Structural Bioinformatics
This work presents a novel method for including interface information into protein docking simulations within the LightDock framework, and demonstrates the applicability of this approach on the new 55 cases of the Protein–Protein Docking Benchmark 5.
Abstract
Description: VARNA is a tool for the automated drawing, visualization and annotation of the secondary structure of RNA, designed as a companion software for web servers and databases. Features: VARNA implements four drawing algorithms, supports input/output using the classic formats dbn, ct, bpseq and RNAML and exports the drawing as five picture formats, either pixel-based (JPEG, PNG) or vector-based (SVG, EPS and XFIG). It also allows manual modification and structural annotation of the resulting drawing using either an interactive point and click approach, within a web server or through command-line arguments. Availability: VARNA is a free software, released under the terms of the GPLv3.0 license and available at http://varna.lri.fr Contact: ponty@lri.fr Supplementary information: Supplementary data are available at Bioinformatics online.