168 oxyanion hole (OAH) forming residues; other site 292414005169 trimer interface [polypeptide binding]; other site 292414005170 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 292414005171 NADH dehydrogenase subunit B; Validated; Region: PRK06411 292414005172 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 292414005173 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 292414005174 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 292414005175 NADH dehydrogenase subunit D; Validated; Region: PRK06075 292414005176 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 292414005177 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 292414005178 putative dimer interface [polypeptide binding]; other site 292414005179 [2Fe-2S] cluster binding site [ion binding]; other site 292414005180 Uncharacterized conserved protein [Function unknown]; Region: COG3743 292414005181 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 292414005182 SLBB domain; Region: SLBB; pfam10531 292414005183 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 292414005184 NADH dehydrogenase subunit G; Validated; Region: PRK09130 292414005185 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 292414005186 catalytic loop [active] 292414005187 iron binding site [ion binding]; other site 292414005188 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 292414005189 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 292414005190 molybdopterin cofactor binding site; other site 292414005191 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 292414005192 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 292414005193 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 292414005194 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 292414005195 4Fe-4S binding domain; Region: Fer4; pfam00037 292414005196 4Fe-4S binding domain; Region: Fer4; pfam00037 292414005197 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 292414005198 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 292414005199 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 292414005200 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 292414005201 proton-translocating NADH-quinone oxidoreductase, chain L; Region: NDH_I_L; TIGR01974 292414005202 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 292414005203 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 292414005204 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 292414005205 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 292414005206 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 292414005207 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 292414005208 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 292414005209 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 292414005210 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 292414005211 pantothenate kinase; Reviewed; Region: PRK13318 292414005212 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 292414005213 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 292414005214 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 292414005215 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 292414005216 triosephosphate isomerase; Provisional; Region: PRK14565 292414005217 substrate binding site [chemical binding]; other site 292414005218 dimer interface [polypeptide binding]; other site 292414005219 catalytic triad [active] 292414005220 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 292414005221 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 292414005222 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 292414005223 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 292414005224 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 292414005225 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 292414005226 ATP-grasp domain; Region: ATP-grasp_4; cl17255 292414005227 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 292414005228 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 292414005229 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 292414005230 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 292414005231 phosphate binding site [ion binding]; other site 292414005232 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 292414005233 Found in ATP-dependent protease La (LON); Region: LON; smart00464 292414005234 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 292414005235 Walker A motif; other site 292414005236 ATP binding site [chemical binding]; other site 292414005237 Walker B motif; other site 292414005238 arginine finger; other site 292414005239 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 292414005240 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 292414005241 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 292414005242 active site 292414005243 DNA binding site [nucleotide binding] 292414005244 Int/Topo IB signature motif; other site 292414005245 Centrosome localisation domain of PPC89; Region: Cep57_CLD_2; pfam14197 292414005246 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 292414005247 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 292414005248 ERF superfamily; Region: ERF; pfam04404 292414005249 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 292414005250 Predicted transcriptional regulator [Transcription]; Region: COG2932 292414005251 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 292414005252 non-specific DNA binding site [nucleotide binding]; other site 292414005253 salt bridge; other site 292414005254 sequence-specific DNA binding site [nucleotide binding]; other site 292414005255 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 292414005256 Catalytic site [active] 292414005257 Helix-turn-helix domain; Region: HTH_36; pfam13730 292414005258 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 292414005259 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 292414005260 dimer interface [polypeptide binding]; other site 292414005261 ssDNA binding site [nucleotide binding]; other site 292414005262 tetramer (dimer of dimers) interface [polypeptide binding]; other site 292414005263 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 292414005264 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 292414005265 heterodimer interface [polypeptide binding]; other site 292414005266 homodimer interface [polypeptide binding]; other site 292414005267 Terminase small subunit; Region: Terminase_2; pfam03592 292414005268 Phage terminase large subunit; Region: Terminase_3; cl12054 292414005269 Terminase-like family; Region: Terminase_6; pfam03237 292414005270 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 292414005271 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 292414005272 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 292414005273 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 292414005274 non-specific DNA binding site [nucleotide binding]; other site 292414005275 salt bridge; other site 292414005276 sequence-specific DNA binding site [nucleotide binding]; other site 292414005277 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 292414005278 tape measure domain; Region: tape_meas_nterm; TIGR02675 292414005279 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 292414005280 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 292414005281 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 292414005282 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 292414005283 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 292414005284 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 292414005285 active site 292414005286 phosphorylation site [posttranslational modification] 292414005287 intermolecular recognition site; other site 292414005288 dimerization interface [polypeptide binding]; other site 292414005289 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 292414005290 DNA binding residues [nucleotide binding] 292414005291 dimerization interface [polypeptide binding]; other site 292414005292 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 292414005293 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 292414005294 active site 292414005295 phosphorylation site [posttranslational modification] 292414005296 intermolecular recognition site; other site 292414005297 dimerization interface [polypeptide binding]; other site 292414005298 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 292414005299 putative active site [active] 292414005300 PAS fold; Region: PAS_3; pfam08447 292414005301 heme pocket [chemical binding]; other site 292414005302 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 292414005303 dimer interface [polypeptide binding]; other site 292414005304 phosphorylation site [posttranslational modification] 292414005305 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 292414005306 ATP binding site [chemical binding]; other site 292414005307 Mg2+ binding site [ion binding]; other site 292414005308 G-X-G motif; other site 292414005309 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414005310 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414005311 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 292414005312 dimerization interface [polypeptide binding]; other site 292414005313 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 292414005314 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 292414005315 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 292414005316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 292414005317 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 292414005318 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 292414005319 active site 292414005320 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 292414005321 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 292414005322 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 292414005323 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 292414005324 dimer interface [polypeptide binding]; other site 292414005325 conserved gate region; other site 292414005326 putative PBP binding loops; other site 292414005327 ABC-ATPase subunit interface; other site 292414005328 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 292414005329 dimer interface [polypeptide binding]; other site 292414005330 conserved gate region; other site 292414005331 putative PBP binding loops; other site 292414005332 ABC-ATPase subunit interface; other site 292414005333 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 292414005334 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414005335 Walker A/P-loop; other site 292414005336 ATP binding site [chemical binding]; other site 292414005337 Q-loop/lid; other site 292414005338 ABC transporter signature motif; other site 292414005339 Walker B; other site 292414005340 D-loop; other site 292414005341 H-loop/switch region; other site 292414005342 TOBE domain; Region: TOBE_2; pfam08402 292414005343 HAMP domain; Region: HAMP; pfam00672 292414005344 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414005345 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414005346 dimer interface [polypeptide binding]; other site 292414005347 putative CheW interface [polypeptide binding]; other site 292414005348 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 292414005349 active site 292414005350 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 292414005351 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 292414005352 binding surface 292414005353 TPR motif; other site 292414005354 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 292414005355 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 292414005356 ligand binding site [chemical binding]; other site 292414005357 FOG: WD40 repeat [General function prediction only]; Region: COG2319 292414005358 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 292414005359 structural tetrad; other site 292414005360 Caspase domain; Region: Peptidase_C14; pfam00656 292414005361 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 292414005362 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414005363 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 292414005364 dimerization interface [polypeptide binding]; other site 292414005365 substrate binding pocket [chemical binding]; other site 292414005366 choline dehydrogenase; Validated; Region: PRK02106 292414005367 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 292414005368 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 292414005369 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 292414005370 Mandelate racemase (MR)-like subfamily of the enolase superfamily. 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 residues; Region: MR_like; cd03316 292414005371 active site pocket [active] 292414005372 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 292414005373 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 292414005374 NAD(P) binding site [chemical binding]; other site 292414005375 catalytic residues [active] 292414005376 catalytic residues [active] 292414005377 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414005378 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414005379 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 292414005380 putative dimerization interface [polypeptide binding]; other site 292414005381 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 292414005382 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 292414005383 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 292414005384 dimer interface [polypeptide binding]; other site 292414005385 conserved gate region; other site 292414005386 putative PBP binding loops; other site 292414005387 ABC-ATPase subunit interface; other site 292414005388 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 292414005389 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 292414005390 dimer interface [polypeptide binding]; other site 292414005391 conserved gate region; other site 292414005392 ABC-ATPase subunit interface; other site 292414005393 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 292414005394 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 292414005395 Walker A/P-loop; other site 292414005396 ATP binding site [chemical binding]; other site 292414005397 Q-loop/lid; other site 292414005398 ABC transporter signature motif; other site 292414005399 Walker B; other site 292414005400 D-loop; other site 292414005401 H-loop/switch region; other site 292414005402 TOBE domain; Region: TOBE_2; pfam08402 292414005403 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 292414005404 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 292414005405 active site 292414005406 catalytic site [active] 292414005407 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 292414005408 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 292414005409 active site 292414005410 motif I; other site 292414005411 motif II; other site 292414005412 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 292414005413 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 292414005414 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 292414005415 catalytic core [active] 292414005416 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 292414005417 hypothetical protein; Validated; Region: PRK09104 292414005418 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 292414005419 metal binding site [ion binding]; metal-binding site 292414005420 putative dimer interface [polypeptide binding]; other site 292414005421 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 292414005422 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 292414005423 substrate-cofactor binding pocket; other site 292414005424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414005425 catalytic residue [active] 292414005426 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 292414005427 Helix-turn-helix domain; Region: HTH_25; pfam13413 292414005428 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 292414005429 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 292414005430 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 292414005431 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 292414005432 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 292414005433 catalytic residues [active] 292414005434 Peptidase family M48; Region: Peptidase_M48; cl12018 292414005435 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 292414005436 TPR motif; other site 292414005437 binding surface 292414005438 TPR repeat; Region: TPR_11; pfam13414 292414005439 hypothetical protein; Provisional; Region: PRK08960 292414005440 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 292414005441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414005442 homodimer interface [polypeptide binding]; other site 292414005443 catalytic residue [active] 292414005444 AMIN domain; Region: AMIN; pfam11741 292414005445 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 292414005446 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 292414005447 active site 292414005448 metal binding site [ion binding]; metal-binding site 292414005449 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 292414005450 Transglycosylase; Region: Transgly; pfam00912 292414005451 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 292414005452 peptide chain release factor 2; Validated; Region: prfB; PRK00578 292414005453 This domain is found in peptide chain release factors; Region: PCRF; smart00937 292414005454 RF-1 domain; Region: RF-1; pfam00472 292414005455 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 292414005456 amidase; Provisional; Region: PRK07486 292414005457 Amidase; Region: Amidase; cl11426 292414005458 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 292414005459 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 292414005460 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 292414005461 non-specific DNA binding site [nucleotide binding]; other site 292414005462 salt bridge; other site 292414005463 sequence-specific DNA binding site [nucleotide binding]; other site 292414005464 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 292414005465 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 292414005466 putative valine binding site [chemical binding]; other site 292414005467 dimer interface [polypeptide binding]; other site 292414005468 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 292414005469 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 292414005470 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 292414005471 PYR/PP interface [polypeptide binding]; other site 292414005472 dimer interface [polypeptide binding]; other site 292414005473 TPP binding site [chemical binding]; other site 292414005474 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 292414005475 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 292414005476 TPP-binding site [chemical binding]; other site 292414005477 dimer interface [polypeptide binding]; other site 292414005478 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 292414005479 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 292414005480 active site 292414005481 phosphorylation site [posttranslational modification] 292414005482 intermolecular recognition site; other site 292414005483 dimerization interface [polypeptide binding]; other site 292414005484 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 292414005485 DNA binding residues [nucleotide binding] 292414005486 dimerization interface [polypeptide binding]; other site 292414005487 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 292414005488 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 292414005489 Histidine kinase; Region: HisKA_3; pfam07730 292414005490 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 292414005491 ATP binding site [chemical binding]; other site 292414005492 Mg2+ binding site [ion binding]; other site 292414005493 G-X-G motif; other site 292414005494 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 292414005495 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 292414005496 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 292414005497 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 292414005498 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 292414005499 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 292414005500 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 292414005501 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 292414005502 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 292414005503 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 292414005504 RDD family; Region: RDD; pfam06271 292414005505 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 292414005506 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 292414005507 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 292414005508 metal binding triad; other site 292414005509 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 292414005510 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 292414005511 metal binding triad; other site 292414005512 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 292414005513 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 292414005514 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 292414005515 putative RNA binding site [nucleotide binding]; other site 292414005516 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 292414005517 PIN domain; Region: PIN_3; pfam13470 292414005518 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 292414005519 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 292414005520 Peptidase family M48; Region: Peptidase_M48; cl12018 292414005521 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 292414005522 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 292414005523 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 292414005524 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 292414005525 Walker A motif; other site 292414005526 ATP binding site [chemical binding]; other site 292414005527 Walker B motif; other site 292414005528 arginine finger; other site 292414005529 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 292414005530 hypothetical protein; Provisional; Region: PRK06847 292414005531 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 292414005532 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 292414005533 putative catalytic site [active] 292414005534 putative phosphate binding site [ion binding]; other site 292414005535 active site 292414005536 metal binding site A [ion binding]; metal-binding site 292414005537 DNA binding site [nucleotide binding] 292414005538 putative AP binding site [nucleotide binding]; other site 292414005539 putative metal binding site B [ion binding]; other site 292414005540 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414005541 EamA-like transporter family; Region: EamA; pfam00892 292414005542 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 292414005543 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 292414005544 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 292414005545 Zn2+ binding site [ion binding]; other site 292414005546 Mg2+ binding site [ion binding]; other site 292414005547 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 292414005548 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 292414005549 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 292414005550 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 292414005551 active site 292414005552 HIGH motif; other site 292414005553 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 292414005554 KMSK motif region; other site 292414005555 tRNA binding surface [nucleotide binding]; other site 292414005556 DALR anticodon binding domain; Region: DALR_1; smart00836 292414005557 anticodon binding site; other site 292414005558 Sporulation related domain; Region: SPOR; pfam05036 292414005559 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 292414005560 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 292414005561 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 292414005562 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 292414005563 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 292414005564 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 292414005565 putative substrate translocation pore; other site 292414005566 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414005567 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 292414005568 putative DNA binding site [nucleotide binding]; other site 292414005569 putative Zn2+ binding site [ion binding]; other site 292414005570 AsnC family; Region: AsnC_trans_reg; pfam01037 292414005571 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 292414005572 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 292414005573 trimer interface [polypeptide binding]; other site 292414005574 active site 292414005575 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 292414005576 trimer interface [polypeptide binding]; other site 292414005577 active site 292414005578 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 292414005579 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 292414005580 DNA binding residues [nucleotide binding] 292414005581 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 292414005582 IHF dimer interface [polypeptide binding]; other site 292414005583 IHF - DNA interface [nucleotide binding]; other site 292414005584 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 292414005585 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 292414005586 dimer interface [polypeptide binding]; other site 292414005587 active site 292414005588 CoA binding pocket [chemical binding]; other site 292414005589 putative phosphate acyltransferase; Provisional; Region: PRK05331 292414005590 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 292414005591 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 292414005592 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 292414005593 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 292414005594 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 292414005595 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 292414005596 ABC transporter ATPase component; Reviewed; Region: PRK11147 292414005597 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 292414005598 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 292414005599 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 292414005600 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 292414005601 NAD binding site [chemical binding]; other site 292414005602 homodimer interface [polypeptide binding]; other site 292414005603 homotetramer interface [polypeptide binding]; other site 292414005604 active site 292414005605 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 292414005606 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 292414005607 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 292414005608 active site 292414005609 HIGH motif; other site 292414005610 dimer interface [polypeptide binding]; other site 292414005611 KMSKS motif; other site 292414005612 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 292414005613 RNA binding surface [nucleotide binding]; other site 292414005614 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 292414005615 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 292414005616 hypothetical protein; Validated; Region: PRK00029 292414005617 Uncharacterized conserved protein [Function unknown]; Region: COG0397 292414005618 helicase 45; Provisional; Region: PTZ00424 292414005619 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 292414005620 ATP binding site [chemical binding]; other site 292414005621 Mg++ binding site [ion binding]; other site 292414005622 motif III; other site 292414005623 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 292414005624 nucleotide binding region [chemical binding]; other site 292414005625 ATP-binding site [chemical binding]; other site 292414005626 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 292414005627 metal binding site 2 [ion binding]; metal-binding site 292414005628 putative DNA binding helix; other site 292414005629 metal binding site 1 [ion binding]; metal-binding site 292414005630 dimer interface [polypeptide binding]; other site 292414005631 structural Zn2+ binding site [ion binding]; other site 292414005632 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414005633 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 292414005634 Major Facilitator Superfamily; Region: MFS_1; pfam07690 292414005635 putative substrate translocation pore; other site 292414005636 enolase; Provisional; Region: eno; PRK00077 292414005637 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 292414005638 dimer interface [polypeptide binding]; other site 292414005639 metal binding site [ion binding]; metal-binding site 292414005640 substrate binding pocket [chemical binding]; other site 292414005641 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 292414005642 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414005643 Coenzyme A binding pocket [chemical binding]; other site 292414005644 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414005645 Coenzyme A binding pocket [chemical binding]; other site 292414005646 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 292414005647 active site 292414005648 tetramer interface [polypeptide binding]; other site 292414005649 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 292414005650 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 292414005651 homodimer interface [polypeptide binding]; other site 292414005652 metal binding site [ion binding]; metal-binding site 292414005653 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 292414005654 homodimer interface [polypeptide binding]; other site 292414005655 active site 292414005656 putative chemical substrate binding site [chemical binding]; other site 292414005657 metal binding site [ion binding]; metal-binding site 292414005658 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 292414005659 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 292414005660 metal binding site [ion binding]; metal-binding site 292414005661 putative dimer interface [polypeptide binding]; other site 292414005662 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 292414005663 agmatinase; Region: agmatinase; TIGR01230 292414005664 oligomer interface [polypeptide binding]; other site 292414005665 putative active site [active] 292414005666 Mn binding site [ion binding]; other site 292414005667 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 292414005668 agmatinase; Region: agmatinase; TIGR01230 292414005669 oligomer interface [polypeptide binding]; other site 292414005670 putative active site [active] 292414005671 Mn binding site [ion binding]; other site 292414005672 This domain is found in peptide chain release factors; Region: PCRF; smart00937 292414005673 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 292414005674 RF-1 domain; Region: RF-1; pfam00472 292414005675 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 292414005676 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 292414005677 S-adenosylmethionine binding site [chemical binding]; other site 292414005678 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 292414005679 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 292414005680 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 292414005681 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 292414005682 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 292414005683 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 292414005684 SurA N-terminal domain; Region: SurA_N; pfam09312 292414005685 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 292414005686 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 292414005687 Organic solvent tolerance protein; Region: OstA_C; pfam04453 292414005688 Predicted permeases [General function prediction only]; Region: COG0795 292414005689 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 292414005690 Predicted permeases [General function prediction only]; Region: COG0795 292414005691 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 292414005692 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 292414005693 multifunctional aminopeptidase A; Provisional; Region: PRK00913 292414005694 interface (dimer of trimers) [polypeptide binding]; other site 292414005695 Substrate-binding/catalytic site; other site 292414005696 Zn-binding sites [ion binding]; other site 292414005697 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 292414005698 Predicted aspartyl protease [General function prediction only]; Region: COG3577 292414005699 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 292414005700 catalytic motif [active] 292414005701 Catalytic residue [active] 292414005702 MarC family integral membrane protein; Region: MarC; pfam01914 292414005703 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 292414005704 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 292414005705 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 292414005706 ABC transporter; Region: ABC_tran_2; pfam12848 292414005707 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 292414005708 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 292414005709 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 292414005710 Major Facilitator Superfamily; Region: MFS_1; pfam07690 292414005711 putative substrate translocation pore; other site 292414005712 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 292414005713 active site 292414005714 multimer interface [polypeptide binding]; other site 292414005715 TfoX C-terminal domain; Region: TfoX_C; pfam04994 292414005716 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 292414005717 active site 292414005718 Cupin domain; Region: Cupin_2; cl17218 292414005719 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 292414005720 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 292414005721 active site 292414005722 phosphorylation site [posttranslational modification] 292414005723 intermolecular recognition site; other site 292414005724 dimerization interface [polypeptide binding]; other site 292414005725 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 292414005726 DNA binding residues [nucleotide binding] 292414005727 dimerization interface [polypeptide binding]; other site 292414005728 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 292414005729 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 292414005730 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 292414005731 putative active site [active] 292414005732 heme pocket [chemical binding]; other site 292414005733 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 292414005734 dimer interface [polypeptide binding]; other site 292414005735 phosphorylation site [posttranslational modification] 292414005736 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 292414005737 ATP binding site [chemical binding]; other site 292414005738 Mg2+ binding site [ion binding]; other site 292414005739 G-X-G motif; other site 292414005740 Response regulator receiver domain; Region: Response_reg; pfam00072 292414005741 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 292414005742 active site 292414005743 phosphorylation site [posttranslational modification] 292414005744 intermolecular recognition site; other site 292414005745 dimerization interface [polypeptide binding]; other site 292414005746 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 292414005747 putative binding surface; other site 292414005748 active site 292414005749 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 292414005750 heme-binding site [chemical binding]; other site 292414005751 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 292414005752 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 292414005753 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 292414005754 FMN binding site [chemical binding]; other site 292414005755 active site 292414005756 catalytic residues [active] 292414005757 substrate binding site [chemical binding]; other site 292414005758 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 292414005759 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 292414005760 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 292414005761 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 292414005762 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 292414005763 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 292414005764 hydroxyglutarate oxidase; Provisional; Region: PRK11728 292414005765 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 292414005766 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 292414005767 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 292414005768 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 292414005769 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 292414005770 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 292414005771 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 292414005772 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 292414005773 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414005774 Coenzyme A binding pocket [chemical binding]; other site 292414005775 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 292414005776 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 292414005777 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 292414005778 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 292414005779 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 292414005780 Walker A/P-loop; other site 292414005781 ATP binding site [chemical binding]; other site 292414005782 Q-loop/lid; other site 292414005783 ABC transporter signature motif; other site 292414005784 Walker B; other site 292414005785 D-loop; other site 292414005786 H-loop/switch region; other site 292414005787 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 292414005788 Ca2+ binding site [ion binding]; other site 292414005789 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414005790 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414005791 short chain dehydrogenase; Validated; Region: PRK06182 292414005792 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 292414005793 NADP binding site [chemical binding]; other site 292414005794 active site 292414005795 steroid binding site; other site 292414005796 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 292414005797 dimerization interface [polypeptide binding]; other site 292414005798 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414005799 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414005800 dimer interface [polypeptide binding]; other site 292414005801 putative CheW interface [polypeptide binding]; other site 292414005802 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 292414005803 Protein export membrane protein; Region: SecD_SecF; cl14618 292414005804 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 292414005805 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 292414005806 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 292414005807 HlyD family secretion protein; Region: HlyD_3; pfam13437 292414005808 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 292414005809 Trp docking motif [polypeptide binding]; other site 292414005810 active site 292414005811 PQQ-like domain; Region: PQQ_2; pfam13360 292414005812 PQQ-like domain; Region: PQQ_2; pfam13360 292414005813 GTP-binding protein Der; Reviewed; Region: PRK00093 292414005814 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 292414005815 G1 box; other site 292414005816 GTP/Mg2+ binding site [chemical binding]; other site 292414005817 Switch I region; other site 292414005818 G2 box; other site 292414005819 Switch II region; other site 292414005820 G3 box; other site 292414005821 G4 box; other site 292414005822 G5 box; other site 292414005823 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 292414005824 G1 box; other site 292414005825 GTP/Mg2+ binding site [chemical binding]; other site 292414005826 Switch I region; other site 292414005827 G2 box; other site 292414005828 G3 box; other site 292414005829 Switch II region; other site 292414005830 G4 box; other site 292414005831 G5 box; other site 292414005832 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 292414005833 Fatty acid desaturase; Region: FA_desaturase; pfam00487 292414005834 putative di-iron ligands [ion binding]; other site 292414005835 Pathogenicity locus; Region: Cdd1; pfam11731 292414005836 seryl-tRNA synthetase; Provisional; Region: PRK05431 292414005837 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 292414005838 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 292414005839 dimer interface [polypeptide binding]; other site 292414005840 active site 292414005841 motif 1; other site 292414005842 motif 2; other site 292414005843 motif 3; other site 292414005844 Preprotein translocase subunit; Region: YajC; pfam02699 292414005845 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 292414005846 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 292414005847 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 292414005848 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 292414005849 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 292414005850 Protein export membrane protein; Region: SecD_SecF; pfam02355 292414005851 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 292414005852 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 292414005853 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414005854 Walker A/P-loop; other site 292414005855 ATP binding site [chemical binding]; other site 292414005856 Q-loop/lid; other site 292414005857 ABC transporter signature motif; other site 292414005858 Walker B; other site 292414005859 D-loop; other site 292414005860 H-loop/switch region; other site 292414005861 heme exporter protein CcmB; Region: ccmB; TIGR01190 292414005862 heme exporter protein CcmC; Region: ccmC; TIGR01191 292414005863 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 292414005864 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 292414005865 catalytic residues [active] 292414005866 central insert; other site 292414005867 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 292414005868 classical (c) SDRs; Region: SDR_c; cd05233 292414005869 NAD(P) binding site [chemical binding]; other site 292414005870 active site 292414005871 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 292414005872 aconitate hydratase; Validated; Region: PRK09277 292414005873 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 292414005874 substrate binding site [chemical binding]; other site 292414005875 ligand binding site [chemical binding]; other site 292414005876 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 292414005877 substrate binding site [chemical binding]; other site 292414005878 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 292414005879 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 292414005880 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 292414005881 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 292414005882 putative acyl-acceptor binding pocket; other site 292414005883 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 292414005884 FliG C-terminal domain; Region: FliG_C; pfam01706 292414005885 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 292414005886 binding surface 292414005887 TPR motif; other site 292414005888 adenylosuccinate lyase; Provisional; Region: PRK07492 292414005889 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 292414005890 tetramer interface [polypeptide binding]; other site 292414005891 active site 292414005892 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 292414005893 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 292414005894 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 292414005895 nudix motif; other site 292414005896 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 292414005897 putative catalytic site [active] 292414005898 putative metal binding site [ion binding]; other site 292414005899 putative phosphate binding site [ion binding]; other site 292414005900 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 292414005901 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 292414005902 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 292414005903 active site 292414005904 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 292414005905 Transglycosylase SLT domain; Region: SLT_2; pfam13406 292414005906 murein hydrolase B; Provisional; Region: PRK10760; cl17906 292414005907 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 292414005908 putative chaperone; Provisional; Region: PRK11678 292414005909 nucleotide binding site [chemical binding]; other site 292414005910 putative NEF/HSP70 interaction site [polypeptide binding]; other site 292414005911 SBD interface [polypeptide binding]; other site 292414005912 glutamine synthetase; Provisional; Region: glnA; PRK09469 292414005913 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 292414005914 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 292414005915 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 292414005916 Nitrogen regulatory protein P-II; Region: P-II; smart00938 292414005917 Uncharacterized conserved protein [Function unknown]; Region: COG0062 292414005918 putative carbohydrate kinase; Provisional; Region: PRK10565 292414005919 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 292414005920 putative substrate binding site [chemical binding]; other site 292414005921 putative ATP binding site [chemical binding]; other site 292414005922 Hint domain; Region: Hint_2; pfam13403 292414005923 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 292414005924 Aconitate hydratase 2 N-terminus; Region: Aconitase_2_N; pfam06434 292414005925 substrate binding site [chemical binding]; other site 292414005926 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 292414005927 substrate binding site [chemical binding]; other site 292414005928 ligand binding site [chemical binding]; other site 292414005929 HAMP domain; Region: HAMP; pfam00672 292414005930 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414005931 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414005932 dimer interface [polypeptide binding]; other site 292414005933 putative CheW interface [polypeptide binding]; other site 292414005934 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 292414005935 CheB methylesterase; Region: CheB_methylest; pfam01339 292414005936 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 292414005937 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 292414005938 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 292414005939 PAS domain; Region: PAS_10; pfam13596 292414005940 PAS fold; Region: PAS_3; pfam08447 292414005941 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 292414005942 putative active site [active] 292414005943 heme pocket [chemical binding]; other site 292414005944 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 292414005945 dimer interface [polypeptide binding]; other site 292414005946 phosphorylation site [posttranslational modification] 292414005947 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 292414005948 ATP binding site [chemical binding]; other site 292414005949 Mg2+ binding site [ion binding]; other site 292414005950 G-X-G motif; other site 292414005951 Response regulator receiver domain; Region: Response_reg; pfam00072 292414005952 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 292414005953 active site 292414005954 phosphorylation site [posttranslational modification] 292414005955 intermolecular recognition site; other site 292414005956 dimerization interface [polypeptide binding]; other site 292414005957 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 292414005958 substrate binding pocket [chemical binding]; other site 292414005959 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414005960 membrane-bound complex binding site; other site 292414005961 hinge residues; other site 292414005962 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414005963 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 292414005964 substrate binding pocket [chemical binding]; other site 292414005965 membrane-bound complex binding site; other site 292414005966 hinge residues; other site 292414005967 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 292414005968 dimer interface [polypeptide binding]; other site 292414005969 phosphorylation site [posttranslational modification] 292414005970 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 292414005971 ATP binding site [chemical binding]; other site 292414005972 Mg2+ binding site [ion binding]; other site 292414005973 G-X-G motif; other site 292414005974 Response regulator receiver domain; Region: Response_reg; pfam00072 292414005975 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 292414005976 active site 292414005977 phosphorylation site [posttranslational modification] 292414005978 intermolecular recognition site; other site 292414005979 dimerization interface [polypeptide binding]; other site 292414005980 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 292414005981 trigger factor; Provisional; Region: tig; PRK01490 292414005982 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 292414005983 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 292414005984 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 292414005985 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 292414005986 metal binding site [ion binding]; metal-binding site 292414005987 active site 292414005988 I-site; other site 292414005989 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 292414005990 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 292414005991 active site 292414005992 metal binding site [ion binding]; metal-binding site 292414005993 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 292414005994 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 292414005995 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 292414005996 N-acetyl-D-glucosamine binding site [chemical binding]; other site 292414005997 catalytic residue [active] 292414005998 flagellin; Reviewed; Region: PRK12687 292414005999 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 292414006000 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 292414006001 flagellin; Reviewed; Region: PRK12687 292414006002 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 292414006003 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 292414006004 flagellin; Reviewed; Region: PRK12687 292414006005 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 292414006006 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 292414006007 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 292414006008 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 292414006009 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 292414006010 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 292414006011 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 292414006012 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 292414006013 Uncharacterized conserved protein [Function unknown]; Region: COG2353 292414006014 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 292414006015 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414006016 substrate binding pocket [chemical binding]; other site 292414006017 membrane-bound complex binding site; other site 292414006018 hinge residues; other site 292414006019 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 292414006020 YceI-like domain; Region: YceI; pfam04264 292414006021 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 292414006022 