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dc.contributor.advisorNatarajan, Vijay
dc.contributor.authorRaghavendra, G S
dc.date.accessioned2018-04-05T03:36:27Z
dc.date.accessioned2018-07-31T04:39:02Z
dc.date.available2018-04-05T03:36:27Z
dc.date.available2018-07-31T04:39:02Z
dc.date.issued2018-04-05
dc.date.submitted2013
dc.identifier.urihttps://etd.iisc.ac.in/handle/2005/3345
dc.identifier.abstracthttp://etd.iisc.ac.in/static/etd/abstracts/4210/G25739-Abs.pdfen_US
dc.description.abstractMany methods of analyzing both the physical and chemical behavior of proteins require information about its structure and stability. Also various other parameters such as energy function, solvation, hydrophobic/hydrophilic effects, surface area and volumes too play an important part in such analysis. The contribution of cavities to these parameters are very important. Existing methods to compute and measure cavities are limited by the inherent inaccuracies in the method of acquisition of data through x-ray crystallography and uncertainities in computation of radii of atoms. We present a topological framework that enables robust computation and visualization of these structures. Given a fixed set of atoms, voids and pockets are represented as subsets of the weighted Delaunay triangulation of atom centers. A novel notion of (ε,π)-stable voids helps identify voids that are stable even after perturbing the atom radii by a small value. An efficient method is described to compute these stable voids for a given input pair of values (ε,π ). We also provide an implementation to visualize, explore (ε.π)-stable voids and also calculate various properties such as volumes, surface areas of the proteins and also of the cavities.en_US
dc.language.isoen_USen_US
dc.relation.ispartofseriesG25739en_US
dc.subjectProteins - Voids and Pocketsen_US
dc.subjectProteins - Robust Cavities - Computationen_US
dc.subjectProteins - Stabilityen_US
dc.subjectProtein Moleculesen_US
dc.subjectProteins - Robust Voidsen_US
dc.subject.classificationBiochemistryen_US
dc.titleIdentification and Quantification of Important Voids and Pockets in Proteinsen_US
dc.typeThesisen_US
dc.degree.nameMSc Enggen_US
dc.degree.levelMastersen_US
dc.degree.disciplineFaculty of Engineeringen_US


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