Siddhartha Roy , Ph.D.

Senior Scientist
Structural Biology & Bioinformatics
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Research Focus

The focus of our laboratory is to unravel the 3D- structures of proteins. We intend to explore the structure/function relationship and dynamicity of these macromolecules. We use X-ray crystallography, NMR and other biophysical and biochemical approaches to unravel these mysteries of nature.

Research Interest

  • Structural characterization of key epigenetics regulators.
  • Structure based design of inhibitor molecules against Malarial parasite.
  • Elucidation of RNA-Protein complexes at atomic resolution.
  • Structural investigation of Proteins involved in metabolic disorders in human

Credentials

Post-doctoral Research Fellow (2010-2012) MD Anderson Cancer Center, Houston, USA

Post-doctoral Research Fellow (2008-2010) University of Colorado Denver, Aurora, USA

Ph.D (2007) Indian Institute of Science, Bangalore, India 

Patents & Publications

  1. Sen S, Sanyal S, Srivastava DK, Dasgupta D, Siddhartha Roy, Das C. Transcription factor 19 interacts with histone 3 lysine 4 trimethylation and controls gluconeogenesis via the nucleosome-remodeling-deacetylase complex. J Biol Chem. 2017; 292(50); 20362-78.
  2. Basu M, Sengupta I, Khan MW, Srivastava DK, Chakrabarti P, Siddhartha Roy, Das C. Dual histone reader ZMYND8 inhibits cancer cell invasion by positively regulating epithelial genes. Biochem J. 2017; 474(11); 1919-34.
  3. Mukherjee S, Adhikary S, Siddhartha Roy, Das C. Noncoding RNAs as chromatin scaffold of histone modification complexes in cancer. In Cancer and Non-coding RNAs, Translational Epigenetics Series, Volume eds: Jayprokas Chakrabarti and Sanga Mitra; Series ed: Trygve Tollefsbol, (Elsevier). 2017
  4. Adhikary S, Sanyal S, Basu M, Sengupta I, Sen S, Srivastava DK, Siddhartha Roy*, Das C*. Selective Recognition of H3.1K36 dimethylation / H4K16 acetylation facilitates the regulation of ATRA-responsive genes by putative chromatin reader ZMYND8. J Biol Chem2016; 291(6); 2664-81. (* equal corresponding author)
  5. Sarkar S, Siddiqui AA, Mazumder S, De R, Saha SJ, Banerjee C, Iqbal MS, Adhikari S, Alam A, Siddhartha Roy, Bandyopadhyay U. Ellagic Acid, a Dietary Polyphenol Inhibits Tautomerase Activity of Human Macrophage Migration Inhibitory Factor and Its Pro-inflammatory Responses in Human Peripheral Blood Mononuclear Cells. J Agric Food Chem2015;63(20):4988-98.
  6. Banerjee A, Sanyal S, Kulkarni KK, Jana K, Siddhartha Roy, Das C, Dasgupta D. Anticancer drug mithramycin interacts with core histones: An additional mode of action of the DNA groove binder. FEBS Open Bio20144:987-95.
  7. Das C, Siddhartha Roy, Namjoshi S, Malarkey CS, Jones DN, Kutateladze TG, Churchill ME, Tyler JK. Binding of the histone chaperone ASF1 to the CBP bromodomain promotes histone acetylation. Proc Natl Acad Sci USA2014111(12):E1072-81.
  8. Sharma K, Mukherjee C, Siddhartha Roy, De D, Bhattacharyya D. Human placental extract mediated inhibition of proteinase K: implications of heparin and glycoproteins in wound physiology. J Cell Physiol.2014229(9):1212-23.
  9. Musselman CA, Avvakumov N, Watanabe R, Abraham CG, Lalonde ME, Hong Z, Allen C, Siddhartha Roy, Nuñez JK, Nickoloff J, Kulesza CA, Yasui A, Côté J, Kutateladze TG.Molecular basis for H3K36me3 recognition by the Tudor domain of PHF1. Nat Struct Mol Biol201219, 1266-1272.
  10. He J., Scott J.L.,Heroux A., Siddhartha Roy, Lenoir M., Overduin M., Stahelin R.V.,Kutateladze T.G.Molecular basis of phosphatidylinositol 4-phosphate and ARF1 GTPase recognition by the FAPP1 pleckstrin homology (PH) domain. J.Biol.Chem2011286(21); 18650-7.