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 292414006023 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 292414006024 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 292414006025 NAD(P) binding site [chemical binding]; other site 292414006026 homotetramer interface [polypeptide binding]; other site 292414006027 homodimer interface [polypeptide binding]; other site 292414006028 active site 292414006029 acyl carrier protein; Provisional; Region: acpP; PRK00982 292414006030 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 292414006031 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 292414006032 catalytic residues [active] 292414006033 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 292414006034 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 292414006035 dimer interface [polypeptide binding]; other site 292414006036 active site 292414006037 YceG-like family; Region: YceG; pfam02618 292414006038 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 292414006039 dimerization interface [polypeptide binding]; other site 292414006040 Uncharacterized conserved protein [Function unknown]; Region: COG5323 292414006041 Terminase-like family; Region: Terminase_6; pfam03237 292414006042 Phage-related protein [Function unknown]; Region: COG4695 292414006043 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 292414006044 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 292414006045 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 292414006046 Phage capsid family; Region: Phage_capsid; pfam05065 292414006047 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 292414006048 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 292414006049 oligomerization interface [polypeptide binding]; other site 292414006050 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 292414006051 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 292414006052 Phage major tail protein 2; Region: Phage_tail_2; cl11463 292414006053 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 292414006054 phage conserved hypothetical protein; Region: phage_TIGR02216 292414006055 Phage-related minor tail protein [Function unknown]; Region: COG5281 292414006056 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 292414006057 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 292414006058 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 292414006059 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 292414006060 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 292414006061 NlpC/P60 family; Region: NLPC_P60; cl17555 292414006062 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 292414006063 Putative phage tail protein; Region: Phage-tail_3; pfam13550 292414006064 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 292414006065 DNA-binding site [nucleotide binding]; DNA binding site 292414006066 RNA-binding motif; other site 292414006067 serine acetyltransferase; Provisional; Region: cysE; PRK11132 292414006068 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 292414006069 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 292414006070 trimer interface [polypeptide binding]; other site 292414006071 active site 292414006072 substrate binding site [chemical binding]; other site 292414006073 CoA binding site [chemical binding]; other site 292414006074 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 292414006075 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 292414006076 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 292414006077 E3 interaction surface; other site 292414006078 lipoyl attachment site [posttranslational modification]; other site 292414006079 e3 binding domain; Region: E3_binding; pfam02817 292414006080 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 292414006081 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 292414006082 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 292414006083 E3 interaction surface; other site 292414006084 lipoyl attachment site [posttranslational modification]; other site 292414006085 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 292414006086 alpha subunit interface [polypeptide binding]; other site 292414006087 TPP binding site [chemical binding]; other site 292414006088 heterodimer interface [polypeptide binding]; other site 292414006089 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 292414006090 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 292414006091 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 292414006092 tetramer interface [polypeptide binding]; other site 292414006093 TPP-binding site [chemical binding]; other site 292414006094 heterodimer interface [polypeptide binding]; other site 292414006095 phosphorylation loop region [posttranslational modification] 292414006096 Septum formation initiator; Region: DivIC; cl17659 292414006097 Low molecular weight phosphatase family; Region: LMWPc; cl00105 292414006098 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414006099 dimer interface [polypeptide binding]; other site 292414006100 putative CheW interface [polypeptide binding]; other site 292414006101 Phosphoglycerate kinase; Region: PGK; pfam00162 292414006102 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 292414006103 substrate binding site [chemical binding]; other site 292414006104 hinge regions; other site 292414006105 ADP binding site [chemical binding]; other site 292414006106 catalytic site [active] 292414006107 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 292414006108 active site 292414006109 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 292414006110 active site 292414006111 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 292414006112 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 292414006113 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 292414006114 Peptidase family M23; Region: Peptidase_M23; pfam01551 292414006115 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 292414006116 dinuclear metal binding motif [ion binding]; other site 292414006117 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 292414006118 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 292414006119 catalytic triad [active] 292414006120 Protein of unknown function; Region: DUF3971; pfam13116 292414006121 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 292414006122 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 292414006123 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 292414006124 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 292414006125 Major Facilitator Superfamily; Region: MFS_1; pfam07690 292414006126 putative substrate translocation pore; other site 292414006127 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 292414006128 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 292414006129 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 292414006130 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 292414006131 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 292414006132 Major Facilitator Superfamily; Region: MFS_1; pfam07690 292414006133 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 292414006134 putative substrate translocation pore; other site 292414006135 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 292414006136 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 292414006137 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 292414006138 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 292414006139 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 292414006140 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 292414006141 non-specific DNA binding site [nucleotide binding]; other site 292414006142 salt bridge; other site 292414006143 sequence-specific DNA binding site [nucleotide binding]; other site 292414006144 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 292414006145 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 292414006146 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 292414006147 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 292414006148 substrate binding site [chemical binding]; other site 292414006149 oxyanion hole (OAH) forming residues; other site 292414006150 trimer interface [polypeptide binding]; other site 292414006151 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 292414006152 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 292414006153 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 292414006154 active site 292414006155 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 292414006156 binding surface 292414006157 TPR repeat; Region: TPR_11; pfam13414 292414006158 TPR motif; other site 292414006159 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 292414006160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 292414006161 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 292414006162 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 292414006163 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 292414006164 tetrameric interface [polypeptide binding]; other site 292414006165 NAD binding site [chemical binding]; other site 292414006166 catalytic residues [active] 292414006167 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414006168 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414006169 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 292414006170 dimerization interface [polypeptide binding]; other site 292414006171 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 292414006172 FOG: CBS domain [General function prediction only]; Region: COG0517 292414006173 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 292414006174 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 292414006175 active site 292414006176 (T/H)XGH motif; other site 292414006177 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 292414006178 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 292414006179 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 292414006180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 292414006181 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 292414006182 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 292414006183 TPP-binding site [chemical binding]; other site 292414006184 dimer interface [polypeptide binding]; other site 292414006185 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 292414006186 PYR/PP interface [polypeptide binding]; other site 292414006187 dimer interface [polypeptide binding]; other site 292414006188 TPP binding site [chemical binding]; other site 292414006189 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 292414006190 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 292414006191 Cell division protein ZapA; Region: ZapA; pfam05164 292414006192 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 292414006193 putative GSH binding site [chemical binding]; other site 292414006194 catalytic residues [active] 292414006195 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 292414006196 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 292414006197 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 292414006198 dimerization interface [polypeptide binding]; other site 292414006199 ATP binding site [chemical binding]; other site 292414006200 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 292414006201 dimerization interface [polypeptide binding]; other site 292414006202 ATP binding site [chemical binding]; other site 292414006203 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414006204 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414006205 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 292414006206 putative effector binding pocket; other site 292414006207 dimerization interface [polypeptide binding]; other site 292414006208 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 292414006209 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 292414006210 dimer interface [polypeptide binding]; other site 292414006211 PYR/PP interface [polypeptide binding]; other site 292414006212 TPP binding site [chemical binding]; other site 292414006213 substrate binding site [chemical binding]; other site 292414006214 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 292414006215 TPP-binding site [chemical binding]; other site 292414006216 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 292414006217 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 292414006218 putative acyl-acceptor binding pocket; other site 292414006219 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 292414006220 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 292414006221 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 292414006222 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 292414006223 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 292414006224 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 292414006225 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 292414006226 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 292414006227 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 292414006228 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 292414006229 enoyl-CoA hydratase; Provisional; Region: PRK08140 292414006230 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 292414006231 substrate binding site [chemical binding]; other site 292414006232 oxyanion hole (OAH) forming residues; other site 292414006233 trimer interface [polypeptide binding]; other site 292414006234 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 292414006235 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 292414006236 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 292414006237 dimer interface [polypeptide binding]; other site 292414006238 active site 292414006239 citrylCoA binding site [chemical binding]; other site 292414006240 NADH binding [chemical binding]; other site 292414006241 cationic pore residues; other site 292414006242 oxalacetate/citrate binding site [chemical binding]; other site 292414006243 coenzyme A binding site [chemical binding]; other site 292414006244 catalytic triad [active] 292414006245 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 292414006246 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 292414006247 active site 292414006248 HIGH motif; other site 292414006249 nucleotide binding site [chemical binding]; other site 292414006250 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 292414006251 active site 292414006252 KMSKS motif; other site 292414006253 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 292414006254 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 292414006255 Competence protein; Region: Competence; pfam03772 292414006256 LexA repressor; Validated; Region: PRK00215 292414006257 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 292414006258 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 292414006259 Catalytic site [active] 292414006260 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 292414006261 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 292414006262 dimer interface [polypeptide binding]; other site 292414006263 putative functional site; other site 292414006264 putative MPT binding site; other site 292414006265 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 292414006266 trimer interface [polypeptide binding]; other site 292414006267 dimer interface [polypeptide binding]; other site 292414006268 putative active site [active] 292414006269 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 292414006270 active site 292414006271 ribulose/triose binding site [chemical binding]; other site 292414006272 phosphate binding site [ion binding]; other site 292414006273 substrate (anthranilate) binding pocket [chemical binding]; other site 292414006274 product (indole) binding pocket [chemical binding]; other site 292414006275 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 292414006276 ligand binding site [chemical binding]; other site 292414006277 active site 292414006278 UGI interface [polypeptide binding]; other site 292414006279 catalytic site [active] 292414006280 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 292414006281 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 292414006282 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 292414006283 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 292414006284 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 292414006285 glutamine binding [chemical binding]; other site 292414006286 catalytic triad [active] 292414006287 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 292414006288 putative active site [active] 292414006289 NodB motif; other site 292414006290 anthranilate synthase component I; Provisional; Region: PRK13573 292414006291 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 292414006292 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 292414006293 SurA N-terminal domain; Region: SurA_N_3; cl07813 292414006294 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 292414006295 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 292414006296 hypothetical protein; Provisional; Region: PRK07550 292414006297 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 292414006298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414006299 homodimer interface [polypeptide binding]; other site 292414006300 catalytic residue [active] 292414006301 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 292414006302 active site 292414006303 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 292414006304 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 292414006305 NAD binding site [chemical binding]; other site 292414006306 homotetramer interface [polypeptide binding]; other site 292414006307 homodimer interface [polypeptide binding]; other site 292414006308 substrate binding site [chemical binding]; other site 292414006309 active site 292414006310 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 292414006311 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 292414006312 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 292414006313 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 292414006314 DNA-binding site [nucleotide binding]; DNA binding site 292414006315 RNA-binding motif; other site 292414006316 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 292414006317 DNA-binding site [nucleotide binding]; DNA binding site 292414006318 RNA-binding motif; other site 292414006319 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 292414006320 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 292414006321 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 292414006322 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 292414006323 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 292414006324 active site 292414006325 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 292414006326 TSCPD domain; Region: TSCPD; pfam12637 292414006327 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 292414006328 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 292414006329 active site 292414006330 HIGH motif; other site 292414006331 nucleotide binding site [chemical binding]; other site 292414006332 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 292414006333 KMSKS motif; other site 292414006334 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 292414006335 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 292414006336 active site 292414006337 catalytic residues [active] 292414006338 metal binding site [ion binding]; metal-binding site 292414006339 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 292414006340 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 292414006341 Major Facilitator Superfamily; Region: MFS_1; pfam07690 292414006342 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 292414006343 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 292414006344 helix-hairpin-helix signature motif; other site 292414006345 substrate binding pocket [chemical binding]; other site 292414006346 active site 292414006347 Predicted esterase [General function prediction only]; Region: COG0400 292414006348 putative hydrolase; Provisional; Region: PRK11460 292414006349 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414006350 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 292414006351 putative DNA binding site [nucleotide binding]; other site 292414006352 putative Zn2+ binding site [ion binding]; other site 292414006353 AsnC family; Region: AsnC_trans_reg; pfam01037 292414006354 Cupin domain; Region: Cupin_2; cl17218 292414006355 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 292414006356 pseudouridine synthase; Region: TIGR00093 292414006357 probable active site [active] 292414006358 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 292414006359 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 292414006360 active site 292414006361 ornithine cyclodeaminase; Validated; Region: PRK07589 292414006362 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 292414006363 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 292414006364 Amidinotransferase; Region: Amidinotransf; pfam02274 292414006365 agmatinase; Region: agmatinase; TIGR01230 292414006366 Arginase family; Region: Arginase; cd09989 292414006367 active site 292414006368 Mn binding site [ion binding]; other site 292414006369 oligomer interface [polypeptide binding]; other site 292414006370 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414006371 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 292414006372 AsnC family; Region: AsnC_trans_reg; pfam01037 292414006373 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 292414006374 Predicted membrane protein [Function unknown]; Region: COG1238 292414006375 GAF domain; Region: GAF_3; pfam13492 292414006376 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 292414006377 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 292414006378 metal binding site [ion binding]; metal-binding site 292414006379 active site 292414006380 I-site; other site 292414006381 acyl-CoA synthetase; Validated; Region: PRK08162 292414006382 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 292414006383 acyl-activating enzyme (AAE) consensus motif; other site 292414006384 putative active site [active] 292414006385 AMP binding site [chemical binding]; other site 292414006386 putative CoA binding site [chemical binding]; other site 292414006387 enoyl-CoA hydratase; Validated; Region: PRK08139 292414006388 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 292414006389 substrate binding site [chemical binding]; other site 292414006390 oxyanion hole (OAH) forming residues; other site 292414006391 trimer interface [polypeptide binding]; other site 292414006392 OsmC-like protein; Region: OsmC; pfam02566 292414006393 putative dimethyl sulfoniopropionate demethylase; Reviewed; Region: dmdA; PRK12486 292414006394 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 292414006395 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414006396 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 292414006397 putative DNA binding site [nucleotide binding]; other site 292414006398 putative Zn2+ binding site [ion binding]; other site 292414006399 AsnC family; Region: AsnC_trans_reg; pfam01037 292414006400 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 292414006401 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 292414006402 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 292414006403 FtsX-like permease family; Region: FtsX; pfam02687 292414006404 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 292414006405 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 292414006406 Walker A/P-loop; other site 292414006407 ATP binding site [chemical binding]; other site 292414006408 Q-loop/lid; other site 292414006409 ABC transporter signature motif; other site 292414006410 Walker B; other site 292414006411 D-loop; other site 292414006412 H-loop/switch region; other site 292414006413 Ion channel; Region: Ion_trans_2; pfam07885 292414006414 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 292414006415 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 292414006416 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 292414006417 S-adenosylmethionine binding site [chemical binding]; other site 292414006418 exopolyphosphatase; Region: exo_poly_only; TIGR03706 292414006419 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 292414006420 Virulence factor; Region: Virulence_fact; pfam13769 292414006421 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; cl00246 292414006422 FAD binding site [chemical binding]; other site 292414006423 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 292414006424 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 292414006425 substrate binding pocket [chemical binding]; other site 292414006426 dimer interface [polypeptide binding]; other site 292414006427 inhibitor binding site; inhibition site 292414006428 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 292414006429 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 292414006430 ligand binding site [chemical binding]; other site 292414006431 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 292414006432 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 292414006433 Walker A/P-loop; other site 292414006434 ATP binding site [chemical binding]; other site 292414006435 Q-loop/lid; other site 292414006436 ABC transporter signature motif; other site 292414006437 Walker B; other site 292414006438 D-loop; other site 292414006439 H-loop/switch region; other site 292414006440 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 292414006441 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 292414006442 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 292414006443 TM-ABC transporter signature motif; other site 292414006444 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 292414006445 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 292414006446 DNA binding residues [nucleotide binding] 292414006447 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 292414006448 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 292414006449 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 292414006450 active site 292414006451 catalytic tetrad [active] 292414006452 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 292414006453 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 292414006454 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 292414006455 putative active site; other site 292414006456 catalytic residue [active] 292414006457 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 292414006458 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 292414006459 putative N- and C-terminal domain interface [polypeptide binding]; other site 292414006460 putative active site [active] 292414006461 MgATP binding site [chemical binding]; other site 292414006462 catalytic site [active] 292414006463 metal binding site [ion binding]; metal-binding site 292414006464 putative xylulose binding site [chemical binding]; other site 292414006465 Uncharacterized conserved protein [Function unknown]; Region: COG1359 292414006466 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 292414006467 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 292414006468 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414006469 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 292414006470 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 292414006471 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 292414006472 Uncharacterized conserved protein [Function unknown]; Region: COG3743 292414006473 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 292414006474 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 292414006475 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 292414006476 GTPase CgtA; Reviewed; Region: obgE; PRK12299 292414006477 GTP1/OBG; Region: GTP1_OBG; pfam01018 292414006478 Obg GTPase; Region: Obg; cd01898 292414006479 G1 box; other site 292414006480 GTP/Mg2+ binding site [chemical binding]; other site 292414006481 Switch I region; other site 292414006482 G2 box; other site 292414006483 G3 box; other site 292414006484 Switch II region; other site 292414006485 G4 box; other site 292414006486 G5 box; other site 292414006487 gamma-glutamyl kinase; Provisional; Region: PRK05429 292414006488 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 292414006489 nucleotide binding site [chemical binding]; other site 292414006490 homotetrameric interface [polypeptide binding]; other site 292414006491 putative phosphate binding site [ion binding]; other site 292414006492 putative allosteric binding site; other site 292414006493 PUA domain; Region: PUA; pfam01472 292414006494 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 292414006495 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 292414006496 putative catalytic cysteine [active] 292414006497 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 292414006498 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 292414006499 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 292414006500 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 292414006501 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 292414006502 putative acyl-acceptor binding pocket; other site 292414006503 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 292414006504 rRNA interaction site [nucleotide binding]; other site 292414006505 S8 interaction site; other site 292414006506 putative laminin-1 binding site; other site 292414006507 elongation factor Ts; Provisional; Region: tsf; PRK09377 292414006508 UBA/TS-N domain; Region: UBA; pfam00627 292414006509 Elongation factor TS; Region: EF_TS; pfam00889 292414006510 Elongation factor TS; Region: EF_TS; pfam00889 292414006511 Autoinducer binding domain; Region: Autoind_bind; pfam03472 292414006512 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 292414006513 DNA binding residues [nucleotide binding] 292414006514 dimerization interface [polypeptide binding]; other site 292414006515 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 292414006516 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 292414006517 substrate binding site [chemical binding]; other site 292414006518 oxyanion hole (OAH) forming residues; other site 292414006519 trimer interface [polypeptide binding]; other site 292414006520 Response regulator receiver domain; Region: Response_reg; pfam00072 292414006521 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 292414006522 active site 292414006523 phosphorylation site [posttranslational modification] 292414006524 intermolecular recognition site; other site 292414006525 dimerization interface [polypeptide binding]; other site 292414006526 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 292414006527 dimerization interface [polypeptide binding]; other site 292414006528 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 292414006529 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 292414006530 putative active site [active] 292414006531 heme pocket [chemical binding]; other site 292414006532 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 292414006533 ATP binding site [chemical binding]; other site 292414006534 Mg2+ binding site [ion binding]; other site 292414006535 G-X-G motif; other site 292414006536 Peptidase M15; Region: Peptidase_M15_3; cl01194 292414006537 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 292414006538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 292414006539 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 292414006540 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 292414006541 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 292414006542 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 292414006543 trimer interface [polypeptide binding]; other site 292414006544 active site 292414006545 UDP-GlcNAc binding site [chemical binding]; other site 292414006546 lipid binding site [chemical binding]; lipid-binding site 292414006547 acyl carrier protein; Provisional; Region: acpP; PRK00982 292414006548 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 292414006549 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 292414006550 dimer interface [polypeptide binding]; other site 292414006551 active site 292414006552 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 292414006553 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 292414006554 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 292414006555 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 292414006556 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 292414006557 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 292414006558 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 292414006559 active site 292414006560 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 292414006561 CoA-transferase family III; Region: CoA_transf_3; pfam02515 292414006562 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 292414006563 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 292414006564 catalytic loop [active] 292414006565 iron binding site [ion binding]; other site 292414006566 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 292414006567 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 292414006568 S-adenosylmethionine binding site [chemical binding]; other site 292414006569 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 292414006570 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 292414006571 dimer interface [polypeptide binding]; other site 292414006572 phosphorylation site [posttranslational modification] 292414006573 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 292414006574 ATP binding site [chemical binding]; other site 292414006575 Mg2+ binding site [ion binding]; other site 292414006576 G-X-G motif; other site 292414006577 Response regulator receiver domain; Region: Response_reg; pfam00072 292414006578 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 292414006579 active site 292414006580 phosphorylation site [posttranslational modification] 292414006581 intermolecular recognition site; other site 292414006582 dimerization interface [polypeptide binding]; other site 292414006583 recombinase A; Provisional; Region: recA; PRK09354 292414006584 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 292414006585 hexamer interface [polypeptide binding]; other site 292414006586 Walker A motif; other site 292414006587 ATP binding site [chemical binding]; other site 292414006588 Walker B motif; other site 292414006589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 292414006590 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 292414006591 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 292414006592 motif 1; other site 292414006593 active site 292414006594 motif 2; other site 292414006595 motif 3; other site 292414006596 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 292414006597 DHHA1 domain; Region: DHHA1; pfam02272 292414006598 Uncharacterized conserved protein [Function unknown]; Region: COG5470 292414006599 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 292414006600 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 292414006601 putative active site [active] 292414006602 putative dimer interface [polypeptide binding]; other site 292414006603 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 292414006604 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 292414006605 G1 box; other site 292414006606 putative GEF interaction site [polypeptide binding]; other site 292414006607 GTP/Mg2+ binding site [chemical binding]; other site 292414006608 Switch I region; other site 292414006609 G2 box; other site 292414006610 G3 box; other site 292414006611 Switch II region; other site 292414006612 G4 box; other site 292414006613 G5 box; other site 292414006614 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 292414006615 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 292414006616 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 292414006617 HD domain; Region: HD_3; pfam13023 292414006618 HD domain; Region: HD_3; pfam13023 292414006619 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 292414006620 Transcriptional regulator; Region: Rrf2; cl17282 292414006621 Rrf2 family protein; Region: rrf2_super; TIGR00738 292414006622 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 292414006623 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 292414006624 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 292414006625 catalytic residue [active] 292414006626 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 292414006627 putative ABC transporter; Region: ycf24; CHL00085 292414006628 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 292414006629 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 292414006630 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 292414006631 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 292414006632 Walker A/P-loop; other site 292414006633 ATP binding site [chemical binding]; other site 292414006634 Q-loop/lid; other site 292414006635 ABC transporter signature motif; other site 292414006636 Walker B; other site 292414006637 D-loop; other site 292414006638 H-loop/switch region; other site 292414006639 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 292414006640 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 292414006641 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 292414006642 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 292414006643 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 292414006644 catalytic residue [active] 292414006645 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 292414006646 Ligand Binding Site [chemical binding]; other site 292414006647 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 292414006648 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 292414006649 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 292414006650 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 292414006651 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 292414006652 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 292414006653 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 292414006654 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 292414006655 putative active site [active] 292414006656 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 292414006657 hydroxyglutarate oxidase; Provisional; Region: PRK11728 292414006658 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 292414006659 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 292414006660 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 292414006661 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 292414006662 FAD binding site [chemical binding]; other site 292414006663 substrate binding pocket [chemical binding]; other site 292414006664 catalytic base [active] 292414006665 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 292414006666 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414006667 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 292414006668 dimerization interface [polypeptide binding]; other site 292414006669 substrate binding pocket [chemical binding]; other site 292414006670 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 292414006671 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 292414006672 active site 292414006673 phosphorylation site [posttranslational modification] 292414006674 intermolecular recognition site; other site 292414006675 dimerization interface [polypeptide binding]; other site 292414006676 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 292414006677 DNA binding site [nucleotide binding] 292414006678 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 292414006679 PhoU domain; Region: PhoU; pfam01895 292414006680 PhoU domain; Region: PhoU; pfam01895 292414006681 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 292414006682 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 292414006683 Walker A/P-loop; other site 292414006684 ATP binding site [chemical binding]; other site 292414006685 Q-loop/lid; other site 292414006686 ABC transporter signature motif; other site 292414006687 Walker B; other site 292414006688 D-loop; other site 292414006689 H-loop/switch region; other site 292414006690 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 292414006691 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 292414006692 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 292414006693 dimer interface [polypeptide binding]; other site 292414006694 conserved gate region; other site 292414006695 putative PBP binding loops; other site 292414006696 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 292414006697 ABC-ATPase subunit interface; other site 292414006698 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 292414006699 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 292414006700 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 292414006701 dimer interface [polypeptide binding]; other site 292414006702 conserved gate region; other site 292414006703 putative PBP binding loops; other site 292414006704 ABC-ATPase subunit interface; other site 292414006705 PBP superfamily domain; Region: PBP_like_2; pfam12849 292414006706 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 292414006707 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 292414006708 dimer interface [polypeptide binding]; other site 292414006709 phosphorylation site [posttranslational modification] 292414006710 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 292414006711 ATP binding site [chemical binding]; other site 292414006712 Mg2+ binding site [ion binding]; other site 292414006713 G-X-G motif; other site 292414006714 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 292414006715 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 292414006716 homodimer interface [polypeptide binding]; other site 292414006717 substrate-cofactor binding pocket; other site 292414006718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414006719 catalytic residue [active] 292414006720 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 292414006721 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 292414006722 trimer interface [polypeptide binding]; other site 292414006723 putative metal binding site [ion binding]; other site 292414006724 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 292414006725 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 292414006726 catalytic site [active] 292414006727 G-X2-G-X-G-K; other site 292414006728 hypothetical protein; Provisional; Region: PRK11820 292414006729 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 292414006730 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 292414006731 PAS domain; Region: PAS_5; pfam07310 292414006732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 292414006733 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 292414006734 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 292414006735 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 292414006736 conserved cys residue [active] 292414006737 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414006738 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414006739 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 292414006740 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 292414006741 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 292414006742 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 292414006743 putative ligand binding site [chemical binding]; other site 292414006744 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 292414006745 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 292414006746 Walker A/P-loop; other site 292414006747 ATP binding site [chemical binding]; other site 292414006748 Q-loop/lid; other site 292414006749 ABC transporter signature motif; other site 292414006750 Walker B; other site 292414006751 D-loop; other site 292414006752 H-loop/switch region; other site 292414006753 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 292414006754 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 292414006755 Walker A/P-loop; other site 292414006756 ATP binding site [chemical binding]; other site 292414006757 Q-loop/lid; other site 292414006758 ABC transporter signature motif; other site 292414006759 Walker B; other site 292414006760 D-loop; other site 292414006761 H-loop/switch region; other site 292414006762 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 292414006763 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 292414006764 TM-ABC transporter signature motif; other site 292414006765 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 292414006766 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 292414006767 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 292414006768 TM-ABC transporter signature motif; other site 292414006769 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 292414006770 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 292414006771 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 292414006772 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 292414006773 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 292414006774 Phage tail tube protein FII; Region: Phage_tube; pfam04985 292414006775 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 292414006776 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 292414006777 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 292414006778 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 292414006779 Baseplate J-like protein; Region: Baseplate_J; cl01294 292414006780 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 292414006781 PAAR motif; Region: PAAR_motif; pfam05488 292414006782 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 292414006783 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; cl05094 292414006784 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 292414006785 Phage capsid family; Region: Phage_capsid; pfam05065 292414006786 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 292414006787 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 292414006788 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 292414006789 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 292414006790 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 292414006791 catalytic residues [active] 292414006792 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 292414006793 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 292414006794 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 292414006795 Helix-turn-helix domain; Region: HTH_36; pfam13730 292414006796 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 292414006797 S-adenosylmethionine binding site [chemical binding]; other site 292414006798 Membrane fusogenic activity; Region: BMFP; cl01115 292414006799 Predicted transcriptional regulator [Transcription]; Region: COG2932 292414006800 salt bridge; other site 292414006801 non-specific DNA binding site [nucleotide binding]; other site 292414006802 Helix-turn-helix domain; Region: HTH_19; pfam12844 292414006803 sequence-specific DNA binding site [nucleotide binding]; other site 292414006804 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 292414006805 Catalytic site [active] 292414006806 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 292414006807 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 292414006808 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 292414006809 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 292414006810 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 292414006811 SIR2-like domain; Region: SIR2_2; pfam13289 292414006812 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 292414006813 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 292414006814 active site 292414006815 catalytic residues [active] 292414006816 DNA binding site [nucleotide binding] 292414006817 Int/Topo IB signature motif; other site 292414006818 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 292414006819 active site 292414006820 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 292414006821 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 292414006822 putative active site [active] 292414006823 Usg-like family; Region: Usg; pfam06233 292414006824 DNA gyrase subunit A; Validated; Region: PRK05560 292414006825 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 292414006826 CAP-like domain; other site 292414006827 active site 292414006828 primary dimer interface [polypeptide binding]; other site 292414006829 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 292414006830 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 292414006831 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 292414006832 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 292414006833 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 292414006834 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 292414006835 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 292414006836 active site 292414006837 Zn binding site [ion binding]; other site 292414006838 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 292414006839 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 292414006840 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 292414006841 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 292414006842 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 292414006843 thiamine phosphate binding site [chemical binding]; other site 292414006844 active site 292414006845 pyrophosphate binding site [ion binding]; other site 292414006846 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 292414006847 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 292414006848 substrate binding site [chemical binding]; other site 292414006849 ATP binding site [chemical binding]; other site 292414006850 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 292414006851 Uncharacterized conserved protein [Function unknown]; Region: COG2928 292414006852 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 292414006853 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 292414006854 active site 292414006855 nucleophile elbow; other site 292414006856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 292414006857 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 292414006858 NAD(P) binding site [chemical binding]; other site 292414006859 active site 292414006860 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 292414006861 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 292414006862 DsrC like protein; Region: DsrC; cl01101 292414006863 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 292414006864 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 292414006865 non-specific DNA binding site [nucleotide binding]; other site 292414006866 salt bridge; other site 292414006867 sequence-specific DNA binding site [nucleotide binding]; other site 292414006868 Cupin domain; Region: Cupin_2; pfam07883 292414006869 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 292414006870 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 292414006871 acyl-activating enzyme (AAE) consensus motif; other site 292414006872 AMP binding site [chemical binding]; other site 292414006873 active site 292414006874 CoA binding site [chemical binding]; other site 292414006875 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 292414006876 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 292414006877 catalytic residues [active] 292414006878 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 292414006879 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 292414006880 putative substrate translocation pore; other site 292414006881 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 292414006882 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 