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Validation methods for low-resolution fitting of atomic structures to electron microscopy data.

Xiao-Ping Xu1, Niels Volkmann1

  • 1Bioinformatics and Structural Biology Program, Sanford-Burnham Medical Research Institute, 10901 N Torrey Pines Rd, La Jolla, CA 92037, USA.

Archives of Biochemistry and Biophysics
|June 28, 2015
PubMed
Summary
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Standard protocols for assessing atomic-resolution model fits in electron cryo-microscopy are lacking. This study outlines validation concepts for fitting models into cryo-EM reconstructions, especially those below sub-nanometer resolution.

Area of Science:

  • Structural biology
  • Biophysics
  • Biochemistry

Background:

  • Atomic-resolution structural models are fitted into electron cryo-microscopy (EM) reconstructions to study macromolecular machines.
  • Established validation protocols for assessing the quality of these fits are currently lacking.

Purpose of the Study:

  • To present general concepts for validating atomic-resolution model fitting into cryo-EM reconstructions.
  • To emphasize validation strategies for cryo-EM maps below sub-nanometer resolution.

Main Methods:

  • Review of current validation concepts for atomic-resolution model fitting.
  • Focus on electron cryo-microscopy reconstructions with resolutions below 1 nm.

Main Results:

Keywords:
Electron microscopyFittingValidation

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  • Lack of standardized validation protocols for atomic-resolution model fitting in cryo-EM.
  • Identification of key concepts for assessing fit quality in low-resolution cryo-EM data.

    • Conclusions:

    • Standardized validation is crucial for reliable interpretation of atomic-resolution models fitted into cryo-EM data.
    • Further development of validation strategies is needed, particularly for sub-nanometer resolution reconstructions.