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Literature summary extracted from

  • Fieulaine, S.; Alves de Sousa, R.; Maigre, L.; Hamiche, K.; Alimi, M.; Bolla, J.M.; Taleb, A.; Denis, A.; Pages, J.M.; Artaud, I.; Meinnel, T.; Giglione, C.
    A unique peptide deformylase platform to rationally design and challenge novel active compounds (2016), Sci. Rep., 6, 35429 .
    View publication on PubMedView publication on EuropePMC

Application

EC Number Application Comment Organism
3.5.1.88 drug development peptide deformylase (PDF) is considered an excellent target to develop antibiotics Arabidopsis thaliana
3.5.1.88 drug development peptide deformylase (PDF) is considered an excellent target to develop antibiotics Escherichia coli
3.5.1.88 drug development peptide deformylase (PDF) is considered an excellent target to develop antibiotics Streptococcus agalactiae

Cloned(Commentary)

EC Number Cloned (Comment) Organism
3.5.1.88 gene def or gbs1883, recombinant expression of enzyme mutant S2A in Escherichia coli strain Rosetta 2(DE3)pLysS Streptococcus agalactiae
3.5.1.88 gene def, recombinant enzyme expression Escherichia coli
3.5.1.88 gene DEF2, recombinant expression of isozyme 1B Arabidopsis thaliana

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
3.5.1.88 purified recombinant enzyme mutant S2A in apoform, hanging drop vapour diffusion method, mixing of 0.001 ml of 14-17 mg/ml protein in 50 mM HEPES-NaOH, pH 7.5, 0.1 M NaCl, and 0.1 mM NiCl2, with 0.001 ml of reservoir solution containing 5-15% PEG 8000, 0.2-0.5 M zinc acetate, and 0.1 M imidazole, pH 7.5, or 0.1 M sodium cacodylate, pH 6.5, at 18-20°C, stable crystals of apo-SaPDF are soaked by adding ligands to the drop to a final concentration of 16-32 mM, X-ray diffraction structure determination and analysis Streptococcus agalactiae

Protein Variants

EC Number Protein Variants Comment Organism
3.5.1.88 S2A site-directed mutagenesis Streptococcus agalactiae

