Asymmetric dynamics of ion channel forming proteins - Hepatitis C virus (HCV) p7 bundles

Monoj Mon Kalita, Wolfgang B. Fischer*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

6 Scopus citations

Abstract

Protein p7 of hepatitis C virus (HCV) is a short 63 amino acid membrane protein which homo-oligomerises in the lipid membrane to form ion and proton conducting bundles. Two different genotypes (GTs) of p7, 1a and 5a, are used to simulate hexameric bundles of the protein embedded in a fully hydrated lipid bilayer during 400 ns molecular dynamics (MD) simulations. Whilst the bundle of GT 1a is based on a fully computational derived structure, the bundle of GT 5a is based on NMR spectroscopic data. Results of a full correlation analysis (FCA) reveal that albeit structural differences both bundles screen local minima during the simulation. The collective motion of the protein domains is asymmetric. No 'breathing-mode'-like dynamics is observed. The presence of divalent ions, such as Ca-ions affects the dynamics of especially solvent exposed parts of the protein, but leaves the asymmetric domain motion unaffected.

Original languageEnglish
Pages (from-to)1462-1470
Number of pages9
JournalBiochimica et Biophysica Acta - Biomembranes
Volume1858
Issue number7
DOIs
StatePublished - 1 Jul 2016

Keywords

  • Genotypes
  • Molecular dynamics simulations
  • NMR structure
  • p7 of HCV
  • Protein mechanics
  • Viral channel protein

Fingerprint

Dive into the research topics of 'Asymmetric dynamics of ion channel forming proteins - Hepatitis C virus (HCV) p7 bundles'. Together they form a unique fingerprint.

Cite this