Bioinformatics Study on Structural Protein of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-COV-2) For Better Understanding the Vaccine Development

Sumaira Gulzar; Saqib Husssain

doi:10.31632/ijalsr.20.v03i04.003

Sumaira Gulzar International Islamic University Islamabad, Pakistan
Saqib Husssain International Center for Chemical and Biological Sciences University of Karachi, Pakistan

DOI https://doi.org/10.31632/ijalsr.20.v03i04.003

Abstract

Novel coronavirus 2019 (2019-nCoV), also known as SARS-CoV-2), leads high morbidity and mortality in global epidemics. Four structural protein (surface glycoprotein (QIQ22760.1), envelop glycoprotein (QIQ22762.1), nucleocapsid phosphoprotein (QIQ22768.1) and membrane glycoprotein (QIQ22763.1)) of SARS-CoV-2 are extracted from the NCBI database and further analyzed with ExPASy ProtParam tool. Phenyl alanine and serine are absolutely missing in all proteins. Histidine and glutamic acid is absent in envelope protein and cystein lacks in nucleocapsid phosphoprotein. Lucien is the highest in envelope, surface and membrane glycoprotein that is an optimal environment for rapid virus fixation on host cell's surface to the receptor molecule. Transmembrane region prediction was performed by SOSUI server. For all structural proteins, except nucleocapsid Phosphoprotein, the trans-membrane prediction indicates that the virus can enter the host easily. Domain analysis was done by SMART tool. Domain information helps in the function of the viral protein. Lastly, the 3D structure prediction was carried out by Swiss Model and the result validation was achieved by PROCHECK. This fairly simple method may help us understand how antivirals and vaccines could be produced against it Such models are the starting point of the community for structural drug and vaccine designs as well as virtual computational screening

Keywords: SARS-CoV-2, Structural protein, Transmembrane, SMART tool, Swiss Model

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