Inhibitors

EC Number Inhibitors Comment Organism Structure
3.5.1.88 (3R)-3-[3-[(1,3-benzothiazol-2-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
-
 Arabidopsis thaliana
3.5.1.88 (3R)-3-[3-[(1,3-benzothiazol-2-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
-
 Escherichia coli
3.5.1.88 (3R)-3-[3-[(1,3-benzothiazol-2-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
-
 Streptococcus agalactiae
3.5.1.88 (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide
-
 Arabidopsis thaliana
3.5.1.88 (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide
-
 Escherichia coli
3.5.1.88 (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide two-step tight-binding process, binding structure analysis Streptococcus agalactiae
3.5.1.88 (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
-
 Arabidopsis thaliana
3.5.1.88 (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
-
 Escherichia coli
3.5.1.88 (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
-
 Streptococcus agalactiae
3.5.1.88 (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide
-
 Arabidopsis thaliana
3.5.1.88 (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide
-
 Escherichia coli
3.5.1.88 (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide two-step tight-binding process Streptococcus agalactiae
3.5.1.88 (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
-
 Arabidopsis thaliana
3.5.1.88 (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
-
 Escherichia coli
3.5.1.88 (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
-
 Streptococcus agalactiae
3.5.1.88 (3R)-3-[3-[(4-fluorophenyl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
-
 Arabidopsis thaliana
3.5.1.88 (3R)-3-[3-[(4-fluorophenyl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
-
 Escherichia coli
3.5.1.88 (3R)-3-[3-[(4-fluorophenyl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide two-step tight-binding process, binding structure analysis Streptococcus agalactiae
3.5.1.88 (3R)-3-[3-[([1,1'-biphenyl]-4-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
-
 Arabidopsis thaliana
3.5.1.88 (3R)-3-[3-[([1,1'-biphenyl]-4-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
-
 Escherichia coli
3.5.1.88 (3R)-3-[3-[([1,1'-biphenyl]-4-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
-
 Streptococcus agalactiae
3.5.1.88 (3R)-N-hydroxy-3-(3-phenyl-1,2,4-oxadiazol-5-yl)heptanamide
-
 Arabidopsis thaliana
3.5.1.88 (3R)-N-hydroxy-3-(3-phenyl-1,2,4-oxadiazol-5-yl)heptanamide
-
 Escherichia coli
3.5.1.88 (3R)-N-hydroxy-3-(3-phenyl-1,2,4-oxadiazol-5-yl)heptanamide
-
 Streptococcus agalactiae
3.5.1.88 (3R)-N-hydroxy-3-(3-[[4-(trifluoromethoxy)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide
-
 Arabidopsis thaliana
3.5.1.88 (3R)-N-hydroxy-3-(3-[[4-(trifluoromethoxy)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide
-
 Escherichia coli
3.5.1.88 (3R)-N-hydroxy-3-(3-[[4-(trifluoromethoxy)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide
-
 Streptococcus agalactiae
3.5.1.88 (3R)-N-hydroxy-3-(3-[[4-(trifluoromethyl)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide
-
 Arabidopsis thaliana
3.5.1.88 (3R)-N-hydroxy-3-(3-[[4-(trifluoromethyl)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide
-
 Escherichia coli
3.5.1.88 (3R)-N-hydroxy-3-(3-[[4-(trifluoromethyl)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide
-
 Streptococcus agalactiae
3.5.1.88 (3R)-N-hydroxy-3-(4-phenyl-1,3-oxazol-2-yl)heptanamide
-
 Arabidopsis thaliana
3.5.1.88 (3R)-N-hydroxy-3-(4-phenyl-1,3-oxazol-2-yl)heptanamide
-
 Escherichia coli
3.5.1.88 (3R)-N-hydroxy-3-(4-phenyl-1,3-oxazol-2-yl)heptanamide
-
 Streptococcus agalactiae
3.5.1.88 (3R)-N-hydroxy-3-[3-(4-nitrophenyl)-1,2,4-oxadiazol-5-yl]heptanamide
-
 Arabidopsis thaliana
3.5.1.88 (3R)-N-hydroxy-3-[3-(4-nitrophenyl)-1,2,4-oxadiazol-5-yl]heptanamide
-
 Escherichia coli
3.5.1.88 (3R)-N-hydroxy-3-[3-(4-nitrophenyl)-1,2,4-oxadiazol-5-yl]heptanamide
-
 Streptococcus agalactiae
3.5.1.88 (3R)-N-hydroxy-3-[3-[(4-methylphenyl)methyl]-1,2,4-oxadiazol-5-yl]heptanamide
-
 Arabidopsis thaliana
3.5.1.88 (3R)-N-hydroxy-3-[3-[(4-methylphenyl)methyl]-1,2,4-oxadiazol-5-yl]heptanamide
-
 Escherichia coli
3.5.1.88 (3R)-N-hydroxy-3-[3-[(4-methylphenyl)methyl]-1,2,4-oxadiazol-5-yl]heptanamide
-
 Streptococcus agalactiae
3.5.1.88 (3R)-N-hydroxy-3-[3-[4-(trifluoromethyl)phenyl]-1,2,4-oxadiazol-5-yl]heptanamide
-
 Arabidopsis thaliana
3.5.1.88 (3R)-N-hydroxy-3-[3-[4-(trifluoromethyl)phenyl]-1,2,4-oxadiazol-5-yl]heptanamide
-
 Escherichia coli
3.5.1.88 (3R)-N-hydroxy-3-[3-[4-(trifluoromethyl)phenyl]-1,2,4-oxadiazol-5-yl]heptanamide
-
 Streptococcus agalactiae
3.5.1.88 2-(1-benzyl-5-bromo-1H-indol-3-yl)-N-hydroxyacetamide
-
 Arabidopsis thaliana
3.5.1.88 2-(1-benzyl-5-bromo-1H-indol-3-yl)-N-hydroxyacetamide
-
 Escherichia coli
3.5.1.88 2-(1-benzyl-5-bromo-1H-indol-3-yl)-N-hydroxyacetamide binding structure analysis Streptococcus agalactiae
