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Identification of protein-ligand binding site is an important task in structure-based drug design and docking algorithms. In these two decades, many different approaches have been developed to predict the binding site, such as geometric, energetic and sequence-based methods. We present the binding site prediction algorithm that takes advantage of both sequence conservation and geometric methods for...
The cyclin-dependent kinases (Cdks) are a family of serine/threonine protein kinases whose members are small proteins (~34-40 kDa) composed of little more than the catalytic core shared by all protein kinases. All Cdks share the feature that their enzymatic activation requires the binding of a regulatory cyclin subunit. Various combination of both cyclin dependent kinases (CDKs) and cyclin proteins...
The potyvirus coat protein (CP) is involved in aphid transmission, cell-to-cell movement and virus assembly, not only by binding to viral RNA, but also by self-interaction or interactions with other factors. Peptide fragments of genome coatprotein can be used to select nonamers for use in rational vaccine design and to increase the understanding of roles of the immune system in infectious diseases...
G-protein coupled receptors (GPCRs) play a vital role in different biological processes, such as regulation of growth, death, and metabolism of cells. GPCRs are the focus of significant amount of current pharmaceutical research since they interact with more than 50% of prescription drugs. The dipeptide-based support vector machine (SVM) approach is the most accurate technique to identify and classify...
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