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Literature summary extracted from

  • Ananthula, R.S.; Ravikumar, M.; Mahmood, S.K.; Kumar, M.N.
    Insights from ligand and structure based methods in virtual screening of selective Ni-peptide deformylase inhibitors (2012), J. Mol. Model., 18, 693-708.
    View publication on PubMed

Inhibitors

EC Number Inhibitors Comment Organism Structure
3.5.1.88 (2E)-3-(2,5-dihydroxyphenyl)-1-(2-hydroxy-4,6-dimethoxyphenyl)prop-2-en-1-one
-
 Staphylococcus aureus
3.5.1.88 (2R)-N4-hydroxy-N1-[(2R)-1-[(2R)-2-(hydroxymethyl)pyrrolidin-1-yl]-3-methyl-1-oxobutan-2-yl]-2-pentylbutanediamide
-
 Staphylococcus aureus
3.5.1.88 (2S)-2-[[(9H-fluoren-9-ylmethoxy)carbonyl]amino]pent-4-ynoic acid
-
 Staphylococcus aureus
3.5.1.88 (2S,3R,4S,5R,6R)-2-[(5-bromo-1H-indol-3-yl)oxy]-6-(hydroxymethyl)tetrahydro-2H-pyran-3,4,5-triol
-
 Staphylococcus aureus
3.5.1.88 (2S,3R,4S,5S,6R)-2-[(5-bromo-6-chloro-1H-indol-3-yl)oxy]-6-(hydroxymethyl)tetrahydro-2H-pyran-3,4,5-triol
-
 Staphylococcus aureus
3.5.1.88 1-(methylamino)-3-[2-(prop-2-en-1-yl)phenoxy]propan-2-ol
-
 Staphylococcus aureus
3.5.1.88 1-[(2R)-3-cyclopentyl-2-[[formyl(hydroxy)amino]methyl]propanoyl]-N-(2,2-dimethylpropanoyl)-L-prolinamide
-
 Staphylococcus aureus
3.5.1.88 1-[(2R)-3-cyclopentyl-2-[[formyl(hydroxy)amino]methyl]propanoyl]-N-(2-methylpropanoyl)-L-prolinamide
-
 Staphylococcus aureus
3.5.1.88 1-[(2R)-3-cyclopentyl-2-[[formyl(hydroxy)amino]methyl]propanoyl]-N-(3-methylbutanoyl)-L-prolinamide
-
 Staphylococcus aureus
3.5.1.88 1-[(2R)-3-cyclopentyl-2-[[formyl(hydroxy)amino]methyl]propanoyl]-N-(cyclopropylcarbonyl)-L-prolinamide
-
 Staphylococcus aureus
3.5.1.88 1-[(2R)-3-cyclopentyl-2-[[formyl(hydroxy)amino]methyl]propanoyl]-N-(methoxyacetyl)-L-prolinamide
-
 Staphylococcus aureus
3.5.1.88 2-(4-benzyl-3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl)-N-oxoacetamide
-
 Staphylococcus aureus
3.5.1.88 2-(4-[2-[(2,5-difluorophenyl)amino]-2-oxoethyl]-3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl)-N-oxoacetamide
-
 Staphylococcus aureus
3.5.1.88 2-(biphenyl-4-yl)-N-oxoacetamide
-
 Staphylococcus aureus
3.5.1.88 2-amino-N-[(1S,2S)-1-hydroxy-1-phenylpropan-2-yl]-N-methylacetamide
-
 Staphylococcus aureus
3.5.1.88 2-[(3-aminopropanoyl)amino]-3-phenylpropanoic acid
-
 Staphylococcus aureus
3.5.1.88 2-[2-[(2-hydroxyethyl)amino]-1H-benzimidazol-1-yl]-1-phenylethanone
-
 Staphylococcus aureus
3.5.1.88 2-[4-(3,3-dimethyl-2-oxobutyl)-3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl]-N-oxoacetamide
-
 Staphylococcus aureus
3.5.1.88 2-[4-(3-methylbutyl)-3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl]-N-oxoacetamide
-
 Staphylococcus aureus
3.5.1.88 2-[4-(cyclobutylmethyl)-3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl]-N-oxoacetamide
-
 Staphylococcus aureus
3.5.1.88 5-[[(2-chlorophenyl)sulfanyl]methyl]-N-hydroxy-1,2-oxazole-3-carboxamide