292414006883 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 292414006884 ATP binding site [chemical binding]; other site 292414006885 putative Mg++ binding site [ion binding]; other site 292414006886 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 292414006887 nucleotide binding region [chemical binding]; other site 292414006888 ATP-binding site [chemical binding]; other site 292414006889 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 292414006890 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 292414006891 dimer interface [polypeptide binding]; other site 292414006892 active site 292414006893 aspartate-rich active site metal binding site; other site 292414006894 allosteric magnesium binding site [ion binding]; other site 292414006895 Schiff base residues; other site 292414006896 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 292414006897 putative amphipathic alpha helix; other site 292414006898 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 292414006899 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 292414006900 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 292414006901 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 292414006902 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 292414006903 active site 292414006904 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 292414006905 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 292414006906 HflX GTPase family; Region: HflX; cd01878 292414006907 G1 box; other site 292414006908 GTP/Mg2+ binding site [chemical binding]; other site 292414006909 Switch I region; other site 292414006910 G2 box; other site 292414006911 G3 box; other site 292414006912 Switch II region; other site 292414006913 G4 box; other site 292414006914 G5 box; other site 292414006915 bacterial Hfq-like; Region: Hfq; cd01716 292414006916 hexamer interface [polypeptide binding]; other site 292414006917 Sm1 motif; other site 292414006918 RNA binding site [nucleotide binding]; other site 292414006919 Sm2 motif; other site 292414006920 Cation transport protein; Region: TrkH; cl17365 292414006921 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 292414006922 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 292414006923 TrkA-N domain; Region: TrkA_N; pfam02254 292414006924 TrkA-C domain; Region: TrkA_C; pfam02080 292414006925 TrkA-N domain; Region: TrkA_N; pfam02254 292414006926 TrkA-C domain; Region: TrkA_C; pfam02080 292414006927 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 292414006928 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 292414006929 active site 292414006930 phosphorylation site [posttranslational modification] 292414006931 intermolecular recognition site; other site 292414006932 dimerization interface [polypeptide binding]; other site 292414006933 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 292414006934 Walker A motif; other site 292414006935 ATP binding site [chemical binding]; other site 292414006936 Walker B motif; other site 292414006937 arginine finger; other site 292414006938 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 292414006939 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 292414006940 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 292414006941 dimerization interface [polypeptide binding]; other site 292414006942 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 292414006943 putative active site [active] 292414006944 heme pocket [chemical binding]; other site 292414006945 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 292414006946 dimer interface [polypeptide binding]; other site 292414006947 phosphorylation site [posttranslational modification] 292414006948 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 292414006949 ATP binding site [chemical binding]; other site 292414006950 Mg2+ binding site [ion binding]; other site 292414006951 G-X-G motif; other site 292414006952 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 292414006953 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 292414006954 active site 292414006955 phosphorylation site [posttranslational modification] 292414006956 intermolecular recognition site; other site 292414006957 dimerization interface [polypeptide binding]; other site 292414006958 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 292414006959 Walker A motif; other site 292414006960 ATP binding site [chemical binding]; other site 292414006961 Walker B motif; other site 292414006962 arginine finger; other site 292414006963 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 292414006964 PAS domain; Region: PAS; smart00091 292414006965 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 292414006966 putative active site [active] 292414006967 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 292414006968 dimer interface [polypeptide binding]; other site 292414006969 phosphorylation site [posttranslational modification] 292414006970 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 292414006971 ATP binding site [chemical binding]; other site 292414006972 G-X-G motif; other site 292414006973 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 292414006974 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 292414006975 FMN binding site [chemical binding]; other site 292414006976 active site 292414006977 catalytic residues [active] 292414006978 substrate binding site [chemical binding]; other site 292414006979 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 292414006980 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 292414006981 substrate binding site; other site 292414006982 dimer interface; other site 292414006983 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 292414006984 homotrimer interaction site [polypeptide binding]; other site 292414006985 zinc binding site [ion binding]; other site 292414006986 CDP-binding sites; other site 292414006987 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 292414006988 tetramer interfaces [polypeptide binding]; other site 292414006989 binuclear metal-binding site [ion binding]; other site 292414006990 Competence-damaged protein; Region: CinA; pfam02464 292414006991 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 292414006992 putative coenzyme Q binding site [chemical binding]; other site 292414006993 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 292414006994 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 292414006995 active site 292414006996 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 292414006997 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 292414006998 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like3; cd05668 292414006999 metal binding site [ion binding]; metal-binding site 292414007000 putative dimer interface [polypeptide binding]; other site 292414007001 lipoyl synthase; Provisional; Region: PRK05481 292414007002 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 292414007003 FeS/SAM binding site; other site 292414007004 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; cl07055 292414007005 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 292414007006 GMP synthase; Reviewed; Region: guaA; PRK00074 292414007007 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 292414007008 AMP/PPi binding site [chemical binding]; other site 292414007009 candidate oxyanion hole; other site 292414007010 catalytic triad [active] 292414007011 potential glutamine specificity residues [chemical binding]; other site 292414007012 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 292414007013 ATP Binding subdomain [chemical binding]; other site 292414007014 Ligand Binding sites [chemical binding]; other site 292414007015 Dimerization subdomain; other site 292414007016 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414007017 EamA-like transporter family; Region: EamA; pfam00892 292414007018 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 292414007019 Homoserine O-succinyltransferase; Region: HTS; pfam04204 292414007020 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 292414007021 proposed active site lysine [active] 292414007022 conserved cys residue [active] 292414007023 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 292414007024 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 292414007025 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414007026 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414007027 WHG domain; Region: WHG; pfam13305 292414007028 Nitrate and nitrite sensing; Region: NIT; pfam08376 292414007029 HAMP domain; Region: HAMP; pfam00672 292414007030 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414007031 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414007032 dimer interface [polypeptide binding]; other site 292414007033 putative CheW interface [polypeptide binding]; other site 292414007034 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 292414007035 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 292414007036 23S rRNA interface [nucleotide binding]; other site 292414007037 L3 interface [polypeptide binding]; other site 292414007038 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 292414007039 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414007040 DNA-binding site [nucleotide binding]; DNA binding site 292414007041 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 292414007042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414007043 homodimer interface [polypeptide binding]; other site 292414007044 catalytic residue [active] 292414007045 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 292414007046 spermidine synthase; Provisional; Region: PRK00811 292414007047 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 292414007048 S-adenosylmethionine binding site [chemical binding]; other site 292414007049 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 292414007050 CoenzymeA binding site [chemical binding]; other site 292414007051 subunit interaction site [polypeptide binding]; other site 292414007052 PHB binding site; other site 292414007053 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 292414007054 Glucose inhibited division protein A; Region: GIDA; pfam01134 292414007055 Methyltransferase domain; Region: Methyltransf_31; pfam13847 292414007056 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 292414007057 S-adenosylmethionine binding site [chemical binding]; other site 292414007058 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 292414007059 active site 292414007060 HIGH motif; other site 292414007061 nucleotide binding site [chemical binding]; other site 292414007062 active site 292414007063 KMSKS motif; other site 292414007064 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 292414007065 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 292414007066 trimerization site [polypeptide binding]; other site 292414007067 active site 292414007068 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 292414007069 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 292414007070 generic binding surface II; other site 292414007071 ssDNA binding site; other site 292414007072 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 292414007073 ATP binding site [chemical binding]; other site 292414007074 putative Mg++ binding site [ion binding]; other site 292414007075 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 292414007076 nucleotide binding region [chemical binding]; other site 292414007077 ATP-binding site [chemical binding]; other site 292414007078 Ligase N family; Region: LIGANc; smart00532 292414007079 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 292414007080 nucleotide binding pocket [chemical binding]; other site 292414007081 K-X-D-G motif; other site 292414007082 catalytic site [active] 292414007083 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 292414007084 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 292414007085 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 292414007086 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 292414007087 active site 292414007088 phosphorylation site [posttranslational modification] 292414007089 intermolecular recognition site; other site 292414007090 dimerization interface [polypeptide binding]; other site 292414007091 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 292414007092 DNA binding site [nucleotide binding] 292414007093 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 292414007094 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 292414007095 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 292414007096 Ligand Binding Site [chemical binding]; other site 292414007097 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 292414007098 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 292414007099 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 292414007100 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 292414007101 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 292414007102 active site 292414007103 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 292414007104 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 292414007105 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 292414007106 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 292414007107 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 292414007108 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 292414007109 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 292414007110 Surface antigen; Region: Bac_surface_Ag; pfam01103 292414007111 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 292414007112 active site 292414007113 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 292414007114 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 292414007115 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 292414007116 putative substrate binding region [chemical binding]; other site 292414007117 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 292414007118 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 292414007119 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 292414007120 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 292414007121 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 292414007122 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 292414007123 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; cl00230 292414007124 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 292414007125 catalytic residue [active] 292414007126 putative FPP diphosphate binding site; other site 292414007127 putative FPP binding hydrophobic cleft; other site 292414007128 dimer interface [polypeptide binding]; other site 292414007129 putative IPP diphosphate binding site; other site 292414007130 ribosome recycling factor; Reviewed; Region: frr; PRK00083 292414007131 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 292414007132 hinge region; other site 292414007133 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 292414007134 putative nucleotide binding site [chemical binding]; other site 292414007135 uridine monophosphate binding site [chemical binding]; other site 292414007136 homohexameric interface [polypeptide binding]; other site 292414007137 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 292414007138 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 292414007139 Helix-turn-helix domain; Region: HTH_18; pfam12833 292414007140 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414007141 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 292414007142 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 292414007143 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 292414007144 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 292414007145 dimer interface [polypeptide binding]; other site 292414007146 conserved gate region; other site 292414007147 putative PBP binding loops; other site 292414007148 ABC-ATPase subunit interface; other site 292414007149 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 292414007150 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 292414007151 conserved gate region; other site 292414007152 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 292414007153 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 292414007154 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414007155 Walker A/P-loop; other site 292414007156 ATP binding site [chemical binding]; other site 292414007157 Q-loop/lid; other site 292414007158 ABC transporter signature motif; other site 292414007159 Walker B; other site 292414007160 D-loop; other site 292414007161 H-loop/switch region; other site 292414007162 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414007163 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414007164 Walker A/P-loop; other site 292414007165 ATP binding site [chemical binding]; other site 292414007166 Q-loop/lid; other site 292414007167 ABC transporter signature motif; other site 292414007168 Walker B; other site 292414007169 D-loop; other site 292414007170 H-loop/switch region; other site 292414007171 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414007172 TPR repeat; Region: TPR_11; pfam13414 292414007173 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 292414007174 binding surface 292414007175 TPR motif; other site 292414007176 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 292414007177 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 292414007178 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 292414007179 N-acetyl-D-glucosamine binding site [chemical binding]; other site 292414007180 catalytic residue [active] 292414007181 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 292414007182 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 292414007183 dimer interface [polypeptide binding]; other site 292414007184 ssDNA binding site [nucleotide binding]; other site 292414007185 tetramer (dimer of dimers) interface [polypeptide binding]; other site 292414007186 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 292414007187 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 292414007188 hydroxyglutarate oxidase; Provisional; Region: PRK11728 292414007189 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 292414007190 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 292414007191 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 292414007192 Domain of unknown function DUF21; Region: DUF21; pfam01595 292414007193 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 292414007194 Transporter associated domain; Region: CorC_HlyC; smart01091 292414007195 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 292414007196 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 292414007197 active site 292414007198 DNA binding site [nucleotide binding] 292414007199 Int/Topo IB signature motif; other site 292414007200 shikimate kinase; Provisional; Region: PRK13946 292414007201 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 292414007202 ADP binding site [chemical binding]; other site 292414007203 magnesium binding site [ion binding]; other site 292414007204 putative shikimate binding site; other site 292414007205 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 292414007206 active site 292414007207 dimer interface [polypeptide binding]; other site 292414007208 metal binding site [ion binding]; metal-binding site 292414007209 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 292414007210 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 292414007211 metal-binding site 292414007212 Hint domain; Region: Hint_2; pfam13403 292414007213 enoyl-CoA hydratase; Validated; Region: PRK08139 292414007214 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 292414007215 substrate binding site [chemical binding]; other site 292414007216 oxyanion hole (OAH) forming residues; other site 292414007217 trimer interface [polypeptide binding]; other site 292414007218 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 292414007219 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 292414007220 active site 292414007221 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 292414007222 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 292414007223 Mechanosensitive ion channel; Region: MS_channel; pfam00924 292414007224 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 292414007225 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 292414007226 dimer interface [polypeptide binding]; other site 292414007227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414007228 catalytic residue [active] 292414007229 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 292414007230 DNA photolyase; Region: DNA_photolyase; pfam00875 292414007231 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 292414007232 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 292414007233 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 292414007234 catalytic residue [active] 292414007235 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 292414007236 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 292414007237 NADP binding site [chemical binding]; other site 292414007238 dimer interface [polypeptide binding]; other site 292414007239 putative dimethyl sulfoniopropionate demethylase; Reviewed; Region: dmdA; PRK12486 292414007240 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 292414007241 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 292414007242 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 292414007243 Transcriptional regulators [Transcription]; Region: GntR; COG1802 292414007244 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414007245 DNA-binding site [nucleotide binding]; DNA binding site 292414007246 FCD domain; Region: FCD; pfam07729 292414007247 SnoaL-like domain; Region: SnoaL_2; pfam12680 292414007248 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 292414007249 Chromate transporter; Region: Chromate_transp; pfam02417 292414007250 Stringent starvation protein B; Region: SspB; pfam04386 292414007251 fumarate hydratase; Reviewed; Region: fumC; PRK00485 292414007252 Class II fumarases; Region: Fumarase_classII; cd01362 292414007253 active site 292414007254 tetramer interface [polypeptide binding]; other site 292414007255 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 292414007256 protein-splicing catalytic site; other site 292414007257 thioester formation/cholesterol transfer; other site 292414007258 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 292414007259 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 292414007260 Cytochrome P450; Region: p450; cl12078 292414007261 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 292414007262 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 292414007263 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 292414007264 CPxP motif; other site 292414007265 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 292414007266 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 292414007267 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 292414007268 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 292414007269 motif II; other site 292414007270 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 292414007271 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 292414007272 active site 292414007273 phosphorylation site [posttranslational modification] 292414007274 intermolecular recognition site; other site 292414007275 dimerization interface [polypeptide binding]; other site 292414007276 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 292414007277 Walker A motif; other site 292414007278 ATP binding site [chemical binding]; other site 292414007279 Walker B motif; other site 292414007280 arginine finger; other site 292414007281 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 292414007282 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 292414007283 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 292414007284 dimer interface [polypeptide binding]; other site 292414007285 phosphorylation site [posttranslational modification] 292414007286 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 292414007287 ATP binding site [chemical binding]; other site 292414007288 Mg2+ binding site [ion binding]; other site 292414007289 G-X-G motif; other site 292414007290 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 292414007291 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 292414007292 putative active site [active] 292414007293 catalytic triad [active] 292414007294 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 292414007295 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 292414007296 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 292414007297 ATP binding site [chemical binding]; other site 292414007298 active site 292414007299 substrate binding site [chemical binding]; other site 292414007300 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 292414007301 Predicted integral membrane protein [Function unknown]; Region: COG0392 292414007302 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 292414007303 methionine synthase I; Validated; Region: PRK07534 292414007304 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 292414007305 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 292414007306 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 292414007307 FeS/SAM binding site; other site 292414007308 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 292414007309 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 292414007310 B12 binding site [chemical binding]; other site 292414007311 cobalt ligand [ion binding]; other site 292414007312 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 292414007313 Fe-S metabolism associated domain; Region: SufE; cl00951 292414007314 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 292414007315 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 292414007316 catalytic site [active] 292414007317 putative active site [active] 292414007318 putative substrate binding site [chemical binding]; other site 292414007319 HRDC domain; Region: HRDC; pfam00570 292414007320 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 292414007321 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 292414007322 active site 292414007323 cosubstrate binding site; other site 292414007324 substrate binding site [chemical binding]; other site 292414007325 catalytic site [active] 292414007326 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 292414007327 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 292414007328 dimerization interface [polypeptide binding]; other site 292414007329 putative ATP binding site [chemical binding]; other site 292414007330 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 292414007331 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414007332 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414007333 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 292414007334 putative effector binding pocket; other site 292414007335 dimerization interface [polypeptide binding]; other site 292414007336 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414007337 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 292414007338 dimerization interface [polypeptide binding]; other site 292414007339 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 292414007340 dimer interface [polypeptide binding]; other site 292414007341 phosphorylation site [posttranslational modification] 292414007342 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 292414007343 ATP binding site [chemical binding]; other site 292414007344 Mg2+ binding site [ion binding]; other site 292414007345 G-X-G motif; other site 292414007346 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 292414007347 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 292414007348 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 292414007349 NADP binding site [chemical binding]; other site 292414007350 active site 292414007351 putative substrate binding site [chemical binding]; other site 292414007352 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 292414007353 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 292414007354 NADP-binding site; other site 292414007355 homotetramer interface [polypeptide binding]; other site 292414007356 substrate binding site [chemical binding]; other site 292414007357 homodimer interface [polypeptide binding]; other site 292414007358 active site 292414007359 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 292414007360 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 292414007361 inhibitor-cofactor binding pocket; inhibition site 292414007362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414007363 catalytic residue [active] 292414007364 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 292414007365 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 292414007366 active site 292414007367 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 292414007368 extended (e) SDRs; Region: SDR_e; cd08946 292414007369 NAD(P) binding site [chemical binding]; other site 292414007370 active site 292414007371 substrate binding site [chemical binding]; other site 292414007372 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 292414007373 active site 292414007374 PAS domain; Region: PAS_9; pfam13426 292414007375 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 292414007376 putative active site [active] 292414007377 heme pocket [chemical binding]; other site 292414007378 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 292414007379 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414007380 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414007381 dimer interface [polypeptide binding]; other site 292414007382 putative CheW interface [polypeptide binding]; other site 292414007383 Nidogen-like; Region: NIDO; cl02648 292414007384 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 292414007385 Hint domain; Region: Hint_2; pfam13403 292414007386 acetyl-CoA synthetase; Provisional; Region: PRK00174 292414007387 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 292414007388 active site 292414007389 CoA binding site [chemical binding]; other site 292414007390 acyl-activating enzyme (AAE) consensus motif; other site 292414007391 AMP binding site [chemical binding]; other site 292414007392 acetate binding site [chemical binding]; other site 292414007393 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 292414007394 adenylate kinase; Reviewed; Region: adk; PRK00279 292414007395 AMP-binding site [chemical binding]; other site 292414007396 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 292414007397 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 292414007398 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 292414007399 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 292414007400 NMT1/THI5 like; Region: NMT1; pfam09084 292414007401 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 292414007402 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 292414007403 dimer interface [polypeptide binding]; other site 292414007404 conserved gate region; other site 292414007405 putative PBP binding loops; other site 292414007406 ABC-ATPase subunit interface; other site 292414007407 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 292414007408 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 292414007409 dimer interface [polypeptide binding]; other site 292414007410 conserved gate region; other site 292414007411 putative PBP binding loops; other site 292414007412 ABC-ATPase subunit interface; other site 292414007413 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 292414007414 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 292414007415 Walker A/P-loop; other site 292414007416 ATP binding site [chemical binding]; other site 292414007417 Q-loop/lid; other site 292414007418 ABC transporter signature motif; other site 292414007419 Walker B; other site 292414007420 D-loop; other site 292414007421 H-loop/switch region; other site 292414007422 phenylhydantoinase; Validated; Region: PRK08323 292414007423 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 292414007424 tetramer interface [polypeptide binding]; other site 292414007425 active site 292414007426 allantoate amidohydrolase; Reviewed; Region: PRK09290 292414007427 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 292414007428 active site 292414007429 metal binding site [ion binding]; metal-binding site 292414007430 dimer interface [polypeptide binding]; other site 292414007431 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414007432 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414007433 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 292414007434 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 292414007435 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 292414007436 homodimer interface [polypeptide binding]; other site 292414007437 active site 292414007438 FMN binding site [chemical binding]; other site 292414007439 substrate binding site [chemical binding]; other site 292414007440 4Fe-4S binding domain; Region: Fer4; cl02805 292414007441 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 292414007442 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 292414007443 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 292414007444 Putative phosphatase (DUF442); Region: DUF442; cl17385 292414007445 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 292414007446 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 292414007447 Na binding site [ion binding]; other site 292414007448 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414007449 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 292414007450 dimer interface [polypeptide binding]; other site 292414007451 phosphorylation site [posttranslational modification] 292414007452 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 292414007453 ATP binding site [chemical binding]; other site 292414007454 Mg2+ binding site [ion binding]; other site 292414007455 G-X-G motif; other site 292414007456 Response regulator receiver domain; Region: Response_reg; pfam00072 292414007457 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 292414007458 active site 292414007459 phosphorylation site [posttranslational modification] 292414007460 intermolecular recognition site; other site 292414007461 dimerization interface [polypeptide binding]; other site 292414007462 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 292414007463 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 292414007464 non-specific DNA binding site [nucleotide binding]; other site 292414007465 salt bridge; other site 292414007466 sequence-specific DNA binding site [nucleotide binding]; other site 292414007467 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 292414007468 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 292414007469 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 292414007470 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 292414007471 putative ligand binding site [chemical binding]; other site 292414007472 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 292414007473 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 292414007474 TM-ABC transporter signature motif; other site 292414007475 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 292414007476 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 292414007477 TM-ABC transporter signature motif; other site 292414007478 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 292414007479 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 292414007480 Walker A/P-loop; other site 292414007481 ATP binding site [chemical binding]; other site 292414007482 Q-loop/lid; other site 292414007483 ABC transporter signature motif; other site 292414007484 Walker B; other site 292414007485 D-loop; other site 292414007486 H-loop/switch region; other site 292414007487 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 292414007488 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 292414007489 Walker A/P-loop; other site 292414007490 ATP binding site [chemical binding]; other site 292414007491 Q-loop/lid; other site 292414007492 ABC transporter signature motif; other site 292414007493 Walker B; other site 292414007494 D-loop; other site 292414007495 H-loop/switch region; other site 292414007496 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 292414007497 PAS domain; Region: PAS_9; pfam13426 292414007498 putative active site [active] 292414007499 heme pocket [chemical binding]; other site 292414007500 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 292414007501 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 292414007502 DNA binding residues [nucleotide binding] 292414007503 dimerization interface [polypeptide binding]; other site 292414007504 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 292414007505 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 292414007506 carboxyltransferase (CT) interaction site; other site 292414007507 biotinylation site [posttranslational modification]; other site 292414007508 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 292414007509 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 292414007510 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 292414007511 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 292414007512 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 292414007513 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 292414007514 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 292414007515 mce related protein; Region: MCE; pfam02470 292414007516 NADH dehydrogenase; Validated; Region: PRK08183 292414007517 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 292414007518 dimer interface [polypeptide binding]; other site 292414007519 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 292414007520 ligand binding site [chemical binding]; other site 292414007521 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 292414007522 homotrimer interaction site [polypeptide binding]; other site 292414007523 putative active site [active] 292414007524 Dienelactone hydrolase family; Region: DLH; pfam01738 292414007525 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 292414007526 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 292414007527 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 292414007528 Walker A motif; other site 292414007529 ATP binding site [chemical binding]; other site 292414007530 Walker B motif; other site 292414007531 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 292414007532 Clp protease; Region: CLP_protease; pfam00574 292414007533 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 292414007534 oligomer interface [polypeptide binding]; other site 292414007535 active site residues [active] 292414007536 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 292414007537 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 292414007538 conserved cys residue [active] 292414007539 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414007540 Domain of unknown function DUF302; Region: DUF302; pfam03625 292414007541 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 292414007542 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 292414007543 PYR/PP interface [polypeptide binding]; other site 292414007544 dimer interface [polypeptide binding]; other site 292414007545 TPP binding site [chemical binding]; other site 292414007546 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 292414007547 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 292414007548 TPP-binding site [chemical binding]; other site 292414007549 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 292414007550 CoA-transferase family III; Region: CoA_transf_3; pfam02515 292414007551 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 292414007552 OpgC protein; Region: OpgC_C; pfam10129 292414007553 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 292414007554 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 292414007555 glucosyltransferase MdoH; Provisional; Region: PRK05454 292414007556 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 292414007557 active site 292414007558 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 292414007559 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 292414007560 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 292414007561 active site residue [active] 292414007562 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 292414007563 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 292414007564 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 292414007565 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 292414007566 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 292414007567 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 292414007568 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 292414007569 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 292414007570 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 292414007571 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 292414007572 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 292414007573 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 292414007574 selenophosphate synthetase; Provisional; Region: PRK00943 292414007575 dimerization interface [polypeptide binding]; other site 292414007576 putative ATP binding site [chemical binding]; other site 292414007577 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 292414007578 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 292414007579 active site residue [active] 292414007580 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 292414007581 MarR family; Region: MarR_2; pfam12802 292414007582 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 292414007583 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 292414007584 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 292414007585 active site 292414007586 metal binding site [ion binding]; metal-binding site 292414007587 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 292414007588 Protein of unknown function (DUF952); Region: DUF952; pfam06108 292414007589 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 292414007590 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 292414007591 quinone interaction residues [chemical binding]; other site 292414007592 active site 292414007593 catalytic residues [active] 292414007594 FMN binding site [chemical binding]; other site 292414007595 substrate binding site [chemical binding]; other site 292414007596 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 292414007597 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 292414007598 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 292414007599 CoenzymeA binding site [chemical binding]; other site 292414007600 subunit interaction site [polypeptide binding]; other site 292414007601 PHB binding site; other site 292414007602 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 292414007603 CoenzymeA binding site [chemical binding]; other site 292414007604 subunit interaction site [polypeptide binding]; other site 292414007605 PHB binding site; other site 292414007606 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 292414007607 DNA binding residues [nucleotide binding] 292414007608 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 292414007609 putative dimer interface [polypeptide binding]; other site 292414007610 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 292414007611 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 292414007612 DNA binding residues [nucleotide binding] 292414007613 putative dimer interface [polypeptide binding]; other site 292414007614 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 292414007615 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 292414007616 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 292414007617 FAD binding site [chemical binding]; other site 292414007618 substrate binding site [chemical binding]; other site 292414007619 catalytic residues [active] 292414007620 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 292414007621 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 292414007622 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 292414007623 active site 292414007624 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 292414007625 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 292414007626 putative C-terminal domain interface [polypeptide binding]; other site 292414007627 putative GSH binding site (G-site) [chemical binding]; other site 292414007628 putative dimer interface [polypeptide binding]; other site 292414007629 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 292414007630 N-terminal domain interface [polypeptide binding]; other site 292414007631 dimer interface [polypeptide binding]; other site 292414007632 substrate binding pocket (H-site) [chemical binding]; other site 292414007633 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 292414007634 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 292414007635 dimer interface [polypeptide binding]; other site 292414007636 active site 292414007637 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 292414007638 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 292414007639 substrate binding site [chemical binding]; other site 292414007640 oxyanion hole (OAH) forming residues; other site 292414007641 trimer interface [polypeptide binding]; other site 292414007642 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 292414007643 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 292414007644 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 292414007645 Hint domain; Region: Hint_2; pfam13403 292414007646 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 292414007647 acyl-CoA synthetase; Validated; Region: PRK08162 292414007648 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 292414007649 acyl-activating enzyme (AAE) consensus motif; other site 292414007650 putative active site [active] 292414007651 AMP binding site [chemical binding]; other site 292414007652 putative CoA binding site [chemical binding]; other site 292414007653 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; pfam09965 292414007654 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 292414007655 active site 292414007656 phosphopentomutase; Provisional; Region: PRK05362 292414007657 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 292414007658 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 292414007659 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 292414007660 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 292414007661 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 292414007662 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 292414007663 active site 292414007664 catalytic motif [active] 292414007665 Zn binding site [ion binding]; other site 292414007666 malic enzyme; Reviewed; Region: PRK12862 292414007667 Malic enzyme, N-terminal domain; Region: malic; pfam00390 292414007668 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 292414007669 putative NAD(P) binding site [chemical binding]; other site 292414007670 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 292414007671 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 292414007672 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 292414007673 acyl-activating enzyme (AAE) consensus motif; other site 292414007674 putative AMP binding site [chemical binding]; other site 292414007675 putative active site [active] 292414007676 putative CoA binding site [chemical binding]; other site 292414007677 CsbD-like; Region: CsbD; cl17424 292414007678 amidase; Provisional; Region: PRK07487 292414007679 Amidase; Region: Amidase; cl11426 292414007680 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 292414007681 ATP-NAD kinase; Region: NAD_kinase; pfam01513 292414007682 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 292414007683 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 292414007684 dimer interface [polypeptide binding]; other site 292414007685 active site 292414007686 glycine-pyridoxal phosphate binding site [chemical binding]; other site 292414007687 folate binding site [chemical binding]; other site 292414007688 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 292414007689 yiaA/B two helix domain; Region: YiaAB; cl01759 292414007690 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 292414007691 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414007692 WHG domain; Region: WHG; pfam13305 292414007693 Protein of unknown function (DUF817); Region: DUF817; pfam05675 292414007694 acyl-CoA esterase; Provisional; Region: PRK10673 292414007695 PGAP1-like protein; Region: PGAP1; pfam07819 292414007696 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 292414007697 HYR domain; Region: HYR; pfam02494 292414007698 Autotransporter beta-domain; Region: Autotransporter; smart00869 292414007699 DctM-like transporters; Region: DctM; pfam06808 292414007700 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 292414007701 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 292414007702 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 292414007703 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 292414007704 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 292414007705 EamA-like transporter family; Region: EamA; pfam00892 292414007706 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 292414007707 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 292414007708 inhibitor site; inhibition site 292414007709 active site 292414007710 dimer interface [polypeptide binding]; other site 292414007711 catalytic residue [active] 292414007712 L-aspartate dehydrogenase; Provisional; Region: PRK13303 292414007713 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 292414007714 Domain of unknown function DUF108; Region: DUF108; pfam01958 292414007715 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 292414007716 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414007717 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 292414007718 dimerization interface [polypeptide binding]; other site 292414007719 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 292414007720 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 292414007721 tetramerization interface [polypeptide binding]; other site 292414007722 NAD(P) binding site [chemical binding]; other site 292414007723 catalytic residues [active] 292414007724 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 292414007725 putative substrate translocation pore; other site 292414007726 Major Facilitator Superfamily; Region: MFS_1; pfam07690 292414007727 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 292414007728 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 292414007729 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 292414007730 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 292414007731 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 292414007732 Phage tail protein; Region: Phage_tail_3; pfam08813 292414007733 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 292414007734 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 292414007735 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 292414007736 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 292414007737 oligomerization interface [polypeptide binding]; other site 292414007738 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 292414007739 Phage capsid family; Region: Phage_capsid; pfam05065 292414007740 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 292414007741 tandem repeat interface [polypeptide binding]; other site 292414007742 oligomer interface [polypeptide binding]; other site 292414007743 active site residues [active] 292414007744 Phage portal protein; Region: Phage_portal; pfam04860 292414007745 