Protein Contact Matrix Generator download

A protein contact matrix is 2D representation of the distances between amino acid residues in a 3D protein structure. Protein Contact Map Generator (PCMGen) is a command line tool which takes protein 3D structures (PDB format files) as input and computes contact distances between two chains (from single or two different proteins). These matrix files can be further visualised as Contact Maps using other visualization tools/ programs (like R-heatmaps).

Contact Maps can be used to understand proteins' :
1. Secondary structures
2. Conformational arrangements
3. Surface interactions

Features

Structural Informatics
Protein Contact Map
Java based CLI application

Project Samples

PCMGen output visualized using R (heatmap)

Project Activity

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License

GNU General Public License version 3.0 (GPLv3)

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Additional Project Details

Operating Systems

Linux

Intended Audience

End Users/Desktop

User Interface

Command-line

Programming Language

Java

Related Categories

Java Bio-Informatics Software, Java Command Line Tools

Registered

2015-06-20

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