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Literature summary for 3.5.1.88 extracted from

  • Nguyen, K.T.; Hu, X.; Colton, C.; Chakrabarti, R.; Zhu, M.X.; Pei, D.
    Characterization of a human peptide deformylase: implications for antibacterial drug design (2003), Biochemistry, 42, 9952-9958.
    View publication on PubMed
Search for more literature for 3.5.1.88

Cloned(Commentary)

Cloned (Comment) Organism
truncated form that lacks the N-terminal 58-amino-acid targeting sequence is overexpressed in Escherichia coli as a Co2+-substituted protein, is catalytically active in deformylating N-formylated peptides. Expression of HsPDF fused to the enhanced green fluorescence protein in human embryonic kidney cells Homo sapiens

Protein Variants

Protein Variants Comment Organism
E173L the ratio of turnover number to Km-value for the substrate formyl-Met-Leu-p-nitroanilide is increased 3.7fold. The ratio of turnover number to Km-value for the substrate formyl-Met-Ala-His-Ala-Ala-Gln is increased 3.5fold. The ratio of turnover number to Km-value for the substrate formyl-Met-Thr–Gln-Ser-His is increased 1.5fold. The ratio of turnover number to Km-value for the substrate formyl-Met-Thr-Met-His-Thr-Thr is increased 2.4fold Homo sapiens
L91E the ratio of turnover number to Km-value for the substrate formyl-Met-Leu-p-nitroanilide is decreased 10fold Escherichia coli

Inhibitors

Inhibitors Comment Organism Structure
(R)-2-[(formyl-hydroxy-amino)-methyl]-hexanoic acid ((S)-5-amino-1-phenylcarbamoyl-pentyl)-amide
-
 Homo sapiens
(R)-2-[(formyl-hydroxy-amino)-methyl]-hexanoic acid [(S)-5-amino-1-((R)-2-isopropoxymethyl-pyrrolidine-1-carbonyl)-pentyl]-amide
-
 Homo sapiens
(R)-2-[(formyl-hydroxy-amino)-methyl]-hexanoic acid [(S)-5-amino-1-((S)-2-isopropoxymethyl-pyrrolidine-1-carbonyl)-pentyl]-amide
-
 Homo sapiens
BB-3497
-
 Homo sapiens

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
0.027
-
 formyl-L-Met-Leu-p-nitroanilide
-
 Homo sapiens
1.85
-
 formyl-Met-Thr-Gln-Ser-His
-
 Homo sapiens
2.5
-
 formyl-Met-Ala-His-Ala-Ala-Gln
-
 Homo sapiens
4
-
 formyl-Met-Thr-Met-His-Thr-Thr
-
 Homo sapiens

Localization

Localization Comment Organism GeneOntology No. Textmining
mitochondrion
-
 Homo sapiens 5739
-

Organism

Organism UniProt Comment Textmining
Escherichia coli
-
-
-
Homo sapiens
-
-
-

Purification (Commentary)

Purification (Comment) Organism
-
 Homo sapiens

Source Tissue

Source Tissue Comment Organism Textmining
kidney
-
 Homo sapiens
-

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
formyl-L-Met-Leu-p-nitroanilide + H2O
-
 Escherichia coli formate + Met-Leu-p-nitroanilide
-
 ?
formyl-L-Met-Leu-p-nitroanilide + H2O
-
 Homo sapiens formate + Met-Leu-p-nitroanilide
-
 ?
formyl-Met-Ala-His-Ala-Ala-Gln + H2O
-
 Escherichia coli formate + Met-Ala-His-Ala-Ala-Gln
-
 ?
formyl-Met-Ala-His-Ala-Ala-Gln + H2O
-
 Homo sapiens formate + Met-Ala-His-Ala-Ala-Gln
-
 ?
formyl-Met-Thr-Gln-Ser-His + H2O
-
 Escherichia coli formate + Met-Thr-Gln-Ser-His
-
 ?
formyl-Met-Thr-Gln-Ser-His + H2O
-
 Homo sapiens formate + Met-Thr-Gln-Ser-His
-
 ?
formyl-Met-Thr-Met-His-Thr-Thr + H2O
-
 Escherichia coli formate + Met-Thr-Met-His-Thr-Thr
-
 ?
formyl-Met-Thr-Met-His-Thr-Thr + H2O
-
 Homo sapiens formate + Met-Thr-Met-His-Thr-Thr
-
 ?
formyl-Met-Thr-Pro-Met-Arg-Lys + H2O
-
 Escherichia coli ?
-
 ?
additional information no activity with formyl-Met-Thr-Pro-Met-Arg-Lys Homo sapiens ?
-
 ?

Synonyms

Synonyms Comment Organism
EcPDF
-
 Escherichia coli
HsPDF
-
 Homo sapiens

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
0.17
-
 formyl-L-Met-Leu-p-nitroanilide
-
 Homo sapiens
0.57
-
 formyl-Met-Ala-His-Ala-Ala-Gln
-
 Homo sapiens
1.5
-
 formyl-Met-Thr-Gln-Ser-His
-
 Homo sapiens
2.2
-
 formyl-Met-Thr-Met-His-Thr-Thr
-
 Homo sapiens

Ki Value [mM]

Ki Value [mM] Ki Value maximum [mM] Inhibitor Comment Organism Structure
0.000008
-
 BB-3497
-
 Homo sapiens
0.000036
-
 (R)-2-[(formyl-hydroxy-amino)-methyl]-hexanoic acid [(S)-5-amino-1-((S)-2-isopropoxymethyl-pyrrolidine-1-carbonyl)-pentyl]-amide
-
 Homo sapiens
0.000045
-
 (R)-2-[(formyl-hydroxy-amino)-methyl]-hexanoic acid [(S)-5-amino-1-((R)-2-isopropoxymethyl-pyrrolidine-1-carbonyl)-pentyl]-amide
-
 Homo sapiens
0.00015
-
 (R)-2-[(formyl-hydroxy-amino)-methyl]-hexanoic acid ((S)-5-amino-1-phenylcarbamoyl-pentyl)-amide
-
 Homo sapiens