Publications by Biophysics Division


2010:

  1. Identification of a novel inhibitor of coactivator-associated arginine methyltransferase 1 (CARM1)-mediated methylation of histone H3 Arg-17: B.R. Selvi, K. Batta, A.H. Kishore, K. Mantelingu, R.A. Varier, K. Balasubramanyam, S.K. Pradhan, D. Dasgupta, S . Sriram, S. Agrawal and T.K. Kundu, J Biol Chem. 285(10), (2010) 7143-52.

  2. Mechanism of interaction of small transcription inhibitors with DNA in the context of chromatin and telomere: S.Ghosh, P. Majumder, S.K. Pradhan and D. Dasgupta, Biochimica et Biophysica Acta (Gene Regulatory Mechanism), July, 2010

  3. Encapsulation of serotonin in beta-cyclodextrin nanocavities: Fluorescence spectroscopic and molecular modeling studies : S. Chaudhuri, S . Chakraborty and P.K. Sengupta, J. Molecular Structure 975, (2010) 160-165.

  4. Binding of the bioflavonoid robinetin with model membranes and hemoglobin: Inhibition of lipid peroxidation and protein glycosylation: S .Chaudhuri, B.P.Pahari, B. Sengupta and P.K. Sengupta,. J. Photochem. Photobiol. B: Biology, (2010) 9812-19.

  5. Interactions of therapeutically active plant flavonols with biological targets: Insights from fluorescence spectroscopic studies (Invited article): P.K. Sengupta and S. Chaudhuri, J. Indian Chem. Soc. 87, (2010) 213-220.

  6. Why Pyridine Containing Pyrido[2,3-d]pyrimidin-7-ones Selectively Inhibit CDK4 Than CDK2: Insights From Molecular Dynamics Simulation: N. M. Mascarenhas, D. Bhattacharyya and N. Ghoshal, J. Molec. Graphics Modelling 28,(2010) 695-706.

  7. On the Role of cis Hoogsteen:Sugar Edge Family of Base Pairs in Platforms and Triplets – Quantum Chemical Insights into RNA Structural Biology: P. Sharma, J. Sponer, J. S. Sponer, D. Bhattacharyya and A. Mitra, J. Phys. Chem. B 114, (2010) 3307-3320.

  8. Structure and Dynamics of Double Helical DNA in Torsion Angle Hyperspace: A Molecular Mechanics Approach: A. Borkar, I. Ghosh and D. Bhattacharyya, J. Biomol. Struct. Dynam. 27, (2010) 695-712.

  9. Changes in Thermodynamic Properties of DNA Base Pairs in Protein-DNA Recognition: S. Samanta, J. Chakrabarti and D. Bhattacharyya, J. Biomol. Struct. Dynam. 27, (2010) 429-442.


2009:

  1. Inhibition of a Zn(II)-containing enzyme, alcohol dehydrogenase, by anticancer antibiotics, mithramycin and chromomycin A(3): P.G. Devi, P.K. Chakraborty and D. Dasgupta , J Biol Inorg Chem. 14, (2009) 347–359.

  2. Mechanism of p300 Specific Histone Acetyltransferase Inhibition by Small molecules : M. Arif, S.K. Pradhan, G.R. Thanuja, B. M.Vedamurthy, S. Agrawal, D. Dasgupta and T.K. Kundu, J Med Chem. 52(2), (2009) 267-77.

  3. Binding of Indanocine to the Colchicine Site on Tubulin Promotes Fluorescence, and Its Binding Parameters Resemble Those of the Colchicine Analogue AC: L. Das, S. Gupta, D. Dasgupta, A. Poddar, M.E. Janik and B. Bhattacharyya, Biochemistry 48(7), (2009) 1628-35.

  4. Sanguinarine Interacts with Chromatin, Modulates Epigenetic Modifications, and Transcription in the Context of Chromatin: B.R. Selvi, S. K. Pradhan, J. Shandilya, C. Das, B. S. Sailaja, G. Naga Shankar, S. Gadad Shrikanth , A. Reddy, D. Dasgupta and T. K. Kundu, Chemistry & Biology 16, (2009) 203–216.

  5. Inhibition of Lysine Acetyltransferase KAT3B/p300 Activity by a Naturally Occurring Hydroxynaphthoquinone, Plumbagin: C. Kodihalli. B. Ravindra, R. Selvi, M. Arif, B. A. Ashok Reddy, G. R. Thanuja, S. Agrawal, S. K. Pradhan, N. Nagashayana, D. Dasgupta, and T. K. Kundu, J. Biol. Chem. 284, (2009) 24453-24464.

  6. Novel compound with potential of an antibacterial drug targets FtsZ protein: D.Dasgupta, Biochem J. 423(1), (2009) e1-3. Invited Commentary (commissioned article).

  7. Ground- and excited-state proton transfer and antioxidant activity of 7-hydroxyflavone in model membranes: absorption and fluorescence spectroscopic studies: S. Chaudhuri, B.P. Pahari, and P. K. Sengupta , Biophysical Chemistry 139, (2009) 29-36.

  8. Structural properties of polymeric DNA from molecular dynamics simulations: S. Samanta, S. Mukherjee, J. Chakrabarti, and D. Bhattacharyya, J. Chem. Phys 130, (2009) 115-103.


2008:

  1. Self-association of the anionic form of the DNA-binding anticancer drugmithramycin: S. Lahiri., P.G. Devi, Majumder, S. Das and D. Dasgupta, J Phys Chem B. 112, (2008) 3251-3258.

