DockAFM: benchmarking protein structures by docking under AFM topographs

DOI PDF 5 Citations
  • Rui C. Chaves
    CEA, iBEB, Service de Biochimie et Toxicologie Nucléaire, F-30207 Bagnols sur Cèze, France
  • Jean-Luc Pellequer
    CEA, iBEB, Service de Biochimie et Toxicologie Nucléaire, F-30207 Bagnols sur Cèze, France

Description

<jats:title>Abstract</jats:title> <jats:p>Summary: Proteins can adopt a variety of conformations. We present a simple server for scoring the agreement between 3D atomic structures and experimental envelopes obtained by atomic force microscopy. Three different structures of immunoglobulins (IgG) or blood coagulation factor V activated were tested and their agreement with several topographical surfaces was computed. This approach can be used to test structural variability within a family of proteins.</jats:p> <jats:p>Availability and implementation: DockAFM is available at http://biodev.cea.fr/dockafm.</jats:p> <jats:p>Contact:  chaves.rui.c@gmail.com or jlpellequer@cea.fr</jats:p> <jats:p>Supplementary information:  Supplementary data are available at Bioinformatics online.</jats:p>

Journal

  • Bioinformatics

    Bioinformatics 29 (24), 3230-3231, 2013-09-26

    Oxford University Press (OUP)

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