Sandhya Shenoy

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We describe here an energy based computer software suite for narrowing down the search space of tertiary structures of small globular proteins. The protocol comprises eight different computational modules that form an automated pipeline. It combines physics based potentials with biophysical filters to arrive at 10 plausible candidate structures starting(More)
In an era that has been dominated by Structural Biology for the last 30-40 years, a dramatic change of focus towards sequence analysis has spurred the advent of the genome projects and the resultant diverging sequence/structure deficit. The central challenge of Computational Structural Biology is therefore to rationalize the mass of sequence information(More)
Protein folding is at least a six decade old problem, since the times of Pauling and Anfinsen. However, rules of protein folding remain elusive till date. In this work, rigorous analyses of several thousand crystal structures of folded proteins reveal a surprisingly simple unifying principle of backbone organization in protein folding. We find that protein(More)
Automated protein tertiary structure prediction from sequence information alone remains an elusive goal to computational prescriptions. Dividing the problem into three stages viz. secondary structure prediction, generation of plausible main chain loop dihedrals and side chain dihedral optimization, considerable progress has been achieved in our laboratory ((More)
We have identified a chitinase with antifungal activity in the bulbs of the plant Urginea indica(Indian squill) and purified it about 26-fold. The purified preparation contained a Mr 29 kDa protein that was an active growth inhibitor of the fungal pathogens Fusarium oxysporum and Rhizoctonia solani in an in vitro assay. Amino acid sequence analysis of the(More)
The last decade has witnessed an exponential growth of sequence information in the field of biological macromolecules such as proteins and nucleic acids and their interactions with other molecules. Computational analyses for structure-function predictions based on such information are increasingly becoming an essential and integral part of modern biology.(More)
Development of an efficient process for purification of DNA plasmids continues to be a technological challenge [1-3]. While earlier applications of DNA plasmids were mostly in cloning, the last few years have seen its increasing applications in gene therapy [1] and preparation of DNA vaccines [4]. A crucial step in the production process is the downstream(More)
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