1. In silico analysis of caprine superoxide dismutase 1 (SOD1) gene
- Author
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Chinmoy Mishra, Zeeshan Ahmed Khan, and Tushar Jyotiranjan
- Subjects
Models, Molecular ,0106 biological sciences ,GPX2 ,Protein Conformation ,In silico ,SOD1 ,SOD2 ,Ligands ,GPX4 ,01 natural sciences ,GPX5 ,GPX6 ,Superoxide dismutase ,03 medical and health sciences ,Superoxide Dismutase-1 ,Protein Interaction Mapping ,Genetics ,Animals ,Computer Simulation ,Phylogeny ,030304 developmental biology ,0303 health sciences ,biology ,Goats ,Biochemistry ,biology.protein ,Hydrophobic and Hydrophilic Interactions ,010606 plant biology & botany - Abstract
Climatic change induced heat stress causes a formidable challenge for maintaining optimum productivity in goats. The SOD1 gene (superoxide dismutase 1) is one of the genes that regulates the heat tolerance capacity. This study aimed to in silico characterize this gene. Sequence based phylogenetic tree analysis showed the caprine SOD1 gene has close evolutional relationship with that of sheep. STRING database reveals its interaction with SOD2 (Superoxide dismutase [Mn], mitochondrial), ATOX1 (Copper transport protein), RAC1 (Ras-related C3 botulinum toxin substrate 1), GPX2 (Glutathione peroxidase 2), GPX4 (Glutathione peroxidase 4), GPX5, GPX6, CAT (Catalase). The KEGG pathway maps gave interaction with eNOS, iNOS, VEGF and MAPK in which gene transcription modulates response to heat stress. The three dimensional protein structure was predicted using Modeller, Phyre 2, and Swiss Model. Structure validation was done observing the Ramachandran Plot and Hydrophobicity Plot in Discovery Studio considering amino acid residues in favoured region.
- Published
- 2020
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