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Structural Biology and BioInformatics

Dr. Jayati Sengupta

Senior Scientist

Research Affiliate (2000-2005) and Research Scientist (2006-April,2008),
Wadsworth Center, New York State Department of Health, NY, USA

Contact - jayati@iicb.res.in, joy_sengupta_2000@yahoo.com

Current Research Interest

The main focus of my research work is to study the structure and function of the ribosome. The major techniques involved in this study include: Cryo-electron Microscopy, Single Particle 3D Image Reconstruction, and Molecular Modelling. 
In cryo-electron microscopy macromolecules are quickly frozen (so that they are trapped in a close-to-native state) in a thin layer of vitreous ice, and then imaged as single particles with Transmission Electron Microscopes under low dose conditions. A 3D image is generated by using single-particle reconstruction technique. Cryo-EM and single-particle reconstruction can produce a three-dimensional density map from freestanding macromolecules. This is done by combining tens of thousands of images showing different views of the macromolecule that exists in as many copies in the sample. A hybrid approach, according to which the density map is interpreted by docking/fitting of identifiable components whose atomic structure is known by x-ray or NMR, is taken to interpret the cryo-EM density maps. This powerful method makes it possible to analyze the motions and dynamic changes of "molecular machines" during their functional cycle.
Cryo-EM maps of ribosome complexes are used to determine the dynamic process of translation, the process by which the genetic message carried by mRNA is translated into a polypeptide chain.

Names of the group members including regular staff with designation and research fellows:
  1. Mr. Manidip Shasmal
  2. Mr. Biprashekhar Chakraborty

 

List of important Publications:

  1. Elizabeth Villa*, Jayati Sengupta*, Leonardo G.Trabuco, Jamie LeBarron, William T. Baxter, Tanvir R. Shaikh, Robert A. Grassucci, Poul Nissen, Måns Ehrenberg, Klaus Schulten , Joachim Frank (2009) Ribosome-induced changes in elongation factor Tu conformation control GTP hydrolysis. Proc Natl Acad Sci USA, 106, 1063-8
  2. Jayati Sengupta*, Jakob Nilsson*, Richard Gursky, Morten Kjeldgaard, Poul Nissen, and Joachim Frank (2008) Visualization of the eEF2-80S Ribosome Transition State Complex by Cryo-electron Microscopy. J Mol Biol. 2008 382, 179-87
  3. Jakob Nilsson*, Jayati Sengupta*, Richard Gursky, Poul Nissen, and Joachim Frank (2007) Comparison of fungal 80 S ribosomes by cryo-EM reveals diversity in structure and conformation of rRNA expansion segments. J Mol Biol. 369, 429-38 (cover art selected)
  4. Wen Li, Jayati Sengupta, Bimal K. Rath and Joachim Frank (2006)  Functional conformations of the L11-ribosomal RNA complex revealed by correlative analysis of cryo-EM and molecular dynamics simulations. RNA 12, 1240-53.
  5. Joachim Frank, Jayati Sengupta, Haixiao Gao, Wen Li, Mikel Valle, Andrey Zavialov, and Måns Ehrenberg (2005) The Role of tRNA as a Molecular Spring in Decoding, Accommodation, and Peptidyl Transfer. FEBS Lett., 579, 959-62
  6. Jayati Sengupta*, Jakob Nilsson*, Richard Gursky, Christian M T Spahn, Poul Nissen & Joachim Frank (2004) Identification of the versatile scaffold protein RACK1 on the eukaryotic ribosome by cryo-EM. Nat Struct Mol Biol. 11, 957-62 (cover art selected)
  7. Haixiao Gao*, Jayati Sengupta*, Mikel Valle, Narayanan Eswar, Andrei Korostelev, Scott M. Stagg, Patrick VanRoey, Rajendra K. Agrawal, Michael S. Chapman, Andrej Sali, Stephen C. Harvey, Joachim Frank (2003) Study of the Structural dynamics of E. coli 70S ribosome using real-space refinement.  Cell, 113, 789-801
  8. Mikel Valle, Jayati Sengupta, Neil K. Swami, Robert A. Grassucci, Nils Burkhardt, Knud H. Nierhaus, Rajendra K. Agrawal, and Joachim Frank (2002) Cryo-EM reveals an active role for aminoacyl-tRNA in the accommodation process. EMBO J. 21, 3557-67.
  9. Jayati Sengupta, Rajendra K. Agrawal, and Joachim Frank (2001) Visualization of protein S1 within the 30S ribosomal subunit and its interaction with messenger RNA. Proc Natl Acad Sci U S A. 98, 11991-6 (one of the cover article)

*Equal contributors.

Detail list of Publications upto December'2010 ==>> Click here

 

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Updated on 09.02.2010
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