Format

Send to

Choose Destination
See comment in PubMed Commons below
Bioinformatics. 2003 Nov 22;19(17):2308-10.

PDB file parser and structure class implemented in Python.

Author information

1
Department of Cellular and Molecular Interactions, Vlaams Interuniversitair Instituut voor Biotechnologie and Computational Modeling Lab, Department of Computer Science, Vrije Universiteit Brussel, Pleinlaan 2, 1050 Brussels, Belgium. thamelry@vub.ac.be

Abstract

The biopython project provides a set of bioinformatics tools implemented in Python. Recently, biopython was extended with a set of modules that deal with macromolecular structure. Biopython now contains a parser for PDB files that makes the atomic information available in an easy-to-use but powerful data structure. The parser and data structure deal with features that are often left out or handled inadequately by other packages, e.g. atom and residue disorder (if point mutants are present in the crystal), anisotropic B factors, multiple models and insertion codes. In addition, the parser performs some sanity checking to detect obvious errors.

AVAILABILITY:

The Biopython distribution (including source code and documentation) is freely available (under the Biopython license) from http://www.biopython.org

PMID:
14630660
[Indexed for MEDLINE]
PubMed Commons home

PubMed Commons

0 comments
How to join PubMed Commons

    Supplemental Content

    Loading ...
    Support Center