CAVER Analyst 1.0: graphic tool for interactive visualization and analysis of tunnels and channels in protein structures

Abstract

Abstract Summary: The transport of ligands, ions or solvent molecules into proteins with buried binding sites or through the membrane is enabled by protein tunnels and channels. CAVER Analyst is a software tool for calculation, analysis and real-time visualization of access tunnels and channels in static and dynamic protein structures. It provides an intuitive graphic user interface for setting up the calculation and interactive exploration of identified tunnels/channels and their characteristics. Availability and Implementation: CAVER Analyst is a multi-platform software written in JAVA. Binaries and documentation are freely available for non-commercial use at http://www.caver.cz . Contact: jiri@chemi.muni.cz or sochor@fi.muni.cz Supplementary information: Supplementary data are available at Bioinformatics online.