Bio3d: an R package for the comparative analysis of protein structures

Bioinformatics. 2006 Nov 1;22(21):2695-6. doi: 10.1093/bioinformatics/btl461. Epub 2006 Aug 29.


An automated procedure for the analysis of homologous protein structures has been developed. The method facilitates the characterization of internal conformational differences and inter-conformer relationships and provides a framework for the analysis of protein structural evolution. The method is implemented in bio3d, an R package for the exploratory analysis of structure and sequence data.

Availability: The bio3d package is distributed with full source code as a platform-independent R package under a GPL2 license from:

Publication types

  • Evaluation Study
  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Amino Acid Sequence
  • Computer Simulation
  • Internet
  • Models, Chemical*
  • Models, Molecular*
  • Molecular Sequence Data
  • Protein Conformation
  • Proteins / chemistry*
  • Sequence Analysis, Protein / methods*
  • Software*
  • User-Computer Interface*


  • Proteins