The Visualization of Protein-Ligand Graphs (VPLG) software package computes and visualizes protein graphs. It works on the super-secondary structure level and uses the atom coordinates from PDB files and the SSE assignments of the DSSP algorithm.
RxDock is a fork of rDock, a fast, versatile and open-source program for docking ligands to proteins and nucleic acids. RxDock started in 2019 with the goal of updating the code for running on modern computer systems (including supercomputers), enabling cross-platform usage, improving the
... [More] command-line and application programming interfaces, and implementing newer and better performing algorithms. [Less]