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Peptides. Author manuscript; available in PMC 2007 July 1.
Published in final edited form as:
Published online 2006 March 15. doi: 10.1016/j.peptides.2006.01.018.
PMCID: PMC1629084
NIHMSID: NIHMS10946
NMR structure of the viral peptide linked to the genome (VPg) of poliovirus
Catherine H. Schein,* Numan Oezguen, David E. Volk, Ravindranath Garimella, Aniko Paul,# and Werner Braun
Sealy Center for Structural Biology and Molecular Biophysics, Department of Human Biochemistry and Molecular Biology, University of Texas Medical Branch, Galveston TX 77555-0857, USA;
# Department of Molecular Genetics and Microbiology, Stony Brook University, Stony Brook, N. Y.11790, USA
*corresponding author: Tel. 409-747 6843 Fax: 409-747 6000 E-mail: chschein/at/utmb.edu
Abstract
VPgs are essential for replication of picornaviruses, which cause diseases such as poliomyelitis, foot and mouth disease, and the common cold. VPg in infected cells is covalently linked to the 5' end of the viral RNA, or, in a uridylylated form, free in the cytoplasm. We show here the first solution structure for a picornaviral VPg, that of the 22-residue peptide from poliovirus serotype 1. VPg in buffer is inherently flexible, but a single conformer was obtained by adding trimethylamine N-oxide (TMAO). TMAO had only minor effects on the TOCSY spectrum. However, it increased the amount of structured peptide, as indicated by more peaks in the NOESY spectrum and an up to 300% increase in the ratio of normalized NOE crosspeak intensities to that in buffer. The data for VPg in TMAO yielded a well defined structure bundle with 0.6Å RMSD (vs. 6.6 Å in buffer alone), with 10–30 unambiguous constraints per residue. The structure consists of a large loop region from residues 1–14, from which the reactive tyrosinate projects outward, and a C-terminal helix from residues 18–21 that aligns the sidechains of conserved residues on one face. The structure has a stable docking position at an area on the poliovirus polymerase crystal structure identified as a VPg binding site by mutagenesis studies. Further, UTP and ATP dock in a base-specific manner to the reactive face of VPg, held in place by residues conserved in all picornavirus VPgs.
Keywords: viral replication, polymerase interaction, picornavirus, circular dichroism, trimethylamine N-oxide (TMAO), solvent stabilization, uridylylation, post-translational modification