Phage-related protein [Function unknown]; Region: COG4695; cl01923 292414007746 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 292414007747 DGQHR domain; Region: DGQHR; TIGR03187 292414007748 ParB-like nuclease domain; Region: ParBc; pfam02195 292414007749 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 292414007750 sequence-specific DNA binding site [nucleotide binding]; other site 292414007751 salt bridge; other site 292414007752 Helix-turn-helix domain; Region: HTH_19; pfam12844 292414007753 sequence-specific DNA binding site [nucleotide binding]; other site 292414007754 salt bridge; other site 292414007755 plasmid partitioning protein; Provisional; Region: PRK13832 292414007756 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 292414007757 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 292414007758 catalytic residues [active] 292414007759 catalytic nucleophile [active] 292414007760 Presynaptic Site I dimer interface [polypeptide binding]; other site 292414007761 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 292414007762 Synaptic Flat tetramer interface [polypeptide binding]; other site 292414007763 Synaptic Site I dimer interface [polypeptide binding]; other site 292414007764 DNA binding site [nucleotide binding] 292414007765 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 292414007766 DNA-binding interface [nucleotide binding]; DNA binding site 292414007767 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 292414007768 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 292414007769 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 292414007770 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 292414007771 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 292414007772 Phage tail protein; Region: Phage_tail_3; pfam08813 292414007773 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 292414007774 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 292414007775 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 292414007776 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 292414007777 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 292414007778 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 292414007779 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 292414007780 Phage capsid family; Region: Phage_capsid; pfam05065 292414007781 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 292414007782 Phage portal protein; Region: Phage_portal; pfam04860 292414007783 Phage-related protein [Function unknown]; Region: COG4695 292414007784 Phage Terminase; Region: Terminase_1; pfam03354 292414007785 Phage terminase, small subunit; Region: Terminase_4; cl01525 292414007786 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 292414007787 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 292414007788 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 292414007789 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 292414007790 dimer interface [polypeptide binding]; other site 292414007791 ssDNA binding site [nucleotide binding]; other site 292414007792 tetramer (dimer of dimers) interface [polypeptide binding]; other site 292414007793 MT-A70; Region: MT-A70; cl01947 292414007794 cell density-dependent motility repressor; Provisional; Region: PRK10082 292414007795 Predicted transcriptional regulator [Transcription]; Region: COG2932 292414007796 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 292414007797 non-specific DNA binding site [nucleotide binding]; other site 292414007798 salt bridge; other site 292414007799 sequence-specific DNA binding site [nucleotide binding]; other site 292414007800 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 292414007801 Catalytic site [active] 292414007802 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 292414007803 long-chain acyl-CoA synthetase; Region: PLN02614 292414007804 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 292414007805 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 292414007806 AAA domain; Region: AAA_24; pfam13479 292414007807 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 292414007808 active site 292414007809 catalytic site [active] 292414007810 substrate binding site [chemical binding]; other site 292414007811 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 292414007812 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 292414007813 active site 292414007814 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 292414007815 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 292414007816 cofactor binding site; other site 292414007817 DNA binding site [nucleotide binding] 292414007818 substrate interaction site [chemical binding]; other site 292414007819 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 292414007820 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 292414007821 active site 292414007822 catalytic residues [active] 292414007823 DNA binding site [nucleotide binding] 292414007824 Int/Topo IB signature motif; other site 292414007825 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414007826 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 292414007827 dimerization interface [polypeptide binding]; other site 292414007828 putative DNA binding site [nucleotide binding]; other site 292414007829 putative Zn2+ binding site [ion binding]; other site 292414007830 AsnC family; Region: AsnC_trans_reg; pfam01037 292414007831 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 292414007832 Proline dehydrogenase; Region: Pro_dh; pfam01619 292414007833 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 292414007834 Glutamate binding site [chemical binding]; other site 292414007835 NAD binding site [chemical binding]; other site 292414007836 catalytic residues [active] 292414007837 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 292414007838 NAD(P) binding site [chemical binding]; other site 292414007839 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 292414007840 Uncharacterized conserved protein [Function unknown]; Region: COG3791 292414007841 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 292414007842 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 292414007843 active site 292414007844 dimerization interface [polypeptide binding]; other site 292414007845 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 292414007846 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414007847 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 292414007848 putative dimerization interface [polypeptide binding]; other site 292414007849 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 292414007850 FAD binding site [chemical binding]; other site 292414007851 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 292414007852 CoenzymeA binding site [chemical binding]; other site 292414007853 subunit interaction site [polypeptide binding]; other site 292414007854 PHB binding site; other site 292414007855 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 292414007856 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 292414007857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414007858 Coenzyme A binding pocket [chemical binding]; other site 292414007859 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 292414007860 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 292414007861 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 292414007862 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 292414007863 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 292414007864 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 292414007865 HIGH motif; other site 292414007866 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 292414007867 active site 292414007868 KMSKS motif; other site 292414007869 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 292414007870 tRNA binding surface [nucleotide binding]; other site 292414007871 anticodon binding site; other site 292414007872 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 292414007873 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 292414007874 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 292414007875 putative metal binding site [ion binding]; other site 292414007876 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 292414007877 putative metal binding site [ion binding]; other site 292414007878 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 292414007879 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 292414007880 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 292414007881 Walker A/P-loop; other site 292414007882 ATP binding site [chemical binding]; other site 292414007883 Q-loop/lid; other site 292414007884 ABC transporter signature motif; other site 292414007885 Walker B; other site 292414007886 D-loop; other site 292414007887 H-loop/switch region; other site 292414007888 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 292414007889 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414007890 substrate binding pocket [chemical binding]; other site 292414007891 membrane-bound complex binding site; other site 292414007892 hinge residues; other site 292414007893 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 292414007894 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 292414007895 ABC-ATPase subunit interface; other site 292414007896 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 292414007897 dimer interface [polypeptide binding]; other site 292414007898 conserved gate region; other site 292414007899 putative PBP binding loops; other site 292414007900 ABC-ATPase subunit interface; other site 292414007901 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 292414007902 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 292414007903 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 292414007904 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 292414007905 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 292414007906 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 292414007907 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 292414007908 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 292414007909 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 292414007910 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 292414007911 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 292414007912 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 292414007913 active site 292414007914 dimer interface [polypeptide binding]; other site 292414007915 motif 1; other site 292414007916 motif 2; other site 292414007917 motif 3; other site 292414007918 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 292414007919 anticodon binding site; other site 292414007920 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 292414007921 hypothetical protein; Provisional; Region: PRK05409 292414007922 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 292414007923 Predicted membrane protein [Function unknown]; Region: COG2259 292414007924 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 292414007925 ArsC family; Region: ArsC; pfam03960 292414007926 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 292414007927 DNA-binding site [nucleotide binding]; DNA binding site 292414007928 RNA-binding motif; other site 292414007929 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 292414007930 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 292414007931 folate binding site [chemical binding]; other site 292414007932 NADP+ binding site [chemical binding]; other site 292414007933 thymidylate synthase; Reviewed; Region: thyA; PRK01827 292414007934 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 292414007935 dimerization interface [polypeptide binding]; other site 292414007936 active site 292414007937 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 292414007938 dimer interface [polypeptide binding]; other site 292414007939 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 292414007940 active site 292414007941 metal binding site [ion binding]; metal-binding site 292414007942 glutathione binding site [chemical binding]; other site 292414007943 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 292414007944 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 292414007945 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 292414007946 non-specific DNA binding site [nucleotide binding]; other site 292414007947 salt bridge; other site 292414007948 sequence-specific DNA binding site [nucleotide binding]; other site 292414007949 aspartate aminotransferase; Provisional; Region: PRK05764 292414007950 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 292414007951 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414007952 homodimer interface [polypeptide binding]; other site 292414007953 catalytic residue [active] 292414007954 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 292414007955 putative efflux protein, MATE family; Region: matE; TIGR00797 292414007956 cation binding site [ion binding]; other site 292414007957 High-affinity nickel-transport protein; Region: NicO; cl00964 292414007958 High-affinity nickel-transport protein; Region: NicO; cl00964 292414007959 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 292414007960 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 292414007961 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 292414007962 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 292414007963 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 292414007964 Mg2+ binding site [ion binding]; other site 292414007965 G-X-G motif; other site 292414007966 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 292414007967 anchoring element; other site 292414007968 dimer interface [polypeptide binding]; other site 292414007969 ATP binding site [chemical binding]; other site 292414007970 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 292414007971 active site 292414007972 metal binding site [ion binding]; metal-binding site 292414007973 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 292414007974 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 292414007975 Cytochrome c; Region: Cytochrom_C; pfam00034 292414007976 Copper resistance protein D; Region: CopD; cl00563 292414007977 CopC domain; Region: CopC; pfam04234 292414007978 Cytochrome c; Region: Cytochrom_C; cl11414 292414007979 Cytochrome c; Region: Cytochrom_C; pfam00034 292414007980 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 292414007981 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414007982 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414007983 LysR substrate binding domain; Region: LysR_substrate; pfam03466 292414007984 dimerization interface [polypeptide binding]; other site 292414007985 Methyltransferase domain; Region: Methyltransf_23; pfam13489 292414007986 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 292414007987 S-adenosylmethionine binding site [chemical binding]; other site 292414007988 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 292414007989 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 292414007990 potential catalytic triad [active] 292414007991 conserved cys residue [active] 292414007992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414007993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414007994 The C-terminal substrate binding of LysR-type symbiotic regulator SyrM, which activates expression of nodulation gene NodD3, contains the type 2 periplasmic binding fold; Region: PBP2_SyrM; cd08467 292414007995 putative substrate binding pocket [chemical binding]; other site 292414007996 putative dimerization interface [polypeptide binding]; other site 292414007997 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 292414007998 DNA-binding site [nucleotide binding]; DNA binding site 292414007999 RNA-binding motif; other site 292414008000 Protein of unknown function (DUF982); Region: DUF982; pfam06169 292414008001 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414008002 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 292414008003 putative DNA binding site [nucleotide binding]; other site 292414008004 putative Zn2+ binding site [ion binding]; other site 292414008005 AsnC family; Region: AsnC_trans_reg; pfam01037 292414008006 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 292414008007 active site 292414008008 SAM binding site [chemical binding]; other site 292414008009 homodimer interface [polypeptide binding]; other site 292414008010 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 292414008011 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 292414008012 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 292414008013 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 292414008014 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 292414008015 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 292414008016 Active Sites [active] 292414008017 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 292414008018 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 292414008019 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 292414008020 FAD binding pocket [chemical binding]; other site 292414008021 FAD binding motif [chemical binding]; other site 292414008022 phosphate binding motif [ion binding]; other site 292414008023 beta-alpha-beta structure motif; other site 292414008024 NAD binding pocket [chemical binding]; other site 292414008025 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 292414008026 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 292414008027 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 292414008028 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 292414008029 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 292414008030 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 292414008031 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 292414008032 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 292414008033 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 292414008034 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 292414008035 catalytic loop [active] 292414008036 iron binding site [ion binding]; other site 292414008037 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 292414008038 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 292414008039 putative MPT binding site; other site 292414008040 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 292414008041 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 292414008042 XdhC Rossmann domain; Region: XdhC_C; pfam13478 292414008043 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 292414008044 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 292414008045 metal ion-dependent adhesion site (MIDAS); other site 292414008046 MoxR-like ATPases [General function prediction only]; Region: COG0714 292414008047 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 292414008048 Walker A motif; other site 292414008049 ATP binding site [chemical binding]; other site 292414008050 Walker B motif; other site 292414008051 arginine finger; other site 292414008052 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 292414008053 active site 292414008054 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 292414008055 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 292414008056 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 292414008057 active site 292414008058 substrate binding pocket [chemical binding]; other site 292414008059 dimer interface [polypeptide binding]; other site 292414008060 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 292414008061 active site 292414008062 replicative DNA helicase; Provisional; Region: PRK09165 292414008063 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 292414008064 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 292414008065 Walker A motif; other site 292414008066 ATP binding site [chemical binding]; other site 292414008067 Walker B motif; other site 292414008068 DNA binding loops [nucleotide binding] 292414008069 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 292414008070 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 292414008071 active site 292414008072 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 292414008073 dimer interface [polypeptide binding]; other site 292414008074 substrate binding site [chemical binding]; other site 292414008075 catalytic residues [active] 292414008076 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 292414008077 Permease; Region: Permease; pfam02405 292414008078 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 292414008079 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 292414008080 Walker A/P-loop; other site 292414008081 ATP binding site [chemical binding]; other site 292414008082 Q-loop/lid; other site 292414008083 ABC transporter signature motif; other site 292414008084 Walker B; other site 292414008085 D-loop; other site 292414008086 H-loop/switch region; other site 292414008087 Paraquat-inducible protein A; Region: PqiA; pfam04403 292414008088 DNA repair protein RadA; Provisional; Region: PRK11823 292414008089 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 292414008090 Walker A motif/ATP binding site; other site 292414008091 ATP binding site [chemical binding]; other site 292414008092 Walker B motif; other site 292414008093 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 292414008094 Colicin V production protein; Region: Colicin_V; pfam02674 292414008095 Hint domain; Region: Hint_2; pfam13403 292414008096 amidophosphoribosyltransferase; Provisional; Region: PRK09246 292414008097 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 292414008098 active site 292414008099 tetramer interface [polypeptide binding]; other site 292414008100 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 292414008101 active site 292414008102 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 292414008103 Pilus assembly protein, PilP; Region: PilP; pfam04351 292414008104 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 292414008105 classical (c) SDRs; Region: SDR_c; cd05233 292414008106 NAD(P) binding site [chemical binding]; other site 292414008107 active site 292414008108 stationary phase survival protein SurE; Provisional; Region: PRK13931 292414008109 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 292414008110 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 292414008111 S-adenosylmethionine binding site [chemical binding]; other site 292414008112 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 292414008113 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 292414008114 Peptidase family M23; Region: Peptidase_M23; pfam01551 292414008115 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 292414008116 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 292414008117 Walker A motif; other site 292414008118 ATP binding site [chemical binding]; other site 292414008119 Walker B motif; other site 292414008120 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 292414008121 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 292414008122 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 292414008123 Predicted transcriptional regulator [Transcription]; Region: COG2378 292414008124 HTH domain; Region: HTH_11; pfam08279 292414008125 WYL domain; Region: WYL; pfam13280 292414008126 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414008127 Coenzyme A binding pocket [chemical binding]; other site 292414008128 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 292414008129 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 292414008130 Walker A/P-loop; other site 292414008131 ATP binding site [chemical binding]; other site 292414008132 Q-loop/lid; other site 292414008133 ABC transporter signature motif; other site 292414008134 Walker B; other site 292414008135 D-loop; other site 292414008136 H-loop/switch region; other site 292414008137 TOBE domain; Region: TOBE_2; pfam08402 292414008138 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 292414008139 short chain dehydrogenase; Provisional; Region: PRK08339 292414008140 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 292414008141 putative NAD(P) binding site [chemical binding]; other site 292414008142 putative active site [active] 292414008143 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 292414008144 thioester formation/cholesterol transfer; other site 292414008145 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 292414008146 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 292414008147 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 292414008148 G1 box; other site 292414008149 putative GEF interaction site [polypeptide binding]; other site 292414008150 GTP/Mg2+ binding site [chemical binding]; other site 292414008151 Switch I region; other site 292414008152 G2 box; other site 292414008153 G3 box; other site 292414008154 Switch II region; other site 292414008155 G4 box; other site 292414008156 G5 box; other site 292414008157 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 292414008158 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 292414008159 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 292414008160 DEAD-like helicases superfamily; Region: DEXDc; smart00487 292414008161 ATP binding site [chemical binding]; other site 292414008162 Mg++ binding site [ion binding]; other site 292414008163 motif III; other site 292414008164 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 292414008165 nucleotide binding region [chemical binding]; other site 292414008166 ATP-binding site [chemical binding]; other site 292414008167 DctM-like transporters; Region: DctM; pfam06808 292414008168 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 292414008169 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 292414008170 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 292414008171 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 292414008172 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 292414008173 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 292414008174 active site 292414008175 phosphorylation site [posttranslational modification] 292414008176 intermolecular recognition site; other site 292414008177 dimerization interface [polypeptide binding]; other site 292414008178 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; cl17189 292414008179 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 292414008180 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 292414008181 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 292414008182 dimer interface [polypeptide binding]; other site 292414008183 phosphorylation site [posttranslational modification] 292414008184 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 292414008185 ATP binding site [chemical binding]; other site 292414008186 Mg2+ binding site [ion binding]; other site 292414008187 G-X-G motif; other site 292414008188 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 292414008189 Cytochrome P450; Region: p450; cl12078 292414008190 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 292414008191 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 292414008192 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 292414008193 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 292414008194 putative active site [active] 292414008195 dimerization interface [polypeptide binding]; other site 292414008196 putative tRNAtyr binding site [nucleotide binding]; other site 292414008197 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 292414008198 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 292414008199 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 292414008200 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 292414008201 dimer interface [polypeptide binding]; other site 292414008202 conserved gate region; other site 292414008203 ABC-ATPase subunit interface; other site 292414008204 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 292414008205 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 292414008206 dimer interface [polypeptide binding]; other site 292414008207 conserved gate region; other site 292414008208 putative PBP binding loops; other site 292414008209 ABC-ATPase subunit interface; other site 292414008210 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 292414008211 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414008212 Walker A/P-loop; other site 292414008213 ATP binding site [chemical binding]; other site 292414008214 Q-loop/lid; other site 292414008215 ABC transporter signature motif; other site 292414008216 Walker B; other site 292414008217 D-loop; other site 292414008218 H-loop/switch region; other site 292414008219 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414008220 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414008221 Walker A/P-loop; other site 292414008222 ATP binding site [chemical binding]; other site 292414008223 Q-loop/lid; other site 292414008224 ABC transporter signature motif; other site 292414008225 Walker B; other site 292414008226 D-loop; other site 292414008227 H-loop/switch region; other site 292414008228 Uncharacterized conserved protein [Function unknown]; Region: COG3379 292414008229 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 292414008230 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 292414008231 AMP-binding domain protein; Validated; Region: PRK07529 292414008232 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 292414008233 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 292414008234 acyl-activating enzyme (AAE) consensus motif; other site 292414008235 putative AMP binding site [chemical binding]; other site 292414008236 putative active site [active] 292414008237 putative CoA binding site [chemical binding]; other site 292414008238 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 292414008239 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 292414008240 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414008241 Walker A/P-loop; other site 292414008242 ATP binding site [chemical binding]; other site 292414008243 Q-loop/lid; other site 292414008244 ABC transporter signature motif; other site 292414008245 Walker B; other site 292414008246 D-loop; other site 292414008247 H-loop/switch region; other site 292414008248 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414008249 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 292414008250 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 292414008251 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 292414008252 putative active site [active] 292414008253 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 292414008254 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 292414008255 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 292414008256 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 292414008257 catalytic triad [active] 292414008258 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 292414008259 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 292414008260 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 292414008261 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 292414008262 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 292414008263 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 292414008264 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 292414008265 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 292414008266 catalytic residue [active] 292414008267 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 292414008268 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 292414008269 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 292414008270 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 292414008271 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 292414008272 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 292414008273 Walker A/P-loop; other site 292414008274 ATP binding site [chemical binding]; other site 292414008275 Q-loop/lid; other site 292414008276 ABC transporter signature motif; other site 292414008277 Walker B; other site 292414008278 D-loop; other site 292414008279 H-loop/switch region; other site 292414008280 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 292414008281 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 292414008282 FtsX-like permease family; Region: FtsX; pfam02687 292414008283 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 292414008284 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 292414008285 active site 292414008286 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414008287 Coenzyme A binding pocket [chemical binding]; other site 292414008288 RibD C-terminal domain; Region: RibD_C; cl17279 292414008289 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 292414008290 prolyl-tRNA synthetase; Provisional; Region: PRK12325 292414008291 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 292414008292 dimer interface [polypeptide binding]; other site 292414008293 motif 1; other site 292414008294 active site 292414008295 motif 2; other site 292414008296 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 292414008297 active site 292414008298 motif 3; other site 292414008299 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 292414008300 anticodon binding site; other site 292414008301 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 292414008302 GAF domain; Region: GAF; pfam01590 292414008303 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414008304 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 292414008305 dimer interface [polypeptide binding]; other site 292414008306 phosphorylation site [posttranslational modification] 292414008307 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 292414008308 ATP binding site [chemical binding]; other site 292414008309 Mg2+ binding site [ion binding]; other site 292414008310 G-X-G motif; other site 292414008311 Response regulator receiver domain; Region: Response_reg; pfam00072 292414008312 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 292414008313 active site 292414008314 phosphorylation site [posttranslational modification] 292414008315 intermolecular recognition site; other site 292414008316 dimerization interface [polypeptide binding]; other site 292414008317 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 292414008318 Domain of unknown function DUF20; Region: UPF0118; pfam01594 292414008319 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 292414008320 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 292414008321 Walker A motif; other site 292414008322 ATP binding site [chemical binding]; other site 292414008323 exopolyphosphatase; Region: exo_poly_only; TIGR03706 292414008324 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 292414008325 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 292414008326 putative catalytic site [active] 292414008327 putative metal binding site [ion binding]; other site 292414008328 putative phosphate binding site [ion binding]; other site 292414008329 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 292414008330 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 292414008331 putative metal binding site [ion binding]; other site 292414008332 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 292414008333 HSP70 interaction site [polypeptide binding]; other site 292414008334 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 292414008335 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414008336 Coenzyme A binding pocket [chemical binding]; other site 292414008337 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 292414008338 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 292414008339 active site 292414008340 metal binding site [ion binding]; metal-binding site 292414008341 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 292414008342 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 292414008343 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 292414008344 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 292414008345 active site 292414008346 substrate binding site [chemical binding]; other site 292414008347 coenzyme B12 binding site [chemical binding]; other site 292414008348 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 292414008349 B12 binding site [chemical binding]; other site 292414008350 cobalt ligand [ion binding]; other site 292414008351 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 292414008352 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 292414008353 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 292414008354 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 292414008355 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 292414008356 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 292414008357 carboxyltransferase (CT) interaction site; other site 292414008358 biotinylation site [posttranslational modification]; other site 292414008359 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 292414008360 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 292414008361 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 292414008362 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 292414008363 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 292414008364 putative substrate translocation pore; other site 292414008365 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 292414008366 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 292414008367 non-specific DNA binding site [nucleotide binding]; other site 292414008368 salt bridge; other site 292414008369 sequence-specific DNA binding site [nucleotide binding]; other site 292414008370 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 292414008371 Domain of unknown function (DUF955); Region: DUF955; pfam06114 292414008372 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 292414008373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 292414008374 choline dehydrogenase; Validated; Region: PRK02106 292414008375 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 292414008376 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 292414008377 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 292414008378 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 292414008379 NAD(P) binding site [chemical binding]; other site 292414008380 catalytic residues [active] 292414008381 BCCT family transporter; Region: BCCT; cl00569 292414008382 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 292414008383 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 292414008384 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 292414008385 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414008386 EamA-like transporter family; Region: EamA; pfam00892 292414008387 EamA-like transporter family; Region: EamA; pfam00892 292414008388 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 292414008389 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414008390 Walker A/P-loop; other site 292414008391 ATP binding site [chemical binding]; other site 292414008392 ABC transporter signature motif; other site 292414008393 Walker B; other site 292414008394 D-loop; other site 292414008395 H-loop/switch region; other site 292414008396 ABC transporter; Region: ABC_tran_2; pfam12848 292414008397 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 292414008398 Pirin-related protein [General function prediction only]; Region: COG1741 292414008399 Pirin; Region: Pirin; pfam02678 292414008400 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 292414008401 Lysine efflux permease [General function prediction only]; Region: COG1279 292414008402 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 292414008403 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414008404 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 292414008405 dimerization interface [polypeptide binding]; other site 292414008406 Predicted periplasmic protein [Function unknown]; Region: COG3904 292414008407 hypothetical protein; Validated; Region: PRK00110 292414008408 Spore coat assembly protein [Cell envelope biogenesis, outer membrane]; Region: CotH; COG5337 292414008409 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 292414008410 TrkA-C domain; Region: TrkA_C; pfam02080 292414008411 TrkA-C domain; Region: TrkA_C; pfam02080 292414008412 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 292414008413 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 292414008414 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 292414008415 FAD binding domain; Region: FAD_binding_2; pfam00890 292414008416 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 292414008417 META domain; Region: META; pfam03724 292414008418 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 292414008419 transmembrane helices; other site 292414008420 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 292414008421 TrkA-C domain; Region: TrkA_C; pfam02080 292414008422 TrkA-C domain; Region: TrkA_C; pfam02080 292414008423 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 292414008424 Beta-lactamase; Region: Beta-lactamase; pfam00144 292414008425 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 292414008426 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 292414008427 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 292414008428 putative active site [active] 292414008429 metal binding site [ion binding]; metal-binding site 292414008430 homodimer binding site [polypeptide binding]; other site 292414008431 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 292414008432 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 292414008433 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 292414008434 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 292414008435 MgtE intracellular N domain; Region: MgtE_N; smart00924 292414008436 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 292414008437 Divalent cation transporter; Region: MgtE; pfam01769 292414008438 guanine deaminase; Provisional; Region: PRK09228 292414008439 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 292414008440 active site 292414008441 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 292414008442 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 292414008443 active site 292414008444 putative substrate binding pocket [chemical binding]; other site 292414008445 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 292414008446 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 292414008447 active site 292414008448 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 292414008449 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 292414008450 non-specific DNA binding site [nucleotide binding]; other site 292414008451 salt bridge; other site 292414008452 sequence-specific DNA binding site [nucleotide binding]; other site 292414008453 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 292414008454 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 292414008455 NAD(P) binding site [chemical binding]; other site 292414008456 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414008457 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 292414008458 dimerization interface [polypeptide binding]; other site 292414008459 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 292414008460 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 292414008461 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 292414008462 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 292414008463 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414008464 Coenzyme A binding pocket [chemical binding]; other site 292414008465 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 292414008466 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 292414008467 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 292414008468 amidase catalytic site [active] 292414008469 Zn binding residues [ion binding]; other site 292414008470 substrate binding site [chemical binding]; other site 292414008471 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 292414008472 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 292414008473 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 292414008474 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 292414008475 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 292414008476 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 292414008477 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 292414008478 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 292414008479 active site 292414008480 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 292414008481 YCII-related domain; Region: YCII; cl00999 292414008482 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414008483 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414008484 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 292414008485 nucleoside/Zn binding site; other site 292414008486 dimer interface [polypeptide binding]; other site 292414008487 catalytic motif [active] 292414008488 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 292414008489 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 292414008490 RNA binding surface [nucleotide binding]; other site 292414008491 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 292414008492 active site 292414008493 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 292414008494 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 292414008495 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 292414008496 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 292414008497 C-terminal domain interface [polypeptide binding]; other site 292414008498 GSH binding site (G-site) [chemical binding]; other site 292414008499 dimer interface [polypeptide binding]; other site 292414008500 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 292414008501 N-terminal domain interface [polypeptide binding]; other site 292414008502 putative dimer interface [polypeptide binding]; other site 292414008503 active site 292414008504 thiamine pyrophosphate protein; Validated; Region: PRK08199 292414008505 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 292414008506 PYR/PP interface [polypeptide binding]; other site 292414008507 dimer interface [polypeptide binding]; other site 292414008508 TPP binding site [chemical binding]; other site 292414008509 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 292414008510 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 292414008511 TPP-binding site [chemical binding]; other site 292414008512 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 292414008513 GAF domain; Region: GAF; pfam01590 292414008514 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 292414008515 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 292414008516 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 292414008517 aspartate kinase; Reviewed; Region: PRK06635 292414008518 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 292414008519 putative nucleotide binding site [chemical binding]; other site 292414008520 putative catalytic residues [active] 292414008521 putative Mg ion binding site [ion binding]; other site 292414008522 putative aspartate binding site [chemical binding]; other site 292414008523 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 292414008524 putative allosteric regulatory site; other site 292414008525 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 292414008526 putative allosteric regulatory residue; other site 292414008527 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 292414008528 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 292414008529 putative GTP cyclohydrolase; Provisional; Region: PRK13674 292414008530 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 292414008531 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 292414008532 homodimer interface [polypeptide binding]; other site 292414008533 substrate-cofactor binding pocket; other site 292414008534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414008535 catalytic residue [active] 292414008536 Intracellular septation protein A; Region: IspA; pfam04279 292414008537 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 292414008538 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 292414008539 EamA-like transporter family; Region: EamA; pfam00892 292414008540 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 292414008541 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 292414008542 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 292414008543 P loop; other site 292414008544 GTP binding site [chemical binding]; other site 292414008545 YhhN-like protein; Region: YhhN; pfam07947 292414008546 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 292414008547 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 292414008548 generic binding surface I; other site 292414008549 generic binding surface II; other site 292414008550 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 292414008551 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 292414008552 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 292414008553 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 292414008554 Family description; Region: VCBS; pfam13517 292414008555 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 292414008556 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 292414008557 catalytic loop [active] 292414008558 iron binding site [ion binding]; other site 292414008559 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 292414008560 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 292414008561 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 292414008562 ligand binding site [chemical binding]; other site 292414008563 flexible hinge region; other site 292414008564 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 292414008565 putative switch regulator; other site 292414008566 non-specific DNA interactions [nucleotide binding]; other site 292414008567 DNA binding site [nucleotide binding] 292414008568 sequence specific DNA binding site [nucleotide binding]; other site 292414008569 putative cAMP binding site [chemical binding]; other site 292414008570 Predicted integral membrane protein [Function unknown]; Region: COG5616 292414008571 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 292414008572 TPR motif; other site 292414008573 binding surface 292414008574 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 292414008575 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 292414008576 TPR motif; other site 292414008577 binding surface 292414008578 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 292414008579 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 292414008580 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 292414008581 protein binding site [polypeptide binding]; other site 292414008582 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 292414008583 protein binding site [polypeptide binding]; other site 292414008584 YcxB-like protein; Region: YcxB; pfam14317 292414008585 HflC protein; Region: hflC; TIGR01932 292414008586 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 292414008587 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 292414008588 HflK protein; Region: hflK; TIGR01933 292414008589 glutathione reductase; Validated; Region: PRK06116 292414008590 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 292414008591 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 292414008592 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 292414008593 Predicted membrane protein [Function unknown]; Region: COG4125 292414008594 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 292414008595 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 292414008596 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 292414008597 tetramer (dimer of dimers) interface [polypeptide binding]; other site 292414008598 active site 292414008599 dimer interface [polypeptide binding]; other site 292414008600 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 292414008601 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 292414008602 C-terminal domain interface [polypeptide binding]; other site 292414008603 GSH binding site (G-site) [chemical binding]; other site 292414008604 dimer interface [polypeptide binding]; other site 292414008605 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 292414008606 N-terminal domain interface [polypeptide binding]; other site 292414008607 dimer interface [polypeptide binding]; other site 292414008608 substrate binding pocket (H-site) [chemical binding]; other site 292414008609 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 292414008610 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 292414008611 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 292414008612 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414008613 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414008614 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 292414008615 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 292414008616 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 292414008617 EamA-like transporter family; Region: EamA; pfam00892 292414008618 EamA-like transporter family; Region: EamA; pfam00892 292414008619 Thiamine pyrophosphokinase; Region: TPK; cd07995 292414008620 active site 292414008621 dimerization interface [polypeptide binding]; other site 292414008622 thiamine binding site [chemical binding]; other site 292414008623 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 292414008624 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 292414008625 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 292414008626 GDP-binding site [chemical binding]; other site 292414008627 ACT binding site; other site 292414008628 IMP binding site; other site 292414008629 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 292414008630 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 292414008631 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 292414008632 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 292414008633 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 292414008634 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 292414008635 CTP synthetase; Validated; Region: pyrG; PRK05380 292414008636 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 292414008637 Catalytic site [active] 292414008638 active site 292414008639 UTP binding site [chemical binding]; other site 292414008640 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 292414008641 active site 292414008642 putative oxyanion hole; other site 292414008643 catalytic triad [active] 292414008644 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 292414008645 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 292414008646 catalytic residue [active] 292414008647 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 292414008648 heme-binding site [chemical binding]; other site 292414008649 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 292414008650 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414008651 dimer interface [polypeptide binding]; other site 292414008652 putative CheW interface [polypeptide binding]; other site 292414008653 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 292414008654 enoyl-CoA hydratase; Provisional; Region: PRK07509 292414008655 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 292414008656 substrate binding site [chemical binding]; other site 292414008657 oxyanion hole (OAH) forming residues; other site 292414008658 trimer interface [polypeptide binding]; other site 292414008659 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 292414008660 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 292414008661 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414008662 homodimer interface [polypeptide binding]; other site 292414008663 catalytic residue [active] 292414008664 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 292414008665 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 292414008666 catalytic residue [active] 292414008667 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 292414008668 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 292414008669 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414008670 Walker A/P-loop; other site 292414008671 ATP binding site [chemical binding]; other site 292414008672 Q-loop/lid; other site 292414008673 ABC transporter signature motif; other site 292414008674 Walker B; other site 292414008675 D-loop; other site 292414008676 H-loop/switch region; other site 292414008677 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 292414008678 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 292414008679 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 292414008680 elongation factor P; Validated; Region: PRK00529 292414008681 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 292414008682 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 292414008683 RNA binding site [nucleotide binding]; other site 292414008684 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 292414008685 RNA binding site [nucleotide binding]; other site 292414008686 cobyric acid synthase; Provisional; Region: PRK00784 292414008687 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 292414008688 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 292414008689 catalytic triad [active] 292414008690 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 292414008691 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 292414008692 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 292414008693 S-adenosylmethionine binding site [chemical binding]; other site 292414008694 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 292414008695 Predicted small secreted protein [Function unknown]; Region: COG5510 292414008696 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 292414008697 PAS domain; Region: PAS_9; pfam13426 292414008698 putative active site [active] 292414008699 heme pocket [chemical binding]; other site 292414008700 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 292414008701 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 292414008702 CHASE domain; Region: CHASE; pfam03924 292414008703 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414008704 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 292414008705 dimer interface [polypeptide binding]; other site 292414008706 phosphorylation site [posttranslational modification] 292414008707 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 292414008708 ATP binding site [chemical binding]; other site 292414008709 Mg2+ binding site [ion binding]; other site 292414008710 G-X-G motif; other site 292414008711 Response regulator receiver domain; Region: Response_reg; pfam00072 292414008712 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 292414008713 active site 292414008714 phosphorylation site [posttranslational modification] 292414008715 intermolecular recognition site; other site 292414008716 dimerization interface [polypeptide binding]; other site 292414008717 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 292414008718 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 292414008719 active site 292414008720 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 292414008721 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 292414008722 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414008723 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414008724 dimer interface [polypeptide binding]; other site 292414008725 putative CheW interface [polypeptide binding]; other site 292414008726 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 292414008727 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 292414008728 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 292414008729 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414008730 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 292414008731 dimerization interface [polypeptide binding]; other site 292414008732 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 292414008733 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414008734 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 292414008735 dimerization interface [polypeptide binding]; other site 292414008736 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 292414008737 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 292414008738 substrate binding pocket [chemical binding]; other site 292414008739 active site 292414008740 iron coordination sites [ion binding]; other site 292414008741 hypothetical protein; Provisional; Region: PRK07490 292414008742 intersubunit interface [polypeptide binding]; other site 292414008743 active site 292414008744 Zn2+ binding site [ion binding]; other site 292414008745 Predicted transcriptional regulators [Transcription]; Region: COG1733 292414008746 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 292414008747 dimerization interface [polypeptide binding]; other site 292414008748 putative DNA binding site [nucleotide binding]; other site 292414008749 putative Zn2+ binding site [ion binding]; other site 292414008750 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 292414008751 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 292414008752 PAS domain; Region: PAS_9; pfam13426 292414008753 putative active site [active] 292414008754 heme pocket [chemical binding]; other site 292414008755 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414008756 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 292414008757 dimer interface [polypeptide binding]; other site 292414008758 phosphorylation site [posttranslational modification] 292414008759 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 292414008760 ATP binding site [chemical binding]; other site 292414008761 Mg2+ binding site [ion binding]; other site 292414008762 G-X-G motif; other site 292414008763 cell division protein MraZ; Reviewed; Region: PRK00326 292414008764 MraZ protein; Region: MraZ; pfam02381 292414008765 MraZ protein; Region: MraZ; pfam02381 292414008766 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 292414008767 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 292414008768 S-adenosylmethionine binding site [chemical binding]; other site 292414008769 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 292414008770 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 292414008771 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 292414008772 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 292414008773 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 292414008774 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 292414008775 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 292414008776 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 292414008777 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 292414008778 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 292414008779 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 292414008780 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 292414008781 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 292414008782 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 292414008783 Mg++ binding site [ion binding]; other site 292414008784 putative catalytic motif [active] 292414008785 putative substrate binding site [chemical binding]; other site 292414008786 Domain of unknown function DUF59; Region: DUF59; pfam01883 292414008787 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 292414008788 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 292414008789 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 292414008790 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 292414008791 Family description; Region: UvrD_C_2; pfam13538 292414008792 Sensors of blue-light using FAD; Region: BLUF; smart01034 292414008793 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 292414008794 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 292414008795 phosphate binding site [ion binding]; other site 292414008796 Sensors of blue-light using FAD; Region: BLUF; smart01034 292414008797 pyruvate carboxylase; Reviewed; Region: PRK12999 292414008798 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 292414008799 ATP-grasp domain; Region: ATP-grasp_4; cl17255 292414008800 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 292414008801 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 292414008802 active site 292414008803 catalytic residues [active] 292414008804 metal binding site [ion binding]; metal-binding site 292414008805 homodimer binding site [polypeptide binding]; other site 292414008806 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 292414008807 carboxyltransferase (CT) interaction site; other site 292414008808 biotinylation site [posttranslational modification]; other site 292414008809 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 292414008810 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 292414008811 aminotransferase; Provisional; Region: PRK06105 292414008812 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 292414008813 inhibitor-cofactor binding pocket; inhibition site 292414008814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414008815 catalytic residue [active] 292414008816 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414008817 AsnC family; Region: AsnC_trans_reg; pfam01037 292414008818 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 292414008819 putative active site pocket [active] 292414008820 4-fold oligomerization interface [polypeptide binding]; other site 292414008821 metal binding residues [ion binding]; metal-binding site 292414008822 3-fold/trimer interface [polypeptide binding]; other site 292414008823 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 292414008824 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 292414008825 putative active site [active] 292414008826 oxyanion strand; other site 292414008827 catalytic triad [active] 292414008828 Cupin; Region: Cupin_6; pfam12852 292414008829 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414008830 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 292414008831 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414008832 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 292414008833 putative catalytic residues [active] 292414008834 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 292414008835 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 292414008836 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 292414008837 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 292414008838 catalytic residues [active] 292414008839 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 292414008840 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 292414008841 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 292414008842 substrate binding site [chemical binding]; other site 292414008843 glutamase interaction surface [polypeptide binding]; other site 292414008844 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 292414008845 metal binding site [ion binding]; metal-binding site 292414008846 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 292414008847 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 292414008848 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 292414008849 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 292414008850 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 292414008851 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 292414008852 active site 292414008853 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 292414008854 Ligand Binding Site [chemical binding]; other site 292414008855 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 292414008856 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 292414008857 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 292414008858 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 292414008859 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 292414008860 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 292414008861 ThiC-associated domain; Region: ThiC-associated; pfam13667 292414008862 ThiC family; Region: ThiC; pfam01964 292414008863 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 292414008864 putative active site [active] 292414008865 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 292414008866 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 292414008867 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 292414008868 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 292414008869 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414008870 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 292414008871 dimerization interface [polypeptide binding]; other site 292414008872 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 292414008873 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 292414008874 [2Fe-2S] cluster binding site [ion binding]; other site 292414008875 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 292414008876 alpha subunit interface [polypeptide binding]; other site 292414008877 active site 292414008878 substrate binding site [chemical binding]; other site 292414008879 Fe binding site [ion binding]; other site 292414008880 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414008881 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414008882 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 292414008883 dimerization interface [polypeptide binding]; other site 292414008884 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 292414008885 hydroxyglutarate oxidase; Provisional; Region: PRK11728 292414008886 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 292414008887 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 292414008888 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 292414008889 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 292414008890 hydroxyglutarate oxidase; Provisional; Region: PRK11728 292414008891 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 292414008892 homotrimer interaction site [polypeptide binding]; other site 292414008893 putative active site [active] 292414008894 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 292414008895 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 292414008896 active site 292414008897 Zn binding site [ion binding]; other site 292414008898 DctM-like transporters; Region: DctM; pfam06808 292414008899 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 292414008900 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 292414008901 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 292414008902 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 292414008903 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414008904 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414008905 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 292414008906 dimerization interface [polypeptide binding]; other site 292414008907 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 292414008908 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 292414008909 active site 292414008910 Riboflavin kinase; Region: Flavokinase; pfam01687 292414008911 hypothetical protein; Provisional; Region: PRK05170 292414008912 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 292414008913 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 292414008914 catalytic site [active] 292414008915 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 292414008916 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 292414008917 putative catalytic residue [active] 292414008918 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 292414008919 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 292414008920 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 292414008921 active site 292414008922 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 292414008923 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 292414008924 putative NAD(P) binding site [chemical binding]; other site 292414008925 active site 292414008926 DoxX-like family; Region: DoxX_3; pfam13781 292414008927 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 292414008928 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 292414008929 metal-binding site [ion binding] 292414008930 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 292414008931 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 292414008932 metal-binding site [ion binding] 292414008933 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 292414008934 Soluble P-type ATPase [General function prediction only]; Region: COG4087 292414008935 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 292414008936 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 292414008937 DNA binding residues [nucleotide binding] 292414008938 H-type lectin domain; Region: H_lectin; pfam09458 292414008939 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13443 292414008940 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 292414008941 gamma subunit interface [polypeptide binding]; other site 292414008942 epsilon subunit interface [polypeptide binding]; other site 292414008943 LBP interface [polypeptide binding]; other site 292414008944 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 292414008945 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 292414008946 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 292414008947 alpha subunit interaction interface [polypeptide binding]; other site 292414008948 Walker A motif; other site 292414008949 ATP binding site [chemical binding]; other site 292414008950 Walker B motif; other site 292414008951 inhibitor binding site; inhibition site 292414008952 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 292414008953 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 292414008954 core domain interface [polypeptide binding]; other site 292414008955 delta subunit interface [polypeptide binding]; other site 292414008956 epsilon subunit interface [polypeptide binding]; other site 292414008957 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 292414008958 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 292414008959 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 292414008960 beta subunit interaction interface [polypeptide binding]; other site 292414008961 Walker A motif; other site 292414008962 ATP binding site [chemical binding]; other site 292414008963 Walker B motif; other site 292414008964 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 292414008965 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 292414008966 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 292414008967 Methyltransferase domain; Region: Methyltransf_23; pfam13489 292414008968 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 292414008969 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 292414008970 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 292414008971 Walker A motif; other site 292414008972 ATP binding site [chemical binding]; other site 292414008973 Walker B motif; other site 292414008974 arginine finger; other site 292414008975 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 292414008976 Walker A motif; other site 292414008977 ATP binding site [chemical binding]; other site 292414008978 Walker B motif; other site 292414008979 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 292414008980 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 292414008981 hypothetical protein; Validated; Region: PRK09039 292414008982 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 292414008983 ligand binding site [chemical binding]; other site 292414008984 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 292414008985 putative active site pocket [active] 292414008986 dimerization interface [polypeptide binding]; other site 292414008987 putative catalytic residue [active] 292414008988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 292414008989 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 292414008990 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 292414008991 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 292414008992 prephenate dehydrogenase; Validated; Region: PRK08507 292414008993 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 292414008994 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 292414008995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414008996 homodimer interface [polypeptide binding]; other site 292414008997 catalytic residue [active] 292414008998 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 292414008999 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 292414009000 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 292414009001 catalytic residue [active] 292414009002 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414009003 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 292414009004 putative DNA binding site [nucleotide binding]; other site 292414009005 putative Zn2+ binding site [ion binding]; other site 292414009006 AsnC family; Region: AsnC_trans_reg; pfam01037 292414009007 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 292414009008 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 292414009009 PA14 domain; Region: PA14; cl08459 292414009010 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 292414009011 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 292414009012 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 292414009013 RNA binding surface [nucleotide binding]; other site 292414009014 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 292414009015 protein-splicing catalytic site; other site 292414009016 thioester formation/cholesterol transfer; other site 292414009017 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 292414009018 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 292414009019 active site 292414009020 catalytic residue [active] 292414009021 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 292414009022 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 292414009023 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 292414009024 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 292414009025 Bacterial transcriptional regulator; Region: IclR; pfam01614 292414009026 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 292414009027 Sulfatase; Region: Sulfatase; cl17466 292414009028 Uncharacterized conserved protein [Function unknown]; Region: COG2308 292414009029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 292414009030 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 292414009031 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 292414009032 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 292414009033 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 292414009034 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 292414009035 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 292414009036 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 292414009037 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 292414009038 RNA binding surface [nucleotide binding]; other site 292414009039 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 292414009040 active site 292414009041 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 292414009042 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 292414009043 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 292414009044 cyclase homology domain; Region: CHD; cd07302 292414009045 nucleotidyl binding site; other site 292414009046 metal binding site [ion binding]; metal-binding site 292414009047 dimer interface [polypeptide binding]; other site 292414009048 BCCT family transporter; Region: BCCT; pfam02028 292414009049 transcription antitermination factor NusB; Region: nusB; TIGR01951 292414009050 putative RNA binding site [nucleotide binding]; other site 292414009051 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 292414009052 homopentamer interface [polypeptide binding]; other site 292414009053 active site 292414009054 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 292414009055 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 292414009056 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 292414009057 dimerization interface [polypeptide binding]; other site 292414009058 active site 292414009059 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 292414009060 Lumazine binding domain; Region: Lum_binding; pfam00677 292414009061 Lumazine binding domain; Region: Lum_binding; pfam00677 292414009062 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 292414009063 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 292414009064 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 292414009065 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 292414009066 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 292414009067 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 292414009068 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 292414009069 catalytic motif [active] 292414009070 Zn binding site [ion binding]; other site 292414009071 RibD C-terminal domain; Region: RibD_C; cl17279 292414009072 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 292414009073 ATP cone domain; Region: ATP-cone; pfam03477 292414009074 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 292414009075 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 292414009076 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 292414009077 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 292414009078 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 292414009079 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 292414009080 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 292414009081 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 292414009082 DNA binding residues [nucleotide binding] 292414009083 DNA primase, catalytic core; Region: dnaG; TIGR01391 292414009084 CHC2 zinc finger; Region: zf-CHC2; cl17510 292414009085 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 292414009086 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 292414009087 active site 292414009088 metal binding site [ion binding]; metal-binding site 292414009089 interdomain interaction site; other site 292414009090 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 292414009091 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 292414009092 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 292414009093 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 292414009094 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 292414009095 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 292414009096 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 292414009097 hydroxyglutarate oxidase; Provisional; Region: PRK11728 292414009098 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414009099 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414009100 CAAX protease self-immunity; Region: Abi; pfam02517 292414009101 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 292414009102 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 292414009103 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 292414009104 NAD(P) binding site [chemical binding]; other site 292414009105 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 292414009106 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 292414009107 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 292414009108 TadE-like protein; Region: TadE; pfam07811 292414009109 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 292414009110 replicative DNA helicase; Provisional; Region: PRK05973 292414009111 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 292414009112 putative efflux protein, MATE family; Region: matE; TIGR00797 292414009113 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 292414009114 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 292414009115 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 292414009116 metal binding site [ion binding]; metal-binding site 292414009117 active site 292414009118 I-site; other site 292414009119 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 292414009120 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 292414009121 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 292414009122 non-specific DNA binding site [nucleotide binding]; other site 292414009123 salt bridge; other site 292414009124 sequence-specific DNA binding site [nucleotide binding]; other site 292414009125 Cupin domain; Region: Cupin_2; cl17218 292414009126 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 292414009127 Pirin-related protein [General function prediction only]; Region: COG1741 292414009128 Pirin; Region: Pirin; pfam02678 292414009129 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 292414009130 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 292414009131 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 292414009132 Coenzyme A binding pocket [chemical binding]; other site 292414009133 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414009134 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414009135 homoserine dehydrogenase; Provisional; Region: PRK06349 292414009136 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 292414009137 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 292414009138 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 292414009139 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 292414009140 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 292414009141 putative active site [active] 292414009142 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 292414009143 DHH family; Region: DHH; pfam01368 292414009144 DHHA1 domain; Region: DHHA1; pfam02272 292414009145 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 292414009146 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414009147 DNA-binding site [nucleotide binding]; DNA binding site 292414009148 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 292414009149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414009150 homodimer interface [polypeptide binding]; other site 292414009151 catalytic residue [active] 292414009152 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 292414009153 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 292414009154 putative [4Fe-4S] binding site [ion binding]; other site 292414009155 putative molybdopterin cofactor binding site [chemical binding]; other site 292414009156 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 292414009157 putative molybdopterin cofactor binding site; other site 292414009158 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 292414009159 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 292414009160 metal binding site [ion binding]; metal-binding site 292414009161 active site 292414009162 I-site; other site 292414009163 Heme NO binding; Region: HNOB; pfam07700 292414009164 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 292414009165 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 292414009166 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 292414009167 motif II; other site 292414009168 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 292414009169 response regulator PleD; Reviewed; Region: pleD; PRK09581 292414009170 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 292414009171 active site 292414009172 phosphorylation site [posttranslational modification] 292414009173 intermolecular recognition site; other site 292414009174 dimerization interface [polypeptide binding]; other site 292414009175 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 292414009176 metal binding site [ion binding]; metal-binding site 292414009177 active site 292414009178 I-site; other site 292414009179 Heavy-metal resistance; Region: Metal_resist; pfam13801 292414009180 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 292414009181 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 292414009182 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 292414009183 DNA binding residues [nucleotide binding] 292414009184 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 292414009185 EF-hand domain pair; Region: EF_hand_5; pfam13499 292414009186 Ca2+ binding site [ion binding]; other site 292414009187 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; cl17302 292414009188 Ca2+ binding site [ion binding]; other site 292414009189 Protein of unknown function (DUF983); Region: DUF983; cl02211 292414009190 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 292414009191 nudix motif; other site 292414009192 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 292414009193 Fatty acid desaturase; Region: FA_desaturase; pfam00487 292414009194 putative di-iron ligands [ion binding]; other site 292414009195 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 292414009196 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 292414009197 non-specific DNA binding site [nucleotide binding]; other site 292414009198 salt bridge; other site 292414009199 sequence-specific DNA binding site [nucleotide binding]; other site 292414009200 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 292414009201 classical (c) SDRs; Region: SDR_c; cd05233 292414009202 NAD(P) binding site [chemical binding]; other site 292414009203 active site 292414009204 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 292414009205 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 292414009206 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 292414009207 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 292414009208 active site 292414009209 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 292414009210 Uncharacterized conserved protein [Function unknown]; Region: COG3246 292414009211 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 292414009212 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 292414009213 conserved cys residue [active] 292414009214 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414009215 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 292414009216 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 292414009217 active site 292414009218 catalytic tetrad [active] 292414009219 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 292414009220 Major Facilitator Superfamily; Region: MFS_1; pfam07690 292414009221 putative substrate translocation pore; other site 292414009222 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 292414009223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414009224 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 292414009225 dimerization interface [polypeptide binding]; other site 292414009226 substrate binding pocket [chemical binding]; other site 292414009227 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 292414009228 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 292414009229 putative NAD(P) binding site [chemical binding]; other site 292414009230 putative active site [active] 292414009231 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 292414009232 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 292414009233 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 292414009234 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 292414009235 active site 292414009236 HIGH motif; other site 292414009237 KMSKS motif; other site 292414009238 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 292414009239 tRNA binding surface [nucleotide binding]; other site 292414009240 anticodon binding site; other site 292414009241 Hemin uptake protein hemP; Region: hemP; pfam10636 292414009242 Imelysin; Region: Peptidase_M75; cl09159 292414009243 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 292414009244 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 292414009245 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 292414009246 heme binding site [chemical binding]; other site 292414009247 ferroxidase diiron center [ion binding]; other site 292414009248 ferroxidase pore; other site 292414009249 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 292414009250 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 292414009251 Imelysin; Region: Peptidase_M75; pfam09375 292414009252 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 292414009253 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 292414009254 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 292414009255 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 292414009256 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 292414009257 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 292414009258 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 292414009259 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 292414009260 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 292414009261 dimer interface [polypeptide binding]; other site 292414009262 [2Fe-2S] cluster binding site [ion binding]; other site 292414009263 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 292414009264 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 292414009265 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 292414009266 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 292414009267 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 292414009268 precorrin-3B synthase; Region: CobG; TIGR02435 292414009269 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 292414009270 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 292414009271 Precorrin-8X methylmutase; Region: CbiC; pfam02570 292414009272 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 292414009273 active site 292414009274 SAM binding site [chemical binding]; other site 292414009275 homodimer interface [polypeptide binding]; other site 292414009276 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 292414009277 active site 292414009278 SAM binding site [chemical binding]; other site 292414009279 homodimer interface [polypeptide binding]; other site 292414009280 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 292414009281 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 292414009282 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 292414009283 active site 292414009284 SAM binding site [chemical binding]; other site 292414009285 putative homodimer interface [polypeptide binding]; other site 292414009286 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 292414009287 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 292414009288 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 292414009289 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 292414009290 active site 292414009291 SAM binding site [chemical binding]; other site 292414009292 homodimer interface [polypeptide binding]; other site 292414009293 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 292414009294 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 292414009295 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 292414009296 catalytic triad [active] 292414009297 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 292414009298 active site 292414009299 SAM binding site [chemical binding]; other site 292414009300 homodimer interface [polypeptide binding]; other site 292414009301 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 292414009302 Probable cobalt transporter subunit (CbtA); Region: CbtA; pfam09490 292414009303 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 292414009304 active site 292414009305 SAM binding site [chemical binding]; other site 292414009306 homodimer interface [polypeptide binding]; other site 292414009307 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 292414009308 kynureninase; Region: kynureninase; TIGR01814 292414009309 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 292414009310 catalytic residue [active] 292414009311 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 292414009312 CheB methylesterase; Region: CheB_methylest; pfam01339 292414009313 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 292414009314 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 292414009315 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 292414009316 S-adenosylmethionine binding site [chemical binding]; other site 292414009317 Protein of unknown function (DUF904); Region: DUF904; pfam06005 292414009318 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 292414009319 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 292414009320 metal binding site [ion binding]; metal-binding site 292414009321 active site 292414009322 I-site; other site 292414009323 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 292414009324 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 292414009325 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 292414009326 NAD(P) binding site [chemical binding]; other site 292414009327 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 292414009328 homotrimer interaction site [polypeptide binding]; other site 292414009329 putative active site [active] 292414009330 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 292414009331 active site 292414009332 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 292414009333 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 292414009334 Walker A/P-loop; other site 292414009335 ATP binding site [chemical binding]; other site 292414009336 Q-loop/lid; other site 292414009337 ABC transporter signature motif; other site 292414009338 Walker B; other site 292414009339 D-loop; other site 292414009340 H-loop/switch region; other site 292414009341 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 292414009342 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 292414009343 Walker A/P-loop; other site 292414009344 ATP binding site [chemical binding]; other site 292414009345 Q-loop/lid; other site 292414009346 ABC transporter signature motif; other site 292414009347 Walker B; other site 292414009348 D-loop; other site 292414009349 H-loop/switch region; other site 292414009350 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 292414009351 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 292414009352 TM-ABC transporter signature motif; other site 292414009353 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 292414009354 TM-ABC transporter signature motif; other site 292414009355 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 292414009356 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 292414009357 putative ligand binding site [chemical binding]; other site 292414009358 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 292414009359 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 292414009360 acyl-activating enzyme (AAE) consensus motif; other site 292414009361 AMP binding site [chemical binding]; other site 292414009362 active site 292414009363 CoA binding site [chemical binding]; other site 292414009364 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 292414009365 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 292414009366 active site 292414009367 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 292414009368 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 292414009369 substrate binding site [chemical binding]; other site 292414009370 oxyanion hole (OAH) forming residues; other site 292414009371 trimer interface [polypeptide binding]; other site 292414009372 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 292414009373 MarR family; Region: MarR; pfam01047 292414009374 classical (c) SDRs; Region: SDR_c; cd05233 292414009375 NAD(P) binding site [chemical binding]; other site 292414009376 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 292414009377 active site 292414009378 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 292414009379 hypothetical protein; Provisional; Region: PRK07236 292414009380 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 292414009381 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 292414009382 active site 292414009383 FMN binding site [chemical binding]; other site 292414009384 substrate binding site [chemical binding]; other site 292414009385 homotetramer interface [polypeptide binding]; other site 292414009386 catalytic residue [active] 292414009387 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 292414009388 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 292414009389 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 292414009390 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 292414009391 putative C-terminal domain interface [polypeptide binding]; other site 292414009392 putative GSH binding site (G-site) [chemical binding]; other site 292414009393 putative dimer interface [polypeptide binding]; other site 292414009394 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 292414009395 putative N-terminal domain interface [polypeptide binding]; other site 292414009396 putative dimer interface [polypeptide binding]; other site 292414009397 putative substrate binding pocket (H-site) [chemical binding]; other site 292414009398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 292414009399 SnoaL-like domain; Region: SnoaL_2; pfam12680 292414009400 transcriptional regulator; Provisional; Region: PRK10632 292414009401 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_2; cd08471 292414009402 putative effector binding pocket; other site 292414009403 putative dimerization interface [polypeptide binding]; other site 292414009404 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 292414009405 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 292414009406 dimerization interface [polypeptide binding]; other site 292414009407 active site 292414009408 L-aspartate oxidase; Provisional; Region: PRK07512 292414009409 L-aspartate oxidase; Provisional; Region: PRK06175 292414009410 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 292414009411 quinolinate synthetase; Provisional; Region: PRK09375 292414009412 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 292414009413 hypothetical protein; Provisional; Region: PRK11622 292414009414 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 292414009415 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 292414009416 putative PBP binding loops; other site 292414009417 ABC-ATPase subunit interface; other site 292414009418 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414009419 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 292414009420 Walker A/P-loop; other site 292414009421 ATP binding site [chemical binding]; other site 292414009422 Q-loop/lid; other site 292414009423 ABC transporter signature motif; other site 292414009424 Walker B; other site 292414009425 D-loop; other site 292414009426 H-loop/switch region; other site 292414009427 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 292414009428 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 292414009429 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 292414009430 ABC transporter; Region: ABC_tran_2; pfam12848 292414009431 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 292414009432 NADH dehydrogenase subunit 6; Provisional; Region: ND6; cl17265 292414009433 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 292414009434 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 292414009435 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 292414009436 active site 292414009437 (T/H)XGH motif; other site 292414009438 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 292414009439 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 292414009440 tellurite resistance protein terB; Region: terB; cd07176 292414009441 putative metal binding site [ion binding]; other site 292414009442 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 292414009443 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 292414009444 active site 292414009445 nucleotide binding site [chemical binding]; other site 292414009446 HIGH motif; other site 