Cloned (Comment) | Organism |
---|---|
gene def, subcloning in Escherichia coli strain DH5alpha, recombinant expression of His-tagged enzyme in Escherichia coli strain BL21(DE3) | Mycobacterium tuberculosis |
gene def, subcloning in Escherichia coli strain DH5alpha, recombinant expression of His-tagged enzyme in Escherichia coli strain BL21(DE3) | Salmonella enterica subsp. enterica serovar Typhimurium |
Protein Variants | Comment | Organism |
---|---|---|
C106S | site-directed mutagenesis, inactive mutant | Mycobacterium tuberculosis |
C130M | site-directed mutagenesis | Salmonella enterica subsp. enterica serovar Typhimurium |
C130M/V63C | site-directed mutagenesis, the mutant shows reduced enzyme activity and decreased sensitivity to H2O2 compared to the wild-type enzyme | Salmonella enterica subsp. enterica serovar Typhimurium |
C59S | site-directed mutagenesis, unaltered IC50 value for H2O2 compared to the wild-type enzyme | Mycobacterium tuberculosis |
C68S | site-directed mutagenesis, the mutant protein exhibits 32fold reduced IC50s for H2O2 compared to wild-type mPDF | Mycobacterium tuberculosis |
M145C | site-directed mutagenesis, the mutant shows reduced enzyme activity and increased sensitivity to H2O2 compared to the wild-type enzyme | Mycobacterium tuberculosis |
M145S | site-directed mutagenesis, the mutant shows higly reduced enzyme activity and increased sensitivity to H2O2 compared to the wild-type enzyme | Mycobacterium tuberculosis |
V63C | site-directed mutagenesis | Salmonella enterica subsp. enterica serovar Typhimurium |
Inhibitors | Comment | Organism | Structure |
---|---|---|---|
Diethylenetriaminepentaacetic acid | binding structure analysis, overview | Mycobacterium tuberculosis | |
Diethylenetriaminepentaacetic acid | binding structure analysis, overview | Salmonella enterica subsp. enterica serovar Typhimurium | |
EDTA | - |
Mycobacterium tuberculosis | |
EDTA | - |
Salmonella enterica subsp. enterica serovar Typhimurium | |
H2O2 | slight inhibition, binding structure analysis, overview | Mycobacterium tuberculosis | |
H2O2 | binding structure analysis, overview | Salmonella enterica subsp. enterica serovar Typhimurium | |
additional information | iron-containing PDFs are sensitive to treatment with oxidizing agents because of oxidation of Fe2+ to Fe3+ at the metal binding core | Mycobacterium tuberculosis | |
additional information | iron-containing PDFs are sensitive to treatment with oxidizing agents because of oxidation of Fe2+ to Fe3+ at the metal binding core | Salmonella enterica subsp. enterica serovar Typhimurium |
KM Value [mM] | KM Value Maximum [mM] | Substrate | Comment | Organism | Structure |
---|---|---|---|---|---|
2.9 | - |
N-formyl-Met-Ala | pH 7.0, 30°C, recombinant wild-type enzyme | Mycobacterium tuberculosis | |
4.7 | - |
N-formyl-Met-Ala | pH 7.0, 30°C, recombinant enzyme mutant M145C | Mycobacterium tuberculosis | |
7.7 | - |
N-formyl-Met-Ala | pH 7.0, 30°C, recombinant enzyme mutant C130M/V63C | Salmonella enterica subsp. enterica serovar Typhimurium | |
480 | - |
N-formyl-Met-Ala | pH 7.0, 30°C, recombinant wild-type enzyme | Salmonella enterica subsp. enterica serovar Typhimurium |
Metals/Ions | Comment | Organism | Structure |
---|---|---|---|
Fe2+ | iron-containing enzyme variant, the apo-enzyme is enzymatically inactive, conserved metal ion coordinating Cys106 of mPDF | Mycobacterium tuberculosis | |
Fe2+ | iron-containing enzyme variant, the apo-enzyme is enzymatically inactive, conserved metal ion coordinating Cys90 of sPDF, oxidation of Fe2+ to Fe3+ reduces the enzyme activity | Salmonella enterica subsp. enterica serovar Typhimurium |
Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
---|---|---|---|---|---|---|
formyl-L-methionyl peptide + H2O | Mycobacterium tuberculosis | - |
formate + methionyl peptide | - |
? | |
formyl-L-methionyl peptide + H2O | Salmonella enterica subsp. enterica serovar Typhimurium | - |
formate + methionyl peptide | - |
? |
Organism | UniProt | Comment | Textmining |
---|---|---|---|
Mycobacterium tuberculosis | P9WIJ3 | gene def | - |
Salmonella enterica subsp. enterica serovar Typhimurium | Q8ZLM7 | gene def | - |
Purification (Comment) | Organism |
---|---|
recombinant His-tagged enzyme from Escherichia coli strain BL21(DE3) by nickel affinity chromatography and dialysis | Salmonella enterica subsp. enterica serovar Typhimurium |
