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Research Interests

The lab of Dr. Deshmukh explores the structural and molecular basis of evolutionary divergence in the noncoding RNA mediated gene silencing pathway across organisms. He utilizes state-of-the-art biomolecular NMR techniques coupled with molecular biology, biochemistry, and biophysics to elaborate on the structure and function of several important high molecular weight proteins and nucleic acids. His lab employs an innovative biomolecular NMR approach to study inter-domain orientations and dynamics in multi-domain proteins such as RDE-4, DRB4, and DRB2. The studies performed by his group deciphered the initiation of the non-coding RNA mediated gene regulation pathway in various species. His work revealed that the subtle differences in structure and dynamics in highly homologous proteins incite the evolutionary divergence in the RNAi pathway. His work distinctively helps to extend our understanding in one of the basic biological processes that have direct implications in infection, cancer, and development.
He was invited as a speaker at prestigious biomolecular NMR meetings such as ICMRBS, Dallas, USA (2014), APNMRS, Hong Kong (2015), ICMRBS, Kyoto, Japan (2016), Indo-German Workshop, Leipzig, Germany (2017), and APNMRS, Singapore (2019).

Selected Publications

DRB4 dsRBD1 drives dsRNA recognition in Arabidopsis thaliana tasi/siRNA pathway 

C. Sai Chaitanya, Ramdas Aute, Upasana Rai, Mandar V. Deshmukh 
Nucleic Acids Research, 45(14), 8551-8563 , 2017.

Recent Excitements in Protein NMR: Large Proteins and Biologically Relevant Dynamics 
C. Sai Chaitanya and Mandar V Deshmukh
Journal of Biosciences, 41(4), 787-803, 2016.

Backbone and stereospecific 13C methyl Ile (?1), Leu and Val sidechain chemical shift assignments of Crc. 
Rakhi Sharma, B Sahu, Malay K Ray and Mandar V Deshmukh
Biomolecular NMR Assignments, 9(1), 75-9, 2015.

Structure of RDE-4 dsRBDs and mutational studies provide insights in the dsRNA recognition in C. elegans RNAi. 
C Sai Chaitanya and Mandar V Deshmukh
Biochemical Journal, 458 (1), 119-130, 2014.

Backbone and sidechain methyl Ile(?1), Leu and Val chemical shift assignments of RDE-4(1-243), an RNA interference initiation protein in C. elegans. C Sai Chaitanya, Sonu Kumar, M Udaya Kiran and Mandar V Deshmukh
Biomolecular NMR Assignments, 6(2), 143-6, 2012.

Education & Experiance

P.G: Chemistry ; Dr. B. A. M. University, Aurangabad, MS, India ; 1997
Ph.D: : NMR Investigations on Structure, Dynamics and Function of VAT-N & DOTATOC; Advisor: Prof. Dr. Horst Kessler ; Technical University of Munich, Germany ; 2004
Post.Doc:

Postdoctoral Scholar, Department of Pharmaceutical Chemistry Structural and functional characterization of the mRNA decapping enzyme, Dcp2, and its complex with RNA Advisor: Prof. John D. Gross ; University of California San Francisco, San Francisco, CA, USA ; 2004-2006

Publications

TitleJournalYear
Dominant mutants of the calcineurin catalytic subunit (CNA-1) showed developmental defects, increased sensitivity to stress conditions, and CNA-1 interacts with CaM and CRZ-1 in Neurospora crassa Archives of Microbiology, 202(4), 921-934 2020
Structural and mechanistic insights into EchAMP: A antimicrobial protein from the Echidna milk BBA – Biomembranes, 1861(6),1260-1274 2019
Constrained dynamics of the sole tryptophan in the third intracellular loop of the serotonin?1A receptor Biophysical Chemistry, 240, 34-41, 2018. 2018
Accessing structure determination of biological macromolecules by NMR through advances in isotope labelling Journal of Indian Institute of Science, https://doi.org/10.1007/s41745-018-0085-1 2018
DRB4 dsRBD1 drives dsRNA recognition in Arabidopsis thaliana tasi/siRNA pathway Nucleic Acids Research, 45(14), 8551-8563 2017
8th RNA Group Meeting: Novelties and Outcome Indian Natn Sci Acad 2016
Recent Excitements in Protein NMR: Large Proteins and Biologically Relevant Dynamics Journal of Biosciecnes 2016
Backbone and stereospecific 13C methyl Ile (?1), Leu and Val side-chain chemical shift assignments of Crc Biomolecular NMR Assignments 2015
Chemical shift assignments of DRB4 (1-153), a dsRNA binding protein in A. thaliana RNAi pathway Biomolecular NMR Assignment 2015
Independent amino acid residues in the S2 pocket of falcipain-3 determine its distinct activities Molecular & Biochemical Parasitology 2015
Structure of RDE-4 dsRBDs and mutational studies provide insights in the dsRNA recognition in C. elegans RNAi Biochemical Journal, 458 (1), 119-130 2014
Delineating the reaction mechanism of reductase domains of nonribosomal peptide synthetases from Mycobacteria Journal of Structural Biology 2014
Lipase in aqueous-polar organic solvents: activity, structure, and stability Protein Science, 22(7), 904-15 2013
Mechanism of chiral proofreading during translation of the genetic code Elife. 2:e01519 2013
Backbone and sidechain methyl Ile(?1), Leu and Val chemical shift assignments of RDE-4 (1-243), an RNA interference initiation protein in C. elegans Biomolecular NMR Assignments, 6(2), 143-6 2012
Mechanistic insights into cognate substrate discrimination during proofreading in translation Proceedings of the National Academy of Sciences, USA, 107(51), 22117-21 2010
mRNA decapping is promoted by an RNA binding channel in Dcp2. Molecular Cell, 29, 324-336, 2008. 2008
Backbone and Ile(?1), Leu and Val Resonance Assignments of the Catalytic Domain of the Yeast mRNA Decapping Enzyme, Dcp2 Biomolecular NMR Assignments, 1, 17-18. 2007
Inter-domain Orientation and Motions in VAT-N Explored by RDCs and 15N Backbone Relaxation Magnetic Resonance in Chemistry, 44(S1), S89-S100 2006
NMR Studies Reveal Structural Differences Between the Gallium and Yttrium Complexes of DOTA-D-Phe1-Tyr3-Octreotide Journal of Medicinal Chemistry, 48(5), 1506-1514 2005
Residual Dipolar Coupling Constant: An Elementary Derivation of Key Equations Concepts in Magnetic Resonance, 21A(1), 10-21 2004
Design and Evaluation of New Ligands for Lysozyme Recovery by Affinity Thermo-precipitation Chemical Engineering Science, 56, 5681-5692 2001
Structural comparison of three DOTATOC metal complexes European Journal of Nuclear Medicine, 28(8), 1261-1261 2001
LCST in Poly(N-isopropylacrylamide) Copolymers: High Resolution Proton NMR Investigations Polymer, 41, 7951-7960 2000

Mandar V Deshmukh

Principal Scientist

2646/2917

mvdesh@ccmb.res.in

Upasana Rai

Senior Research Fellow

2917/2517

upasanarai@ccmb.res.in

Sneha Paturi

Senior Research Fellow

2917/2517

snehapaturi@ccmb.res.in

Jaydeep Paul

Senior Research Fellow

2917/2517

jaydeep@ccmb.res.in

Debadutta Patra

Junior Research Fellow

2917

debadutta@ccmb.res.in

Priti Chanda Behra

Junior Research Fellow

2517

pritichanda@ccmb.res.in

Aute Ramdas Annasaheb

Junior Research Fellow

2917/2517

ramaute@ccmb.res.in