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3.5.1.88: peptide deformylase

This is an abbreviated version!
For detailed information about peptide deformylase, go to the full flat file.

Word Map on EC 3.5.1.88

Reaction

formyl-L-methionyl peptide
+
H2O
=
formate
 +
methionyl peptide

Synonyms

AtDEF1.1, AtDEF1.2, AtDEF2, AtPDF1A, AtPDF1B, AtPDF1Bt, AtPDF2, BbPDF, BcPDF, BcPDF2, DEF, Def1, DEF2, deformylase, peptide N-formylmethionine, EC 3.5.1.27, EcPDF, ECPDF1B, EfPDF, HpPDF, HsPDF, hydrolase, aminoacyl-transfer ribonucleate, LiPDF, mPDF, Ni-peptide deformylase, PDF, PDF-1, PDF-2, PDF1A, PDF1B, PDF2, PdfA, PdfB, PdfC, peptide deformylase, peptide deformylase 1, peptide deformylase 1A, peptide deformylase 1B, peptide deformylase 2, Pf PDF, PfPDF, Polypeptide deformylase, SaPDF, sPDF, TbPDF1, TbPDF2, type I PDF, type II PDF, type II peptide deformylase, Vp 16 PDF1B, Vp16 PDF, Vp16T, XOO1075, XoPDF

ECTree

     3 Hydrolases
         3.5 Acting on carbon-nitrogen bonds, other than peptide bonds
             3.5.1 In linear amides
                3.5.1.88 peptide deformylase

