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Literature summary 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

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

Cloned(Commentary)

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

Protein Variants

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

Inhibitors

EC Number Inhibitors Comment Organism Structure
3.5.1.88 5'-phosphothiorate modified antisense oligodeoxyribonucleotides
-
 Mycobacterium tuberculosis

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
3.5.1.88 3.4
-
 formyl-Met-Ala mutant R79A Mycobacterium tuberculosis
3.5.1.88 4.1
-
 formyl-Met-Ala wild-type Mycobacterium tuberculosis
3.5.1.88 5
-
 formyl-Met-Ala mutant R79K Mycobacterium tuberculosis
3.5.1.88 5.6
-
 formyl-Met-Ala mutant R78K Mycobacterium tuberculosis
3.5.1.88 6.4
-
 formyl-Met-Ala mutant R78A Mycobacterium tuberculosis
3.5.1.88 6.5
-
 formyl-Met-Ala mutant R77A Mycobacterium tuberculosis
3.5.1.88 6.9
-
 formyl-Met-Ala mutant R77K Mycobacterium tuberculosis
3.5.1.88 9.3
-
 formyl-Met-Ala mutant R77D Mycobacterium tuberculosis
3.5.1.88 11.7
-
 formyl-Met-Ala mutant R78D Mycobacterium tuberculosis

Metals/Ions

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

Molecular Weight [Da]

EC Number Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
3.5.1.88 22600
-
-
 Mycobacterium tuberculosis

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
3.5.1.88 additional information Mycobacterium tuberculosis peptide deformylase is involved in the deformylation of the N-formyl group of newly synthesized polypeptides during protein synthesis ?
-
 ?
3.5.1.88 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

EC Number Organism UniProt Comment Textmining
3.5.1.88 Mycobacterium tuberculosis
-
-
-
3.5.1.88 Mycobacterium tuberculosis H37Ra / ATCC 25177
-
-
-

Purification (Commentary)

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

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
3.5.1.88 formyl-Met-Ala + H2O substrate activity assay Mycobacterium tuberculosis formate + Met-Ala
-
 ?
3.5.1.88 formyl-Met-Ala + H2O substrate activity assay Mycobacterium tuberculosis H37Ra / ATCC 25177 formate + Met-Ala
-
 ?
3.5.1.88 additional information peptide deformylase is involved in the deformylation of the N-formyl group of newly synthesized polypeptides during protein synthesis Mycobacterium tuberculosis ?
-
 ?
3.5.1.88 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

EC Number Synonyms Comment Organism
3.5.1.88 mPDF
-
 Mycobacterium tuberculosis
3.5.1.88 peptide deformylase
-
 Mycobacterium tuberculosis

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
3.5.1.88 30
-
 activity assay Mycobacterium tuberculosis

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
3.5.1.88 0.08
-
 formyl-Met-Ala mutant R79A Mycobacterium tuberculosis
3.5.1.88 0.24
-
 formyl-Met-Ala mutant R79K Mycobacterium tuberculosis
3.5.1.88 0.6
-
 formyl-Met-Ala mutant R77D Mycobacterium tuberculosis
3.5.1.88 0.8
-
 formyl-Met-Ala mutant R78D Mycobacterium tuberculosis
3.5.1.88 1.6
-
 formyl-Met-Ala mutant R77A Mycobacterium tuberculosis
3.5.1.88 1.6
-
 formyl-Met-Ala mutant R78K Mycobacterium tuberculosis
3.5.1.88 1.7
-
 formyl-Met-Ala mutant R78A Mycobacterium tuberculosis
3.5.1.88 1.8
-
 formyl-Met-Ala mutant R77K Mycobacterium tuberculosis
3.5.1.88 5
-
 formyl-Met-Ala wild-type Mycobacterium tuberculosis

pH Optimum

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
3.5.1.88 7.4
-
 activity assay Mycobacterium tuberculosis