Literature summary for 3.5.1.88 extracted from

Smith, K.J.; Petit, C.M.; Aubart, K.; Smyth, M.; McManus, E.; Jones, J.; Fosberry, A.; Lewis, C.; Lonetto, M.; Christensen, S.B.
Structural variation and inhibitor binding in polypeptide deformylase from four different bacterial species (2003), Protein Sci., 12, 349-360.

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Crystallization (Commentary)

Crystallization (Comment)	Organism
vapour diffusion method. Crystallization of protein and protein-inhibitor complexes with N-formyl-H-hydroxy-3-phenylpropylamine, N-hydroxy-N-[3-(6-methyl pyridine-2-yl)propyl] formamide or N-formyl-N-hydroxy-2-(3-benzoylphenoxy)ethylamine	Staphylococcus aureus
vapour diffusion method. Crystallization of protein and protein-inhibitor complexes with N-formyl-H-hydroxy-3-phenylpropylamine, N-hydroxy-N-[3-(6-methyl pyridine-2-yl)propyl] formamide or N-formyl-N-hydroxy-2-(3-benzoylphenoxy)ethylamine	Haemophilus influenzae
vapour diffusion method. Crystallization of protein and protein-inhibitor complexes with N-formyl-H-hydroxy-3-phenylpropylamine, N-hydroxy-N-[3-(6-methyl pyridine-2-yl)propyl] formamide or N-formyl-N-hydroxy-2-(3-benzoylphenoxy)ethylamine	Escherichia coli
vapour diffusion method. Crystallization of protein and protein-inhibitor complexes with N-formyl-H-hydroxy-3-phenylpropylamine, N-hydroxy-N-[3-(6-methyl pyridine-2-yl)propyl] formamide or N-formyl-N-hydroxy-2-(3-benzoylphenoxy)ethylamine	Streptococcus pneumoniae

Inhibitors

Inhibitors	Comment	Organism	Structure
N-formyl-N-hydroxy-2-(3-benzoylphenoxy)ethylamine	i.e. SB 543668, IC50: 0.00115 mM	Escherichia coli
N-formyl-N-hydroxy-2-(3-benzoylphenoxy)ethylamine	i.e. SB 543668, IC50: 0.00032 mM	Haemophilus influenzae
N-formyl-N-hydroxy-2-(3-benzoylphenoxy)ethylamine	i.e. SB 543668, IC50: 0.0022 mM	Staphylococcus aureus
N-formyl-N-hydroxy-2-(3-benzoylphenoxy)ethylamine	i.e. SB 543668, IC50: 0.0039 mM	Streptococcus pneumoniae
N-formyl-N-hydroxy-3-phenylpropylamine	i.e. SB 485345, IC50: 0.00016 mM	Escherichia coli
N-formyl-N-hydroxy-3-phenylpropylamine	i.e. SB 485345, IC50: 0.00015 mM	Haemophilus influenzae
N-formyl-N-hydroxy-3-phenylpropylamine	i.e. SB 485345, IC50: 0.00025 mM	Staphylococcus aureus
N-formyl-N-hydroxy-3-phenylpropylamine	i.e. SB 485345, IC50: 0.0004 mM	Streptococcus pneumoniae
N-hydroxy-N-[3-(6-methylpyridine-2-yl)propyl]formamide	i.e. SB 505684, IC50: 0.0028 mM	Escherichia coli
N-hydroxy-N-[3-(6-methylpyridine-2-yl)propyl]formamide	i.e. SB 505684, IC50: 0.00104 mM	Haemophilus influenzae
N-hydroxy-N-[3-(6-methylpyridine-2-yl)propyl]formamide	i.e. SB 505684, IC50: 0.00109 mM	Staphylococcus aureus
N-hydroxy-N-[3-(6-methylpyridine-2-yl)propyl]formamide	i.e. SB 505684, IC50: 0.0022 mM	Streptococcus pneumoniae

KM Value [mM]