292414009447 KMSKS motif; other site 292414009448 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 292414009449 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 292414009450 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 292414009451 Uncharacterized protein family (UPF0160); Region: UPF0160; pfam03690 292414009452 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 292414009453 active site 292414009454 catalytic triad [active] 292414009455 oxyanion hole [active] 292414009456 switch loop; other site 292414009457 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 292414009458 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 292414009459 Walker A/P-loop; other site 292414009460 ATP binding site [chemical binding]; other site 292414009461 Q-loop/lid; other site 292414009462 ABC transporter signature motif; other site 292414009463 Walker B; other site 292414009464 D-loop; other site 292414009465 H-loop/switch region; other site 292414009466 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 292414009467 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 292414009468 Predicted transcriptional regulator [Transcription]; Region: COG1959 292414009469 Transcriptional regulator; Region: Rrf2; cl17282 292414009470 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 292414009471 putative active site pocket [active] 292414009472 dimerization interface [polypeptide binding]; other site 292414009473 putative catalytic residue [active] 292414009474 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 292414009475 Predicted membrane protein [Function unknown]; Region: COG4325 292414009476 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 292414009477 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 292414009478 HIGH motif; other site 292414009479 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 292414009480 active site 292414009481 KMSKS motif; other site 292414009482 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 292414009483 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 292414009484 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 292414009485 NAD synthetase; Provisional; Region: PRK13981 292414009486 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 292414009487 multimer interface [polypeptide binding]; other site 292414009488 active site 292414009489 catalytic triad [active] 292414009490 protein interface 1 [polypeptide binding]; other site 292414009491 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 292414009492 homodimer interface [polypeptide binding]; other site 292414009493 NAD binding pocket [chemical binding]; other site 292414009494 ATP binding pocket [chemical binding]; other site 292414009495 Mg binding site [ion binding]; other site 292414009496 active-site loop [active] 292414009497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 292414009498 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 292414009499 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 292414009500 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 292414009501 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 292414009502 2-isopropylmalate synthase; Validated; Region: PRK00915 292414009503 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 292414009504 active site 292414009505 catalytic residues [active] 292414009506 metal binding site [ion binding]; metal-binding site 292414009507 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 292414009508 metabolite-proton symporter; Region: 2A0106; TIGR00883 292414009509 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 292414009510 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 292414009511 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 292414009512 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 292414009513 D-pathway; other site 292414009514 Putative ubiquinol binding site [chemical binding]; other site 292414009515 Low-spin heme (heme b) binding site [chemical binding]; other site 292414009516 Putative water exit pathway; other site 292414009517 Binuclear center (heme o3/CuB) [ion binding]; other site 292414009518 K-pathway; other site 292414009519 Putative proton exit pathway; other site 292414009520 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 292414009521 Subunit I/III interface [polypeptide binding]; other site 292414009522 Subunit III/IV interface [polypeptide binding]; other site 292414009523 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 292414009524 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 292414009525 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 292414009526 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 292414009527 dimer interface [polypeptide binding]; other site 292414009528 active site 292414009529 metal binding site [ion binding]; metal-binding site 292414009530 glutathione binding site [chemical binding]; other site 292414009531 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 292414009532 HIT family signature motif; other site 292414009533 catalytic residue [active] 292414009534 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 292414009535 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 292414009536 Subunit I/III interface [polypeptide binding]; other site 292414009537 D-pathway; other site 292414009538 Subunit I/VIIc interface [polypeptide binding]; other site 292414009539 Subunit I/IV interface [polypeptide binding]; other site 292414009540 Subunit I/II interface [polypeptide binding]; other site 292414009541 Low-spin heme (heme a) binding site [chemical binding]; other site 292414009542 Subunit I/VIIa interface [polypeptide binding]; other site 292414009543 Subunit I/VIa interface [polypeptide binding]; other site 292414009544 Dimer interface; other site 292414009545 Putative water exit pathway; other site 292414009546 Binuclear center (heme a3/CuB) [ion binding]; other site 292414009547 K-pathway; other site 292414009548 Subunit I/Vb interface [polypeptide binding]; other site 292414009549 Putative proton exit pathway; other site 292414009550 Subunit I/VIb interface; other site 292414009551 Subunit I/VIc interface [polypeptide binding]; other site 292414009552 Electron transfer pathway; other site 292414009553 Subunit I/VIIIb interface [polypeptide binding]; other site 292414009554 Subunit I/VIIb interface [polypeptide binding]; other site 292414009555 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 292414009556 Yqey-like protein; Region: YqeY; pfam09424 292414009557 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 292414009558 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 292414009559 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 292414009560 catalytic site [active] 292414009561 subunit interface [polypeptide binding]; other site 292414009562 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 292414009563 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 292414009564 DXD motif; other site 292414009565 Transcriptional regulators [Transcription]; Region: GntR; COG1802 292414009566 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414009567 DNA-binding site [nucleotide binding]; DNA binding site 292414009568 FCD domain; Region: FCD; pfam07729 292414009569 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 292414009570 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 292414009571 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 292414009572 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 292414009573 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 292414009574 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 292414009575 catalytic residue [active] 292414009576 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414009577 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 292414009578 putative DNA binding site [nucleotide binding]; other site 292414009579 putative Zn2+ binding site [ion binding]; other site 292414009580 AsnC family; Region: AsnC_trans_reg; pfam01037 292414009581 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414009582 AsnC family; Region: AsnC_trans_reg; pfam01037 292414009583 ketol-acid reductoisomerase; Provisional; Region: PRK05479 292414009584 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 292414009585 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 292414009586 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 292414009587 EamA-like transporter family; Region: EamA; pfam00892 292414009588 EamA-like transporter family; Region: EamA; pfam00892 292414009589 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 292414009590 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 292414009591 active site 292414009592 substrate binding site [chemical binding]; other site 292414009593 metal binding site [ion binding]; metal-binding site 292414009594 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 292414009595 dihydropteroate synthase; Region: DHPS; TIGR01496 292414009596 substrate binding pocket [chemical binding]; other site 292414009597 dimer interface [polypeptide binding]; other site 292414009598 inhibitor binding site; inhibition site 292414009599 Dihydroneopterin aldolase; Region: FolB; smart00905 292414009600 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 292414009601 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 292414009602 pyruvate phosphate dikinase; Provisional; Region: PRK09279 292414009603 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 292414009604 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 292414009605 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 292414009606 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 292414009607 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 292414009608 dimer interface [polypeptide binding]; other site 292414009609 motif 1; other site 292414009610 active site 292414009611 motif 2; other site 292414009612 motif 3; other site 292414009613 Sporulation related domain; Region: SPOR; cl10051 292414009614 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 292414009615 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 292414009616 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 292414009617 C factor cell-cell signaling protein; Provisional; Region: PRK09009 292414009618 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 292414009619 NADP binding site [chemical binding]; other site 292414009620 homodimer interface [polypeptide binding]; other site 292414009621 active site 292414009622 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 292414009623 EcsC protein family; Region: EcsC; pfam12787 292414009624 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414009625 Coenzyme A binding pocket [chemical binding]; other site 292414009626 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 292414009627 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 292414009628 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 292414009629 trimer interface [polypeptide binding]; other site 292414009630 active site 292414009631 substrate binding site [chemical binding]; other site 292414009632 CoA binding site [chemical binding]; other site 292414009633 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 292414009634 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 292414009635 Sulfate transporter family; Region: Sulfate_transp; pfam00916 292414009636 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 292414009637 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 292414009638 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 292414009639 active site 292414009640 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 292414009641 Fasciclin domain; Region: Fasciclin; pfam02469 292414009642 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 292414009643 FAD binding domain; Region: FAD_binding_4; pfam01565 292414009644 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 292414009645 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 292414009646 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 292414009647 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 292414009648 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 292414009649 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 292414009650 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 292414009651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414009652 catalytic residue [active] 292414009653 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 292414009654 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 292414009655 Subunit III/VIIa interface [polypeptide binding]; other site 292414009656 Phospholipid binding site [chemical binding]; other site 292414009657 Subunit I/III interface [polypeptide binding]; other site 292414009658 Subunit III/VIb interface [polypeptide binding]; other site 292414009659 Subunit III/VIa interface; other site 292414009660 Subunit III/Vb interface [polypeptide binding]; other site 292414009661 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; pfam04442 292414009662 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 292414009663 UbiA prenyltransferase family; Region: UbiA; pfam01040 292414009664 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 292414009665 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 292414009666 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 292414009667 protease TldD; Provisional; Region: tldD; PRK10735 292414009668 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 292414009669 DNA protecting protein DprA; Region: dprA; TIGR00732 292414009670 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 292414009671 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 292414009672 active site 292414009673 interdomain interaction site; other site 292414009674 putative metal-binding site [ion binding]; other site 292414009675 nucleotide binding site [chemical binding]; other site 292414009676 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 292414009677 domain I; other site 292414009678 DNA binding groove [nucleotide binding] 292414009679 phosphate binding site [ion binding]; other site 292414009680 domain II; other site 292414009681 domain III; other site 292414009682 nucleotide binding site [chemical binding]; other site 292414009683 catalytic site [active] 292414009684 domain IV; other site 292414009685 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 292414009686 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 292414009687 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 292414009688 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 292414009689 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 292414009690 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 292414009691 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 292414009692 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 292414009693 N-acetyl-D-glucosamine binding site [chemical binding]; other site 292414009694 catalytic residue [active] 292414009695 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 292414009696 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 292414009697 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 292414009698 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 292414009699 BON domain; Region: BON; pfam04972 292414009700 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 292414009701 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 292414009702 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 292414009703 ligand binding site [chemical binding]; other site 292414009704 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 292414009705 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 292414009706 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 292414009707 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 292414009708 ATP binding site [chemical binding]; other site 292414009709 Walker A motif; other site 292414009710 hexamer interface [polypeptide binding]; other site 292414009711 Walker B motif; other site 292414009712 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 292414009713 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 292414009714 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 292414009715 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 292414009716 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 292414009717 binding surface 292414009718 TPR motif; other site 292414009719 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 292414009720 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 292414009721 TPR motif; other site 292414009722 RNA helicase; Region: RNA_helicase; pfam00910 292414009723 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 292414009724 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 292414009725 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 292414009726 homodimer interface [polypeptide binding]; other site 292414009727 NADP binding site [chemical binding]; other site 292414009728 substrate binding site [chemical binding]; other site 292414009729 Chorismate mutase type II; Region: CM_2; smart00830 292414009730 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 292414009731 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 292414009732 Potassium binding sites [ion binding]; other site 292414009733 Cesium cation binding sites [ion binding]; other site 292414009734 MOSC domain; Region: MOSC; pfam03473 292414009735 FtsH Extracellular; Region: FtsH_ext; pfam06480 292414009736 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 292414009737 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 292414009738 Walker A motif; other site 292414009739 ATP binding site [chemical binding]; other site 292414009740 Walker B motif; other site 292414009741 arginine finger; other site 292414009742 Peptidase family M41; Region: Peptidase_M41; pfam01434 292414009743 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 292414009744 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 292414009745 Ligand Binding Site [chemical binding]; other site 292414009746 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 292414009747 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 292414009748 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 292414009749 ligand binding site [chemical binding]; other site 292414009750 translocation protein TolB; Provisional; Region: tolB; PRK05137 292414009751 TolB amino-terminal domain; Region: TolB_N; pfam04052 292414009752 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 292414009753 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 292414009754 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 292414009755 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 292414009756 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 292414009757 TolR protein; Region: tolR; TIGR02801 292414009758 TolQ protein; Region: tolQ; TIGR02796 292414009759 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 292414009760 active site 292414009761 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 292414009762 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 292414009763 Walker A motif; other site 292414009764 ATP binding site [chemical binding]; other site 292414009765 Walker B motif; other site 292414009766 arginine finger; other site 292414009767 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 292414009768 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 292414009769 RuvA N terminal domain; Region: RuvA_N; pfam01330 292414009770 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 292414009771 active site 292414009772 putative DNA-binding cleft [nucleotide binding]; other site 292414009773 dimer interface [polypeptide binding]; other site 292414009774 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 292414009775 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 292414009776 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 292414009777 S-adenosylmethionine binding site [chemical binding]; other site 292414009778 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 292414009779 Major Facilitator Superfamily; Region: MFS_1; pfam07690 292414009780 primosome assembly protein PriA; Validated; Region: PRK05580 292414009781 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 292414009782 ATP binding site [chemical binding]; other site 292414009783 putative Mg++ binding site [ion binding]; other site 292414009784 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 292414009785 active site 292414009786 intersubunit interactions; other site 292414009787 catalytic residue [active] 292414009788 Protein of unknown function, DUF484; Region: DUF484; cl17449 292414009789 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 292414009790 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 292414009791 active site 292414009792 DNA binding site [nucleotide binding] 292414009793 Int/Topo IB signature motif; other site 292414009794 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 292414009795 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 292414009796 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 292414009797 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 292414009798 dimerization interface 3.5A [polypeptide binding]; other site 292414009799 active site 292414009800 YcjX-like family, DUF463; Region: DUF463; pfam04317 292414009801 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 292414009802 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414009803 Coenzyme A binding pocket [chemical binding]; other site 292414009804 hypothetical protein; Provisional; Region: PRK05415 292414009805 Domain of unknown function (DUF697); Region: DUF697; pfam05128 292414009806 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 292414009807 heme-binding site [chemical binding]; other site 292414009808 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 292414009809 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 292414009810 active site 292414009811 HIGH motif; other site 292414009812 nucleotide binding site [chemical binding]; other site 292414009813 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 292414009814 active site 292414009815 KMSKS motif; other site 292414009816 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 292414009817 tRNA binding surface [nucleotide binding]; other site 292414009818 anticodon binding site; other site 292414009819 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 292414009820 glycine dehydrogenase; Provisional; Region: PRK05367 292414009821 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 292414009822 tetramer interface [polypeptide binding]; other site 292414009823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414009824 catalytic residue [active] 292414009825 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 292414009826 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414009827 tetramer interface [polypeptide binding]; other site 292414009828 catalytic residue [active] 292414009829 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 292414009830 lipoyl attachment site [posttranslational modification]; other site 292414009831 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 292414009832 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 292414009833 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 292414009834 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 292414009835 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 292414009836 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 292414009837 Surface antigen; Region: Bac_surface_Ag; pfam01103 292414009838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 292414009839 Family of unknown function (DUF490); Region: DUF490; pfam04357 292414009840 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 292414009841 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 292414009842 active site 292414009843 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 292414009844 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 292414009845 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 292414009846 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 292414009847 active site 292414009848 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 292414009849 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 292414009850 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 292414009851 putative NADP binding site [chemical binding]; other site 292414009852 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 292414009853 active site 292414009854 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 292414009855 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 292414009856 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 292414009857 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 292414009858 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 292414009859 Probable Catalytic site; other site 292414009860 metal-binding site 292414009861 putative formyltransferase; Provisional; Region: PRK06988 292414009862 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 292414009863 active site 292414009864 substrate binding site [chemical binding]; other site 292414009865 cosubstrate binding site; other site 292414009866 catalytic site [active] 292414009867 C-terminal subdomain of the Formyltransferase-like domain found in OzmH-like proteins; Region: FMT_C_OzmH_like; cd08700 292414009868 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 292414009869 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 292414009870 acyl-activating enzyme (AAE) consensus motif; other site 292414009871 natural product biosynthesis luciferase-like monooxygenase domain; Region: seco_metab_LLM; TIGR04020 292414009872 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 292414009873 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 292414009874 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 292414009875 AMP binding site [chemical binding]; other site 292414009876 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 292414009877 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 292414009878 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 292414009879 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 292414009880 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 292414009881 DXD motif; other site 292414009882 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 292414009883 putative ADP-binding pocket [chemical binding]; other site 292414009884 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 292414009885 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 292414009886 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 292414009887 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 292414009888 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 292414009889 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 292414009890 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 292414009891 G2 box; other site 292414009892 Switch I region; other site 292414009893 G3 box; other site 292414009894 Switch II region; other site 292414009895 Bacterial sugar transferase; Region: Bac_transf; pfam02397 292414009896 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 292414009897 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 292414009898 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414009899 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 292414009900 TIGR03084 family protein; Region: TIGR03084 292414009901 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 292414009902 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 292414009903 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 292414009904 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 292414009905 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 292414009906 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 292414009907 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 292414009908 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 292414009909 Walker A/P-loop; other site 292414009910 ATP binding site [chemical binding]; other site 292414009911 Q-loop/lid; other site 292414009912 ABC transporter signature motif; other site 292414009913 Walker B; other site 292414009914 D-loop; other site 292414009915 H-loop/switch region; other site 292414009916 TOBE domain; Region: TOBE_2; pfam08402 292414009917 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 292414009918 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 292414009919 Walker A/P-loop; other site 292414009920 ATP binding site [chemical binding]; other site 292414009921 Q-loop/lid; other site 292414009922 ABC transporter signature motif; other site 292414009923 Walker B; other site 292414009924 D-loop; other site 292414009925 H-loop/switch region; other site 292414009926 TOBE domain; Region: TOBE_2; pfam08402 292414009927 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 292414009928 dimer interface [polypeptide binding]; other site 292414009929 conserved gate region; other site 292414009930 putative PBP binding loops; other site 292414009931 ABC-ATPase subunit interface; other site 292414009932 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 292414009933 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 292414009934 dimer interface [polypeptide binding]; other site 292414009935 conserved gate region; other site 292414009936 ABC-ATPase subunit interface; other site 292414009937 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 292414009938 Penicillinase repressor; Region: Pencillinase_R; pfam03965 292414009939 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 292414009940 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 292414009941 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 292414009942 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 292414009943 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 292414009944 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 292414009945 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 292414009946 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 292414009947 Ligand binding site [chemical binding]; other site 292414009948 Electron transfer flavoprotein domain; Region: ETF; pfam01012 292414009949 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 292414009950 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 292414009951 short chain dehydrogenase; Provisional; Region: PRK05993 292414009952 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 292414009953 NADP binding site [chemical binding]; other site 292414009954 active site 292414009955 steroid binding site; other site 292414009956 Bacterial SH3 domain homologues; Region: SH3b; smart00287 292414009957 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 292414009958 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 292414009959 CAP-like domain; other site 292414009960 active site 292414009961 primary dimer interface [polypeptide binding]; other site 292414009962 elongation factor Tu; Reviewed; Region: PRK00049 292414009963 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 292414009964 G1 box; other site 292414009965 GEF interaction site [polypeptide binding]; other site 292414009966 GTP/Mg2+ binding site [chemical binding]; other site 292414009967 Switch I region; other site 292414009968 G2 box; other site 292414009969 G3 box; other site 292414009970 Switch II region; other site 292414009971 G4 box; other site 292414009972 G5 box; other site 292414009973 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 292414009974 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 292414009975 Antibiotic Binding Site [chemical binding]; other site 292414009976 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 292414009977 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 292414009978 putative acyl-acceptor binding pocket; other site 292414009979 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 292414009980 dimerization domain swap beta strand [polypeptide binding]; other site 292414009981 regulatory protein interface [polypeptide binding]; other site 292414009982 active site 292414009983 regulatory phosphorylation site [posttranslational modification]; other site 292414009984 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 292414009985 active pocket/dimerization site; other site 292414009986 active site 292414009987 phosphorylation site [posttranslational modification] 292414009988 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 292414009989 AAA domain; Region: AAA_18; pfam13238 292414009990 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 292414009991 Hpr binding site; other site 292414009992 active site 292414009993 homohexamer subunit interaction site [polypeptide binding]; other site 292414009994 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 292414009995 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414009996 HAMP domain; Region: HAMP; pfam00672 292414009997 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 292414009998 dimer interface [polypeptide binding]; other site 292414009999 phosphorylation site [posttranslational modification] 292414010000 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 292414010001 ATP binding site [chemical binding]; other site 292414010002 Mg2+ binding site [ion binding]; other site 292414010003 G-X-G motif; other site 292414010004 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 292414010005 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 292414010006 active site 292414010007 phosphorylation site [posttranslational modification] 292414010008 intermolecular recognition site; other site 292414010009 dimerization interface [polypeptide binding]; other site 292414010010 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 292414010011 DNA binding site [nucleotide binding] 292414010012 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 292414010013 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 292414010014 active site 292414010015 substrate-binding site [chemical binding]; other site 292414010016 metal-binding site [ion binding] 292414010017 ATP binding site [chemical binding]; other site 292414010018 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 292414010019 active site 292414010020 catalytic triad [active] 292414010021 oxyanion hole [active] 292414010022 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 292414010023 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 292414010024 active site 292414010025 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 292414010026 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 292414010027 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 292414010028 Predicted flavoprotein [General function prediction only]; Region: COG0431 292414010029 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 292414010030 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 292414010031 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 292414010032 ligand binding site [chemical binding]; other site 292414010033 Predicted transcriptional regulator [Transcription]; Region: COG2378 292414010034 HTH domain; Region: HTH_11; pfam08279 292414010035 WYL domain; Region: WYL; pfam13280 292414010036 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414010037 Helix-turn-helix domain; Region: HTH_18; pfam12833 292414010038 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 292414010039 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 292414010040 DNA binding site [nucleotide binding] 292414010041 active site 292414010042 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 292414010043 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 292414010044 minor groove reading motif; other site 292414010045 helix-hairpin-helix signature motif; other site 292414010046 substrate binding pocket [chemical binding]; other site 292414010047 active site 292414010048 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 292414010049 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...; Region: adenosine_kinase; cd01168 292414010050 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 292414010051 substrate binding site [chemical binding]; other site 292414010052 ATP binding site [chemical binding]; other site 292414010053 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 292414010054 dimerization interface [polypeptide binding]; other site 292414010055 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414010056 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414010057 dimer interface [polypeptide binding]; other site 292414010058 putative CheW interface [polypeptide binding]; other site 292414010059 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 292414010060 MarR family; Region: MarR_2; cl17246 292414010061 EamA-like transporter family; Region: EamA; pfam00892 292414010062 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 292414010063 putative active site [active] 292414010064 Ap4A binding site [chemical binding]; other site 292414010065 nudix motif; other site 292414010066 putative metal binding site [ion binding]; other site 292414010067 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 292414010068 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 292414010069 active site 292414010070 FMN binding site [chemical binding]; other site 292414010071 2,4-decadienoyl-CoA binding site; other site 292414010072 catalytic residue [active] 292414010073 4Fe-4S cluster binding site [ion binding]; other site 292414010074 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 292414010075 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 292414010076 Nitronate monooxygenase; Region: NMO; pfam03060 292414010077 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 292414010078 FMN binding site [chemical binding]; other site 292414010079 substrate binding site [chemical binding]; other site 292414010080 putative catalytic residue [active] 292414010081 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414010082 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414010083 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 292414010084 putative effector binding pocket; other site 292414010085 dimerization interface [polypeptide binding]; other site 292414010086 NIPSNAP; Region: NIPSNAP; pfam07978 292414010087 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 292414010088 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 292414010089 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 292414010090 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 292414010091 ligand binding site [chemical binding]; other site 292414010092 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 292414010093 PA26 p53-induced protein (sestrin); Region: PA26; pfam04636 292414010094 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 292414010095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414010096 Coenzyme A binding pocket [chemical binding]; other site 292414010097 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 292414010098 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 292414010099 putative MPT binding site; other site 292414010100 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 292414010101 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 292414010102 active site 292414010103 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 292414010104 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 292414010105 S-adenosylmethionine binding site [chemical binding]; other site 292414010106 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 292414010107 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 292414010108 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 292414010109 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 292414010110 catalytic triad [active] 292414010111 dimer interface [polypeptide binding]; other site 292414010112 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 292414010113 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 292414010114 aromatic arch; other site 292414010115 DCoH dimer interaction site [polypeptide binding]; other site 292414010116 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 292414010117 DCoH tetramer interaction site [polypeptide binding]; other site 292414010118 substrate binding site [chemical binding]; other site 292414010119 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 292414010120 Protein of unknown function, DUF482; Region: DUF482; pfam04339 292414010121 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 292414010122 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 292414010123 active site 292414010124 catalytic site [active] 292414010125 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 292414010126 homotrimer interaction site [polypeptide binding]; other site 292414010127 putative active site [active] 292414010128 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 292414010129 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 292414010130 HlyD family secretion protein; Region: HlyD_3; pfam13437 292414010131 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 292414010132 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 292414010133 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 292414010134 Walker A/P-loop; other site 292414010135 ATP binding site [chemical binding]; other site 292414010136 Q-loop/lid; other site 292414010137 ABC transporter signature motif; other site 292414010138 Walker B; other site 292414010139 D-loop; other site 292414010140 H-loop/switch region; other site 292414010141 VacJ like lipoprotein; Region: VacJ; cl01073 292414010142 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 292414010143 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 292414010144 SmpB-tmRNA interface; other site 292414010145 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414010146 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 292414010147 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 292414010148 non-specific DNA binding site [nucleotide binding]; other site 292414010149 salt bridge; other site 292414010150 sequence-specific DNA binding site [nucleotide binding]; other site 292414010151 Cupin domain; Region: Cupin_2; pfam07883 292414010152 Benzoate membrane transport protein; Region: BenE; pfam03594 292414010153 benzoate transporter; Region: benE; TIGR00843 292414010154 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 292414010155 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 292414010156 Core-2/I-Branching enzyme; Region: Branch; pfam02485 292414010157 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414010158 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 292414010159 substrate binding pocket [chemical binding]; other site 292414010160 membrane-bound complex binding site; other site 292414010161 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 292414010162 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 292414010163 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 292414010164 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 292414010165 active site 292414010166 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 292414010167 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 292414010168 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 292414010169 tetramerization interface [polypeptide binding]; other site 292414010170 NAD(P) binding site [chemical binding]; other site 292414010171 catalytic residues [active] 292414010172 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 292414010173 heme-binding site [chemical binding]; other site 292414010174 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 292414010175 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414010176 EamA-like transporter family; Region: EamA; pfam00892 292414010177 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 292414010178 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 292414010179 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 292414010180 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 292414010181 putative dimer interface [polypeptide binding]; other site 292414010182 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 292414010183 active site 292414010184 substrate binding sites [chemical binding]; other site 292414010185 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 292414010186 Cysteine-rich domain; Region: CCG; pfam02754 292414010187 Cysteine-rich domain; Region: CCG; pfam02754 292414010188 FAD binding domain; Region: FAD_binding_4; pfam01565 292414010189 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 292414010190 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 292414010191 FAD binding domain; Region: FAD_binding_4; pfam01565 292414010192 Protein of unknown function, DUF599; Region: DUF599; pfam04654 292414010193 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 292414010194 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 292414010195 Mechanosensitive ion channel; Region: MS_channel; pfam00924 292414010196 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 292414010197 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 292414010198 substrate binding site [chemical binding]; other site 292414010199 ligand binding site [chemical binding]; other site 292414010200 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 292414010201 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 292414010202 substrate binding site [chemical binding]; other site 292414010203 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 292414010204 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 292414010205 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 292414010206 dimer interface [polypeptide binding]; other site 292414010207 motif 1; other site 292414010208 active site 292414010209 motif 2; other site 292414010210 motif 3; other site 292414010211 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 292414010212 cyclase homology domain; Region: CHD; cd07302 292414010213 nucleotidyl binding site; other site 292414010214 metal binding site [ion binding]; metal-binding site 292414010215 dimer interface [polypeptide binding]; other site 292414010216 2TM domain; Region: 2TM; pfam13239 292414010217 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 292414010218 23S rRNA binding site [nucleotide binding]; other site 292414010219 L21 binding site [polypeptide binding]; other site 292414010220 L13 binding site [polypeptide binding]; other site 292414010221 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 292414010222 pyruvate kinase; Provisional; Region: PRK06247 292414010223 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 292414010224 domain interfaces; other site 292414010225 active site 292414010226 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 292414010227 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 292414010228 NAD(P) binding site [chemical binding]; other site 292414010229 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 292414010230 COQ9; Region: COQ9; pfam08511 292414010231 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 292414010232 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 292414010233 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 292414010234 GIY-YIG motif/motif A; other site 292414010235 active site 292414010236 catalytic site [active] 292414010237 putative DNA binding site [nucleotide binding]; other site 292414010238 metal binding site [ion binding]; metal-binding site 292414010239 UvrB/uvrC motif; Region: UVR; pfam02151 292414010240 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 292414010241 short chain dehydrogenase; Provisional; Region: PRK09134 292414010242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 292414010243 NAD(P) binding site [chemical binding]; other site 292414010244 active site 292414010245 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 292414010246 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 292414010247 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 292414010248 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 292414010249 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 292414010250 tandem repeat interface [polypeptide binding]; other site 292414010251 oligomer interface [polypeptide binding]; other site 292414010252 active site residues [active] 292414010253 ABC-2 type transporter; Region: ABC2_membrane; cl17235 292414010254 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 292414010255 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 292414010256 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 292414010257 Walker A/P-loop; other site 292414010258 ATP binding site [chemical binding]; other site 292414010259 Q-loop/lid; other site 292414010260 ABC transporter signature motif; other site 292414010261 Walker B; other site 292414010262 D-loop; other site 292414010263 H-loop/switch region; other site 292414010264 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 292414010265 putative hydrophobic ligand binding site [chemical binding]; other site 292414010266 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 292414010267 CoA-transferase family III; Region: CoA_transf_3; pfam02515 292414010268 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 292414010269 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 292414010270 substrate binding site [chemical binding]; other site 292414010271 active site 292414010272 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 292414010273 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; cl17708 292414010274 domain interfaces; other site 292414010275 active site 292414010276 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 292414010277 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 292414010278 active site 292414010279 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 292414010280 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 292414010281 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 292414010282 classical (c) SDRs; Region: SDR_c; cd05233 292414010283 NAD(P) binding site [chemical binding]; other site 292414010284 active site 292414010285 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 292414010286 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 292414010287 S-adenosylmethionine binding site [chemical binding]; other site 292414010288 Uncharacterized conserved protein [Function unknown]; Region: COG2127 292414010289 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 292414010290 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 292414010291 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 292414010292 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 292414010293 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 292414010294 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 292414010295 metal-binding site [ion binding] 292414010296 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 292414010297 Soluble P-type ATPase [General function prediction only]; Region: COG4087 292414010298 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 292414010299 FixH; Region: FixH; pfam05751 292414010300 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 292414010301 4Fe-4S binding domain; Region: Fer4_5; pfam12801 292414010302 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 292414010303 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 292414010304 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 292414010305 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414010306 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 292414010307 dimerization interface [polypeptide binding]; other site 292414010308 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 292414010309 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 292414010310 Cytochrome c; Region: Cytochrom_C; pfam00034 292414010311 