|
KMID : 1025520150570010044
|
|
Journal of Animal Science and Technology
2015 Volume.57 No. 1 p.44 ~ p.44
|
|
|
In silico characterisation, homology modelling and structure-based functional annotation of blunt snout bream (Megalobrama amblycephala) Hsp70 and Hsc70 proteins
|
|
Tran Ngoc Tuan
Jakovli? Ivan
Wang Wei-Min
|
|
|
Abstract
|
|
|
Background: Heat shock proteins play an important role in protection from stress stimuli and metabolic insults in almost all organisms.
Methods: In this study, computational tools were used to deeply analyse the physicochemical characteristics and, using homology modelling, reliably predict the tertiary structure of the blunt snout bream (Ma-) Hsp70 and Hsc70 proteins. Derived three-dimensional models were then used to predict the function of the proteins.
Results: Previously published predictions regarding the protein length, molecular weight, theoretical isoelectric point and total number of positive and negative residues were corroborated. Among the new findings are: the extinction coefficient (33725/33350 and 35090/34840 - Ma-Hsp70/ Ma-Hsc70, respectively), instability index (33.68/35.56 ? both stable), aliphatic index (83.44/80.23 ? both very stable), half-life estimates (both relatively stable), grand average of hydropathicity (?0.431/-0.473 ? both hydrophilic) and amino acid composition (alanine-lysine-glycine/glycine-lysine-aspartic acid were the most abundant, no disulphide bonds, the N-terminal of both proteins was methionine). Homology modelling was performed by SWISS-MODEL program and the proposed model was evaluated as highly reliable based on PROCHECK’s Ramachandran plot, ERRAT, PROVE, Verify 3D, ProQ and ProSA analyses.
Conclusions: The research revealed a high structural similarity to Hsp70 and Hsc70 proteins from several taxonomically distant animal species, corroborating a remarkably high level of evolutionary conservation among the members of this protein family. Functional annotation based on structural similarity provides a reliable additional indirect evidence for a high level of functional conservation of these two genes/proteins in blunt snout bream, but it is not sensitive enough to functionally distinguish the two isoforms.
|
|
|
KEYWORD
|
|
|
Hsp70, Hsc70, Physicochemical characteristics, Homology modelling, Structural similarity, Functional annotation
|
|
|
FullTexts / Linksout information
|
|
|
|
|
Listed journal information
|
|
|
|
|