Can I read Analysis and Network Representation of Hotspots in Protein Interfaces Using Minimum Cut Trees on EtoBox?

Analysis and Network Representation of Hotspots in Protein Interfaces Using Minimum Cut Trees by Nurcan Tuncbag; F. Sibel Salman; Ozlem Keskin; Attila Gursoy is a Biochemistry, Genetics and Molecular Biology article available to read on EtoBox.

What is Analysis and Network Representation of Hotspots in Protein Interfaces Using Minimum Cut Trees about?

## Abstract We propose a novel approach to analyze and visualize residue contact networks of protein interfaces by graph‐based algorithms using a minimum cut tree (mincut tree). Edges in the network are weighted according to an energy function derived from knowledge‐based potentials. The mincut tree, which is constructed from the weighted residue network, simplifies and summarizes the complex structure of the contact network by an efficient and informative representation. This representation offers a comprehensible view of critical residues and facilitates the inspection of their organization. We observed, on a nonredundant data set of 38 protein complexes with experimental hotspots that the highest degree node in the mincut tree usually corresponds to an experimental hotspot. Further, hotspots are found in a few paths in the mincut tree. In addition, we examine the organization of hotspots (hot regions) using an iterative clustering algorithm on two different case studies. We find that distinct hot regions are located on specific sites of the mincut tree and some critical residues hold these clusters together. Clustering of the interface residues provides information about the rel

Who reads Analysis and Network Representation of Hotspots in Protein Interfaces Using Minimum Cut Trees?

Author

Nurcan Tuncbag; F. Sibel Salman; Ozlem Keskin; Attila Gursoy

Publisher

John Wiley and Sons; Wiley (John Wiley & Sons); Wiley-Liss Inc; Wiley (ISSN 0887-3585)

Published

2010

Language

EN

Field

Biochemistry, Genetics and Molecular Biology (Life Sciences)