Welcome to PBxplore’s documentation!¶
PBxplore is a suite of tools dedicated to Protein Block analysis.
Protein Blocks (PBs) are structural prototypes defined by de Brevern et al . The 3-dimensional local structure of a protein backbone can be modelized as an 1-dimensional sequence of PBs. In principle, any conformation of any amino acid could be represented by one of the sixteen available Protein Blocks.
PBxplore provides both a Python library and command-line tools (Utilization). For some features (reading trajectory, plots), PBxplore requires some optional dependencies (Installation). Basically, PBxplore can:
- assign PBs from either a PDB or either a molecular dynamics trajectory (PB assignation).
- use analysis tools to perform statistical analysis on PBs (Statistics).
- use analysis tools to study protein flexibility and deformability (Analyzis).
If you use PBxplore, please cite this tool as:
Contact & Support¶
PBxplore is a research software and has been developped by:
- Pierre Poulain, “Mitochondria, Metals and Oxidative Stress” group, Institut Jacques Monod, UMR 7592, Univ. Paris Diderot, CNRS, Sorbonne Paris Cité, France.
- Jonathan Barnoud, University of Groningen, Groningen, The Netherlands.
- Hubert Santuz, Laboratoire de Biochimie Théorique, CNRS UPR 9080, Institut de Biologie Physico-Chimique, Paris, France.
- Alexandre G. de Brevern, DSIMB, INSERM, U 1134, INTS, Paris, France.
If you want to report a bug or request a feature, please use the GitHub issue system.