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Title

Fold combinations in multi-domain proteins

Authors

Nagarajan Naveenkumar1,2,3, Gayatri Kumar33, Ramanathan Sowdhamini1, Narayanaswamy Srinivasan*,3 & Sneha Vishwanath3

 

Affiliation

1National Center for Biological Science, GKVK Campus, Bengaluru, Karnataka, India 560065; 2Bharathidasan University, Tiruchirappalli, Tamil Nadu, 620024, India; 3Molecular Biophysics Unit, Indian Institute of Science, Bengaluru, Karnataka, India 560012

 

Email

Narayanaswamy Srinivasan - E-mail: ns@iisc.ac.in; *Corresponding author

 

Article Type

Research Article

 

Date

Received May 5, 2019; Accepted May 7, 2019; Published May 15, 2019

 

Abstract

Domain-domain interactions in multi-domain proteins with tethering domains play an important role in the combined function of individual domains for the overall biological activity of the protein. The functions of the tethered domains are often coupled and hence, limited numbers of domain architectures with defined folds (known 1439) are known in nature. Therefore, it is of interest to document the available fold-fold combinations and their preference in multi-domain proteins. Hence, we analyzed all multi-domain proteins with known structures at the protein databank (PDB) and observed that only about 860 fold-fold combinations are present among them. This represents about 29,860 fold-fold combinations in the known sequence space upon projection and it accounts for only 2.8% of all possible 1,036,080 (1439C2) fold-fold combinations in theory. The observed preference for fold-fold combinations in multi-domain proteins is interesting in the context of multiple functions through structural adaptation by gene fusion.

 

Keywords

domain architecture; domain folds; multi-domain proteins; protein evolution; protein structure

 

Citation

Naveenkumar et al. Bioinformation 15(5): 342-350 (2019)

 

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.