3.5.1.88 2-(3-benzyl-5-bromo-1H-indol-1-yl)-N-hydroxyacetamide
-
 Arabidopsis thaliana
3.5.1.88 2-(3-benzyl-5-bromo-1H-indol-1-yl)-N-hydroxyacetamide
-
 Escherichia coli
3.5.1.88 2-(3-benzyl-5-bromo-1H-indol-1-yl)-N-hydroxyacetamide binding structure analysis Streptococcus agalactiae
3.5.1.88 2-(5-bromo-1H-indol-3-yl)-N-hydroxyacetamide
-
 Arabidopsis thaliana
3.5.1.88 2-(5-bromo-1H-indol-3-yl)-N-hydroxyacetamide
-
 Escherichia coli
3.5.1.88 2-(5-bromo-1H-indol-3-yl)-N-hydroxyacetamide binding structure analysis Streptococcus agalactiae
3.5.1.88 2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carboxamide
-
 Arabidopsis thaliana
3.5.1.88 2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carboxamide
-
 Escherichia coli
3.5.1.88 2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carboxamide
-
 Streptococcus agalactiae
3.5.1.88 3,3,3-trifluoro-N-[(2S)-1-[formyl(hydroxy)amino]-3-phenylpropan-2-yl]propanamide
-
 Arabidopsis thaliana
3.5.1.88 3,3,3-trifluoro-N-[(2S)-1-[formyl(hydroxy)amino]-3-phenylpropan-2-yl]propanamide
-
 Escherichia coli
3.5.1.88 3,3,3-trifluoro-N-[(2S)-1-[formyl(hydroxy)amino]-3-phenylpropan-2-yl]propanamide binding structure analysis Streptococcus agalactiae
3.5.1.88 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl hydrogen carbonate
-
 Arabidopsis thaliana
3.5.1.88 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl hydrogen carbonate
-
 Escherichia coli
3.5.1.88 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl hydrogen carbonate
-
 Streptococcus agalactiae
3.5.1.88 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl methyl carbonate
-
 Arabidopsis thaliana
3.5.1.88 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl methyl carbonate
-
 Escherichia coli
3.5.1.88 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl methyl carbonate two-step tight-binding process Streptococcus agalactiae
3.5.1.88 actinonin
-
 Arabidopsis thaliana
3.5.1.88 actinonin
-
 Escherichia coli
3.5.1.88 actinonin
-
 Streptococcus agalactiae
3.5.1.88 BB-83698
-
 Arabidopsis thaliana
3.5.1.88 BB-83698
-
 Escherichia coli
3.5.1.88 BB-83698
-
 Streptococcus agalactiae
3.5.1.88 ethyl 2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carboxylate
-
 Arabidopsis thaliana
3.5.1.88 ethyl 2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carboxylate
-
 Escherichia coli
3.5.1.88 ethyl 2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carboxylate
-
 Streptococcus agalactiae
3.5.1.88 GSK1322322
-
 Arabidopsis thaliana
3.5.1.88 GSK1322322
-
 Escherichia coli
3.5.1.88 GSK1322322
-
 Streptococcus agalactiae
3.5.1.88 methyl N-[2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carbonyl]-L-valinate
-
 Arabidopsis thaliana
3.5.1.88 methyl N-[2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carbonyl]-L-valinate
-
 Escherichia coli
3.5.1.88 methyl N-[2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carbonyl]-L-valinate
-
 Streptococcus agalactiae
3.5.1.88 additional information inhibitor design with the enzyme as model, structure-activity relationship analysis, overview. Design and synthesis of effective specific bacterial PDF inhibitors of an oxadiazole series with potent antimicrobial activity against a multidrug-resistant clinical isolate. Determination of minimal inhibitory concentrations of oxadiazole compounds for antibacterial activity on Escherichia coli strains. Three-dimensional comparison of the binding between various PDF inhibitors and actinonin Arabidopsis thaliana
3.5.1.88 additional information inhibitor design with the enzyme as model, structure-activity relationship analysis, overview. Design and synthesis of effective specific bacterial PDF inhibitors of an oxadiazole series with potent antimicrobial activity against a multidrug-resistant clinical isolate. Determination of minimal inhibitory concentrations of oxadiazole compounds for antibacterial activity on Escherichia coli strains. Three-dimensional comparison of the binding between various PDF inhibitors and actinonin Escherichia coli
3.5.1.88 additional information inhibitor design with the enzyme as model, structure-activity relationship analysis, overview. Design and synthesis of effective specific bacterial PDF inhibitors of an oxadiazole series with potent antimicrobial activity against a multidrug-resistant clinical isolate. Determination of minimal inhibitory concentrations of oxadiazole compounds for antibacterial activity on Escherichia coli strains. Three-dimensional comparison of the binding between various PDF inhibitors and actinonin Streptococcus agalactiae
3.5.1.88 N2-[2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carbonyl]-L-valinamide
-
 Arabidopsis thaliana
3.5.1.88 N2-[2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carbonyl]-L-valinamide
-
 Escherichia coli
3.5.1.88 N2-[2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carbonyl]-L-valinamide
-
 Streptococcus agalactiae