Substrates Products

Substrates Products on EC 3.5.1.88 - peptide deformylase

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SUBSTRATE
PRODUCT                       
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
Reversibility
r=reversible
ir=irreversible
?=not specified
(RS)-phenylalanine nitrile + formate
(S)-N-formyl-phenylalanine nitrile
show the reaction diagram
-
-
99% (S)-enantiomer
-
r
2-formyloxycaproylleucyl-p-nitroanilide + H2O
?
show the reaction diagram
-
esterase activity, 10fold lower activity compared to N-formyl-Met-Leu-p-nitroanilide
-
-
?
formyl-L-Met-Leu-p-nitroanilide + H2O
formate + Met-Leu-p-nitroanilide
show the reaction diagram
formyl-L-methionyl peptide + H2O
formate + L-methionyl peptide
show the reaction diagram
formyl-L-methionyl peptide + H2O
formate + methionyl peptide
show the reaction diagram
formyl-MAHA + H2O
formate + MAHA
show the reaction diagram
peptide substrate derived from mitochondrial cytochrome c oxidase subunit II
-
-
?
formyl-MEHQ + H2O
formate + MEHQ
show the reaction diagram
-
-
-
?
formyl-Met-Ala + H2O
formate + Met-Ala
show the reaction diagram
formyl-Met-Ala-His-Ala + H2O
formate + methionyl-Ala-His-Ala
show the reaction diagram
fMAHA
-
-
?
formyl-Met-Ala-His-Ala-Ala-Gln + H2O
formate + Met-Ala-His-Ala-Ala-Gln
show the reaction diagram
formyl-Met-Ala-Lys + H2O
formate + Met-Ala-Lys
show the reaction diagram
formyl-Met-Ala-Lys-Tyr + H2O
formate + Met-Ala-Lys-Tyr
show the reaction diagram
formyl-Met-Ala-Ser + H2O
formate + Met-Ala-Ser
show the reaction diagram
formyl-Met-Gly-Gly-CH3 + H2O
formate + Met-Gly-Gly-CH3
show the reaction diagram
substrate used in QM-MM model
-
-
?
formyl-Met-Leu-p-nitroanilide + H2O
formate + Met-Leu-p-nitroanilide
show the reaction diagram
formyl-Met-Lys-Leu + H2O
formate + Met-Lys-Leu
show the reaction diagram
formyl-Met-Pro-Ala + H2O
formate + Met-Pro-Ala
show the reaction diagram
-
-
-
?
formyl-Met-Ser-Asn + H2O
formate + Met-Ser-Asn
show the reaction diagram
formyl-Met-Thr-Gln-Ser-His + H2O
formate + Met-Thr-Gln-Ser-His
show the reaction diagram
formyl-Met-Thr-Met-His + H2O
formate + methionyl-Thr-Met-His
show the reaction diagram
fMTMH
-
-
?
formyl-Met-Thr-Met-His-Thr-Thr + H2O
formate + Met-Thr-Met-His-Thr-Thr
show the reaction diagram
formyl-Met-Thr-Pro-Met-Arg-Lys + H2O
?
show the reaction diagram
-
-
-
-
?
formyl-Met-Thr-Thr + H2O
formate + Met-Thr-Thr
show the reaction diagram
formyl-MFAD + H2O
formate + MFAD
show the reaction diagram
peptide substrate derived from mitochondrial cytochrome c oxidase subunit I
-
-
?
formyl-MFHQ + H2O
formate + MMFQ
show the reaction diagram
-
-
-
?
formyl-MGHQ + H2O
formate + MGHQ
show the reaction diagram
-
-
-
?
formyl-MLHQ + H2O
formate + MLHQ
show the reaction diagram
-
-
-
?
formyl-MLKL + H2O
formate + MLKL
show the reaction diagram
peptide substrate derived from mitochondrial NADH dehydrogenase subunit 4
-
-
?
formyl-MMYA + H2O
formate + MMYA
show the reaction diagram
peptide substrate derived from mitochondrial NADH dehydrogenase subunit 6
-
-
?
formyl-MNFA + H2O
formate + MNFA
show the reaction diagram
peptide substrate derived from mitochondrial NADH dehydrogenase subunit 3
-
-
?
formyl-MNPL + H2O
formate + MNPL
show the reaction diagram
peptide substrate derived from mitochondrial NADH dehydrogenase subunit 2
-
-
?
formyl-MPQL + H2O
formate + MPQL
show the reaction diagram
peptide substrate derived from mitochondrial ATP synthase F0 subunit 8
-
-
?
formyl-MRHQ + H2O
formate + MRHQ
show the reaction diagram
-
-
-
?
formyl-MTHQ + H2O
formate + MTHQ
show the reaction diagram
formyl-MTMH + H2O
formate + MTMH
show the reaction diagram
peptide substrate derived from mitochondrial NADH dehydrogenase subunit 5
-
-
?
formyl-MTPM + H2O
formate + MTPM
show the reaction diagram
peptide substrate derived from mitochondrial cytochrome b
-
-
?
formyl-MVHQ + H2O
formate + MVHQ
show the reaction diagram
-
-
-
?
formylmethionine + H2O
formate + methionine
show the reaction diagram
