Special Issue Article Open Access

Computational Mapping of Interaction Sites of Synthetic Antibody Clone P109d9on VP28 Protein

Abstract

Antibodies otherwise called immunoglobulins are the major proteins forming the primary line of defense during the pathogenic entry. The high specificity and affinity of the antibodies distinguish them from the other immune system components and it is achieved by the characteristic CDR (Complementarity Determining Regions) located on the variable arm. The single chain formats of antibody variable regions (ScFv) are used in the disease diagnostics and therapeutics development. Recently, antibody based techniques are developed for the detection and control of White Spot Syndrome Virus (WSSV), the catastrophic disease agent in shrimp farms. The ScFv clone targeting the VP28 protein component of WSSV named P109D9 was chosen and the sequence-structure information was used to locate the attachment sites of antibody. Theoretical model of the ScFV antibody interaction on VP28 protein was made using the computational resources and the analysis results were compared with the experimental information. The predictive interaction analysis can help in the development of antibodies with improved affinities for the detection and treatment of diseases in future.

Shine P.Varkey, K.M. Shankar, R.P. Sathish

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