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
3.5.1.88 Ni2+ required Arabidopsis thaliana
3.5.1.88 Ni2+ required Escherichia coli
3.5.1.88 Ni2+ required Streptococcus agalactiae
3.5.1.88 Zn2+ enzyme-bound Arabidopsis thaliana
3.5.1.88 Zn2+ enzyme-bound Escherichia coli
3.5.1.88 Zn2+ enzyme-bound Streptococcus agalactiae

Organism

EC Number Organism UniProt Comment Textmining
3.5.1.88 Arabidopsis thaliana Q9FUZ2
-
-
3.5.1.88 Escherichia coli P0A6K3
-
-
3.5.1.88 Streptococcus agalactiae Q8E378 serotype III
-
3.5.1.88 Streptococcus agalactiae NEM316 Q8E378 serotype III
-

Purification (Commentary)

EC Number Purification (Comment) Organism
3.5.1.88 recombinant enzyme Escherichia coli
3.5.1.88 recombinant enzyme mutant S2A from Escherichia coli strain Rosetta 2(DE3)pLysS by anion exchange chromatography, gel filtration, and ultrafiltration Streptococcus agalactiae
3.5.1.88 recombinant isozyme 1B Arabidopsis thaliana

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
3.5.1.88 formyl-Met-Ala-Ser + H2O
-
 Arabidopsis thaliana formate + Met-Ala-Ser
-
 ?
3.5.1.88 formyl-Met-Ala-Ser + H2O
-
 Escherichia coli formate + Met-Ala-Ser
-
 ?
3.5.1.88 formyl-Met-Ala-Ser + H2O
-
 Streptococcus agalactiae formate + Met-Ala-Ser
-
 ?
3.5.1.88 formyl-Met-Ala-Ser + H2O
-
 Streptococcus agalactiae NEM316 formate + Met-Ala-Ser
-
 ?
3.5.1.88 formylmethionine + H2O the smallest efficient substrate of PDF Arabidopsis thaliana formate + methionine
-
 ?
3.5.1.88 formylmethionine + H2O the smallest efficient substrate of PDF Escherichia coli formate + methionine
-
 ?
3.5.1.88 formylmethionine + H2O the smallest efficient substrate of PDF Streptococcus agalactiae formate + methionine
-
 ?
3.5.1.88 formylmethionine + H2O the smallest efficient substrate of PDF Streptococcus agalactiae NEM316 formate + methionine
-
 ?
3.5.1.88 additional information coupled enzyme activity assay with formate dehydrogenase Arabidopsis thaliana ?
-
-
3.5.1.88 additional information coupled enzyme activity assay with formate dehydrogenase Escherichia coli ?
-
-
3.5.1.88 additional information coupled enzyme activity assay with formate dehydrogenase Streptococcus agalactiae ?
-
-
3.5.1.88 additional information coupled enzyme activity assay with formate dehydrogenase Streptococcus agalactiae NEM316 ?
-
-

Subunits

EC Number Subunits Comment Organism
3.5.1.88 More the core of SaPDF is composed of two alpha-helices, three 310-helices and eight beta-strands organized in two beta-sheets. In addition, SaPDF contains the typical insertions of type 2 PDFs, including an eight-amino acids loop folded as an alpha-helix and a long loop connecting strands beta2 and beta3 usually referred as the CD-loop. It also displays the classical C-terminal extended fold of type 2 PDFs. The structure is organized into two subdomains around the active site, called N- and C-terminal subdomains Streptococcus agalactiae