N-(alpha-difluoroacetyl)-Met-Leu-p-nitroanilide + H2O
difluoroacetic acid + Met-Leu-p-nitroanilide
show the reaction diagram
-
-
-
?
N-(alpha-fluoroacetyl)-Met-Leu-p-nitroanilide + H2O
fluoroacetic acid + Met-Leu-p-nitroanilide
show the reaction diagram
-
-
-
?
N-formyl-1-(1-naphthyl)ethylamine + H2O
(1R)-1-naphthalen-1-ylethanamine + formate
show the reaction diagram
-
-
90% (R)-enantiomer
-
?
N-formyl-3-amino-3-phenylpropionic acid + H2O
(R)-3-amino-3-phenylpropionic acid + formate
show the reaction diagram
-
-
100% (R)-enantiomer
-
?
N-formyl-Ala-Gly-Ser-Glu + H2O
formate + Ala-Gly-Ser-Glu
show the reaction diagram
N-formyl-alaninol + H2O
(S)-alaninol + formate
show the reaction diagram
-
-
85.6% (S)-enantiomer
-
?
N-formyl-alpha-methyl-phenylglycine amide + H2O
(S)-alpha-methyl-phenylglycine amide + formate
show the reaction diagram
-
-
100% (S)-enantiomer
-
?
N-formyl-Asp(NH2) + H2O
?
show the reaction diagram
-
-
-
-
?
N-formyl-beta-thiaphenylalanyl-Ala-Leu-4-nitroanilide + H2O
formate + beta-thiaphenylalanyl-Ala-Leu-4-nitroanilide
show the reaction diagram
-
-
-
-
?
N-formyl-beta-thiaphenylalanyl-Lys-p-nitroanilide + H2O
formate + beta-thiaphenylalanyl-Lys-p-nitroanilide
show the reaction diagram
N-formyl-beta-thiaphenylalanyl-peptide + H2O
formate + beta-thiaphenylalanyl-peptide
show the reaction diagram
N-formyl-beta-thiaphenylalanylleucyl 4-nitroanilide + H2O
formate + beta-thiaphenylalanylleucyl 4-nitroanilide
show the reaction diagram
-
excellent substrate
-
?
N-formyl-Gly(NH2) + H2O
?
show the reaction diagram
-
-
-
-
?
N-formyl-His-Ala-Ser-Arg + H2O
formate + His-Ala-Ser-Arg
show the reaction diagram
-
greatly attenuated activity, preference for N-terminal methionine
-
?
N-formyl-L-Ala-L-Ala-L-Ala + H2O
?
show the reaction diagram
-
-
-
-
?
N-formyl-L-Arg(NH2) + H2O
?
show the reaction diagram
-
-
-
-
?
N-formyl-L-Arg-amide + H2O
?
show the reaction diagram
-
-
-
-
?
N-formyl-L-Met-D-Ala-Ser-Arg + H2O
formate + L-Met-D-Ala-Ser-Arg
show the reaction diagram
-
strong requirement for L-methionine, but D-amino acids tolerated in other positions
-
?
N-formyl-L-Met-L-Ala + H2O
formate + L-Met-L-Ala
show the reaction diagram
-
-
-
-
?
N-formyl-L-Met-L-Ala-L-Ser + H2O
formate + L-Met-L-Ala-L-Ser
show the reaction diagram
N-formyl-L-Met-L-Leu-4-nitroanilide + H2O
formate + L-Met-L-Leu-4-nitroanilide
show the reaction diagram
-
-
-
?
N-formyl-L-Met-L-Lys + H2O
formate + L-Met-L-Lys
show the reaction diagram
-
-
-
-
?
N-formyl-L-Met-L-Val + H2O
formate + L-Met-L-Val
show the reaction diagram
-
-
-
-
?
N-formyl-L-Met-Val + H2O
formate + L-Met-Val
show the reaction diagram
N-formyl-L-methionine + H2O
formate + L-methionine
show the reaction diagram
N-formyl-L-methionine polypeptide + H2O
formate + methionine-polypeptide
show the reaction diagram
N-formyl-L-methionine-polypeptide + H2O
formate + L-methionine-polypeptide
show the reaction diagram
N-formyl-L-Nle-L-Ala-L-Ser + H2O
formate + L-Nle-L-Ala-L-Ser
show the reaction diagram
-
norleucine is the only excepted substitution for methionine
-
?
N-formyl-Leu(NH2) + H2O
?
show the reaction diagram
-
-
-
-
?
N-formyl-Leu-Tle-NHCH3 + H2O
(S)-Leu-(S)-Tle-NHCH3
show the reaction diagram
-
Tle i.e. tert-leucine
Tle i.e. tert-leucine, 94% (S,S)-diastereomer
-
?
N-formyl-m-methoxyphenylalanine nitrile + H2O
(S)-m-methoxyphenylalanine nitrile + formate
show the reaction diagram
-
-
99% (S)-enantiomer
-
?
N-formyl-Met + H2O
formate + Met
show the reaction diagram
N-formyl-Met-Ala + H2O
formate + Met-Ala
show the reaction diagram
N-formyl-Met-Ala + H2O
Met-Ala + formate
show the reaction diagram
-
-
-
-
?
N-formyl-Met-Ala(OCH3) + H2O
formate + Met-Ala(OCH3)
show the reaction diagram
N-formyl-Met-Ala-Phe-Tyr-beta-Ala-Arg + H2O
formate + Met-Ala-Phe-Tyr-beta-Ala-Arg
show the reaction diagram
-
-
-
?
N-formyl-Met-Ala-Ser + H2O
formate + Met-Ala-Ser
show the reaction diagram
N-formyl-Met-Leu-Glu + H2O
formate + Met-Leu-Glu
show the reaction diagram
N-formyl-Met-Leu-NH2 + H2O
formate + Met-Leu-NH2
show the reaction diagram
