Welcome to the Homepage of Samrat Mukhopadhyay

Dr. Samrat Mukhopadhyay, Ph.D.
Associate Professor,
Centre for Protein Science, Design and Engineering
Department of Biological Sciences & Department of Chemical Sciences
Academic Block 2
Indian Institute of Science Education and Research (IISER), Mohali.
Knowledge City, Sector 81, S.A.S. Nagar, Mohali-140306, Punjab, India.

IDP 2017
Join us for an International Conference on Intrinsically Disordered Proteins at IISER Mohali
Intrinsically Disordered Proteins: Forms, Functions and Diseases

December 9-12, 2017 (Abstract submission is now open)  http://www.idp2017.in  


Postdoc position available:

Project funded by DST NanoMission, New Delhi

Research topic: Nanoscale Biophysics Approach to Study Protein Amyloids

Duration: 1 year extendable up to 2 years

Essential qualifications : The potential candidate should have a PhD preferably in Physics/Physical Chemistry/ Biophysics and should have expertise in Atomic force microscopy (AFM)/Optics/Surface and/or Tip-enhanced Raman spectroscopy (SERS/TERS). These experiences should be clearly mentioned in the CV and/or should be indicated in published paper(s). Background in Biology is NOT required. Candidates who have submitted PhD thesis OR are submitting thesis soon can also apply. Applicants are requested to send a CV (only PDF; no word file please) to Dr. Samrat Mukhopadhyay via email samrat.iiser@gmail.com before August 15, 2017. The subject line of email should be "Application for RA". The shortlisted candidate(s) may be called for interview.

Research interests:
Intrinsically Disordered Proteins; Protein Misfolding & AggregationAmyloid Biology;  Single-Molecule, Ultrafast & Nanoscale Biophysics; Chemical Biophysics

List of publications: (Total citations: > 1200   h-index = 15)
Open Researcher & Contributor ID (ORCID) 0000-0003-1242-9958

Read my book-review on "Madness and Memory: The Discovery of Prions – A New Biological Principle of Disease" by Stanley Prusiner. 

Read our new paper on biological water in amyloids!

32. "Water Rearrangements upon Disorder-to-Order Amyloid Transition" S. Arya, A. K. Singh, T. Khan, M. Bhattacharya, A. Datta,* & S. Mukhopadhyay* J. Phys. Chem. Lett. 2016, 7, 4105−4110. 

Click below to play and listen to presentation! 

31. "Direct Observation of the Intrinsic Backbone Torsional Mobility of Disordered Proteins" N. Jain..... S. Mukhopadhyay Biophys. J.  2016, 111, 768-774.  
Featured in Faculty of 1000

30. "Characterization of Salt-Induced Oligomerization of Human β2-Microglobulin at Low pHD. Narang, A. Singh, H.M. Swasthi & S. Mukhopadhyay  J. Phys. Chem. B. 2016 (in press). 

29.  "Confined Water in Amyloid-competent Oligomers of the Prion Protein" V. Dalal, S. Arya & S. Mukhopadhyay  ChemPhysChem  2016 (accepted). http://onlinelibrary.wiley.com/doi/10.1002/cphc.201600440/full  

28. "Stepwise unfolding of human β2‑microglobulin into a disordered amyloidogenic precursor at low pH" D. Narang, A. Singh & S. Mukhopadhyay  Eur. Biophys. J. 2016

27. "Conformational Switching and Nanoscale Assembly of Human Prion Protein into Polymorphic Amyloids via Structurally Labile Oligomers"  V. Dalal, S. Arya, M. Bhattacharya & S. Mukhopadhyay Biochemistry, 2015, 54, 7505-13.
27. "Appearance of Annular Ring-like Intermediates during Amyloid Fibril Formation from Human Serum Albumin" S. Arya, A. Kumari, V. Dalal, M. hattacharya & S. Mukhopadhyay  Phys. Chem. Chem. Phys. 2015, 17, 22862-22871

26. "Ordered Water within the Collapsed Globules of an Amyloidogenic Intrinsically Disordered Protein" S. Arya & S. Mukhopadhyay  J. Phys. Chem. B. 2014, 118, 9191–9198.