Synonyms

EC Number Synonyms Comment Organism
3.5.1.88 AtPDF1B
-
 Arabidopsis thaliana
3.5.1.88 DEF
-
 Escherichia coli
3.5.1.88 DEF
-
 Streptococcus agalactiae
3.5.1.88 DEF2
-
 Arabidopsis thaliana
3.5.1.88 EcPDF
-
 Escherichia coli
3.5.1.88 PDF
-
 Arabidopsis thaliana
3.5.1.88 PDF
-
 Escherichia coli
3.5.1.88 PDF
-
 Streptococcus agalactiae
3.5.1.88 SaPDF
-
 Streptococcus agalactiae

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
3.5.1.88 37
-
 assay at Arabidopsis thaliana
3.5.1.88 37
-
 assay at Escherichia coli
3.5.1.88 37
-
 assay at Streptococcus agalactiae

pH Optimum

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
3.5.1.88 7.5
-
 assay at Arabidopsis thaliana
3.5.1.88 7.5
-
 assay at Escherichia coli
3.5.1.88 7.5
-
 assay at Streptococcus agalactiae

Ki Value [mM]

EC Number Ki Value [mM] Ki Value maximum [mM] Inhibitor Comment Organism Structure
3.5.1.88 0.000013
-
 (3R)-3-[3-[(4-fluorophenyl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.000025
-
 (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide pH 7.5, 37°C, recombinant enzyme Escherichia coli
3.5.1.88 0.000029
-
 2-(1-benzyl-5-bromo-1H-indol-3-yl)-N-hydroxyacetamide pH 7.5, 37°C, recombinant enzyme Escherichia coli
3.5.1.88 0.000031
-
 (3R)-3-[3-[(4-fluorophenyl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide pH 7.5, 37°C, recombinant enzyme Escherichia coli
3.5.1.88 0.000035
-
 (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide pH 7.5, 37°C, recombinant enzyme Escherichia coli
3.5.1.88 0.000038
-
 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl methyl carbonate pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.000047
-
 2-(5-bromo-1H-indol-3-yl)-N-hydroxyacetamide pH 7.5, 37°C, recombinant enzyme Escherichia coli
3.5.1.88 0.000049
-
 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl methyl carbonate pH 7.5, 37°C, recombinant enzyme Escherichia coli
3.5.1.88 0.000062
-
 2-(5-bromo-1H-indol-3-yl)-N-hydroxyacetamide pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.000063
-
 (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.000064
-
 actinonin pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.000065
-
 (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.000067
-
 (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.00007
-
 (3R)-N-hydroxy-3-(3-[[4-(trifluoromethoxy)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.000073
-
 (3R)-N-hydroxy-3-(3-[[4-(trifluoromethoxy)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide pH 7.5, 37°C, recombinant enzyme Escherichia coli
3.5.1.88 0.000075
-
 (3R)-N-hydroxy-3-(3-[[4-(trifluoromethyl)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.000076
-
 (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide pH 7.5, 37°C, recombinant enzyme Escherichia coli
3.5.1.88 0.00008
-
 (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide pH 7.5, 37°C, recombinant enzyme Escherichia coli
3.5.1.88 0.00008
-
 (3R)-N-hydroxy-3-(3-[[4-(trifluoromethyl)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide pH 7.5, 37°C, recombinant enzyme Escherichia coli
3.5.1.88 0.000082
-
 actinonin pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana
3.5.1.88 0.000084
-
 (3R)-3-[3-[([1,1'-biphenyl]-4-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.000166
-
 (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.000185
-
 actinonin pH 7.5, 37°C, recombinant enzyme Escherichia coli
3.5.1.88 0.000238
-
 (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana
3.5.1.88 0.000263
-
 (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana
3.5.1.88 0.000285
-
 2-(1-benzyl-5-bromo-1H-indol-3-yl)-N-hydroxyacetamide pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.0004
-
 (3R)-N-hydroxy-3-[3-[4-(trifluoromethyl)phenyl]-1,2,4-oxadiazol-5-yl]heptanamide pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.000455
-
 2-(5-bromo-1H-indol-3-yl)-N-hydroxyacetamide pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana
3.5.1.88 0.000769
-
 2-(3-benzyl-5-bromo-1H-indol-1-yl)-N-hydroxyacetamide pH 7.5, 37°C, recombinant enzyme Escherichia coli
3.5.1.88 0.000833
-
 3,3,3-trifluoro-N-[(2S)-1-[formyl(hydroxy)amino]-3-phenylpropan-2-yl]propanamide pH 7.5, 37°C, recombinant enzyme Escherichia coli
3.5.1.88 0.000909
-
 2-(1-benzyl-5-bromo-1H-indol-3-yl)-N-hydroxyacetamide pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana
3.5.1.88 0.000909
-
 2-(3-benzyl-5-bromo-1H-indol-1-yl)-N-hydroxyacetamide pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.001
-
 2-(3-benzyl-5-bromo-1H-indol-1-yl)-N-hydroxyacetamide pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana
3.5.1.88 0.001111
-
 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl methyl carbonate pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana
3.5.1.88 0.001428
-
 3,3,3-trifluoro-N-[(2S)-1-[formyl(hydroxy)amino]-3-phenylpropan-2-yl]propanamide pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae
3.5.1.88 0.002
-
 3,3,3-trifluoro-N-[(2S)-1-[formyl(hydroxy)amino]-3-phenylpropan-2-yl]propanamide pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana

