A tutorial for the modfinder module of BioJava
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The modfinder module of BioJava provides an API for identification of protein pre-, co-, and post-translational modifications from structures. |
This tutorial is split into several chapters.
Chapter 1 - Quick Installation
Chapter 2 - How to get the list of supported protein modifications
Chapter 3 - How to identify protein modifications in a structure
Chapter 4 - How to define a new protein modification
The content of this tutorial is available under the CC-BY license, available here.
BioJava-ModFinder: identification of protein modifications in 3D structures from the Protein Data Bank
Jianjiong Gao; Andreas Prlic; Chunxiao Bi; Wolfgang F. Bluhm; Dimitris Dimitropoulos; Dong Xu; Philip E. Bourne; Peter W. Rose
Bioinformatics. 2017 Feb 17.
BioJava 5: A community driven open-source bioinformatics library
Aleix Lafita, Spencer Bliven, Andreas Prlić, Dmytro Guzenko, Peter W. Rose, Anthony Bradley, Paolo Pavan, Douglas Myers-Turnbull, Yana Valasatava, Michael Heuer, Matt Larson, Stephen K. Burley, & Jose M. Duarte
PLOS Computational Biology (2019) 15 (2):e1006791.
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