-
 Staphylococcus aureus
3.5.1.88 5-[[(3,4-dichlorophenyl)sulfanyl]methyl]-N-hydroxy-1,2-oxazole-3-carboxamide
-
 Staphylococcus aureus
3.5.1.88 5-[[(3-chlorophenyl)sulfonyl]methyl]-N-hydroxy-1,2-oxazole-3-carboxamide
-
 Staphylococcus aureus
3.5.1.88 5-[[(4-chlorophenyl)sulfanyl]methyl]-N-hydroxy-1,2-oxazole-3-carboxamide
-
 Staphylococcus aureus
3.5.1.88 5-[[(4-methoxyphenyl)sulfonyl]methyl]-1,2-oxazole-3-carbohydrazide
-
 Staphylococcus aureus
3.5.1.88 diprop-2-en-1-yl (2S)-2-aminobutanedioate
-
 Staphylococcus aureus
3.5.1.88 ethyl 2-amino-3-(benzylsulfanyl)propanoate
-
 Staphylococcus aureus
3.5.1.88 ethyl 2-amino-6-bromo-4-(1-cyano-2-ethoxy-2-oxoethyl)-4H-chromene-3-carboxylate
-
 Staphylococcus aureus
3.5.1.88 methyl 4-(2-benzylbenzoyl)-2,5-dimethyl-1H-pyrrole-3-carboxylate
-
 Staphylococcus aureus
3.5.1.88 N-(5-fluoro-1-oxidopyridin-2-yl)-1-[(2R)-2-[[formyl(hydroxy)amino]methyl]hexanoyl]-L-prolinamide
-
 Staphylococcus aureus
3.5.1.88 N-(benzyloxy)-2-(3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl)acetamide
-
 Staphylococcus aureus
3.5.1.88 N-(cyclobutylcarbonyl)-1-[(2R)-3-cyclopentyl-2-[[formyl(hydroxy)amino]methyl]propanoyl]-L-prolinamide
-
 Staphylococcus aureus
3.5.1.88 N-(cyclohexylcarbonyl)-1-[(2R)-3-cyclopentyl-2-[[formyl(hydroxy)amino]methyl]propanoyl]-L-prolinamide
-
 Staphylococcus aureus
3.5.1.88 N-(cyclopentylcarbonyl)-1-[(2R)-3-cyclopentyl-2-[[formyl(hydroxy)amino]methyl]propanoyl]-L-prolinamide
-
 Staphylococcus aureus
3.5.1.88 N-acetyl-1-[(2R)-3-cyclopentyl-2-[[formyl(hydroxy)amino]methyl]propanoyl]-L-prolinamide
-
 Staphylococcus aureus
3.5.1.88 N-benzoyl-1-[(2R)-3-cyclopentyl-2-[[formyl(hydroxy)amino]methyl]propanoyl]-L-prolinamide
-
 Staphylococcus aureus
3.5.1.88 N-hydroxy-5-([[2-(propan-2-yl)phenyl]sulfanyl]methyl)-1,2-oxazole-3-carboxamide
-
 Staphylococcus aureus
3.5.1.88 N-hydroxy-5-([[4-(trifluoromethyl)phenyl]sulfanyl]methyl)-1,2-oxazole-3-carboxamide
-
 Staphylococcus aureus
3.5.1.88 N-methoxy-2-(3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl)acetamide
-
 Staphylococcus aureus
3.5.1.88 N-methoxy-N-methyl-2-(3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl)acetamide
-
 Staphylococcus aureus
3.5.1.88 N-oxo-2-[3-oxo-4-(2-phenylethyl)-3,4-dihydro-2H-1,4-benzothiazin-2-yl]acetamide
-
 Staphylococcus aureus
3.5.1.88 N-oxo-2-[3-oxo-4-(tetrahydro-2H-pyran-2-ylmethyl)-3,4-dihydro-2H-1,4-benzothiazin-2-yl]acetamide
-
 Staphylococcus aureus
3.5.1.88 N-oxo-2-[3-oxo-4-[2-oxo-2-(pyrrolidin-1-yl)ethyl]-3,4-dihydro-2H-1,4-benzothiazin-2-yl]acetamide
-
 Staphylococcus aureus
3.5.1.88 N-[(2R)-2-(cyclopentylmethyl)-3-(2-[5-fluoro-6-[(9aS)-hexahydropyrazino[2,1-c][1,4]oxazin-8(1H)-yl]-2-methylpyrimidin-4-yl]hydrazinyl)-3-oxopropyl]-N-hydroxyformamide
-
 Staphylococcus aureus
3.5.1.88 naphthalen-1-yl[[3-(trifluoromethyl)benzyl]amino]acetic acid
-
 Staphylococcus aureus