recombinant His-tagged enzyme from Escherichia coli strain BL21(DE3) by nickl affinity chromatography and dialysis | Mycobacterium tuberculosis |
Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
---|---|---|---|---|---|---|
formyl-L-methionyl peptide + H2O | - |
Mycobacterium tuberculosis | formate + methionyl peptide | - |
? | |
formyl-L-methionyl peptide + H2O | - |
Salmonella enterica subsp. enterica serovar Typhimurium | formate + methionyl peptide | - |
? | |
N-formyl-Met-Ala + H2O | - |
Mycobacterium tuberculosis | formate + Met-Ala | - |
? | |
N-formyl-Met-Ala + H2O | - |
Salmonella enterica subsp. enterica serovar Typhimurium | formate + Met-Ala | - |
? |
Synonyms | Comment | Organism |
---|---|---|
mPDF | - |
Mycobacterium tuberculosis |
- |
Mycobacterium tuberculosis | |
- |
Salmonella enterica subsp. enterica serovar Typhimurium | |
sPDF | - |
Salmonella enterica subsp. enterica serovar Typhimurium |
Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
---|---|---|---|
30 | - |
assay at | Mycobacterium tuberculosis |
30 | - |
assay at | Salmonella enterica subsp. enterica serovar Typhimurium |
Turnover Number Minimum [1/s] | Turnover Number Maximum [1/s] | Substrate | Comment | Organism | Structure |
---|---|---|---|---|---|
0.8 | - |
N-formyl-Met-Ala | pH 7.0, 30°C, recombinant enzyme mutant C130M/V63C | Salmonella enterica subsp. enterica serovar Typhimurium | |
3.1 | - |
N-formyl-Met-Ala | pH 7.0, 30°C, recombinant enzyme mutant M145C | Mycobacterium tuberculosis | |
4.1 | - |
N-formyl-Met-Ala | pH 7.0, 30°C, recombinant wild-type enzyme | Salmonella enterica subsp. enterica serovar Typhimurium | |
8.8 | - |
N-formyl-Met-Ala | pH 7.0, 30°C, recombinant wild-type enzyme | Mycobacterium tuberculosis |
pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
---|---|---|---|
7 | - |
assay at | Mycobacterium tuberculosis |
7 | - |
assay at | Salmonella enterica subsp. enterica serovar Typhimurium |
IC50 Value | IC50 Value Maximum | Comment | Organism | Inhibitor | Structure |
---|---|---|---|---|---|
0.000045 | - |
pH 7.0, 30°C, recombinant wild-type enzyme | Salmonella enterica subsp. enterica serovar Typhimurium | H2O2 | |
0.000049 | - |
pH 7.0, 30°C, recombinant enzyme mutant C130S | Salmonella enterica subsp. enterica serovar Typhimurium | H2O2 | |
0.00015 | - |
pH 7.0, 30°C, recombinant enzyme mutant V63C | Salmonella enterica subsp. enterica serovar Typhimurium | H2O2 | |
0.00016 | - |
pH 7.0, 30°C, recombinant enzyme mutant C130M | Salmonella enterica subsp. enterica serovar Typhimurium | H2O2 | |
0.00144 | - |
pH 7.0, 30°C, recombinant enzyme mutant C130M/V63C | Salmonella enterica subsp. enterica serovar Typhimurium | H2O2 | |
0.06 | - |
pH 7.0, 30°C, recombinant enzyme mutant M145C | Mycobacterium tuberculosis | H2O2 | |
0.07 | - |
pH 7.0, 30°C, recombinant enzyme mutant M145S | Mycobacterium tuberculosis | H2O2 | |
0.5 | - |
pH 7.0, 30°C, recombinant enzyme mutant C58S | Mycobacterium tuberculosis | H2O2 | |
13.6 | - |
pH 7.0, 30°C, recombinant enzyme mutant C59C | Mycobacterium tuberculosis | H2O2 | |
16.1 | - |
pH 7.0, 30°C, recombinant wild-type enzyme | Mycobacterium tuberculosis | H2O2 |
General Information | Comment | Organism |
---|---|---|
physiological function | peptide deformylase is an essential bacterial metalloprotease involved in deformylation of N-formyl group from nascent polypeptide chains during protein synthesis | Mycobacterium tuberculosis |
physiological function | peptide deformylase is an essential bacterial metalloprotease involved in deformylation of N-formyl group from nascent polypeptide chains during protein synthesis | Salmonella enterica subsp. enterica serovar Typhimurium |
kcat/KM Value [1/mMs-1] | kcat/KM Value Maximum [1/mMs-1] | Substrate | Comment | Organism | Structure |
---|---|---|---|---|---|
0.1 | - |
N-formyl-Met-Ala | pH 7.0, 30°C, recombinant enzyme mutant C130M/V63C | Salmonella enterica subsp. enterica serovar Typhimurium | |
0.5 | - |
N-formyl-Met-Ala | pH 7.0, 30°C, recombinant wild-type enzyme | Salmonella enterica subsp. enterica serovar Typhimurium | |
0.7 | - |
N-formyl-Met-Ala | pH 7.0, 30°C, recombinant enzyme mutant M145C | Mycobacterium tuberculosis | |
3 | - |
N-formyl-Met-Ala | pH 7.0, 30°C, recombinant wild-type enzyme | Mycobacterium tuberculosis |