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Literature summary for 3.5.1.88 extracted from

  • Saxena, R.; Kanudia, P.; Datt, M.; Dar, H.H.; Karthikeyan, S.; Singh, B.; Chakraborti, P.K.
    Three consecutive arginines are important for the mycobacterial peptide deformylase enzyme activity (2008), J. Biol. Chem., 283, 23754-23764.
    View publication on PubMedView publication on EuropePMC

Application

Application Comment Organism
medicine possibility of future design of novel mycobacteria-specific peptide deformylase inhibitors Mycobacterium tuberculosis

Cloned(Commentary)

Cloned (Comment) Organism
into a pET-vector for expression in Escherichia coli Bl21DE3 cells Mycobacterium tuberculosis

Protein Variants

Protein Variants Comment Organism
R77A mutant, constructed to demonstrate that the three arginines are important for the activity of mPDF Mycobacterium tuberculosis
R77D mutant, constructed to demonstrate that the three arginines are important for the activity of mPDF Mycobacterium tuberculosis
R77K mutant, constructed to demonstrate that the three arginines are important for the activity of mPDF Mycobacterium tuberculosis
R77K/R78K/R79K mutant, constructed to demonstrate that the three arginines are important for the activity of mPDF Mycobacterium tuberculosis
R78A mutant, constructed to demonstrate that the three arginines are important for the activity of mPDF Mycobacterium tuberculosis
R78D mutant, constructed to demonstrate that the three arginines are important for the activity of mPDF Mycobacterium tuberculosis
R78K mutant, constructed to demonstrate that the three arginines are important for the activity of mPDF Mycobacterium tuberculosis
R79A mutant, constructed to demonstrate that the three arginines are important for the activity of mPDF Mycobacterium tuberculosis
R79D mutant, constructed to demonstrate that the three arginines are important for the activity of mPDF Mycobacterium tuberculosis
R79k mutant, constructed to demonstrate that the three arginines are important for the activity of mPDF Mycobacterium tuberculosis

Inhibitors

Inhibitors Comment Organism Structure
5'-phosphothiorate modified antisense oligodeoxyribonucleotides
-
Mycobacterium tuberculosis

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
3.4
-
formyl-Met-Ala mutant R79A Mycobacterium tuberculosis
4.1
-
formyl-Met-Ala wild-type Mycobacterium tuberculosis
5
-
formyl-Met-Ala mutant R79K Mycobacterium tuberculosis
5.6
-
formyl-Met-Ala mutant R78K Mycobacterium tuberculosis
6.4
-
formyl-Met-Ala mutant R78A Mycobacterium tuberculosis
6.5
-
formyl-Met-Ala mutant R77A Mycobacterium tuberculosis
6.9
-
formyl-Met-Ala mutant R77K Mycobacterium tuberculosis
9.3
-
formyl-Met-Ala mutant R77D Mycobacterium tuberculosis
11.7
-
formyl-Met-Ala mutant R78D Mycobacterium tuberculosis

Metals/Ions

Metals/Ions Comment Organism Structure
Fe2+
-
Mycobacterium tuberculosis
Zn2+
-
Mycobacterium tuberculosis

Molecular Weight [Da]

Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
22600
-
-
Mycobacterium tuberculosis

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
additional information Mycobacterium tuberculosis peptide deformylase is involved in the deformylation of the N-formyl group of newly synthesized polypeptides during protein synthesis ?
-
?
additional information Mycobacterium tuberculosis H37Ra / ATCC 25177 peptide deformylase is involved in the deformylation of the N-formyl group of newly synthesized polypeptides during protein synthesis ?
-
?

Organism

Organism UniProt Comment Textmining
Mycobacterium tuberculosis
-
-
-
Mycobacterium tuberculosis H37Ra / ATCC 25177
-
-
-

Purification (Commentary)

Purification (Comment) Organism
on a Ni2+-nitrilotriacetic acid column Mycobacterium tuberculosis

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
formyl-Met-Ala + H2O substrate activity assay Mycobacterium tuberculosis formate + Met-Ala
-
?
formyl-Met-Ala + H2O substrate activity assay Mycobacterium tuberculosis H37Ra / ATCC 25177 formate + Met-Ala
-
?
additional information peptide deformylase is involved in the deformylation of the N-formyl group of newly synthesized polypeptides during protein synthesis Mycobacterium tuberculosis ?
-
?
additional information peptide deformylase is involved in the deformylation of the N-formyl group of newly synthesized polypeptides during protein synthesis Mycobacterium tuberculosis H37Ra / ATCC 25177 ?
-
?

Synonyms

Synonyms Comment Organism
mPDF
-
Mycobacterium tuberculosis
peptide deformylase
-
Mycobacterium tuberculosis

Temperature Optimum [°C]

Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
30
-
activity assay Mycobacterium tuberculosis

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
0.08
-
formyl-Met-Ala mutant R79A Mycobacterium tuberculosis
0.24
-
formyl-Met-Ala mutant R79K Mycobacterium tuberculosis
0.6
-
formyl-Met-Ala mutant R77D Mycobacterium tuberculosis
0.8
-
formyl-Met-Ala mutant R78D Mycobacterium tuberculosis
1.6
-
formyl-Met-Ala mutant R77A Mycobacterium tuberculosis
1.6
-
formyl-Met-Ala mutant R78K Mycobacterium tuberculosis
1.7
-
formyl-Met-Ala mutant R78A Mycobacterium tuberculosis
1.8
-
formyl-Met-Ala mutant R77K Mycobacterium tuberculosis
5
-
formyl-Met-Ala wild-type Mycobacterium tuberculosis

pH Optimum

pH Optimum Minimum pH Optimum Maximum Comment Organism
7.4
-
activity assay Mycobacterium tuberculosis