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 292414010312 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 292414010313 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 292414010314 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 292414010315 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 292414010316 Low-spin heme binding site [chemical binding]; other site 292414010317 Putative water exit pathway; other site 292414010318 Binuclear center (active site) [active] 292414010319 Putative proton exit pathway; other site 292414010320 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 292414010321 Ligand Binding Site [chemical binding]; other site 292414010322 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 292414010323 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 292414010324 ligand binding site [chemical binding]; other site 292414010325 flexible hinge region; other site 292414010326 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 292414010327 putative switch regulator; other site 292414010328 non-specific DNA interactions [nucleotide binding]; other site 292414010329 DNA binding site [nucleotide binding] 292414010330 sequence specific DNA binding site [nucleotide binding]; other site 292414010331 putative cAMP binding site [chemical binding]; other site 292414010332 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 292414010333 HemN C-terminal domain; Region: HemN_C; pfam06969 292414010334 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 292414010335 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414010336 Walker A/P-loop; other site 292414010337 ATP binding site [chemical binding]; other site 292414010338 Q-loop/lid; other site 292414010339 ABC transporter signature motif; other site 292414010340 Walker B; other site 292414010341 D-loop; other site 292414010342 H-loop/switch region; other site 292414010343 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 292414010344 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414010345 Walker A/P-loop; other site 292414010346 ATP binding site [chemical binding]; other site 292414010347 Q-loop/lid; other site 292414010348 ABC transporter signature motif; other site 292414010349 Walker B; other site 292414010350 D-loop; other site 292414010351 H-loop/switch region; other site 292414010352 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414010353 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 292414010354 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 292414010355 dimer interface [polypeptide binding]; other site 292414010356 conserved gate region; other site 292414010357 putative PBP binding loops; other site 292414010358 ABC-ATPase subunit interface; other site 292414010359 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 292414010360 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 292414010361 dimer interface [polypeptide binding]; other site 292414010362 conserved gate region; other site 292414010363 putative PBP binding loops; other site 292414010364 ABC-ATPase subunit interface; other site 292414010365 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 292414010366 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 292414010367 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 292414010368 Cytochrome c; Region: Cytochrom_C; cl11414 292414010369 prephenate dehydratase; Provisional; Region: PRK11899 292414010370 Prephenate dehydratase; Region: PDT; pfam00800 292414010371 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 292414010372 putative L-Phe binding site [chemical binding]; other site 292414010373 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 292414010374 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 292414010375 Recombination protein O N terminal; Region: RecO_N; pfam11967 292414010376 Recombination protein O C terminal; Region: RecO_C; pfam02565 292414010377 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 292414010378 GTPase Era; Reviewed; Region: era; PRK00089 292414010379 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 292414010380 G1 box; other site 292414010381 GTP/Mg2+ binding site [chemical binding]; other site 292414010382 Switch I region; other site 292414010383 G2 box; other site 292414010384 Switch II region; other site 292414010385 G3 box; other site 292414010386 G4 box; other site 292414010387 G5 box; other site 292414010388 KH domain; Region: KH_2; pfam07650 292414010389 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 292414010390 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 292414010391 dimerization interface [polypeptide binding]; other site 292414010392 active site 292414010393 metal binding site [ion binding]; metal-binding site 292414010394 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 292414010395 dsRNA binding site [nucleotide binding]; other site 292414010396 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 292414010397 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 292414010398 Catalytic site [active] 292414010399 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 292414010400 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 292414010401 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...; Region: PNPsynthase; cd00003 292414010402 active site 292414010403 hydrophilic channel; other site 292414010404 dimerization interface [polypeptide binding]; other site 292414010405 catalytic residues [active] 292414010406 active site lid [active] 292414010407 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 292414010408 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 292414010409 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 292414010410 Zn2+ binding site [ion binding]; other site 292414010411 Mg2+ binding site [ion binding]; other site 292414010412 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 292414010413 synthetase active site [active] 292414010414 NTP binding site [chemical binding]; other site 292414010415 metal binding site [ion binding]; metal-binding site 292414010416 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 292414010417 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 292414010418 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 292414010419 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 292414010420 catalytic center binding site [active] 292414010421 ATP binding site [chemical binding]; other site 292414010422 Uncharacterized conserved protein [Function unknown]; Region: COG1432 292414010423 LabA_like proteins; Region: LabA; cd10911 292414010424 putative metal binding site [ion binding]; other site 292414010425 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 292414010426 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 292414010427 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 292414010428 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 292414010429 Methyltransferase domain; Region: Methyltransf_23; pfam13489 292414010430 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 292414010431 S-adenosylmethionine binding site [chemical binding]; other site 292414010432 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 292414010433 RNA/DNA hybrid binding site [nucleotide binding]; other site 292414010434 active site 292414010435 Predicted membrane protein [Function unknown]; Region: COG2860 292414010436 UPF0126 domain; Region: UPF0126; pfam03458 292414010437 UPF0126 domain; Region: UPF0126; pfam03458 292414010438 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 292414010439 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 292414010440 putative active site [active] 292414010441 substrate binding site [chemical binding]; other site 292414010442 putative cosubstrate binding site; other site 292414010443 catalytic site [active] 292414010444 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 292414010445 substrate binding site [chemical binding]; other site 292414010446 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 292414010447 active site 292414010448 catalytic residues [active] 292414010449 metal binding site [ion binding]; metal-binding site 292414010450 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 292414010451 active site 292414010452 catalytic residues [active] 292414010453 metal binding site [ion binding]; metal-binding site 292414010454 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 292414010455 active site 292414010456 catalytic residues [active] 292414010457 metal binding site [ion binding]; metal-binding site 292414010458 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 292414010459 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 292414010460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414010461 homodimer interface [polypeptide binding]; other site 292414010462 catalytic residue [active] 292414010463 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 292414010464 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 292414010465 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 292414010466 putative dimer interface [polypeptide binding]; other site 292414010467 N-terminal domain interface [polypeptide binding]; other site 292414010468 putative substrate binding pocket (H-site) [chemical binding]; other site 292414010469 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 292414010470 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 292414010471 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414010472 homodimer interface [polypeptide binding]; other site 292414010473 catalytic residue [active] 292414010474 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 292414010475 Transglycosylase SLT domain; Region: SLT_2; pfam13406 292414010476 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 292414010477 N-acetyl-D-glucosamine binding site [chemical binding]; other site 292414010478 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 292414010479 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 292414010480 AAA domain; Region: AAA_23; pfam13476 292414010481 Walker A/P-loop; other site 292414010482 ATP binding site [chemical binding]; other site 292414010483 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 292414010484 Walker B; other site 292414010485 D-loop; other site 292414010486 H-loop/switch region; other site 292414010487 aspartate aminotransferase; Provisional; Region: PRK05764 292414010488 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 292414010489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414010490 homodimer interface [polypeptide binding]; other site 292414010491 catalytic residue [active] 292414010492 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 292414010493 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414010494 DNA-binding site [nucleotide binding]; DNA binding site 292414010495 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 292414010496 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 292414010497 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 292414010498 Walker A/P-loop; other site 292414010499 ATP binding site [chemical binding]; other site 292414010500 Q-loop/lid; other site 292414010501 ABC transporter signature motif; other site 292414010502 Walker B; other site 292414010503 D-loop; other site 292414010504 H-loop/switch region; other site 292414010505 F0F1 ATP synthase subunit B; Provisional; Region: PRK13455 292414010506 F0F1 ATP synthase subunit B'; Provisional; Region: PRK13454 292414010507 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 292414010508 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 292414010509 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 292414010510 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 292414010511 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414010512 EamA-like transporter family; Region: EamA; pfam00892 292414010513 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 292414010514 dimerization interface [polypeptide binding]; other site 292414010515 putative DNA binding site [nucleotide binding]; other site 292414010516 putative Zn2+ binding site [ion binding]; other site 292414010517 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414010518 EamA-like transporter family; Region: EamA; pfam00892 292414010519 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414010520 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414010521 LysR substrate binding domain; Region: LysR_substrate; pfam03466 292414010522 dimerization interface [polypeptide binding]; other site 292414010523 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 292414010524 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 292414010525 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 292414010526 putative deacylase active site [active] 292414010527 signal recognition particle protein; Provisional; Region: PRK10867 292414010528 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 292414010529 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 292414010530 P loop; other site 292414010531 GTP binding site [chemical binding]; other site 292414010532 Signal peptide binding domain; Region: SRP_SPB; pfam02978 292414010533 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 292414010534 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 292414010535 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 292414010536 chorismate mutase; Provisional; Region: PRK09239 292414010537 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 292414010538 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 292414010539 putative FMN binding site [chemical binding]; other site 292414010540 RimM N-terminal domain; Region: RimM; pfam01782 292414010541 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 292414010542 PRC-barrel domain; Region: PRC; pfam05239 292414010543 Phosphotransferase enzyme family; Region: APH; pfam01636 292414010544 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 292414010545 Uncharacterized conserved protein [Function unknown]; Region: COG3422 292414010546 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 292414010547 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 292414010548 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 292414010549 DNA binding residues [nucleotide binding] 292414010550 putative dimer interface [polypeptide binding]; other site 292414010551 putative metal binding residues [ion binding]; other site 292414010552 Major Facilitator Superfamily; Region: MFS_1; pfam07690 292414010553 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 292414010554 putative substrate translocation pore; other site 292414010555 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 292414010556 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 292414010557 ATPase MipZ; Region: MipZ; pfam09140 292414010558 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 292414010559 P-loop; other site 292414010560 Magnesium ion binding site [ion binding]; other site 292414010561 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 292414010562 Magnesium ion binding site [ion binding]; other site 292414010563 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 292414010564 cyclase homology domain; Region: CHD; cd07302 292414010565 nucleotidyl binding site; other site 292414010566 metal binding site [ion binding]; metal-binding site 292414010567 dimer interface [polypeptide binding]; other site 292414010568 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 292414010569 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 292414010570 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 292414010571 fumarylacetoacetase; Region: PLN02856 292414010572 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 292414010573 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 292414010574 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 292414010575 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 292414010576 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 292414010577 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 292414010578 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 292414010579 C-terminal domain interface [polypeptide binding]; other site 292414010580 GSH binding site (G-site) [chemical binding]; other site 292414010581 putative dimer interface [polypeptide binding]; other site 292414010582 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 292414010583 N-terminal domain interface [polypeptide binding]; other site 292414010584 dimer interface [polypeptide binding]; other site 292414010585 substrate binding pocket (H-site) [chemical binding]; other site 292414010586 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 292414010587 phosphate binding site [ion binding]; other site 292414010588 putative substrate binding pocket [chemical binding]; other site 292414010589 dimer interface [polypeptide binding]; other site 292414010590 Transglycosylase; Region: Transgly; pfam00912 292414010591 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 292414010592 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 292414010593 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 292414010594 Nitrogen regulatory protein P-II; Region: P-II; smart00938 292414010595 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 292414010596 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 292414010597 B1 nucleotide binding pocket [chemical binding]; other site 292414010598 B2 nucleotide binding pocket [chemical binding]; other site 292414010599 CAS motifs; other site 292414010600 active site 292414010601 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 292414010602 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 292414010603 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 292414010604 active site residue [active] 292414010605 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 292414010606 active site residue [active] 292414010607 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 292414010608 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 292414010609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414010610 homodimer interface [polypeptide binding]; other site 292414010611 catalytic residue [active] 292414010612 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 292414010613 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 292414010614 substrate binding site [chemical binding]; other site 292414010615 oxyanion hole (OAH) forming residues; other site 292414010616 trimer interface [polypeptide binding]; other site 292414010617 classical (c) SDRs; Region: SDR_c; cd05233 292414010618 NAD(P) binding site [chemical binding]; other site 292414010619 active site 292414010620 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 292414010621 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 292414010622 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 292414010623 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...; Region: CysQ; cd01638 292414010624 active site 292414010625 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 292414010626 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 292414010627 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 292414010628 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 292414010629 Thioredoxin; Region: Thioredoxin_4; pfam13462 292414010630 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 292414010631 Protein of unknown function (DUF721); Region: DUF721; cl02324 292414010632 Protein of unknown function (DUF721); Region: DUF721; cl02324 292414010633 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 292414010634 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 292414010635 minor groove reading motif; other site 292414010636 helix-hairpin-helix signature motif; other site 292414010637 substrate binding pocket [chemical binding]; other site 292414010638 active site 292414010639 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 292414010640 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 292414010641 DNA binding and oxoG recognition site [nucleotide binding] 292414010642 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 292414010643 Fatty acid desaturase; Region: FA_desaturase; pfam00487 292414010644 Di-iron ligands [ion binding]; other site 292414010645 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 292414010646 heme-binding site [chemical binding]; other site 292414010647 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 292414010648 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414010649 dimer interface [polypeptide binding]; other site 292414010650 putative CheW interface [polypeptide binding]; other site 292414010651 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 292414010652 cyclase homology domain; Region: CHD; cd07302 292414010653 nucleotidyl binding site; other site 292414010654 metal binding site [ion binding]; metal-binding site 292414010655 dimer interface [polypeptide binding]; other site 292414010656 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 292414010657 DNA methylase; Region: N6_N4_Mtase; pfam01555 292414010658 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 292414010659 RNA/DNA hybrid binding site [nucleotide binding]; other site 292414010660 active site 292414010661 Domain of unknown function (DUF427); Region: DUF427; pfam04248 292414010662 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 292414010663 cyclase homology domain; Region: CHD; cd07302 292414010664 nucleotidyl binding site; other site 292414010665 metal binding site [ion binding]; metal-binding site 292414010666 dimer interface [polypeptide binding]; other site 292414010667 aldehyde dehydrogenase family 7 member; Region: PLN02315 292414010668 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 292414010669 tetrameric interface [polypeptide binding]; other site 292414010670 NAD binding site [chemical binding]; other site 292414010671 catalytic residues [active] 292414010672 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 292414010673 TrkA-N domain; Region: TrkA_N; pfam02254 292414010674 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414010675 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 292414010676 putative DNA binding site [nucleotide binding]; other site 292414010677 putative Zn2+ binding site [ion binding]; other site 292414010678 AsnC family; Region: AsnC_trans_reg; pfam01037 292414010679 Protein of unknown function (DUF328); Region: DUF328; pfam03883 292414010680 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 292414010681 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 292414010682 ATP binding site [chemical binding]; other site 292414010683 putative Mg++ binding site [ion binding]; other site 292414010684 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 292414010685 nucleotide binding region [chemical binding]; other site 292414010686 ATP-binding site [chemical binding]; other site 292414010687 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 292414010688 HRDC domain; Region: HRDC; pfam00570 292414010689 YGGT family; Region: YGGT; cl00508 292414010690 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 292414010691 active site 292414010692 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 292414010693 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 292414010694 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 292414010695 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 292414010696 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 292414010697 hypothetical protein; Provisional; Region: PRK09256 292414010698 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 292414010699 putative active site pocket [active] 292414010700 cleavage site 292414010701 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 292414010702 putative active site pocket [active] 292414010703 cleavage site 292414010704 EamA-like transporter family; Region: EamA; pfam00892 292414010705 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414010706 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 292414010707 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 292414010708 motif II; other site 292414010709 ornithine cyclodeaminase; Validated; Region: PRK06141 292414010710 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 292414010711 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 292414010712 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 292414010713 Major Facilitator Superfamily; Region: MFS_1; pfam07690 292414010714 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 292414010715 Predicted ATPase [General function prediction only]; Region: COG1485 292414010716 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 292414010717 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 292414010718 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 292414010719 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 292414010720 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 292414010721 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 292414010722 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 292414010723 CAAX protease self-immunity; Region: Abi; pfam02517 292414010724 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 292414010725 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 292414010726 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 292414010727 Walker A/P-loop; other site 292414010728 ATP binding site [chemical binding]; other site 292414010729 Q-loop/lid; other site 292414010730 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414010731 ABC transporter signature motif; other site 292414010732 Walker B; other site 292414010733 D-loop; other site 292414010734 H-loop/switch region; other site 292414010735 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 292414010736 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 292414010737 ligand binding site [chemical binding]; other site 292414010738 flexible hinge region; other site 292414010739 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 292414010740 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 292414010741 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 292414010742 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 292414010743 DNA binding site [nucleotide binding] 292414010744 active site 292414010745 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 292414010746 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414010747 Walker A/P-loop; other site 292414010748 ATP binding site [chemical binding]; other site 292414010749 Q-loop/lid; other site 292414010750 ABC transporter signature motif; other site 292414010751 Walker B; other site 292414010752 D-loop; other site 292414010753 H-loop/switch region; other site 292414010754 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414010755 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 292414010756 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 292414010757 dimer interface [polypeptide binding]; other site 292414010758 conserved gate region; other site 292414010759 putative PBP binding loops; other site 292414010760 ABC-ATPase subunit interface; other site 292414010761 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 292414010762 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414010763 Walker A/P-loop; other site 292414010764 ATP binding site [chemical binding]; other site 292414010765 Q-loop/lid; other site 292414010766 ABC transporter signature motif; other site 292414010767 Walker B; other site 292414010768 D-loop; other site 292414010769 H-loop/switch region; other site 292414010770 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414010771 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 292414010772 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 292414010773 dimer interface [polypeptide binding]; other site 292414010774 conserved gate region; other site 292414010775 putative PBP binding loops; other site 292414010776 ABC-ATPase subunit interface; other site 292414010777 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 292414010778 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 292414010779 peptide binding site [polypeptide binding]; other site 292414010780 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 292414010781 Transcriptional regulators [Transcription]; Region: GntR; COG1802 292414010782 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414010783 DNA-binding site [nucleotide binding]; DNA binding site 292414010784 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 292414010785 allantoate amidohydrolase; Reviewed; Region: PRK12890 292414010786 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 292414010787 active site 292414010788 metal binding site [ion binding]; metal-binding site 292414010789 dimer interface [polypeptide binding]; other site 292414010790 von Hippel-Landau (pVHL) tumor suppressor protein; Region: pVHL; cd05468 292414010791 pVHL-HIF-1alpha interaction [polypeptide binding]; other site 292414010792 pVHL-ElonginB-ElonginC (VBC) interface [polypeptide binding]; other site 292414010793 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 292414010794 Hint domain; Region: Hint_2; pfam13403 292414010795 hypothetical protein; Provisional; Region: PRK07482 292414010796 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 292414010797 inhibitor-cofactor binding pocket; inhibition site 292414010798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414010799 catalytic residue [active] 292414010800 succinic semialdehyde dehydrogenase; Region: PLN02278 292414010801 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 292414010802 tetramerization interface [polypeptide binding]; other site 292414010803 NAD(P) binding site [chemical binding]; other site 292414010804 catalytic residues [active] 292414010805 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414010806 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 292414010807 putative DNA binding site [nucleotide binding]; other site 292414010808 AsnC family; Region: AsnC_trans_reg; pfam01037 292414010809 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 292414010810 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 292414010811 putative active site [active] 292414010812 Zn binding site [ion binding]; other site 292414010813 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 292414010814 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 292414010815 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414010816 CHAP domain; Region: CHAP; pfam05257 292414010817 PRC-barrel domain; Region: PRC; pfam05239 292414010818 PRC-barrel domain; Region: PRC; pfam05239 292414010819 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 292414010820 Transcriptional regulator [Transcription]; Region: IclR; COG1414 292414010821 Bacterial transcriptional regulator; Region: IclR; pfam01614 292414010822 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 292414010823 homodimer interface [polypeptide binding]; other site 292414010824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414010825 catalytic residue [active] 292414010826 serine racemase; Region: PLN02970 292414010827 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 292414010828 tetramer interface [polypeptide binding]; other site 292414010829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414010830 catalytic residue [active] 292414010831 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 292414010832 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 292414010833 dimer interface [polypeptide binding]; other site 292414010834 active site 292414010835 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 292414010836 substrate binding site [chemical binding]; other site 292414010837 catalytic residue [active] 292414010838 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 292414010839 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 292414010840 Transcriptional regulator [Transcription]; Region: LysR; COG0583 292414010841 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414010842 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 292414010843 putative effector binding pocket; other site 292414010844 dimerization interface [polypeptide binding]; other site 292414010845 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 292414010846 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 292414010847 catalytic loop [active] 292414010848 iron binding site [ion binding]; other site 292414010849 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 292414010850 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 292414010851 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 292414010852 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 292414010853 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 292414010854 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 292414010855 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 292414010856 XdhC Rossmann domain; Region: XdhC_C; pfam13478 292414010857 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 292414010858 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414010859 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 292414010860 putative DNA binding site [nucleotide binding]; other site 292414010861 putative Zn2+ binding site [ion binding]; other site 292414010862 AsnC family; Region: AsnC_trans_reg; pfam01037 292414010863 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 292414010864 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 292414010865 catalytic residue [active] 292414010866 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 292414010867 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 292414010868 Metallopeptidase family M24; Region: Peptidase_M24; pfam00557 292414010869 active site 292414010870 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 292414010871 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 292414010872 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 292414010873 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 292414010874 active site 292414010875 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_7; cd08512 292414010876 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 292414010877 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 292414010878 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 292414010879 non-specific DNA binding site [nucleotide binding]; other site 292414010880 salt bridge; other site 292414010881 sequence-specific DNA binding site [nucleotide binding]; other site 292414010882 Cupin domain; Region: Cupin_2; pfam07883 292414010883 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 292414010884 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 292414010885 dimer interface [polypeptide binding]; other site 292414010886 conserved gate region; other site 292414010887 putative PBP binding loops; other site 292414010888 ABC-ATPase subunit interface; other site 292414010889 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 292414010890 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 292414010891 dimer interface [polypeptide binding]; other site 292414010892 conserved gate region; other site 292414010893 ABC-ATPase subunit interface; other site 292414010894 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 292414010895 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414010896 Walker A/P-loop; other site 292414010897 ATP binding site [chemical binding]; other site 292414010898 Q-loop/lid; other site 292414010899 ABC transporter signature motif; other site 292414010900 Walker B; other site 292414010901 D-loop; other site 292414010902 H-loop/switch region; other site 292414010903 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414010904 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 292414010905 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414010906 Walker A/P-loop; other site 292414010907 ATP binding site [chemical binding]; other site 292414010908 Q-loop/lid; other site 292414010909 ABC transporter signature motif; other site 292414010910 Walker B; other site 292414010911 D-loop; other site 292414010912 H-loop/switch region; other site 292414010913 GAF domain; Region: GAF_2; pfam13185 292414010914 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 292414010915 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 292414010916 dimerization interface [polypeptide binding]; other site 292414010917 DPS ferroxidase diiron center [ion binding]; other site 292414010918 ion pore; other site 292414010919 two-component response regulator; Provisional; Region: PRK09191 292414010920 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 292414010921 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 292414010922 active site 292414010923 phosphorylation site [posttranslational modification] 292414010924 intermolecular recognition site; other site 292414010925 dimerization interface [polypeptide binding]; other site 292414010926 RNA polymerase sigma factor; Provisional; Region: PRK12546 292414010927 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 292414010928 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 292414010929 DNA binding residues [nucleotide binding] 292414010930 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 292414010931 Histidine kinase; Region: HisKA_2; pfam07568 292414010932 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 292414010933 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 292414010934 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 292414010935 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 292414010936 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 292414010937 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 292414010938 active site 292414010939 citrylCoA binding site [chemical binding]; other site 292414010940 oxalacetate binding site [chemical binding]; other site 292414010941 coenzyme A binding site [chemical binding]; other site 292414010942 catalytic triad [active] 292414010943 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 292414010944 CoA-transferase family III; Region: CoA_transf_3; pfam02515 292414010945 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 292414010946 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 292414010947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 292414010948 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 292414010949 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 292414010950 active site 292414010951 phosphorylation site [posttranslational modification] 292414010952 intermolecular recognition site; other site 292414010953 dimerization interface [polypeptide binding]; other site 292414010954 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 292414010955 DNA binding site [nucleotide binding] 292414010956 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 292414010957 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414010958 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 292414010959 dimer interface [polypeptide binding]; other site 292414010960 phosphorylation site [posttranslational modification] 292414010961 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 292414010962 ATP binding site [chemical binding]; other site 292414010963 Mg2+ binding site [ion binding]; other site 292414010964 G-X-G motif; other site 292414010965 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 292414010966 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 292414010967 TPP-binding site [chemical binding]; other site 292414010968 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 292414010969 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 292414010970 PYR/PP interface [polypeptide binding]; other site 292414010971 dimer interface [polypeptide binding]; other site 292414010972 TPP binding site [chemical binding]; other site 292414010973 methionine gamma-lyase; Provisional; Region: PRK07503 292414010974 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 292414010975 homodimer interface [polypeptide binding]; other site 292414010976 substrate-cofactor binding pocket; other site 292414010977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414010978 catalytic residue [active] 292414010979 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 292414010980 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 292414010981 dimerization interface [polypeptide binding]; other site 292414010982 putative DNA binding site [nucleotide binding]; other site 292414010983 putative Zn2+ binding site [ion binding]; other site 292414010984 AsnC family; Region: AsnC_trans_reg; pfam01037 292414010985 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 292414010986 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 292414010987 active site 292414010988 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 292414010989 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414010990 Walker A/P-loop; other site 292414010991 ATP binding site [chemical binding]; other site 292414010992 Q-loop/lid; other site 292414010993 ABC transporter signature motif; other site 292414010994 Walker B; other site 292414010995 D-loop; other site 292414010996 H-loop/switch region; other site 292414010997 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414010998 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 292414010999 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 292414011000 Walker A/P-loop; other site 292414011001 ATP binding site [chemical binding]; other site 292414011002 Q-loop/lid; other site 292414011003 ABC transporter signature motif; other site 292414011004 Walker B; other site 292414011005 D-loop; other site 292414011006 H-loop/switch region; other site 292414011007 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 292414011008 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 292414011009 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 292414011010 dimer interface [polypeptide binding]; other site 292414011011 conserved gate region; other site 292414011012 putative PBP binding loops; other site 292414011013 ABC-ATPase subunit interface; other site 292414011014 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 292414011015 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 292414011016 dimer interface [polypeptide binding]; other site 292414011017 conserved gate region; other site 292414011018 putative PBP binding loops; other site 292414011019 ABC-ATPase subunit interface; other site 292414011020 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 292414011021 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 292414011022 substrate binding site [chemical binding]; other site 292414011023 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414011024 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 292414011025 dimerization interface [polypeptide binding]; other site 292414011026 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 292414011027 phosphorylation site [posttranslational modification] 292414011028 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 292414011029 ATP binding site [chemical binding]; other site 292414011030 Mg2+ binding site [ion binding]; other site 292414011031 G-X-G motif; other site 292414011032 Response regulator receiver domain; Region: Response_reg; pfam00072 292414011033 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 292414011034 active site 292414011035 phosphorylation site [posttranslational modification] 292414011036 intermolecular recognition site; other site 292414011037 dimerization interface [polypeptide binding]; other site 292414011038 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 292414011039 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 292414011040 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 292414011041 putative active site [active] 292414011042 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 292414011043 DctM-like transporters; Region: DctM; pfam06808 292414011044 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 292414011045 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 292414011046 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 292414011047 Uncharacterized conserved protein [Function unknown]; Region: COG5476 292414011048 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 292414011049 MlrC C-terminus; Region: MlrC_C; pfam07171 292414011050 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 292414011051 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 292414011052 dimer interface [polypeptide binding]; other site 292414011053 active site 292414011054 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 292414011055 substrate binding site [chemical binding]; other site 292414011056 catalytic residue [active] 292414011057 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 292414011058 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 292414011059 substrate binding site [chemical binding]; other site 292414011060 ATP binding site [chemical binding]; other site 292414011061 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 292414011062 homotrimer interaction site [polypeptide binding]; other site 292414011063 putative active site [active] 292414011064 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 292414011065 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 292414011066 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 292414011067 protein binding site [polypeptide binding]; other site 292414011068 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 292414011069 Catalytic dyad [active] 292414011070 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 292414011071 Peptidase family M23; Region: Peptidase_M23; pfam01551 292414011072 phosphoglyceromutase; Provisional; Region: PRK05434 292414011073 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 292414011074 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 292414011075 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 292414011076 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 292414011077 Coenzyme A binding pocket [chemical binding]; other site 292414011078 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 292414011079 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414011080 Walker A/P-loop; other site 292414011081 ATP binding site [chemical binding]; other site 292414011082 Q-loop/lid; other site 292414011083 ABC transporter signature motif; other site 292414011084 Walker B; other site 292414011085 D-loop; other site 292414011086 H-loop/switch region; other site 292414011087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 292414011088 Zinc-finger domain; Region: zf-CHCC; pfam10276 292414011089 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 292414011090 DNA polymerase I; Provisional; Region: PRK05755 292414011091 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 292414011092 active site 292414011093 metal binding site 1 [ion binding]; metal-binding site 292414011094 putative 5' ssDNA interaction site; other site 292414011095 metal binding site 3; metal-binding site 292414011096 metal binding site 2 [ion binding]; metal-binding site 292414011097 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 292414011098 putative DNA binding site [nucleotide binding]; other site 292414011099 putative metal binding site [ion binding]; other site 292414011100 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 292414011101 active site 292414011102 catalytic site [active] 292414011103 substrate binding site [chemical binding]; other site 292414011104 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 292414011105 active site 292414011106 DNA binding site [nucleotide binding] 292414011107 catalytic site [active] 292414011108 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 292414011109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 292414011110 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 292414011111 MoxR-like ATPases [General function prediction only]; Region: COG0714 292414011112 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; cl17189 292414011113 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 292414011114 Protein of unknown function DUF58; Region: DUF58; pfam01882 292414011115 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 292414011116 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 292414011117 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 292414011118 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 292414011119 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 292414011120 Transglycosylase; Region: Transgly; pfam00912 292414011121 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 292414011122 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 292414011123 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 292414011124 putative binding site; other site 292414011125 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 292414011126 MG2 domain; Region: A2M_N; pfam01835 292414011127 Alpha-2-macroglobulin family; Region: A2M; pfam00207 292414011128 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 292414011129 surface patch; other site 292414011130 thioester region; other site 292414011131 specificity defining residues; other site 292414011132 PAS fold; Region: PAS_7; pfam12860 292414011133 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 292414011134 dimer interface [polypeptide binding]; other site 292414011135 phosphorylation site [posttranslational modification] 292414011136 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 292414011137 ATP binding site [chemical binding]; other site 292414011138 Mg2+ binding site [ion binding]; other site 292414011139 G-X-G motif; other site 292414011140 Response regulator receiver domain; Region: Response_reg; pfam00072 292414011141 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 292414011142 active site 292414011143 phosphorylation site [posttranslational modification] 292414011144 intermolecular recognition site; other site 292414011145 dimerization interface [polypeptide binding]; other site 292414011146 Response regulator receiver domain; Region: Response_reg; pfam00072 292414011147 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 292414011148 active site 292414011149 phosphorylation site [posttranslational modification] 292414011150 intermolecular recognition site; other site 292414011151 dimerization interface [polypeptide binding]; other site 292414011152 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 292414011153 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 292414011154 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 292414011155 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 292414011156 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 292414011157 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 292414011158 E3 interaction surface; other site 292414011159 lipoyl attachment site [posttranslational modification]; other site 292414011160 e3 binding domain; Region: E3_binding; pfam02817 292414011161 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 292414011162 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 292414011163 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 292414011164 alpha subunit interface [polypeptide binding]; other site 292414011165 TPP binding site [chemical binding]; other site 292414011166 heterodimer interface [polypeptide binding]; other site 292414011167 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 292414011168 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 292414011169 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 292414011170 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 292414011171 tetramer interface [polypeptide binding]; other site 292414011172 TPP-binding site [chemical binding]; other site 292414011173 heterodimer interface [polypeptide binding]; other site 292414011174 phosphorylation loop region [posttranslational modification] 