BSDB: the biomolecule stretching database

Nucleic Acids Res. 2011 Jan;39(Database issue):D443-50. doi: 10.1093/nar/gkq851. Epub 2010 Oct 6.

Abstract

We describe the Biomolecule Stretching Data Base that has been recently set up at http://www.ifpan.edu.pl/BSDB/. It provides information about mechanostability of proteins. Its core is based on simulations of stretching of 17 134 proteins within a structure-based model. The primary information is about the heights of the maximal force peaks, the force-displacement patterns, and the sequencing of the contact-rupturing events. We also summarize the possible types of the mechanical clamps, i.e. the motifs which are responsible for a protein's resistance to stretching.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Biomechanical Phenomena
  • Databases, Protein*
  • Models, Chemical
  • Molecular Dynamics Simulation
  • Protein Structure, Secondary
  • Proteins / chemistry*

Substances

  • Proteins