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Title

PICI: A web server with a multi-parametric algorithm for identifying interaction sites within protein complexes

Authors

Arindam Atanu Das & Ramadas Krishna*

Affiliation

Centre for Bioinformatics, Pondicherry University, Puducherry 605014, India;

 

Email

Ramadas Krishna Email: ramadaskr@gmail.com; Phone: +91 9489434153; *Corresponding author

Article Type

Web Server

 

Date

Received February 28, 2016; Revised April 6, 2016; Accepted April 6, 2016; Published April 10, 2016

 

Abstract

Identifying interactions between proteins in a complex is essential to analyze their role in various cellular activities and structural stability. Therefore, effective algorithms and computer programs are required for the better understanding of various interactions exist at the protein-protein interface. The protein inter-chain interaction (PICI) server was developed to identify these interaction sites and various interactions that contribute to the specificity and strength of the protein complex by using Protein Interaction Identification Algorithm (PIIA). The multi-parametric approach of this algorithm involves the interface area between the subunits, the atomic coordinate distance, the linearity of bonds, the orientation of aromatic side-chains, and physicochemical properties of the residues. Particular advantages of PICI include its ability to identify various strong and weak interactions, including those which have not been considered before by any other server. Representation of interface data in text tables, 3D interaction visualizer, colored sequence viewer, and a dynamic colored graphical matrix display makes it distinct from similar web servers. Users can analyze interactions within multi-chain proteins by their PDBids or by uploading a structure atomic coordinate file and can download the result in plain text or XML format.

 

Availability:

 PICI is freely accessible at http://pici.bicpu.edu.in/.

Citation

Das & Krishna, Bioinformation 12(2): 78-81 (2016)

Edited by

P Kangueane

 

ISSN

0973-2063

 

Publisher

Biomedical Informatics

 

License

This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License.