Weak conservation of structural features in the interfaces of homologous transient protein-protein complexes

Sudha, Govindarajan and Singh, Prashant and Swapna, Lakshmipuram S and Srinivasan, Narayanaswamy (2015) Weak conservation of structural features in the interfaces of homologous transient protein-protein complexes. In: PROTEIN SCIENCE, 24 (11). pp. 1856-1873.

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Abstract

Residue types at the interface of protein-protein complexes (PPCs) are known to be reasonably well conserved. However, we show, using a dataset of known 3-D structures of homologous transient PPCs, that the 3-D location of interfacial residues and their interaction patterns are only moderately and poorly conserved, respectively. Another surprising observation is that a residue at the interface that is conserved is not necessarily in the interface in the homolog. Such differences in homologous complexes are manifested by substitution of the residues that are spatially proximal to the conserved residue and structural differences at the interfaces as well as differences in spatial orientations of the interacting proteins. Conservation of interface location and the interaction pattern at the core of the interfaces is higher than at the periphery of the interface patch. Extents of variability of various structural features reported here for homologous transient PPCs are higher than the variation in homologous permanent homomers. Our findings suggest that straightforward extrapolation of interfacial nature and inter-residue interaction patterns from template to target could lead to serious errors in the modeled complex structure. Understanding the evolution of interfaces provides insights to improve comparative modeling of PPC structures.

Item Type:	Journal Article
Publication:	PROTEIN SCIENCE
Publisher:	WILEY-BLACKWELL
Additional Information:	Copy right for this article belongs to the WILEY-BLACKWELL, 111 RIVER ST, HOBOKEN 07030-5774, NJ USA
Keywords:	transient protein complexes; structure of protein complexes; interfaces of protein complexes; evolution of protein complexes; protein-protein interactions
Department/Centre:	Division of Biological Sciences > Molecular Biophysics Unit
Date Deposited:	24 Nov 2015 06:01
Last Modified:	24 Nov 2015 06:01
URI:	http://eprints.iisc.ac.in/id/eprint/52807

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