IC50 Value

EC Number IC50 Value IC50 Value Maximum Comment Organism Inhibitor Structure
3.5.1.88 0.000003
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae actinonin
3.5.1.88 0.0000035
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae (3R)-3-[3-[(4-fluorophenyl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
3.5.1.88 0.000004
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli (3R)-3-[3-[(4-fluorophenyl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
3.5.1.88 0.0000053
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli actinonin
3.5.1.88 0.000006
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide
3.5.1.88 0.000007
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide
3.5.1.88 0.000007
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide
3.5.1.88 0.0000075
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana actinonin
3.5.1.88 0.00001
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
3.5.1.88 0.00001
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
3.5.1.88 0.000011
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae (3R)-N-hydroxy-3-(3-[[4-(trifluoromethoxy)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide
3.5.1.88 0.000012
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide
3.5.1.88 0.000014
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli (3R)-N-hydroxy-3-(3-[[4-(trifluoromethyl)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide
3.5.1.88 0.000016
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae (3R)-3-[3-[([1,1'-biphenyl]-4-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
3.5.1.88 0.000017
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
3.5.1.88 0.000017
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli 2-(1-benzyl-5-bromo-1H-indol-3-yl)-N-hydroxyacetamide
3.5.1.88 0.00002
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
3.5.1.88 0.00002
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl methyl carbonate
3.5.1.88 0.00002
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl methyl carbonate
3.5.1.88 0.000023
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae (3R)-3-[3-[(1,3-benzothiazol-2-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
3.5.1.88 0.000025
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli (3R)-3-[3-[([1,1'-biphenyl]-4-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
3.5.1.88 0.000025
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae (3R)-N-hydroxy-3-(3-[[4-(trifluoromethyl)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide
3.5.1.88 0.000027
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli (3R)-N-hydroxy-3-[3-[(4-methylphenyl)methyl]-1,2,4-oxadiazol-5-yl]heptanamide
3.5.1.88 0.00003
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli (3R)-3-[3-[(1,3-benzothiazol-2-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
3.5.1.88 0.000037
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli 2-(5-bromo-1H-indol-3-yl)-N-hydroxyacetamide
3.5.1.88 0.000058
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana (3R)-3-[3-[(4-fluorophenyl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
3.5.1.88 0.000063
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae 2-(5-bromo-1H-indol-3-yl)-N-hydroxyacetamide
3.5.1.88 0.000067
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae (3R)-N-hydroxy-3-[3-[(4-methylphenyl)methyl]-1,2,4-oxadiazol-5-yl]heptanamide
3.5.1.88 0.000075
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl hydrogen carbonate
3.5.1.88 0.000077
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide
3.5.1.88 0.000078
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli (3R)-N-hydroxy-3-(3-[[4-(trifluoromethoxy)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide
3.5.1.88 0.00011
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae 2-(1-benzyl-5-bromo-1H-indol-3-yl)-N-hydroxyacetamide
3.5.1.88 0.00011
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli 3,3,3-trifluoro-N-[(2S)-1-[formyl(hydroxy)amino]-3-phenylpropan-2-yl]propanamide