25. "Nanophotonics of Protein Amyloids" M. Bhattacharya & S. Mukhopadhyay  Nanophotonics 2014, 3, 51-59.
24. "Structural and Dynamical Insights into the Membrane-bound α-Synuclein" N. Jain, K. Bhasne, M. Hemaswasthi & S. Mukhopadhyay  PLoS ONE 2013, 8(12):e83752.

23.   "Nanoscale Optical Imaging of Amyloid Fibrils" V. Dalal, S. Arya & S. Mukhopadhyay in 'Bionanoimaging: Protein Misfolding & Aggregation' (Elsevier 2013  Editors: Y. Lyubchenko & V. Uversky).
22.  "Dynamics and Dimension of an Amyloidogenic Disordered State of Human β2-Microglobulin" D. Narang, P.K. Sharma & S. Mukhopadhyay. Eur. Biophys. J. 2013, 42, 767-76. 
21. "Nanoscopic Amyloid Pores Formed via Stepwise Protein Assembly" M. Bhattacharya, N. Jain, P. Dogra, S. Samai & S. Mukhopadhyay. J. Phys. Chem. Lett. 2013, 4, 480-85.  http://dx.doi.org/10.1021/jz3019786
20. "Nanoscale Fluorescence Imaging of Single Amyloid Fibrils" V. Dalal, M. Bhattacharya, D. Narang, P.K. Sharma & S. Mukhopadhyay. J. Phys. Chem. Lett. 2012, 3, 1783-1787 (DOI: 10.1021/jz300687f; http://pubs.acs.org/doi/abs/10.1021/jz300687f)


19.  "Conserved features of intermediates in amyloid assembly determine their benign or toxic states" R. Krishnan, J.L. Goodman, S. Mukhopadhyay, C.D. Pacheco, E.A. Lemke, A.A. Deniz & S. Lindquist. Proc. Natl. Acad. Sci. U.S.A. 2012. doi:10.1073/pnas.1209527109.
 These authors contributed equally to this work.
18. "Structural and Dynmical Insights into the Molten-Globule form of Ovalbumin" M. Bhattacharya and S. Mukhopadhyay.     J. Phys. Chem. B. 2012, 116, 520-531. http://pubs.acs.org/doi/abs/10.1021/jp208416d
17.  "Chain Collapse of an Amyloidogenic Intrinsically Disordered Protein" N. Jain, M. Bhattacharya and S. Mukhopadhyay. Biophys. J.  2011, 101, 1720-1729.  http://www.cell.com/biophysj/retrieve/pii/S0006349511009702 
Featured in Faculty of 1000   http://f1000.com/13409028

16. "Insights into the Mechanism of Aggregation and Fibril Formation from Bovine Serum Albumin" M. Bhattacharya, N. Jain and S. Mukhopadhyay. J. Phys. Chem. B. 2011, 115, 41954205.  http://pubs.acs.org/doi/abs/10.1021/jp111528c
15. "Studying Protein Misfolding and Aggregation using Fluorescence Spectroscopy" M. Bhattacharya and S.Mukhopadhyay* Reviews in Fluorescence 2011 (Invited review and will be published soon).
14. "pH-induced Conformational Isomerization of Bovine Serum Albumin Studied by Extrinsic and Intrinsic Protein Fluorescence" M. Bhattacharya, N. Jain, K. Bhasne, V. Kumari and S. Mukhopadhyay Journal of Fluorescence  2011, 21, 1083-1090. 

13. "Kinetics of Surfactant-induced Aggregation of Lysozyme Studied by Fluorescence Spectroscopy" N. Jain, M. Bhattacharya and S. Mukhopadhyay. Journal of Fluorescence  2011, 21, 615-625. 

