Literature summary for 3.5.1.88 extracted from

Huang, J.; Van Aller, G.S.; Taylor, A.N.; Kerrigan, J.J.; Liu, W.S.; Trulli, J.M.; Lai, Z.; Holmes, D.; Aubart, K.M.; Brown, J.R.; Zalacain, M.
Phylogenomic and biochemical characterization of three Legionella pneumophila polypeptide deformylases (2006), J. Bacteriol., 188, 5249-5257.

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Cloned(Commentary)

Cloned (Comment)	Organism
PdfA is cloned and overepressed in Escherichia coli	Legionella pneumophila
PdfB is cloned and overepressed in Escherichia coli	Legionella pneumophila
PdfC is cloned and overepressed in Escherichia coli	Legionella pneumophila

Inhibitors

Inhibitors	Comment	Organism	Structure
actinonin	-	Legionella pneumophila
BB-3497	-	Legionella pneumophila

KM Value [mM]

KM Value [mM]	KM Value Maximum [mM]	Substrate	Comment	Organism	Structure
0.14	-	formyl-Met-Ala	Zn2+ PdfC	Legionella pneumophila
0.3	-	formyl-Met-Ala-Ser	Ni2+ PdB	Legionella pneumophila
0.34	-	formyl-Met-Ala-Lys-Tyr	Zn2+ PdB	Legionella pneumophila
0.35	-	formyl-Met-Ala	Ni2+ PdC	Legionella pneumophila
1.3	-	formyl-Met-Ala-Lys-Tyr	Ni2+ PdB	Legionella pneumophila
1.4	-	formyl-Met-Ala-Lys-Tyr	Zn2+ PdfB	Legionella pneumophila
1.5	-	formyl-Met-Ala	Ni2+ PdB	Legionella pneumophila
2.1	-	formyl-Met-Ala-Lys-Tyr	Ni2+ PdC	Legionella pneumophila
2.4	-	formyl-Met-Ala-Ser	Ni2+ PdC	Legionella pneumophila
2.7	-	formyl-Met-Ala	Zn2+ PdfB	Legionella pneumophila
3.8	-	formyl-Met-Ala-Lys-Tyr	Zn2+ PdfC	Legionella pneumophila
6.1	-	formyl-Met-Ala-Lys-Tyr	Zn2+ PdfA	Legionella pneumophila
7.6	-	formyl-Met-Ala-Lys-Tyr	Ni2+ PdA	Legionella pneumophila
14	-	formyl-Met-Ala	Zn2+ PdfA	Legionella pneumophila
20	-	formyl-Met-Ala-Ser	Zn2+ PdA	Legionella pneumophila
21	-	formyl-Met-Ala-Ser	Ni2+ PdA	Legionella pneumophila
28	-	formyl-Met-Ala	Ni2+ PdA	Legionella pneumophila

Metals/Ions

Metals/Ions	Comment	Organism	Structure
Ni2+	PdfA with Zn2+ substituted is much less active than the Ni2+ forms of the enzyme	Legionella pneumophila
Ni2+	PdfB with Zn2+ substituted is much less active than the Ni2+ forms of the enzyme	Legionella pneumophila
Ni2+	PdfC with Zn2+ substituted is as active as the Ni+ form for the fMA substrate and exhibits substrate specificity different from that of Ni2+ PdfC	Legionella pneumophila
Zn2+	PdfA with Zn2+ substituted is much less active than the Ni2+ forms of the enzyme	Legionella pneumophila
Zn2+	PdfB with Zn2+ substituted is much less active than the Ni2+ forms of the enzyme	Legionella pneumophila
Zn2+	PdfC with Zn2+ substituted is as active as the Ni+ form for the fMA substrate and exhibits substrate specificity different from that of Ni2+ PdfC	Legionella pneumophila

Organism

Organism	UniProt	Comment	Textmining
Legionella pneumophila	-	-	-
Legionella pneumophila Philadelphia 1	-	-	-

Purification (Commentary)

Purification (Comment)	Organism
recombinant PdfA	Legionella pneumophila
recombinant PdfB	Legionella pneumophila
recombinant PdfC	Legionella pneumophila

Substrates and Products (Substrate)

Substrates	Comment Substrates	Organism	Products	Comment (Products)	Rev.	Reac.
formyl-Met-Ala + H2O	-	Legionella pneumophila	formate + Met-Ala	-	?
formyl-Met-Ala + H2O	-	Legionella pneumophila Philadelphia 1	formate + Met-Ala	-	?
formyl-Met-Ala-Lys-Tyr + H2O	-	Legionella pneumophila	formate + Met-Ala-Lys-Tyr	-	?
formyl-Met-Ala-Lys-Tyr + H2O	-	Legionella pneumophila Philadelphia 1	formate + Met-Ala-Lys-Tyr	-	?
formyl-Met-Ala-Ser + H2O	-	Legionella pneumophila	formate + Met-Ala-Ser	-	?
formyl-Met-Ala-Ser + H2O	-	Legionella pneumophila Philadelphia 1	formate + Met-Ala-Ser	-	?

Synonyms

Synonyms	Comment	Organism
PdfA	-	Legionella pneumophila
PdfB	-	Legionella pneumophila
PdfC	-	Legionella pneumophila

Ki Value [mM]

Ki Value [mM]	Ki Value maximum [mM]	Inhibitor	Comment	Organism	Structure
0.00014	-	BB-3497	Zn2+ PdfC	Legionella pneumophila
0.00015	-	actinonin	Ni2+ PdfB	Legionella pneumophila
0.000203	-	BB-3497	Ni2+ PdfB	Legionella pneumophila
0.000281	-	actinonin	Zn2+ PdC	Legionella pneumophila
0.00058	-	actinonin	Ni2+ PdC	Legionella pneumophila
0.00094	-	BB-3497	Ni2+ PdfA	Legionella pneumophila
0.0012	-	actinonin	Ni2+ PdfA	Legionella pneumophila
0.0016	-	BB-3497	Ni2+ PdfC	Legionella pneumophila

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Release 2023.1 (January 2023)