3.5.1.88 0.00011
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli ethyl 2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carboxylate
3.5.1.88 0.000119
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana (3R)-3-[3-[(2H-1,3-benzodioxol-5-yl)methyl]-1,2,4-oxadiazol-5-yl]-5-cyclopentyl-N-hydroxypentanamide
3.5.1.88 0.000128
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae (3R)-N-hydroxy-3-[3-[4-(trifluoromethyl)phenyl]-1,2,4-oxadiazol-5-yl]heptanamide
3.5.1.88 0.00015
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae 3,3,3-trifluoro-N-[(2S)-1-[formyl(hydroxy)amino]-3-phenylpropan-2-yl]propanamide
3.5.1.88 0.000155
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli (3R)-N-hydroxy-3-(3-phenyl-1,2,4-oxadiazol-5-yl)heptanamide
3.5.1.88 0.00016
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli (3R)-N-hydroxy-3-[3-(4-nitrophenyl)-1,2,4-oxadiazol-5-yl]heptanamide
3.5.1.88 0.00019
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli (3R)-N-hydroxy-3-(4-phenyl-1,3-oxazol-2-yl)heptanamide
3.5.1.88 0.000211
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl hydrogen carbonate
3.5.1.88 0.000215
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli (3R)-N-hydroxy-3-[3-[4-(trifluoromethyl)phenyl]-1,2,4-oxadiazol-5-yl]heptanamide
3.5.1.88 0.000251
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana 3,3,3-trifluoro-N-[(2S)-1-[formyl(hydroxy)amino]-3-phenylpropan-2-yl]propanamide
3.5.1.88 0.0003
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana (3R)-3-[3-[(1-benzofuran-3-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
3.5.1.88 0.00033
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli methyl N-[2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carbonyl]-L-valinate
3.5.1.88 0.00036
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana 2-(5-bromo-1H-indol-3-yl)-N-hydroxyacetamide
3.5.1.88 0.00036
-
 pH 7.5, 37°C, recombinant enzyme Streptococcus agalactiae 2-(3-benzyl-5-bromo-1H-indol-1-yl)-N-hydroxyacetamide
3.5.1.88 0.0004
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana 2-(1-benzyl-5-bromo-1H-indol-3-yl)-N-hydroxyacetamide
3.5.1.88 0.00042
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli N2-[2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carbonyl]-L-valinamide
3.5.1.88 0.00046
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana (3R)-N-hydroxy-3-[3-[(4-methylphenyl)methyl]-1,2,4-oxadiazol-5-yl]heptanamide
3.5.1.88 0.00048
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli 2-(3-benzyl-5-bromo-1H-indol-1-yl)-N-hydroxyacetamide
3.5.1.88 0.0005
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana (3R)-N-hydroxy-3-(3-[[4-(trifluoromethoxy)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide
3.5.1.88 0.00055
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana (3R)-3-[3-[([1,1'-biphenyl]-4-yl)methyl]-1,2,4-oxadiazol-5-yl]-N-hydroxyheptanamide
3.5.1.88 0.00065
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl methyl carbonate
3.5.1.88 0.000703
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana 2-(3-benzyl-5-bromo-1H-indol-1-yl)-N-hydroxyacetamide
3.5.1.88 0.00074
-
 pH 7.5, 37°C, recombinant enzyme Escherichia coli 2-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,3-oxazole-4-carboxamide
3.5.1.88 0.000909
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana (3R)-N-hydroxy-3-(3-[[4-(trifluoromethyl)phenyl]methyl]-1,2,4-oxadiazol-5-yl)heptanamide
3.5.1.88 0.006
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana (3R)-N-hydroxy-3-[3-[4-(trifluoromethyl)phenyl]-1,2,4-oxadiazol-5-yl]heptanamide
3.5.1.88 0.0082
-
 pH 7.5, 37°C, recombinant enzyme Arabidopsis thaliana 4-([5-[(3R)-1-(hydroxyamino)-1-oxoheptan-3-yl]-1,2,4-oxadiazol-3-yl]methyl)phenyl hydrogen carbonate

General Information

EC Number General Information Comment Organism
3.5.1.88 additional information SaPDF substrate binding site structure Streptococcus agalactiae