Title

A Comparison of Rosetta Stones in Adapter Protein Families

Authors

Hulikal Shivashankara Santosh Kumar1, Vadlapudi Kumar2*

Affiliation

1Department of Biotechnology and Bioinformatics, Kuvempu University, Shankaraghatta - 577451, Karnataka, India - E-mail: sk.genesan@gmail.com; 2Department of Biochemistry, Davanagere University, Shivagangothri, Davanagere - 577002, Karnataka, India
 

Email

Vadlapudi Kumar - Email: vadlapudikumar@gmail.com; * Corresponding author

Article Type

Hypothesis
 

Date

Received July 12, 2016, Revised July 24, 2016; Accepted July 26, 2016; Published August 15, 2016

The inventory of proteins used in different kingdoms appears surprisingly similar in all sequenced eukaryotic genome. Protein domains represent the basic evolutionary units that form proteins. Domain duplication and shuffling by recombination are probably the most important forces driving protein evolution and hence the complexity of the proteome. While the duplication of whole genes
as well as domain encoding exons increases the abundance of domains in the proteome, domain shuffling increases versatility, i.e. the number of distinct contexts in which a domain can occur. In this study we considered five important adapter domain families namely WD40, KELCH, Ankyrin, PDZ and Pleckstrin Homology (PH domain) family for the comparison of Domain versatility, Abundance
and domain sharing between them. We used ecological statistics methods such as Jaccard’s Similarity Index (JSI), Detrended Correspondence Analysis, k-Means clustering for the domain distribution data. We found high propensity of domain sharing between PH and PDZ. We found higher abundance of only few selected domains in PH, PDZ, ANK and KELCH families. We also found WD40
family with high versatility and less redundant domain occurrence, with less domain sharing. Hence, the assignments of functions to more orphan WD40 proteins that will help in the identification of suitable drug targets.

Keywords

WD40, Rosetta Stones, domain versatility, detrended correspondence analysis, domain sharing

Citation

Santosh Kumar & Kumar, Bioinformation 2016 12(5) 285-292.

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.