Visualization of Protein-Ligand Graphs Icon

Visualization of Protein-Ligand Graphs

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Computes and visualizes protein graphs for protein structure analysis.

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Description

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.

Visualization of Protein-Ligand Graphs Web Site

Features

  • Reads 3-dimensional atom data from PDB files and secondary structure assignments from DSSP files
  • Computes a protein-ligand graph from the data and visualizes the graph
  • Supports output of the graph images in bitmap (.png) and vector (.svg) formats
  • Exports protein-ligand graphs in a plain text file in its own format (.plg) that is easy to edit, parse and generate with a computer program as well as in a number of standard graph file formats
  • Can read and directly visualize protein graphs from .plg-files
  • Free Open Source Software (FOSS)
  • Database support (completely optional, no database server required by default)
  • Command line interface allows for easy batch processing via shell scripts
  • Allows filtering of ligands by atom number
  • New GUI written in Java, no need to type console commands anymore!

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Additional Project Details

Languages

English

Intended Audience

Advanced End Users, Education, Science/Research

User Interface

Command-line, Console/Terminal, Java Swing

Programming Language

Java

Registered

2011-08-14
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