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
3.5.1.88 Zn2+ contains zinc in the binding site Staphylococcus aureus

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
3.5.1.88 N-formyl-L-methionine polypeptide + H2O Staphylococcus aureus
-
 formate + methionine-polypeptide
-
 ?

Organism

EC Number Organism UniProt Comment Textmining
3.5.1.88 Staphylococcus aureus P68826
-
-

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
3.5.1.88 N-formyl-L-methionine polypeptide + H2O
-
 Staphylococcus aureus formate + methionine-polypeptide
-
 ?

Synonyms

EC Number Synonyms Comment Organism
3.5.1.88 Ni-peptide deformylase
-
 Staphylococcus aureus
3.5.1.88 PDF
-
 Staphylococcus aureus

IC50 Value

EC Number IC50 Value IC50 Value Maximum Comment Organism Inhibitor Structure
3.5.1.88 0.000002
-
 pH and temperature not specified in the publication Staphylococcus aureus (2R)-N4-hydroxy-N1-[(2R)-1-[(2R)-2-(hydroxymethyl)pyrrolidin-1-yl]-3-methyl-1-oxobutan-2-yl]-2-pentylbutanediamide
3.5.1.88 0.000005
-
 pH and temperature not specified in the publication Staphylococcus aureus 2-[4-(3-methylbutyl)-3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl]-N-oxoacetamide
3.5.1.88 0.000005
-
 pH and temperature not specified in the publication Staphylococcus aureus N-oxo-2-[3-oxo-4-(2-phenylethyl)-3,4-dihydro-2H-1,4-benzothiazin-2-yl]acetamide
3.5.1.88 0.000012
-
 pH and temperature not specified in the publication Staphylococcus aureus 2-(4-benzyl-3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl)-N-oxoacetamide
3.5.1.88 0.000018
-
 pH and temperature not specified in the publication Staphylococcus aureus N-oxo-2-[3-oxo-4-(tetrahydro-2H-pyran-2-ylmethyl)-3,4-dihydro-2H-1,4-benzothiazin-2-yl]acetamide
3.5.1.88 0.000041
-
 pH and temperature not specified in the publication Staphylococcus aureus 2-[4-(cyclobutylmethyl)-3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl]-N-oxoacetamide
3.5.1.88 0.00005
-
 pH and temperature not specified in the publication Staphylococcus aureus 2-[4-(3,3-dimethyl-2-oxobutyl)-3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl]-N-oxoacetamide
3.5.1.88 0.000058
-
 pH and temperature not specified in the publication Staphylococcus aureus 2-(4-[2-[(2,5-difluorophenyl)amino]-2-oxoethyl]-3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl)-N-oxoacetamide
3.5.1.88 0.000074
-
 pH and temperature not specified in the publication Staphylococcus aureus N-methoxy-2-(3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl)acetamide
3.5.1.88 0.00023
-
 pH and temperature not specified in the publication Staphylococcus aureus N-(benzyloxy)-2-(3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl)acetamide
3.5.1.88 0.0004
-
 pH and temperature not specified in the publication Staphylococcus aureus N-oxo-2-[3-oxo-4-[2-oxo-2-(pyrrolidin-1-yl)ethyl]-3,4-dihydro-2H-1,4-benzothiazin-2-yl]acetamide
3.5.1.88 0.0017
-
 pH and temperature not specified in the publication Staphylococcus aureus 5-[[(3-chlorophenyl)sulfonyl]methyl]-N-hydroxy-1,2-oxazole-3-carboxamide
3.5.1.88 0.002
-
 pH and temperature not specified in the publication Staphylococcus aureus N-methoxy-N-methyl-2-(3-oxo-3,4-dihydro-2H-1,4-benzothiazin-2-yl)acetamide
3.5.1.88 0.002
-
 pH and temperature not specified in the publication Staphylococcus aureus 5-[[(3,4-dichlorophenyl)sulfanyl]methyl]-N-hydroxy-1,2-oxazole-3-carboxamide
3.5.1.88 0.0023
-
 pH and temperature not specified in the publication Staphylococcus aureus 5-[[(4-chlorophenyl)sulfanyl]methyl]-N-hydroxy-1,2-oxazole-3-carboxamide
3.5.1.88 0.0038
-
 pH and temperature not specified in the publication Staphylococcus aureus 5-[[(2-chlorophenyl)sulfanyl]methyl]-N-hydroxy-1,2-oxazole-3-carboxamide
3.5.1.88 0.0065
-
 pH and temperature not specified in the publication Staphylococcus aureus 5-[[(4-methoxyphenyl)sulfonyl]methyl]-1,2-oxazole-3-carbohydrazide
3.5.1.88 0.0076
-
 pH and temperature not specified in the publication Staphylococcus aureus N-hydroxy-5-([[2-(propan-2-yl)phenyl]sulfanyl]methyl)-1,2-oxazole-3-carboxamide
3.5.1.88 0.0087
-
 pH and temperature not specified in the publication Staphylococcus aureus N-hydroxy-5-([[4-(trifluoromethyl)phenyl]sulfanyl]methyl)-1,2-oxazole-3-carboxamide
3.5.1.88 0.05
-
 pH and temperature not specified in the publication Staphylococcus aureus 2-(biphenyl-4-yl)-N-oxoacetamide
3.5.1.88 0.1
-
 pH and temperature not specified in the publication Staphylococcus aureus naphthalen-1-yl[[3-(trifluoromethyl)benzyl]amino]acetic acid