Publications

Peer reviewed research from Dr. Niyati Jain on RNA structure, dynamics, and molecular recognition.

Publications

Energetic determinants of expanded PAM recognition in engineered FnCas9

A. Kumar, P. Kumari, S. Mishra, S. Thakur, S. Acharya, D. Chakraborty, S. Maiti, N. Jain*

Biochemistry (accepted,2026)

A novel lipid-triggered allosteric site modulates LC3-LIR receptor binding activity

D. Gahlot, J. Castin, S. Mathur, D. Das, A. Arun, C. Gain, M. Sharma, A. Kumar, R. Pal, N. Jain, B. Biswal, R. Singh, L. Thukral

Nature Communications (accepted,2026) ·

Loop of fate: structural and mechanistic insights into hnRNPA1 binding to the hepatitis C virus RNA

A. Kumar, S. Penumutchu, L. Panchariya, P. Kumari, S. Thakur, P. Daripa, V. Singh, A. Arulandu, S. Maiti, M. V. Deshmukh, N. Jain*

RNA 32(2), 215-236 (2026) ·

Thermodynamics and binding mechanism of IGF2BP1 and Y3 RNA interaction

S. Mishra#, A. Kumar#, P. Kumari, K. Rasool, S. Maiti, N. Jain*

Biochemistry 64(16), 3535-3548 (2025) ·

Thermodynamic insights into N6-methyladenosine modified RNAs and their interactions with the RRM of hnRNP C

A. Kumar#, P. Daripa#, S. Penumutchu, S. Maiti, N. Jain*

International Journal of Biological Macromolecules 312, 144210 (2025) ·

Development of an in silico platform (TRIPinRNA) for the identification of novel RNA intramolecular triple helices

I. Rakheja, V. Bharti, S. Sahana, P. K. Das, G. Ranjan, A. Kumar, N. Jain, S. Maiti

Biochemistry 64(1), 250-265 (2024) ·

Deciphering the thermodynamic landscape of CRISPR/Cas9: insights into enhancing gene-editing precision and efficiency

A. Kumar, P. Daripa, K. Rasool, D. Chakraborty, N. Jain*, S. Maiti*

Journal of Physical Chemistry B 128(35), 8409-8422 (2024) ·

AI-based AlphaFold2 significantly expands the structural space of the autophagy pathway

N. Katyal, S. Khatri, A. Kumar, A. Arun, P. Daripa, S. Fatihi, S. Kumar, N. Jain, L. Thukral

Autophagy 19(12), 3201-3220 (2023) ·

Interaction of hnRNPB1 with Helix-12 of hHOTAIR reveals a distinctive mode of RNA recognition enabling structural rearrangement by LCD

A. Kumar, P. Daripa, S. Maiti, N. Jain*

Biochemistry 62(13), 2041-2054 (2023) · · Selected among ACS best papers of 2023

Encoded conformational dynamics of the HIV splice site A3 regulatory locus: implications for differential binding of hnRNP splicing auxiliary factors

L. Y. Chiu, A. Emery, N. Jain, A. Sugarman, N. Kendrick, L. Luo, W. Ford, R. Swanstrom, B. S. Tolbert

Journal of Molecular Biology 434(18), 167728 (2022) ·

Zn²⁺ ion inhibits SARS-CoV-2 main protease and viral replication in vitro

L. Panchariya, W. A. Khan, S. Kuila, K. Sonkar, S. Sahoo, A. Ghoshal, A. Kumar, D. K. Verma, A. Hasan, M. A. Khan, N. Jain, et al.

Chemical Communications 57(78), 10083-10086 (2021) ·

Nanoparticle based simple electrochemical biosensor platform for profiling of protein-nucleic acid interactions

Y. Dai, L. Y. Chiu, Y. Sui, Q. Dai, S. Penumutchu, N. Jain, L. Dai, C. A. Zorman, B. S. Tolbert, R. M. Sankaran, C. C. Liu

Talanta 95, 46-54 (2019) ·

Conserved structures formed by heterogeneous RNA sequences drive silencing of an inflammation-responsive post-transcriptional operon

A. Basu, N. Jain, B. S. Tolbert, A. A. Komar, B. Mazumder

Nucleic Acids Research 45(22), 12987-13003 (2017) ·

Rules of RNA specificity of hnRNPA1 revealed by global and quantitative analysis of its affinity distribution

N. Jain#, H. C. Lin#, C. E. Morgan, M. Harris, B. S. Tolbert

PNAS 114(9), 2206-2211 (2017) ·

Solution structure of the HIV-1 intron splicing silencer and its interactions with the UP1 domain of hnRNP A1

N. Jain#, C. E. Morgan, B. D. Rife, M. Salemi, B. S. Tolbert

Journal of Biological Chemistry 291(5), 2331-2344 (2015) ·

Regio-selective chemical-enzymatic synthesis of pyrimidine nucleotides facilitates RNA structure and dynamics studies

L. J. Alvarado, R. M. LeBlanc, A. P. Longhini, S. C. Keane, N. Jain, Z. F. Yildiz, B. S. Tolbert, V. M. D'Souza, M. F. Summers, C. Kreutz, T. K. Dayie

ChemBioChem 15, 1529-1686 (2014) · Featured on the Back Cover ·

Heterogeneity and dynamics of the ligand recognition mode in purine-sensing riboswitches

N. Jain#, L. Zhao#, J. D. Liu, T. Xia

Biochemistry 49, 3703-3714 (2010) ·

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