  2. Multiple functions of generic drugs: future perspectives of aureolic acid group of anti-cancer antibiotics and non-steroidal anti-inflammatory drugs: H. Chakraborty, P.G. Devi, M. Sarkar and D. Dasgupta, Mini Rev Med Chem. 8(4), (2008) 331-49. Review.

  3. Interaction of 7-hydroxyflavone with serum albumin: A spectroscopic study: A.Banerjee, K. Basu, and P.K. Sengupta , J. Photochem. Photobiol. B: Biology. 90, (2008) 33 -40.

  4. Ground and excited state proton transfer and antioxidant activity of 3-hydroxyflavone in egg yolk phosphatidylcholine liposomes: Absorption and fluorescence spectroscopic studies: S. Chaudhuri, K.Basu, B. Sengupta, A. Banerjee and P. K. Sengupta, Luminescence. 23, (2008) 397-403.

  5. The Trans Hoogsteen/Sugar Edge Base Pairing in RNA. Structures, Energies and Stabilities from Quantum Chemical Calculations: A. Mladek, P. Sharma, A. Mitra, D. Bhattacharyya, J. Sponer and J.E. Sponer, J. Phys. Chem. B 113, (2008) 1743-1755.

  6. Overall Cluster Effectiveness Index: An Instrument for Assessment of Development Programs for Industrial Clusters in Developing Countries: J. Basu, D. Bhattacharyya and B. Sarkar, Sedme Journal 35, (2008) 70-94.

  7. Thermal Histerisis of some important physical properties of Nanoparticles: T. Sarkar, S. Roy, J. Bhattacharya, D. Bhattacharya, C.K. Mitra and A.K. Dasgupta, J. Colloid Interfac Sci. 327, (2008) 224-232.

  8. Twist-Dependent Stacking Energy of Base-Pair Steps in B-DNA Geometry: A Density Functional Theory Approach: S. Samanta, M. Kabir, B. Sanyal and D. Bhattacharyya, Int. J. Quant. Chem. 108, (2008) 1173-1180.

  9. Quantum Chemical Studies of Structures and binding in Noncanonical RNA Base pairs: The Trans Watson Crick/WatsonCrick family: P. Sharma, A. Mitra, S. Sharma, H. Singh and D. Bhattacharyya, J. Biomol. Struct. Dynam. 25, (2008) 709-732.

  10. Structure, Stability, and Dynamics of Canonical and Noncanonical Base Pairs: Quantum Chemical Studies: A. Roy, S. Panigrahi, M. Bhattacharyya, and D. Bhattacharyya, J. Phys. Chem. B 112, (2008) 3786-3796.

  11. Electronic properties of nano-graphene sheets calculated using quantum chemical DFT: S. Banerjee and D. Bhattacharyya, Comput. Mater. Sci. 44,(2008) 41-45.

  12. Role of turmeric in ultraviolet induced genotoxicity in a bacterial system: A. Pal, M. Ghosh and A. K. Pal, Natural Product Communications 3(2) (2008) 227 – 228.


2007:

  1. Association of antitumor antibiotics, Mithramycin and Chromomy, with Zn(II) : P.G. Devi, S. Pal, and D. Dasgupta, J. Inorganic. Biochem. 101, (2007) 127-137.

  2. Effect of β-cyclodextrin nanocavity confinement on the photophysics of robinetin: A. Banerjee, K. Basu and P.K. Sengupta, J. Photochem. Photobiol. B: Biology. 89, (2007) 88-97.

  3. Interaction of flavonoids with red blood cell membrane lipids and proteins: Antioxidant and antihemolytic effects: S. Chaudhuri, A. Banerjee, K. Basu, B. Sengupta, and P. K.Sengupta , Int. J. Biol. Macromol. 41, (2007) 42-48.

  4. Theoretical Analysis of Noncanonical Base Pairing Interactions in RNA Molecules: D. Bhattacharyya, S.C. Koripella, A. Mitra, V.B. Rajendran and B. Sinha , J. Biosci. 32, (2007) 809-25.

  5. BioSuite: A comprehensive bioinformatics software package (A unique industry academia collaboration), The NMITLI-BioSuite Team, Current Science, 92, (2007) 29-38.


Book Chapters:


1. P Majumder, S.K Pradhan, P Grihanjali, Devi, S Pal, and D Dasgupta,. Chromatin as a target for the DNA binding anti-cancer drugs. Subcellular Biochemistry Volume 41 (Springer Press), 41: 145-89(2007)


Conference Abstracts & Proceedings:


  1. S. S. Ray, S. Halder, D. Bhattacharyya in Proceedings of Frontiers of Interface Between Statistics and Sciences Dec. 30, 2009-Jan 2, 2010, Hyderabad. pp. 724-733 (2009).

  2. Pradhan SK, Selvi BR, Shandilya J, C.Das, T.K.Kundu, D.Dasgupta, Structural Perturbation of Chromatin by Plant Alkaloid Sanguinarine and Its Functional Consequences Journal of Biomolecular Structure & Dynamics Volume: 26 Issue: 6 Pages: 913-913 ( 2009 )

  3. D. Bhattacharyya and S. Basu, “Hydrogen Bonds in Nature: Structure, Energy and Variability”, in Physics in Biology: A Synergy (P. Anantha Lakshmi & V. Srivastava, Eds.) pp. 85-101. (2010).

  4. R.Bhattacharya, Environmental impact on Rhizobium sp. cell. Microorganisms in Industry and Environment, From Scientific and Industrial Research to Consumer Products Proceedings of BioMicroWorld Conference, 2010


Books Edited:


Chromatin and Disease (editors: Tapas K. Kundu & Dipak Dasgupta) Series: Subcellular Biochemistry , Vol. 41 Springer Press (2007)