Prof. Pinakpani Chakrabarti: Recent submissions
Now showing items 21-28 of 28
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Accessibility and partner number of protein residues, their relationship and a webserver, ContPlot for their display
(BIOMED CENTRAL, 2009-04-08)Background: Depending on chemical features residues have preferred locations – interior or exterior – in protein structures, which also determine how many other residues are found around them. The close packing of residues ... -
Structural and unfolding features of HlyT, a tetrameric LysR type transcription regulator of Vibrio cholerae
(ELSEVIER SCIENCE BV, 2009-08)HlyT from Vibrio cholerae is a positive regulator of Na+/H+ antiporter, important for the survival of the organism in an aquatic environment and within the human host. Here we report cloning, over-expression and purification ... -
Empirical estimation of the energetic contribution of individual interface residues in structures of protein-protein complexes
(SPRINGER, 2009-09)We report a simple algorithm to scan interfaces in protein-protein complexes for identifying binding 'hot spots'. The change in side-chain solvent accessible area (ΔASA) of interface residues has been related to change in ... -
Structure and Activity of Lysozyme on Binding to ZnO Nanoparticles
(AMER CHEMICAL SOC, 2010-03-02)The interaction between ZnO nanoparticles (NPs) and lysozyme has been studied using calorimetric as well as spectrophotometric techniques, and interpreted in terms of the three-dimensional structure. The circular ... -
Dissection, residue conservation, and structural classification of protein-DNA interfaces
(WILEY-LISS, 2009-02-15)The basic DNA-binding modules of 128 protein-DNA interfaces have been analyzed. Although these are less planar, like the protein-protein interfaces, the protein-DNA interfaces can also be dissected into core regions in ... -
Discriminating the native structure from decoys using scoring functions based on the residue packing in globular proteins
(BIOMED CENTRAL, 2009-12-28)Background: Setting the rules for the identification of a stable conformation of a protein is of utmost importance for the efficient generation of structures in computer simulation. For structure prediction, a considerable ... -
A lethal cardiotoxic-cytotoxic protein from the Indian monocellate cobra (Naja kaouthia) venom
(PERGAMON-ELSEVIER SCIENCE LTD, 2010-09-15)A lethal cardiotoxic-cytotoxic protein (mol wt. 6.76 kDa) has been purified from the Indian monocellate cobra (Naja kaouthia) venom by ion-exchange chromatography and HPLC. CD spectra indicated the presence of 23% alpha ... -
The effect of zinc oxide nanoparticles on the structure of the periplasmic domain of the Vibrio cholerae ToxR protein
(WILEY-BLACKWELL, 2010-10)Proteins adsorbed on nanoparticles (NPs) are being used as biosensors and in drug delivery. However, our understanding of the effect of NPs on the structure of proteins is still in a nascent state. In this work we report ...