Related Experiment Video
Updated: Aug 6, 2026

Resolving Affinity Purified Protein Complexes by Blue Native PAGE and Protein Correlation Profiling
Published on: April 1, 2017
Protein contact network explorer: topological analysis of protein structures
Akhurath Ganapathy1, Sanjana Vijay Krishnan1, Arnold Emerson Isaac1
1Bioinformatics Programming Laboratory, Department of Bioscience, School of Bio Science and Technology, Vellore Institute of Technology, Vellore, Tamil Nadu, India.
Introduction:
The functions of proteins are primarily governed by coordinated interactions among amino acid residues throughout their three-dimensional structures. Large-scale determination of protein structures has long been made possible by experimental and computational methods; however, studying complex, dynamic, or multimeric systems remains challenging. Protein contact networks (PCNs) offer a graph-based representation of residue-level interactions and enable the application of network analysis techniques to structural data. Nevertheless, many existing tools mainly focus on creating static networks, which limits analytical flexibility.
Methods:
In this study, we introduce Protein Contact Network Explorer (PCNE), a tool for simple construction, visualisation, and analysis of protein contact networks derived from structure data.
Results:
The tool provides flexible residue contact definitions, the exploration of interactive networks, and the extraction of graph-theoretic measures relevant to understanding protein stability, allosteric communication, and functional organisation.
Discussion:
PCNE supports the analysis of key interaction patterns, facilitating both exploratory and hypothesis-driven research in structural biology. The PCNE can be accessed via https://lactdr5rfibhg9m5tmamwg.streamlit.app/.
Related Concept Videos
Protein Networks
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
Protein Networks
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
Protein-protein Interfaces
Protein-Protein Interfaces
Protein Organization
The primary structure of a protein is its amino acid sequence.
Protein Organization

