Santosh Kumar Upadhyay

Biomolecular NMR Spectroscopy - Structural Biology

Santosh Kumar Upadhyay is an NMR structural biophysicist, interested NMR spectroscopy of protein-nucleic acid complexes.

The current areas of research include:
  • Interactions between protein and nucleic acid using solution Nuclear Magnetic Resonance (NMR).
  • Biophysical (ITC, CD, Fluorescence etc) and biochemical methods for studying binding, structural and conformational changes and dynamics of proteins and nucleic acids.

The p53 tumor suppressor gene plays important role in preventing cancer development. Inactivation or loss of p53 tumor suppressor gene is the cause of most of the human cancers. RNA-binding proteins (RBPs) have important role in modulating p53 activity and its downstream targets. Several RBPs either promote or inhibit p53 translation. We are using a combined approach including structural and functional techniques. Nuclear magnetic resonance (NMR) spectroscopy is one of the powerful method available to study biomolecular structure and dynamics at atomic resolution in solution. NMR data offers insights into three-dimensional fold of proteins and their interactions with other biomolecules. The dynamics of conformational changes in protein complexes underlie many enzymatic reactions thereby allowing specificity. Our current focus is to elucidate structural and functional aspects of the molecular interactions between RNA binding proteins involved in RNA processing, especially alternative splicing and p21 mRNA, a downstream target of p53

Selected Publications:

  • The basic tilted helix bundle domain of the prolyl isomerase FKBP25 is a novel double-stranded RNA binding module. Dilworth D*, Upadhyay SK*, Bonnafous P, Edoo AB, Bourbigot S, Pesek-Jardim F, Gudavicius G, Serpa JJ, Petrotchenko, EV, Borchers CH, Nelson CJ, Mackereth CD. Nucleic Acids Research 2017 doi:  *First Authors
  • 1H, 15N and 13C backbone and side chain resonance assignments of the RRM domain from human RBM24. Upadhyay SK*, Mackereth, CD. Biomol. NMR Assign. 2016, 10(2):237-40. doi: 10.1007/s12104-016-9674-y.[PubMed][Journal]
  • Binding and Thermodynamics of REV Peptide−ctDNA Interaction. Upadhyay SK*.  Biopolymers. 2017, 108(2). doi:10.1002/bip.22902 [PubMed] [Journal]
  • Structural insights into the inclusion complexes between clomiphene citrate and β-cyclodextrin: The mechanism of preferential isomeric selection. Maheshwari A, Saraswat H, Upadhyay SK*. Chirality. 2017 doi: 10.1002/chir.22712. [PubMed] [Journal][Cover Page Article]
  • Grb2 carboxyl-terminal SH3 domain can bivalently associate with two ligands, in an SH3 dependent manner. Arya R, Dangi RS, Makwana PK, Kumar A, Upadhyay SK, Sundd M. Scientific Reports 2017, 7(1):1284. doi: 10.1038/s41598-017-01364-5. [PubMed] [Journal]
  • Structural insights into the acyl intermediates of the Plasmodium falciparum fatty acid synthesis pathway: the mechanism of expansion of the acyl carrier protein core. Upadhyay SK, Misra A, Srivastava R, Surolia N, Surolia A, Sundd M. J Biol Chem. 2009, 284(33):22390-400. doi: 10.1074/jbc.M109.014829. [PubMed] [Journal]
  • NMR and molecular modelling studies on the interaction of fluconazole with beta-cyclodextrin. Upadhyay SK*, Kumar G. Chem Cent J. 2009 Aug 10;3:9. doi: 10.1186/1752-153X-3-9. [PubMed] [Journal]

Contact Information

Santosh Kumar Upadhyay

Sukhdev Vihar, 
Mathura Road, 
New Delhi - 110 025
Tel: 91-11-29879157

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