Cryo-electron microscopy modeling by the molecular dynamics flexible fitting method

Kwok Yan Chan, Leonardo G. Trabuco, Eduard Schreiner, Klaus Schulten

Research output: Contribution to journalArticle

Abstract

The increasing power and popularity of cryo-electron microscopy (cryo-EM) in structural biology brought about the development of so-called hybrid methods, which permit the interpretation of cryo-EM density maps beyond their nominal resolution in terms of atomic models. The Cryo-EM Modeling Challenge 2010 is the first community effort to bring together developers of hybrid methods as well as cryo-EM experimentalists. Participating in the challenge, the molecular dynamics flexible fitting (MDFF) method was applied to a number of cryo-EM density maps. The results are described here with special emphasis on the use of symmetry-based restraints to improve the quality of atomic models derived from density maps of symmetric complexes; on a comparison of the stereochemical quality of atomic models resulting from different hybrid methods; and on application of MDFF to electron crystallography data.

Original languageEnglish (US)
Pages (from-to)678-686
Number of pages9
JournalBiopolymers
Volume97
Issue number9
DOIs
StatePublished - Sep 2012

Keywords

  • cryo-electron microscopy
  • Cryo-EM Modeling Challenge 2010
  • molecular dynamics flexible fitting (MDFF)

ASJC Scopus subject areas

  • Biochemistry
  • Biophysics
  • Biomaterials
  • Organic Chemistry

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