International Journal of Medical Sciences

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Insilico Analysis for Comparative Modeling of ORF-1 Polyprotein Domains of Hepatitis-E Virus


Affiliations
1 Department of M.C.E., Jacob School of Biotechnology and Bioengineering, Sam Higginbottom Institute of Agriculture, Technology and Sciences, Naini, Allahabad (U.P. ), India
2 Jacob School of Biotechnology and Bioengineering, Sam Higginbottom Institute of Agriculture, Technology and Sciences, Naini, Allahabad (U.P. ), India
     

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Hepatitis E is a form of liver disease characterized by inflammation of the liver due to infection with the Hepatitis E virus, whose structure is not present in PDB so structure prediction is important to stop the virus in future. The FASTA sequence of the ORF-1 Polyprotein of HEV was retrieved from NCBI (NCBI Reference Sequence: NP_056779.1), which does not show any transmembrane proteins in their structure. The best quality templates were taken from HHpred server. Then with the help of MODELLER, it was generated 3 models which were further refined and validated by using SAVS (Structural analysis and verification server) with validation programme like Procheck for getting the best model with high Ramachandran plot score value. The best model obtained was model_3 (6197496_pdb), which is having a maximum Ramachandran score of 92.2 per cent, of the residues and had an average 3D-ID score > 0.2.

Keywords

Insilico Analysis, Hepatitis-E Virus, RNA, DNA ORF-1 Polyprotein.
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  • Insilico Analysis for Comparative Modeling of ORF-1 Polyprotein Domains of Hepatitis-E Virus

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Authors

Swati Srivastava
Department of M.C.E., Jacob School of Biotechnology and Bioengineering, Sam Higginbottom Institute of Agriculture, Technology and Sciences, Naini, Allahabad (U.P. ), India
Amit Alexander Charan
Jacob School of Biotechnology and Bioengineering, Sam Higginbottom Institute of Agriculture, Technology and Sciences, Naini, Allahabad (U.P. ), India
Shalem Prakash
Jacob School of Biotechnology and Bioengineering, Sam Higginbottom Institute of Agriculture, Technology and Sciences, Naini, Allahabad (U.P. ), India

Abstract


Hepatitis E is a form of liver disease characterized by inflammation of the liver due to infection with the Hepatitis E virus, whose structure is not present in PDB so structure prediction is important to stop the virus in future. The FASTA sequence of the ORF-1 Polyprotein of HEV was retrieved from NCBI (NCBI Reference Sequence: NP_056779.1), which does not show any transmembrane proteins in their structure. The best quality templates were taken from HHpred server. Then with the help of MODELLER, it was generated 3 models which were further refined and validated by using SAVS (Structural analysis and verification server) with validation programme like Procheck for getting the best model with high Ramachandran plot score value. The best model obtained was model_3 (6197496_pdb), which is having a maximum Ramachandran score of 92.2 per cent, of the residues and had an average 3D-ID score > 0.2.

Keywords


Insilico Analysis, Hepatitis-E Virus, RNA, DNA ORF-1 Polyprotein.