  11. Lisandra E.W., *Siddhartha Roy, Weiner K.L., Hayashi R., Shi X., Appella E., Kutateladze T.G., Gozani O.The MBT repeats of L3MBTL1 link set8 mediated p53 methylation at lysine 382 to target gene repression. J.Biol.Chem2010285(48); 37725-32. (*Authors contributed equally to this work).
  12. Siddhartha Roy, Musselman C.A., Kachirskaia I., Hayashi R., Glass K., Nix J.C., Gozani O., Appella E., Kutateladze T.G.Structural insight into p53 recognition by the 53BP1 tandem Tudor domain. J Mol Biol. 2010398(4):489-96.
  13. Hom R.A., Chang P.Y., Siddhartha Roy, Musselman C.A., Glass K.C., Selezneva A.I., Gozani O., Ismagilov R.F., Cleary M.L. and Kutateladze T.G. Molecular Mechanism of MLL PHD3 and RNA Recognition by the Cyp33 RRM Domain. J Mol Biol. 2010400(2):145-54.
  14. Siddhartha Roy, Saraswathi R., Sekar K., Chatterji D., and Vijayan M. Structural studies on the second Mycobacterium smegmatis Dps: invariant and variable features of structure, assembly and function.J Mol Biol2008375(4):948-59.
  15. Kishore A.H., Vedamurthy B.M., Mantelingu K., Agrawal S., Reddy B.A., Siddhartha Roy, Rangappa K.S. and Kundu T.K. Specific small-molecule activator of Aurora kinase A induces autophosphorylation in a cell-free system. J Med Chem200851(4):792-7.
  16. Mantelingu K., Reddy B.A, Swaminathan V., Kishore A.H., Siddappa N.B., Kumar G.V., Nagashankar G., Natesh N., Siddhartha Roy, Sadhale P.P., Ranga U., Narayana.C, and Kundu T.K. Specific inhibition of p300-HAT alters global gene expression and represses HIV replication. Chem Biol200714(6):645-57.
  17. Selvaraj M., Siddhartha Roy, Singh N.S., Sangeetha R., Varshney U. and Vijayan M. Structural plasticity and enzyme action: crystal structures of mycobacterium tuberculosis peptidyl-tRNA hydrolase. J Mol Biol2007372(1):186-93.
  18. Siddhartha Roy, Saraswathi R., Gupta S., Sekar K., Chatterji D. and Vijayan M. Role of N- and C-terminal tails in DNA binding and assembly in    Dps. Structural studies of Mycobacterium smegmatisDps deletion mutants. J Mol Biol2007370(4):752-67.
  19. Selvaraj M., Singh N.S., Siddhartha Roy, Sangeetha R., Varshney U. and Vijayan M. “Cloning, expression, purification, crystallization and preliminary X-ray analysis of PeptidyltRNA hydrolase from Mycobacterium tuberculosis” ActaCryst(2006). F62, 913-915.
  20. Sharma A, Thamotharon S., Siddhartha Roy and Vijayan M. “X-ray studies of crystalline complexes involving amino acids and peptides.XLI II.Adipic acid complexes of L- and DL-Lysine”. ActaCryst(2006).C62,o148-o152.
  21. Siddhartha Roy, Singh D.D., and Vijayan M. “X-ray studies on crystalline complexes involving amino acids and peptides.XLI. Adipic acid complexes of L-and DL-arginine and supramolecular association in arginine-dicarboxylic acid complexes”. ActaCryst(2005B61, 89-95.
  22. Siddhartha Roy, Gupta S., Das S., Sekar K, Chatterji D. and Vijayan M. “X-ray analysis of Mycobacterium smegmatis Dps and a comparative study involving other Dps and Dps-like molecules”. J.Mol.Biol(2004339(5), 1103-1113.
  23. Saraswathi N.T., Siddhartha Roy and Vijayan M. “X-ray studies on crystalline complexes involving amino acids and peptides.XLI. Commonalities in aggregation and conformation revealed by the crystal structures of the pimelic acid complexes of L-arginine and DL-lysine”. ActaCryst(2003B59, 641-646.
  24. Siddhartha Roy, Gupta S., Das S., Sekar K., Chatterji D., and Vijayan M. “Crystallization and preliminary X-ray diffraction analysis of Mycobacterium smegmatisDps”. ActaCryst(2003D59,2254-2256.