KM Value [mM]	KM Value Maximum [mM]	Substrate	Comment	Organism	Structure
2.6	-	formyl-Met-Ala-Ser	pH 7.6, 25°C	Staphylococcus aureus
4	-	formyl-Met-Ala-Ser	pH 7.6, 25°C	Streptococcus pneumoniae
4.8	-	formyl-Met-Ala-Ser	pH 7.6, 25°C	Haemophilus influenzae
9.1	-	formyl-Met-Ala-Ser	pH 7.6, 25°C	Escherichia coli

Organism

Organism	UniProt	Comment	Textmining
Escherichia coli	-	-	-
Haemophilus influenzae	-	-	-
Staphylococcus aureus	-	-	-
Streptococcus pneumoniae	-	-	-

Substrates and Products (Substrate)

Substrates	Comment Substrates	Organism	Products	Comment (Products)	Rev.	Reac.
formyl-Met-Ala-Ser + H2O	-	Staphylococcus aureus	formate + Met-Ala-Ser	-	?
formyl-Met-Ala-Ser + H2O	-	Haemophilus influenzae	formate + Met-Ala-Ser	-	?
formyl-Met-Ala-Ser + H2O	-	Escherichia coli	formate + Met-Ala-Ser	-	?
formyl-Met-Ala-Ser + H2O	-	Streptococcus pneumoniae	formate + Met-Ala-Ser	-	?

Synonyms

Synonyms	Comment	Organism
PDF	-	Staphylococcus aureus
PDF	-	Haemophilus influenzae
PDF	-	Escherichia coli
PDF	-	Streptococcus pneumoniae

Turnover Number [1/s]

Turnover Number Minimum [1/s]	Turnover Number Maximum [1/s]	Substrate	Comment	Organism	Structure
103	-	formyl-Met-Ala-Ser	pH7.6, 25°C	Escherichia coli
152	-	formyl-Met-Ala-Ser	pH7.6, 25°C	Staphylococcus aureus
322	-	formyl-Met-Ala-Ser	pH7.6, 25°C	Haemophilus influenzae
332	-	formyl-Met-Ala-Ser	pH7.6, 25°C	Streptococcus pneumoniae

IC50 Value

IC50 Value	IC50 Value Maximum	Comment	Organism	Inhibitor	Structure
0.00015	-	i.e. SB 485345, IC50: 0.00015 mM	Haemophilus influenzae	N-formyl-N-hydroxy-3-phenylpropylamine
0.00016	-	i.e. SB 485345, IC50: 0.00016 mM	Escherichia coli	N-formyl-N-hydroxy-3-phenylpropylamine
0.00025	-	i.e. SB 485345, IC50: 0.00025 mM	Staphylococcus aureus	N-formyl-N-hydroxy-3-phenylpropylamine
0.00032	-	i.e. SB 543668, IC50: 0.00032 mM	Haemophilus influenzae	N-formyl-N-hydroxy-2-(3-benzoylphenoxy)ethylamine
0.00104	-	i.e. SB 505684, IC50: 0.00104 mM	Haemophilus influenzae	N-hydroxy-N-[3-(6-methylpyridine-2-yl)propyl]formamide
0.00109	-	i.e. SB 505684, IC50: 0.00109 mM	Staphylococcus aureus	N-hydroxy-N-[3-(6-methylpyridine-2-yl)propyl]formamide
0.00115	-	i.e. SB 543668, IC50: 0.00115 mM	Escherichia coli	N-formyl-N-hydroxy-2-(3-benzoylphenoxy)ethylamine
0.0022	-	i.e. SB 543668, IC50: 0.0022 mM	Staphylococcus aureus	N-formyl-N-hydroxy-2-(3-benzoylphenoxy)ethylamine
0.0028	-	i.e. SB 505684, IC50: 0.0028 mM	Escherichia coli	N-hydroxy-N-[3-(6-methylpyridine-2-yl)propyl]formamide

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Release 2023.1 (January 2023)