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Comparative analysis of sequence-structure function relationship of the SUN-domain protein CaSUN1

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Title Comparative analysis of sequence-structure function relationship of the SUN-domain protein CaSUN1
 
Creator Mishra, Poonam
Wardhan, Vijay
Pandey, Aarti
Chakraborty, Subhra
Garg, Gunjan
Chakraborty, Niranjan
 
Subject 3-dimensional modelling
Grain legume
MD simulation
Multiple sequence alignment
Phylogenetic analysis
Ramachandran plot
SUN-domain
 
Description Accepted Date: Nov 02, 2017
Sad1/UNC-84 (SUN)-domain proteins are residents of inner nuclear membrane (INM), and share structural features across species. We previously reported a highly conserved C-terminal SUN-domain family protein, designated CaSUN1, in the stress-responsive proteomic landscape of a grain legume, chickpea. In this study, we identified two other chickpea SUN proteins, CaSUN2 and CaSUN3, and performed a comparative analysis of the sequence-structure-function relationship to better understand the diversification of SUN-domain superfamily proteins. Sequence similarity across the species was investigated using multiple sequence alignment, which showed conserved patterns between CaSUN1 and the homologs. Phylogenetic analysis showed that plant SUN-domain proteins are clustered in a unique and distinct group. Using ab-initio approach, a 3D protein structure was generated and further validated using various tools including the Ramachandran plot. The results displayed 90.1% of the à  and à ± residues angles in the most favoured regions, suggesting a high-quality structural model for CaSUN1. Model deviation and fluctuation analysis were performed using molecular dynamics (MD) simulation of CaSUN1. The secondary structure analysis of CaSUN revealed a similarity between the structural components shared among them. CaSUN1 revealed two functional domains viz., SUN and muskelin, and the presence of kelch-repeat domain pointed out its putative role in oligomerization, while its binding affinity with different ligands indicates diverse functions. These results would not only give deeper insights into the structure-function relationships within the SUNsuperfamily proteins, but also their putative physiological roles.
НLs work was supported by SERB grant [EMR/2015/001870 from
the Department of Science and Technology (DST)], Govt. of India. Нe
authors also thank DST for providing pre-doctoral fellowship [SR/
WOS-A/LS-98/2016 (G)] to P.M. and the Council of 6cLentLfic &
Industrial Research (CSIR), Govt. of India for providing post-doctoral
fellowship [38(1385)/13/EMR-II] to V.W. Нe authors thank the
National Institute of Plant Genome Research, New Delhi for providing
post-doctoral fellowship to A.P.
 
Date 2018-06-25T07:34:24Z
2018-06-25T07:34:24Z
2017
 
Type Article
 
Identifier Journal of Phylogenetics Evolutionary Biology 5(3): 189
2329-9002
http://223.31.159.10:8080/jspui/handle/123456789/864
https://www.omicsonline.org/open-access/comparative-analysis-of-sequencestructure-function-relationship-of-the-sundomain-protein-casun1-2329-9002-1000189-96230.html
10.4172/2329-9002.1000189
 
Language en_US
 
Format application/pdf
 
Publisher OMICS International