Dr. Ranabir Das
The Ubiquitin System
The conjugation of ubiquitin to other cellular proteins regulates a broad range of eukaryotic cell functions, including protein degradation, cell cycle regulation, DNA repair, transcription, and endocytosis. This is because ubiquitin can alter the activity of its target in a variety of ways, from targeting it to the proteasome for degradation to alter its localization or enzymatic activity. We focus on the role of this pathway in two important cellular processes: Protein Quality Control and Host-Pathogen interactions.
Protein Quality Control
Despite the aid of chaperones, a significant fraction of newly synthesized proteins ends up misfolded. Cells evolved protein quality control systems to ensure that these potentially toxic species are detected and eliminated. The best characterized of this mechanism is the ER-associated protein degradation (ERAD), which takes care of membrane and secretory proteins that are misfolded in the endoplasmic reticulum (ER). We are interested to investigate how proteins misfold? How are misfolded proteins identified, translocated and ubiquitinated during ERAD.
Viruses hijack the host machinery to their own advantage. During infection, several host defense mechanisms are destabilized by the virus using the ubiquitin-proteasome pathway. We study the interactions between viral factors and host proteins to understand this process. We regularly use NMR spectroscopy to study protein structure and dynamics. In addition, we employ various other biophysical, biochemical and computational tools.
Positions: We are actively looking for postdocs with a Phd in protein-chemistry/protein-Xray-crystallography/protein-NMR and Virology. Please apply with a detailed CV to firstname.lastname@example.org. Your CV should reflect your expertise and research interest.
Chatterjee KS, Tripathi V, Das R, (2019) A conserved and buried edge-to-face aromatic interaction in Small Ubiquitin-like Modifier (SUMO) has a role in SUMO stability and function, J. Biol. Chem. (in press), doi:10.1074/jbc.RA118.006642.
Nandwani N, Surana P, Negi H, Mascarenhas NM, Udgaonkar JB*, Das R*, Gosavi S*, (2019) A five-residue motif for the design of domain swapping in proteins, Nature Commun. 10(1):452. *Corresponding authors.
Surana P#, Gowda CM#, Tripathi V, Broday L, Das R., (2017) Structural and functional analysis of SMO-1, the SUMO homolog in Caenorhabditis elegans., PLoS One. 12(10):e0186622. #Equal Contribution
Nandwani N#, Surana P#, Udgaonkar JB*, Das R*, Gosavi S.*, (2017) Amino-acid composition after loop deletion drives domain swapping, Protein Sci. 26(10):1994-2002. #Equal Contribution, *Corresponding authors.
Amanullah A, Mishra R, Upadhyay A, Reddy PP, Das R, Mishra A., (2017), Indomethacin elicits proteasomal dysfunctions develops apoptosis through mitochondrial abnormalities, J Cell Physiol., doi: 10.1002/jcp.26081.
Sengupta I, Bhate S, Das R*, Udgaonkar J*, (2017), Salt-Mediated Oligomerization of the Mouse Prion Protein Monitored by Real-Time NMR, J. Mol. Biol., 429(12): 1852-1872. *Corresponding authors.
Chakrabarti KS, Li J, Das R*, Byrd RA*, (2017), Conformational Dynamics and Allostery in E2:E3 Interactions Drive Ubiquitination: gp78 and Ube2g2., Structure, 25(5):794-805. *Corresponding authors.
Students interested in Phd are requested to apply through the NCBS-PhD program. There are no summer/winter positions available.