Peptide backbone conformation affects the substrate preference of protein arginine methyltransferase I

Biochemistry. 2012 Jul 10;51(27):5463-75. doi: 10.1021/bi300373b. Epub 2012 Jun 27.

Abstract

Asymmetric dimethylation of arginine side chains is a common post-translational modification of eukaryotic proteins, which serves mostly to regulate protein-protein interactions. The modification is catalyzed by type I protein arginine methyltransferases, PRMT1 being the predominant member of the family. Determinants of substrate specificity of these enzymes are poorly understood. The Nuclear poly(A) binding protein 1 (PABPN1) is methylated by PRMT1 at 13 arginine residues located in RXR sequences in the protein's C-terminal domain. We have identified a preferred site for PRMT1-catalyzed methylation in PABPN1 and in a corresponding synthetic peptide. Variants of these substrates were analyzed by steady-state kinetic analysis and mass spectrometry. The data indicate that initial methylation is directed toward the preferred arginine residue by an N-terminally adjacent proline. Enhanced methylation upon peptide cyclization suggests that induction of a reverse turn structure is the basis for the ability of the respective proline residue to enable preferred methylation of the neighboring arginine residue, and this notion is supported by far-UV circular dichroism spectroscopy. We suggest that the formation of a reverse turn facilitates the access of arginine side chains to the active sites of PRMT1, which are located in the central cavity of a doughnut-shaped PRMT1 homodimer.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Motifs
  • Amino Acid Sequence
  • Animals
  • Biocatalysis
  • Humans
  • Methylation
  • Models, Molecular
  • Molecular Sequence Data
  • Mutagenesis, Site-Directed
  • Mutation
  • Peptide Fragments / chemistry
  • Peptide Fragments / metabolism
  • Peptides / chemistry*
  • Poly(A)-Binding Protein II / chemistry
  • Poly(A)-Binding Protein II / genetics
  • Proline
  • Protein-Arginine N-Methyltransferases / chemistry*
  • Protein-Arginine N-Methyltransferases / metabolism*
  • Rats
  • Repressor Proteins / chemistry*
  • Repressor Proteins / metabolism*
  • Substrate Specificity

Substances

  • Peptide Fragments
  • Peptides
  • Poly(A)-Binding Protein II
  • Repressor Proteins
  • Proline
  • PRMT1 protein, human
  • PRMT1 protein, rat
  • Protein-Arginine N-Methyltransferases