-
-
-
?
N-formyl-Met-Leu-p-nitroanilide + H2O
formate + Met-Leu-p-nitroanilide
show the reaction diagram
N-formyl-Met-Leu-Phe + H2O
formate + Met-Leu-Phe
show the reaction diagram
N-formyl-Met-Ser-Asn-Glu + H2O
formate + Met-Ser-Asn-Glu
show the reaction diagram
N-formyl-Met-Val-Ser + H2O
formate + Met-Val-Ser
show the reaction diagram
N-formyl-Met-Xaa-Xbb-Tyr + H2O
formate + Met-Xaa-Xbb-Tyr
show the reaction diagram
-
consesus sequence for best substrates, Xaa: any amino acid except for Asp and Glu, Xbb: Lys, Arg, Tyr or Phe
-
?
N-formyl-Nle-Ala(NH2) + H2O
formate + Nle-Ala(NH2)
show the reaction diagram
N-formyl-Nle-Ala-Ser + H2O
formate + Nle-Ala-Ser
show the reaction diagram
N-formyl-Nle-Arg(NH2) + H2O
formate + Nle-Arg(NH2)
show the reaction diagram
N-formyl-Nle-Asn(NH2) + H2O
formate + Nle-Asn(NH2)
show the reaction diagram
-
-
-
-
?
N-formyl-Nle-Asp(NH2) + H2O
formate + Nle-Asp(NH2)
show the reaction diagram
N-formyl-Nle-Gln(NH2) + H2O
formate + Nle-Gln(NH2)
show the reaction diagram
-
-
-
-
?
N-formyl-Nle-Glu(NH2) + H2O
formate + Nle-Glu(NH2)
show the reaction diagram
-
-
-
-
?
N-formyl-Nle-Gly(NH2) + H2O
formate + Nle-Gly(NH2)
show the reaction diagram
N-formyl-Nle-His(NH2) + H2O
formate + Nle-His(NH2)
show the reaction diagram
-
-
-
-
?
N-formyl-Nle-Leu(NH2) + H2O
formate + Nle-Leu(NH2)
show the reaction diagram
N-formyl-Nle-Lys(NH2) + H2O
formate + Nle-Lys(NH2)
show the reaction diagram
-
-
-
-
?
N-formyl-Nle-Met(NH2) + H2O
formate + Nle-Met(NH2)
show the reaction diagram
-
-
-
-
?
N-formyl-Nle-NH(CH3) + H2O
formate + Nle-NH(CH3)
show the reaction diagram
N-formyl-Nle-NH2 + H2O
formate + Nle-Nle-NH2
show the reaction diagram
N-formyl-Nle-Nle(NH2) + H2O
formate + Nle-Nle(NH2)
show the reaction diagram
-
-
-
-
?
N-formyl-Nle-Phe(NH2) + H2O
formate + Nle-Phe(NH2)
show the reaction diagram
-
-
-
-
?
N-formyl-Nle-Pro(NH2) + H2O
formate + Nle-Pro(NH2)
show the reaction diagram
-
-
-
-
?
N-formyl-Nle-Ser(NH2) + H2O
formate + Nle-Ser(NH2)
show the reaction diagram
N-formyl-Nle-Thr(NH2) + H2O
formate + Nle-Thr(NH2)
show the reaction diagram
-
-
-
-
?
N-formyl-Nle-Trp(NH2) + H2O
formate + Nle-Trp(NH2)
show the reaction diagram
-
-
-
-
?
N-formyl-Nle-Tyr(NH2) + H2O
formate + Nle-Tyr(NH2)
show the reaction diagram
-
-
-
-
?
N-formyl-Nle-Val(NH2) + H2O
formate + Nle-Val(NH2)
show the reaction diagram
-
-
-
-
?
N-formyl-Nva-Ala-Ser + H2O
formate + Nva-Ala-Ser
show the reaction diagram
N-formyl-Phe-Ala-Ser + H2O
formate + Phe-Ala-Ser
show the reaction diagram
N-formyl-Phe-Tyr-Phe + H2O
formate + Phe-Tyr-Phe
show the reaction diagram
-
only N-terminal Phe can replace Met
-
?
N-formyl-Phe-Tyr-Phe-His-beta-Ala-Arg + H2O
formate + Phe-Tyr-Phe-His-beta-Ala-Arg
show the reaction diagram
-
-
-
?
N-formyl-Phe-Tyr-Tyr + H2O
formate + Phe-Tyr-Tyr
show the reaction diagram
-
only N-terminal Phe can replace Met
-
?
N-formyl-phenylalanine nitrile + H2O
(S)-phenylalanine nitrile + formate
show the reaction diagram
-
-
98.8% (S)-enantiomer
-
?
N-formyl-phenylglycine + H2O
(S)-phenylglycine + formate
show the reaction diagram
-
-
99.6% (S)-enantiomer
-
?
N-formyl-phenylglycine amide + H2O
(S)-phenylglycine amide + formate
show the reaction diagram
-
-
99.7% (S)-enantiomer
-
?
N-formyl-phenylglycinol + H2O
(S)-phenylglycinol + formate
show the reaction diagram
-
-
90.5-93.3% (S)-enantiomer, depending on method
-
?
N-formyl-Ser(NH2) + H2O
?
show the reaction diagram
-
-
-
-
?
N-formyl-tert-leucine amide + H2O
(S)-tert-leucine amide + formate
show the reaction diagram
-
-
100% (S)-enantiomer
-
?
N-formyl-thiaphenylalanyl-peptide + H2O
formate + thiaphenylalanyl-peptide
show the reaction diagram
-
-
-
-
?
N-formyl-valine nitrile + H2O
(S)-valine nitrile + formate
show the reaction diagram
-
-
98.8% (S)-enantiomer
-
?
N-formylmethionine-alanine + H2O
formate + methionyl-alanine
show the reaction diagram
-
-
-
-
?
N-formylmethionylleucyl-amide + H2O
formate + methionylleucyl-amide
show the reaction diagram
-
-
-
-
?
additional information
?
-