12. "Direct and Selective Elimination of Specific Prions and Amyloids by 4,5-Dianilinophthalimide and Analogs" H. Wang, M.L. Duennwald, B.E. Roberts, L.M. Rozeboom, Y.L. Zhang, A.D. Steele, R. Krishnan, L.J. Su, D. Griffin, S. Mukhopadhyay, E.J. Hennessy, P. Weigele, B.J. Blanchard, J. King, A.A. Deniz, S.L. Buchwald, V.M. Ingram, S. Lindquist and J. Shorter. Proc. Natl. Acad. Sci. U.S.A. 2008, 105, 7159-7164. http://www.pnas.org/cgi/reprint/105/20/7159 
11. "Single-Molecule Biophysics: At the Interface of Biology, Physics and Chemistry" A.A. Deniz, S. Mukhopadhyay and E.A. Lemke J. R. Soc. Interface 2008, 5, 15-45. http://www.journals.royalsoc.ac.uk/content/0x116338np247206/fulltext.pdf
Among the most read articles at JRSI

10. "A natively unfolded yeast prion monomer adopts an ensemble of collapsed and rapidly fluctuating structures" S. Mukhopadhyay, R. Krishnan, E. A. Lemke, S. Lindquist and A.A. Deniz. Proc. Natl. Acad. Sci. U.S.A. 2007, 104, 2649-2654. http://www.pnas.org/cgi/reprint/104/8/2649.pdf
(Featured in Scripps News & Views and cited over 120 times)

9. "Biomolecular structure and dynamics using fluorescence from single diffusing molecules" S. Mukhopadhyay and A.A. Deniz. J. Fluorescence 2007, 17, 775-783. http://www.springerlink.com/content/f251382u545551v2/fulltext.pdf

8. "Characterization of amyloid fibril formation by mapping residue-specific fluorescence dynamics" S. Mukhopadhyay, P. Nayak, J. B. Udgaonkar and G. Krishnamoorthy. J. Mol. Biol. 2006, 358, 935-942. http://dx.doi.org/10.1016/j.jmb.2006.02.006

7. "Advances in Molecular Hydrogels" S. Bhattacharya, U. Maitra, S. Mukhopadhyay, A. Srivastava in "Molecular Gels" 2006. P. Terech, R.G. Weiss (Eds.) Kluwer Academic Publishers, The Netherlands. http://www.springerlink.com/content/w3282465784v7036/
6. "Structure and Dynamics of a Molecular Hydrogel" S. Mukhopadhyay, Uday Maitra, Ira, G. Krishnamoorthy, J. Scmidt and Y. Talmon  J. Am. Chem. Soc. 2004, 126, 15905-15914. http://pubs.acs.org/cgi-bin/article.cgi/jacsat/2004/126/i48/pdf/ja046788t.pdf

5. "Facile Synthesis, Aggregation Behavior, and Cholesterol Solubilization of Avicholic Acid" S. Mukhopadhyay and U. Maitra. Organic Lett. 2004, 6, 31-34. http://pubs.acs.org/cgi-bin/article.cgi/orlef7/2004/6/i01/pdf/ol036073f.pdf

4. "Chemistry and Biology of Bile Acids: A Review" S. Mukhopadhyay and U. Maitra Curr. Sci. 2004, 87, 1666-1683. http://www.ias.ac.in/currsci/dec252004/1666.pdf

3. "Dynamics of Bound Dyes in a Non-polymeric Aqueous Gel Derived from a Tripodal Bile Salt" S. Mukhopadhyay, Ira, G. Krishnamoorthy and U. Maitra.  J. Phys. Chem. B. 2003, 107, 2189-2192. http://pubs.acs.org/cgi-bin/article.cgi/jpcbfk/2003/107/i10/pdf/jp027079+.pdf

2. "Hydrogel Route to Nanotubes of Metal Oxides and Sulfates" G. Gundiah, S. Mukhopadhyay, U.G. Tumkurkar, A. Govindaraj, U. Maitra and C.N.R. Rao.  J. Mater. Chem. 2003, 13, 2118-2122. http://www.rsc.org/Publishing/Journals/JM/article.asp?doi=b304007k


"Hydrophobic Pockets in a Non-polymeric Aqueous Gel: Observation of such a Gelation Process by Color Change" U. Maitra, S. Mukhopadhyay, A. Sarkar, P. Rao and S.S. Indi.  Angew. Chem. Int. Ed. 2001, 40, 2281-2283. (Cited  over 120 times).