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Literature summary for 3.5.1.88 extracted from

  • Escobar-Alvarez, S.; Goldgur, Y.; Yang, G.; Ouerfelli, O.; Li, Y.; Scheinberg, D.A.
    Structure and activity of human mitochondrial peptide deformylase, a novel cancer target (2009), J. Mol. Biol., 387, 1211-1228.
    View publication on PubMedView publication on EuropePMC

Cloned(Commentary)

Cloned (Comment) Organism
a truncated HsPDF lacking the first 63 amino acids, which correspond to the mitochondrial targeting sequence, is cloned into the vector pET-15b for expression in Escherichia coli BL21DE3 pLys cells Homo sapiens

Crystallization (Commentary)

Crystallization (Comment) Organism
the structures of peptide deformylase and of peptide deformylase in complex with actinonin are determined at 1.7 A Homo sapiens

Inhibitors

Inhibitors Comment Organism Structure
actinonin
-
Homo sapiens
BB-83698
-
Homo sapiens
LBM-415
-
Homo sapiens

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
0.521
-
formyl-MLHQ
-
Homo sapiens
0.738
-
formyl-MVHQ
-
Homo sapiens
1.181
-
formyl-MTPM
-
Homo sapiens
1.351
-
formyl-MFAD
-
Homo sapiens
1.56
-
formyl-MTHQ
-
Homo sapiens
2.135
-
formyl-MTMH
-
Homo sapiens
2.287
-
formyl-MTHQ
-
Homo sapiens
2.443
-
formyl-MNFA
-
Homo sapiens
2.97
-
formyl-MRHQ
-
Homo sapiens
3.01
-
formyl-MFHQ
-
Homo sapiens
4.085
-
formyl-MMYA
-
Homo sapiens
5.14
-
formyl-MGHQ
-
Homo sapiens
5.76
-
formyl-MLKL
-
Homo sapiens
8.14
-
formyl-MAHA
-
Homo sapiens
12.44
-
formyl-MNPL
-
Homo sapiens
24.09
-
formyl-MPQL
-
Homo sapiens
42.9
-
formyl-MEHQ
-
Homo sapiens

Localization

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

Metals/Ions

Metals/Ions Comment Organism Structure
Co2+
-
Homo sapiens

Organism

Organism UniProt Comment Textmining
Homo sapiens Q9HBH1
-
-

Purification (Commentary)

Purification (Comment) Organism
by chromatography on a Ni2+ Sepharose high-performance column, gel filtration and ammonium sulfate precipitation Homo sapiens

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
formyl-MAHA + H2O peptide substrate derived from mitochondrial cytochrome c oxidase subunit II Homo sapiens formate + MAHA
-
?
formyl-MEHQ + H2O
-
Homo sapiens formate + MEHQ
-
?
formyl-MFAD + H2O peptide substrate derived from mitochondrial cytochrome c oxidase subunit I Homo sapiens formate + MFAD
-
?
formyl-MFHQ + H2O
-
Homo sapiens formate + MMFQ
-
?
formyl-MGHQ + H2O
-
Homo sapiens formate + MGHQ
-
?
formyl-MLHQ + H2O
-
Homo sapiens formate + MLHQ
-
?
formyl-MLKL + H2O peptide substrate derived from mitochondrial NADH dehydrogenase subunit 4 Homo sapiens formate + MLKL
-
?
formyl-MMYA + H2O peptide substrate derived from mitochondrial NADH dehydrogenase subunit 6 Homo sapiens formate + MMYA
-
?
formyl-MNFA + H2O peptide substrate derived from mitochondrial NADH dehydrogenase subunit 3 Homo sapiens formate + MNFA
-
?
formyl-MNPL + H2O peptide substrate derived from mitochondrial NADH dehydrogenase subunit 2 Homo sapiens formate + MNPL
-
?
formyl-MPQL + H2O peptide substrate derived from mitochondrial ATP synthase F0 subunit 8 Homo sapiens formate + MPQL
-
?
formyl-MRHQ + H2O
-
Homo sapiens formate + MRHQ
-
?
formyl-MTHQ + H2O
-
Homo sapiens formate + MTHQ
-
?
formyl-MTHQ + H2O peptide substrate derived from mitochondrial cytochrome c oxidase subunit III Homo sapiens formate + MTHQ
-
?
formyl-MTMH + H2O peptide substrate derived from mitochondrial NADH dehydrogenase subunit 5 Homo sapiens formate + MTMH
-
?
formyl-MTPM + H2O peptide substrate derived from mitochondrial cytochrome b Homo sapiens formate + MTPM
-
?
formyl-MVHQ + H2O
-
Homo sapiens formate + MVHQ
-
?
additional information HsPDF can process, in vitro, N-Met-formylated peptides Homo sapiens ?
-
?

Subunits

Subunits Comment Organism
dimer
-
Homo sapiens

Synonyms

Synonyms Comment Organism
HsPDF
-
Homo sapiens
peptide deformylase
-
Homo sapiens

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
0.00275
-
formyl-MLHQ
-
Homo sapiens
0.0049
-
formyl-MLKL
-
Homo sapiens
0.00581
-
formyl-MVHQ
-
Homo sapiens
0.00937
-
formyl-MEHQ
-
Homo sapiens
0.0134
-
formyl-MFHQ
-
Homo sapiens
0.0155
-
formyl-MGHQ
-
Homo sapiens
0.0174
-
formyl-MTPM
-
Homo sapiens
0.0202
-
formyl-MRHQ
-
Homo sapiens
0.0211
-
formyl-MNPL
-
Homo sapiens
0.0277
-
formyl-MTHQ
-
Homo sapiens
0.0283
-
formyl-MPQL
-
Homo sapiens
0.0362
-
formyl-MTMH
-
Homo sapiens
0.044
-
formyl-MTHQ
-
Homo sapiens
0.0502
-
formyl-MNFA
-
Homo sapiens
0.057
-
formyl-MFAD
-
Homo sapiens
0.0646
-
formyl-MMYA
-
Homo sapiens
0.0831
-
formyl-MAHA
-
Homo sapiens

pH Optimum

pH Optimum Minimum pH Optimum Maximum Comment Organism
7.5
-
activity assay Homo sapiens