292414011175 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 292414011176 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 292414011177 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 292414011178 NAD binding site [chemical binding]; other site 292414011179 Phe binding site; other site 292414011180 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 292414011181 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 292414011182 putative Zn2+ binding site [ion binding]; other site 292414011183 putative DNA binding site [nucleotide binding]; other site 292414011184 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 292414011185 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 292414011186 putative active site [active] 292414011187 metal binding site [ion binding]; metal-binding site 292414011188 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 292414011189 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 292414011190 NAD(P) binding site [chemical binding]; other site 292414011191 catalytic residues [active] 292414011192 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 292414011193 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 292414011194 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 292414011195 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 292414011196 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 292414011197 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 292414011198 DctM-like transporters; Region: DctM; pfam06808 292414011199 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 292414011200 N-formylglutamate amidohydrolase; Region: FGase; cl01522 292414011201 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 292414011202 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 292414011203 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 292414011204 putative active site [active] 292414011205 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 292414011206 Adenylate forming domain, Class I; Region: AFD_class_I; cd04433 292414011207 AMP binding site [chemical binding]; other site 292414011208 active site 292414011209 acyl-activating enzyme (AAE) consensus motif; other site 292414011210 CoA binding site [chemical binding]; other site 292414011211 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 292414011212 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 292414011213 dimer interface [polypeptide binding]; other site 292414011214 active site 292414011215 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 292414011216 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 292414011217 dimer interface [polypeptide binding]; other site 292414011218 active site 292414011219 heme binding site [chemical binding]; other site 292414011220 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 292414011221 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 292414011222 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 292414011223 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 292414011224 dimerization interface [polypeptide binding]; other site 292414011225 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 292414011226 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 292414011227 substrate binding site [chemical binding]; other site 292414011228 oxyanion hole (OAH) forming residues; other site 292414011229 trimer interface [polypeptide binding]; other site 292414011230 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 292414011231 CoA binding domain; Region: CoA_binding_2; pfam13380 292414011232 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 292414011233 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 292414011234 Rdx family; Region: Rdx; cl01407 292414011235 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 292414011236 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 292414011237 active site 292414011238 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 292414011239 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 292414011240 conserved cys residue [active] 292414011241 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 292414011242 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 292414011243 ArsC family; Region: ArsC; pfam03960 292414011244 catalytic residues [active] 292414011245 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 292414011246 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 292414011247 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 292414011248 active site 292414011249 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 292414011250 AMP nucleosidase; Provisional; Region: PRK08292 292414011251 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 292414011252 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 292414011253 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 292414011254 IHF dimer interface [polypeptide binding]; other site 292414011255 IHF - DNA interface [nucleotide binding]; other site 292414011256 EamA-like transporter family; Region: EamA; pfam00892 292414011257 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 292414011258 EamA-like transporter family; Region: EamA; pfam00892 292414011259 methionine sulfoxide reductase B; Provisional; Region: PRK00222 292414011260 SelR domain; Region: SelR; pfam01641 292414011261 methionine sulfoxide reductase A; Provisional; Region: PRK14054 292414011262 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 292414011263 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 292414011264 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 292414011265 epoxyqueuosine reductase; Region: TIGR00276 292414011266 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 292414011267 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 292414011268 Beta-lactamase; Region: Beta-lactamase; pfam00144 292414011269 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 292414011270 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 292414011271 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 292414011272 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 292414011273 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 292414011274 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 292414011275 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 292414011276 FeS/SAM binding site; other site 292414011277 Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II; Region: CPT; cl17391 292414011278 AAA domain; Region: AAA_33; pfam13671 292414011279 P-loop motif; other site 292414011280 ATP binding site [chemical binding]; other site 292414011281 Chloramphenicol (Cm) binding site [chemical binding]; other site 292414011282 catalytic residue [active] 292414011283 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 292414011284 cytochrome b; Provisional; Region: CYTB; MTH00191 292414011285 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 292414011286 intrachain domain interface; other site 292414011287 interchain domain interface [polypeptide binding]; other site 292414011288 heme bH binding site [chemical binding]; other site 292414011289 Qi binding site; other site 292414011290 heme bL binding site [chemical binding]; other site 292414011291 Qo binding site; other site 292414011292 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 292414011293 interchain domain interface [polypeptide binding]; other site 292414011294 intrachain domain interface; other site 292414011295 Qi binding site; other site 292414011296 Qo binding site; other site 292414011297 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 292414011298 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 292414011299 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 292414011300 [2Fe-2S] cluster binding site [ion binding]; other site 292414011301 putative glutathione S-transferase; Provisional; Region: PRK10357 292414011302 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 292414011303 putative C-terminal domain interface [polypeptide binding]; other site 292414011304 putative GSH binding site (G-site) [chemical binding]; other site 292414011305 putative dimer interface [polypeptide binding]; other site 292414011306 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 292414011307 N-terminal domain interface [polypeptide binding]; other site 292414011308 dimer interface [polypeptide binding]; other site 292414011309 putative substrate binding pocket (H-site) [chemical binding]; other site 292414011310 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 292414011311 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414011312 Walker A/P-loop; other site 292414011313 ATP binding site [chemical binding]; other site 292414011314 Q-loop/lid; other site 292414011315 ABC transporter signature motif; other site 292414011316 Walker B; other site 292414011317 D-loop; other site 292414011318 H-loop/switch region; other site 292414011319 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 292414011320 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 292414011321 dimer interface [polypeptide binding]; other site 292414011322 conserved gate region; other site 292414011323 putative PBP binding loops; other site 292414011324 ABC-ATPase subunit interface; other site 292414011325 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 292414011326 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 292414011327 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 292414011328 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 292414011329 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 292414011330 Tetramer interface [polypeptide binding]; other site 292414011331 active site 292414011332 FMN-binding site [chemical binding]; other site 292414011333 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 292414011334 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 292414011335 putative NAD(P) binding site [chemical binding]; other site 292414011336 active site 292414011337 Bacitracin resistance protein BacA; Region: BacA; pfam02673 292414011338 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 292414011339 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 292414011340 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 292414011341 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 292414011342 active site 292414011343 dimer interface [polypeptide binding]; other site 292414011344 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 292414011345 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 292414011346 active site 292414011347 FMN binding site [chemical binding]; other site 292414011348 substrate binding site [chemical binding]; other site 292414011349 3Fe-4S cluster binding site [ion binding]; other site 292414011350 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 292414011351 domain interface; other site 292414011352 Transglycosylase; Region: Transgly; cl17702 292414011353 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 292414011354 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 292414011355 C-terminal domain interface [polypeptide binding]; other site 292414011356 GSH binding site (G-site) [chemical binding]; other site 292414011357 dimer interface [polypeptide binding]; other site 292414011358 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 292414011359 N-terminal domain interface [polypeptide binding]; other site 292414011360 dimer interface [polypeptide binding]; other site 292414011361 substrate binding pocket (H-site) [chemical binding]; other site 292414011362 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 292414011363 HemY protein N-terminus; Region: HemY_N; pfam07219 292414011364 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 292414011365 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 292414011366 active site 292414011367 UGMP family protein; Validated; Region: PRK09604 292414011368 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 292414011369 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 292414011370 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 292414011371 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 292414011372 YciI-like protein; Reviewed; Region: PRK12863 292414011373 EVE domain; Region: EVE; cl00728 292414011374 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 292414011375 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 292414011376 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 292414011377 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 292414011378 homotetramer interface [polypeptide binding]; other site 292414011379 ligand binding site [chemical binding]; other site 292414011380 catalytic site [active] 292414011381 NAD binding site [chemical binding]; other site 292414011382 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 292414011383 Protein of unknown function (DUF563); Region: DUF563; pfam04577 292414011384 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 292414011385 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 292414011386 active site 292414011387 phosphorylation site [posttranslational modification] 292414011388 intermolecular recognition site; other site 292414011389 dimerization interface [polypeptide binding]; other site 292414011390 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 292414011391 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 292414011392 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 292414011393 Cu(I) binding site [ion binding]; other site 292414011394 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 292414011395 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 292414011396 dimer interface [polypeptide binding]; other site 292414011397 phosphorylation site [posttranslational modification] 292414011398 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 292414011399 ATP binding site [chemical binding]; other site 292414011400 Mg2+ binding site [ion binding]; other site 292414011401 G-X-G motif; other site 292414011402 PAS fold; Region: PAS_7; pfam12860 292414011403 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 292414011404 Phosphotransferase enzyme family; Region: APH; pfam01636 292414011405 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 292414011406 active site 292414011407 ATP binding site [chemical binding]; other site 292414011408 substrate binding site [chemical binding]; other site 292414011409 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 292414011410 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 292414011411 Substrate binding site; other site 292414011412 metal-binding site 292414011413 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 292414011414 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 292414011415 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 292414011416 Part of AAA domain; Region: AAA_19; pfam13245 292414011417 Family description; Region: UvrD_C_2; pfam13538 292414011418 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 292414011419 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 292414011420 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 292414011421 catalytic residues [active] 292414011422 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 292414011423 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 292414011424 active site 292414011425 HslU subunit interaction site [polypeptide binding]; other site 292414011426 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 292414011427 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 292414011428 Walker A motif; other site 292414011429 ATP binding site [chemical binding]; other site 292414011430 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 292414011431 Walker B motif; other site 292414011432 arginine finger; other site 292414011433 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 292414011434 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 292414011435 Serine hydrolase; Region: Ser_hydrolase; cl17834 292414011436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 292414011437 Smr domain; Region: Smr; pfam01713 292414011438 MltA specific insert domain; Region: MltA; smart00925 292414011439 3D domain; Region: 3D; pfam06725 292414011440 Tim44-like domain; Region: Tim44; pfam04280 292414011441 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 292414011442 Preprotein translocase subunit SecB; Region: SecB; pfam02556 292414011443 SecA binding site; other site 292414011444 Preprotein binding site; other site 292414011445 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 292414011446 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 292414011447 active site 292414011448 catalytic site [active] 292414011449 substrate binding site [chemical binding]; other site 292414011450 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 292414011451 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 292414011452 CoA-binding site [chemical binding]; other site 292414011453 ATP-binding [chemical binding]; other site 292414011454 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 292414011455 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 292414011456 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 292414011457 shikimate binding site; other site 292414011458 NAD(P) binding site [chemical binding]; other site 292414011459 Maf-like protein; Region: Maf; pfam02545 292414011460 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 292414011461 active site 292414011462 dimer interface [polypeptide binding]; other site 292414011463 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 292414011464 transcription termination factor Rho; Provisional; Region: rho; PRK09376 292414011465 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 292414011466 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 292414011467 RNA binding site [nucleotide binding]; other site 292414011468 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 292414011469 multimer interface [polypeptide binding]; other site 292414011470 Walker A motif; other site 292414011471 ATP binding site [chemical binding]; other site 292414011472 Walker B motif; other site 292414011473 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 292414011474 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 292414011475 trmE is a tRNA modification GTPase; Region: trmE; cd04164 292414011476 G1 box; other site 292414011477 GTP/Mg2+ binding site [chemical binding]; other site 292414011478 Switch I region; other site 292414011479 G2 box; other site 292414011480 Switch II region; other site 292414011481 G3 box; other site 292414011482 G4 box; other site 292414011483 G5 box; other site 292414011484 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 292414011485 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 292414011486 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 292414011487 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 292414011488 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 292414011489 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 292414011490 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 292414011491 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 292414011492 P-loop; other site 292414011493 Magnesium ion binding site [ion binding]; other site 292414011494 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 292414011495 Magnesium ion binding site [ion binding]; other site 292414011496 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 292414011497 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 292414011498 ParB-like nuclease domain; Region: ParBc; pfam02195 292414011499 Protein of unknown function (DUF454); Region: DUF454; pfam04304 292414011500 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 292414011501 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 292414011502 FeS/SAM binding site; other site 292414011503 HemN C-terminal domain; Region: HemN_C; pfam06969 292414011504 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 292414011505 active site 292414011506 dimerization interface [polypeptide binding]; other site 292414011507 ribonuclease PH; Reviewed; Region: rph; PRK00173 292414011508 Ribonuclease PH; Region: RNase_PH_bact; cd11362 292414011509 hexamer interface [polypeptide binding]; other site 292414011510 active site 292414011511 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 292414011512 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 292414011513 GrpE; Region: GrpE; pfam01025 292414011514 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 292414011515 dimer interface [polypeptide binding]; other site 292414011516 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 292414011517 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 292414011518 MutS domain I; Region: MutS_I; pfam01624 292414011519 MutS domain II; Region: MutS_II; pfam05188 292414011520 MutS domain III; Region: MutS_III; pfam05192 292414011521 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 292414011522 Walker A/P-loop; other site 292414011523 ATP binding site [chemical binding]; other site 292414011524 Q-loop/lid; other site 292414011525 ABC transporter signature motif; other site 292414011526 Walker B; other site 292414011527 D-loop; other site 292414011528 H-loop/switch region; other site 292414011529 flagellin; Reviewed; Region: PRK12687 292414011530 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 292414011531 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 292414011532 Malic enzyme, N-terminal domain; Region: malic; pfam00390 292414011533 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 292414011534 putative NAD(P) binding site [chemical binding]; other site 292414011535 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 292414011536 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 292414011537 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 292414011538 substrate binding site [chemical binding]; other site 292414011539 dimer interface [polypeptide binding]; other site 292414011540 ATP binding site [chemical binding]; other site 292414011541 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 292414011542 SCP-2 sterol transfer family; Region: SCP2; pfam02036 292414011543 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 292414011544 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 292414011545 argininosuccinate synthase; Provisional; Region: PRK13820 292414011546 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 292414011547 ANP binding site [chemical binding]; other site 292414011548 Substrate Binding Site II [chemical binding]; other site 292414011549 Substrate Binding Site I [chemical binding]; other site 292414011550 threonine dehydratase; Validated; Region: PRK08639 292414011551 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 292414011552 tetramer interface [polypeptide binding]; other site 292414011553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414011554 catalytic residue [active] 292414011555 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 292414011556 putative Ile/Val binding site [chemical binding]; other site 292414011557 Hpt domain; Region: Hpt; pfam01627 292414011558 putative binding surface; other site 292414011559 active site 292414011560 Response regulator receiver domain; Region: Response_reg; pfam00072 292414011561 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 292414011562 active site 292414011563 phosphorylation site [posttranslational modification] 292414011564 intermolecular recognition site; other site 292414011565 dimerization interface [polypeptide binding]; other site 292414011566 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 292414011567 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, 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_25; cd04684 292414011568 nudix motif; other site 292414011569 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 292414011570 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 292414011571 dimerization interface [polypeptide binding]; other site 292414011572 domain crossover interface; other site 292414011573 redox-dependent activation switch; other site 292414011574 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 292414011575 putative active site [active] 292414011576 putative CoA binding site [chemical binding]; other site 292414011577 nudix motif; other site 292414011578 metal binding site [ion binding]; metal-binding site 292414011579 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 292414011580 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 292414011581 active site 292414011582 NTP binding site [chemical binding]; other site 292414011583 metal binding triad [ion binding]; metal-binding site 292414011584 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 292414011585 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 292414011586 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 292414011587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414011588 Walker A/P-loop; other site 292414011589 ATP binding site [chemical binding]; other site 292414011590 Q-loop/lid; other site 292414011591 ABC transporter signature motif; other site 292414011592 Walker B; other site 292414011593 D-loop; other site 292414011594 H-loop/switch region; other site 292414011595 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 292414011596 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 292414011597 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414011598 Walker A/P-loop; other site 292414011599 ATP binding site [chemical binding]; other site 292414011600 Q-loop/lid; other site 292414011601 ABC transporter signature motif; other site 292414011602 Walker B; other site 292414011603 D-loop; other site 292414011604 H-loop/switch region; other site 292414011605 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 292414011606 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 292414011607 S-adenosylmethionine binding site [chemical binding]; other site 292414011608 Ion transport protein; Region: Ion_trans; pfam00520 292414011609 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 292414011610 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 292414011611 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 292414011612 ferrochelatase; Reviewed; Region: hemH; PRK00035 292414011613 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 292414011614 C-terminal domain interface [polypeptide binding]; other site 292414011615 active site 292414011616 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 292414011617 active site 292414011618 N-terminal domain interface [polypeptide binding]; other site 292414011619 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 292414011620 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 292414011621 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 292414011622 active site 292414011623 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 292414011624 GSH binding site [chemical binding]; other site 292414011625 catalytic residues [active] 292414011626 nitrilase; Region: PLN02798 292414011627 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 292414011628 putative active site [active] 292414011629 catalytic triad [active] 292414011630 dimer interface [polypeptide binding]; other site 292414011631 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 292414011632 MarR family; Region: MarR_2; pfam12802 292414011633 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 292414011634 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 292414011635 S-adenosylmethionine binding site [chemical binding]; other site 292414011636 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 292414011637 TAP-like protein; Region: Abhydrolase_4; pfam08386 292414011638 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 292414011639 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 292414011640 ribosome maturation protein RimP; Reviewed; Region: PRK00092 292414011641 Sm and related proteins; Region: Sm_like; cl00259 292414011642 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 292414011643 putative oligomer interface [polypeptide binding]; other site 292414011644 putative RNA binding site [nucleotide binding]; other site 292414011645 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 292414011646 NusA N-terminal domain; Region: NusA_N; pfam08529 292414011647 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 292414011648 RNA binding site [nucleotide binding]; other site 292414011649 homodimer interface [polypeptide binding]; other site 292414011650 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 292414011651 G-X-X-G motif; other site 292414011652 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 292414011653 G-X-X-G motif; other site 292414011654 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 292414011655 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 292414011656 hypothetical protein; Provisional; Region: PRK09190 292414011657 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 292414011658 putative RNA binding cleft [nucleotide binding]; other site 292414011659 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 292414011660 translation initiation factor IF-2; Region: IF-2; TIGR00487 292414011661 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 292414011662 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 292414011663 G1 box; other site 292414011664 putative GEF interaction site [polypeptide binding]; other site 292414011665 GTP/Mg2+ binding site [chemical binding]; other site 292414011666 Switch I region; other site 292414011667 G2 box; other site 292414011668 G3 box; other site 292414011669 Switch II region; other site 292414011670 G4 box; other site 292414011671 G5 box; other site 292414011672 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 292414011673 Translation-initiation factor 2; Region: IF-2; pfam11987 292414011674 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 292414011675 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 292414011676 active site 292414011677 8-oxo-dGMP binding site [chemical binding]; other site 292414011678 nudix motif; other site 292414011679 metal binding site [ion binding]; metal-binding site 292414011680 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 292414011681 heterotetramer interface [polypeptide binding]; other site 292414011682 active site pocket [active] 292414011683 cleavage site 292414011684 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 292414011685 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 292414011686 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 292414011687 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 292414011688 SEC-C motif; Region: SEC-C; pfam02810 292414011689 PBP superfamily domain; Region: PBP_like_2; pfam12849 292414011690 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 292414011691 ligand binding site [chemical binding]; other site 292414011692 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 292414011693 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 292414011694 TPP-binding site; other site 292414011695 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 292414011696 PYR/PP interface [polypeptide binding]; other site 292414011697 dimer interface [polypeptide binding]; other site 292414011698 TPP binding site [chemical binding]; other site 292414011699 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 292414011700 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 292414011701 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 292414011702 substrate binding pocket [chemical binding]; other site 292414011703 chain length determination region; other site 292414011704 substrate-Mg2+ binding site; other site 292414011705 catalytic residues [active] 292414011706 aspartate-rich region 1; other site 292414011707 active site lid residues [active] 292414011708 aspartate-rich region 2; other site 292414011709 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 292414011710 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 292414011711 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 292414011712 putative active site [active] 292414011713 Zn binding site [ion binding]; other site 292414011714 osmolarity response regulator; Provisional; Region: ompR; PRK09468 292414011715 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 292414011716 active site 292414011717 phosphorylation site [posttranslational modification] 292414011718 intermolecular recognition site; other site 292414011719 dimerization interface [polypeptide binding]; other site 292414011720 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 292414011721 DNA binding site [nucleotide binding] 292414011722 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 292414011723 MarR family; Region: MarR_2; pfam12802 292414011724 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 292414011725 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 292414011726 homodimer interface [polypeptide binding]; other site 292414011727 substrate-cofactor binding pocket; other site 292414011728 catalytic residue [active] 292414011729 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 292414011730 Transcriptional regulators [Transcription]; Region: MarR; COG1846 292414011731 MarR family; Region: MarR; pfam01047 292414011732 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 292414011733 EamA-like transporter family; Region: EamA; pfam00892 292414011734 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 292414011735 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 292414011736 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 292414011737 DNA binding residues [nucleotide binding] 292414011738 dimer interface [polypeptide binding]; other site 292414011739 putative metal binding site [ion binding]; other site 292414011740 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 292414011741 putative NAD(P) binding site [chemical binding]; other site 292414011742 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 292414011743 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 292414011744 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 292414011745 dimer interface [polypeptide binding]; other site 292414011746 [2Fe-2S] cluster binding site [ion binding]; other site 292414011747 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 292414011748 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 292414011749 putative ligand binding residues [chemical binding]; other site 292414011750 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 292414011751 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 292414011752 ABC-ATPase subunit interface; other site 292414011753 dimer interface [polypeptide binding]; other site 292414011754 putative PBP binding regions; other site 292414011755 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 292414011756 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 292414011757 Walker A/P-loop; other site 292414011758 ATP binding site [chemical binding]; other site 292414011759 Q-loop/lid; other site 292414011760 ABC transporter signature motif; other site 292414011761 Walker B; other site 292414011762 D-loop; other site 292414011763 H-loop/switch region; other site 292414011764 HAMP domain; Region: HAMP; pfam00672 292414011765 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 292414011766 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 292414011767 dimer interface [polypeptide binding]; other site 292414011768 putative CheW interface [polypeptide binding]; other site 292414011769 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 292414011770 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 292414011771 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 292414011772 ligand binding site [chemical binding]; other site 292414011773 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 292414011774 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 292414011775 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 292414011776 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 292414011777 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 292414011778 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 292414011779 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 292414011780 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 292414011781 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 292414011782 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 292414011783 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 292414011784 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 292414011785 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 292414011786 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 292414011787 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 292414011788 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 292414011789 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 292414011790 Uncharacterized conserved protein [Function unknown]; Region: COG3334 292414011791 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 292414011792 flagellar motor protein MotA; Validated; Region: PRK09110 292414011793 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 292414011794 FHIPEP family; Region: FHIPEP; pfam00771 292414011795 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 292414011796 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 292414011797 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 292414011798 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 292414011799 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 292414011800 SAF-like; Region: SAF_2; pfam13144 292414011801 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 292414011802 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 292414011803 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 292414011804 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 292414011805 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 292414011806 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 292414011807 Bacterial export proteins, family 3; Region: Bac_export_3; pfam01313 292414011808 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 292414011809 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 292414011810 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 292414011811 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 292414011812 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 292414011813 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 292414011814 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 292414011815 Walker A motif; other site 292414011816 ATP binding site [chemical binding]; other site 292414011817 Walker B motif; other site 292414011818 Transposase; Region: HTH_Tnp_1; pfam01527 292414011819 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 292414011820 Integrase core domain; Region: rve; pfam00665 292414011821 Integrase core domain; Region: rve_3; pfam13683 292414011822 Transposase; Region: HTH_Tnp_1; pfam01527 292414011823 putative transposase OrfB; Reviewed; Region: PHA02517 292414011824 HTH-like domain; Region: HTH_21; pfam13276 292414011825 Integrase core domain; Region: rve; pfam00665 292414011826 Integrase core domain; Region: rve_3; pfam13683 292414011827 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 292414011828 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 292414011829 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 292414011830 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK00794 292414011831 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 292414011832 flagellin; Reviewed; Region: PRK12687 292414011833 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 292414011834 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 292414011835 FlgN protein; Region: FlgN; pfam05130 292414011836 Rod binding protein; Region: Rod-binding; pfam10135 292414011837 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 292414011838 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12813 292414011839 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 292414011840 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 292414011841 Phosphotransferase enzyme family; Region: APH; pfam01636 292414011842 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 292414011843 active site 292414011844 substrate binding site [chemical binding]; other site 292414011845 ATP binding site [chemical binding]; other site 292414011846 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; cl17270 292414011847 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 292414011848 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 292414011849 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 292414011850 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 292414011851 dimer interface [polypeptide binding]; other site 292414011852 conserved gate region; other site 292414011853 putative PBP binding loops; other site 292414011854 ABC-ATPase subunit interface; other site 292414011855 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 292414011856 dimer interface [polypeptide binding]; other site 292414011857 conserved gate region; other site 292414011858 putative PBP binding loops; other site 292414011859 ABC-ATPase subunit interface; other site 292414011860 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 292414011861 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414011862 Walker A/P-loop; other site 292414011863 ATP binding site [chemical binding]; other site 292414011864 Q-loop/lid; other site 292414011865 ABC transporter signature motif; other site 292414011866 Walker B; other site 292414011867 D-loop; other site 292414011868 H-loop/switch region; other site 292414011869 TOBE domain; Region: TOBE_2; pfam08402 292414011870 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 292414011871 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 292414011872 Transcriptional regulators [Transcription]; Region: GntR; COG1802 292414011873 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414011874 DNA-binding site [nucleotide binding]; DNA binding site 292414011875 FCD domain; Region: FCD; pfam07729 292414011876 putative aminotransferase; Validated; Region: PRK07480 292414011877 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 292414011878 inhibitor-cofactor binding pocket; inhibition site 292414011879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414011880 catalytic residue [active] 292414011881 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 292414011882 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 292414011883 Walker A/P-loop; other site 292414011884 ATP binding site [chemical binding]; other site 292414011885 Q-loop/lid; other site 292414011886 ABC transporter signature motif; other site 292414011887 Walker B; other site 292414011888 D-loop; other site 292414011889 H-loop/switch region; other site 292414011890 TOBE domain; Region: TOBE_2; pfam08402 292414011891 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 292414011892 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 292414011893 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 292414011894 dimer interface [polypeptide binding]; other site 292414011895 conserved gate region; other site 292414011896 putative PBP binding loops; other site 292414011897 ABC-ATPase subunit interface; other site 292414011898 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 292414011899 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 292414011900 dimer interface [polypeptide binding]; other site 292414011901 conserved gate region; other site 292414011902 putative PBP binding loops; other site 292414011903 ABC-ATPase subunit interface; other site 292414011904 Transglycosylase SLT domain; Region: SLT_2; pfam13406 292414011905 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 292414011906 N-acetyl-D-glucosamine binding site [chemical binding]; other site 292414011907 catalytic residue [active] 292414011908 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 292414011909 Predicted transcriptional regulator [Transcription]; Region: COG2378 292414011910 HTH domain; Region: HTH_11; pfam08279 292414011911 WYL domain; Region: WYL; pfam13280 292414011912 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 292414011913 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 292414011914 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 292414011915 putative N-terminal domain interface [polypeptide binding]; other site 292414011916 ribonuclease R; Region: RNase_R; TIGR02063 292414011917 RNB domain; Region: RNB; pfam00773 292414011918 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 292414011919 RNA binding site [nucleotide binding]; other site 292414011920 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 292414011921 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 292414011922 Coenzyme A binding pocket [chemical binding]; other site 292414011923 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 292414011924 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 292414011925 metal binding site [ion binding]; metal-binding site 292414011926 dimer interface [polypeptide binding]; other site 292414011927 Hint domain; Region: Hint_2; pfam13403 292414011928 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 292414011929 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414011930 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 292414011931 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 292414011932 membrane-bound complex binding site; other site 292414011933 hinge residues; other site 292414011934 Hint domain; Region: Hint_2; pfam13403 292414011935 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414011936 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 292414011937 DNA-binding site [nucleotide binding]; DNA binding site 292414011938 UTRA domain; Region: UTRA; pfam07702 292414011939 HutD; Region: HutD; pfam05962 292414011940 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 292414011941 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 292414011942 active site 292414011943 imidazolonepropionase; Validated; Region: PRK09356 292414011944 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 292414011945 active site 292414011946 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 292414011947 active sites [active] 292414011948 tetramer interface [polypeptide binding]; other site 292414011949 N-formylglutamate amidohydrolase; Region: FGase; cl01522 292414011950 urocanate hydratase; Provisional; Region: PRK05414 292414011951 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 292414011952 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_8; cd07246 292414011953 putative dimer interface [polypeptide binding]; other site 292414011954 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 292414011955 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 292414011956 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 292414011957 trimer interface [polypeptide binding]; other site 292414011958 active site 292414011959 substrate binding site [chemical binding]; other site 292414011960 CoA binding site [chemical binding]; other site 292414011961 Transcriptional regulators [Transcription]; Region: GntR; COG1802 292414011962 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 292414011963 DNA-binding site [nucleotide binding]; DNA binding site 292414011964 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 292414011965 threonine dehydratase; Provisional; Region: PRK08246 292414011966 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 292414011967 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 292414011968 catalytic residue [active] 292414011969 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 292414011970 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 292414011971 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 292414011972 FeS/SAM binding site; other site 292414011973 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 292414011974 L-asparaginase II; Region: Asparaginase_II; pfam06089 292414011975 YCII-related domain; Region: YCII; cl00999 292414011976 hypothetical protein; Provisional; Region: PRK10621 292414011977 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 292414011978 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 292414011979 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 292414011980 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 292414011981 motif II; other site 292414011982 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; cd01494 292414011983 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 292414011984 catalytic residue [active] 292414011985 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 292414011986 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 292414011987 ligand binding site [chemical binding]; other site 292414011988 NAD binding site [chemical binding]; other site 292414011989 dimerization interface [polypeptide binding]; other site 292414011990 catalytic site [active] 292414011991 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 292414011992 putative L-serine binding site [chemical binding]; other site 292414011993 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 292414011994 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 292414011995 active site 292414011996 metal binding site [ion binding]; metal-binding site 292414011997 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 292414011998 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 292414011999 NAD(P) binding site [chemical binding]; other site 292414012000 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 292414012001 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 292414012002 substrate-cofactor binding pocket; other site 292414012003 pyridoxal 5'-phosphate binding site [chemical binding]; other site 292414012004 catalytic residue [active] 292414012005 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 292414012006 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 292414012007 non-specific DNA binding site [nucleotide binding]; other site 292414012008 salt bridge; other site 292414012009 sequence-specific DNA binding site [nucleotide binding]; other site 292414012010 beta-ketothiolase; Provisional; Region: PRK09051 292414012011 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 292414012012 dimer interface [polypeptide binding]; other site 292414012013 active site 292414012014 ABC1 family; Region: ABC1; cl17513 292414012015 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 292414012016 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 292414012017 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 292414012018 S-adenosylmethionine binding site [chemical binding]; other site 292414012019 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 292414012020 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 292414012021 DNA binding site [nucleotide binding] 292414012022 catalytic residue [active] 292414012023 H2TH interface [polypeptide binding]; other site 292414012024 putative catalytic residues [active] 292414012025 turnover-facilitating residue; other site 292414012026 intercalation triad [nucleotide binding]; other site 292414012027 8OG recognition residue [nucleotide binding]; other site 292414012028 putative reading head residues; other site 292414012029 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 292414012030 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 292414012031 enoyl-CoA hydratase; Provisional; Region: PRK05862 292414012032 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 292414012033 substrate binding site [chemical binding]; other site 292414012034 oxyanion hole (OAH) forming residues; other site 292414012035 trimer interface [polypeptide binding]; other site 292414012036 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239