A molecular mechanism for the enzymatic methylation of nitrogen atoms within peptide bonds

Haigang Song, Niels S. Van Der Velden, Sally L. Shiran, Patrick Bleiziffer, Christina Zach, Ramon Sieber, Aman S. Imani, Florian Krausbeck, Markus Aebi, Michael F. Freeman, Sereina Riniker, Markus Künzler, James H. Naismith

Research output: Contribution to journalArticlepeer-review

9 Scopus citations

Abstract

The peptide bond, the defining feature of proteins, governs peptide chemistry by abolishing nucleophilicity of the nitrogen. This and the planarity of the peptide bond arise from the delocalization of the lone pair of electrons on the nitrogen atom into the adjacent carbonyl. While chemical methylation of an amide bond uses a strong base to generate the imidate, OphA, the precursor protein of the fungal peptide macrocycle omphalotin A, self-hypermethylates amides at pH 7 using S-adenosyl methionine (SAM) as cofactor. The structure of OphA reveals a complex catenane-like arrangement in which the peptide substrate is clamped with its amide nitrogen aligned for nucleophilic attack on the methyl group of SAM. Biochemical data and computational modeling suggest a base-catalyzed reaction with the protein stabilizing the reaction intermediate. Backbone N-methylation of peptides enhances their protease resistance and membrane permeability, a property that holds promise for applications to medicinal chemistry.

Original languageEnglish (US)
Article numbereaat2720
JournalScience Advances
Volume4
Issue number8
DOIs
StatePublished - Aug 24 2018

Bibliographical note

Funding Information:
We thank C. Botting (St. Andrews) for assistance with the MS, F. Wuhrmann and D. Schurter [Eidgenössische Technische Hochschule (ETH)] and Y. Zhao (Analytical Biochemistry Shared Resource of the Masonic Cancer Center, University of Minnesota) for excellent technical assistance. This work was financially supported by ETH Zürich, University of Minnesota, the Swiss National Science Foundation (grant nos. 31003A_149512 and 200021–159713), Wellcome Trust (094476/Z/10/Z), ERC (NCB-TNT 339367), and BBSRC (BB/R018189/1).

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