Research experience:   ??13 years

Research interest: My research focuses on exploring the intricate relationship between protein structure, function, folding, flexibility, and dynamics using an integrated approach combining biochemical, biophysical, molecular biology, and computational methods. By employing enzyme kinetics, mutagenesis, spectroscopy, and thermal stability assays, alongside tools such as molecular dynamics simulations, structure prediction, and docking, I aim to uncover how proteins achieve functional conformations, how structural changes affect activity, and how dynamic motions contribute to biological roles. This holistic understanding of protein behavior has broad implications for drug discovery, enzyme engineering, and the treatment of protein misfolding disorders.

Awards:

• Recipient of SERB-NPDF from SERB, New Delhi (April 2018).
• Qualified for Council of Scientific and Industrial Research’s National Eligibility Test for Junior Research Fellowship and Lectureship (June 2008).
• Qualified for Council of Scientific and Industrial Research’s National Eligibility Test for Junior Research Fellowship and Lectureship (Dec 2008).
• Qualified for Indian Council of Medical Research for junior research fellowship (July 2008).
• Qualified Graduate Aptitude Test in Engineering (GATE) with a 99.22 percentile score (2008).
• Qualified Graduate Aptitude Test in Engineering (GATE) with 95.0 percentile score (2009)

Member of the professional bodies:

• Life Member of the Bioinformatics and Drug Discovery Society, India, since 2017.
• Life member of the Society of Biological Chemists, India, since 2017
• Life member of the Association of Microbiologists of India (Membership ID- 5584-2024)

Members of committees:

• Member, Board of Studies, Department of Biochemistry, NEHU, Shillong (2023- )
• Member, School Board, School of Life Sciences, NEHU, Shillong (2025-)

Publications

(Total citations-1004, h index-18 and i10 index- 23)

1. Subedi, S.; Shukla, H.; Uversky, V. N.; Tripathi, T. Physical Principles and Molecular Interactions Underlying Protein Phase Separation. The Three Functional States of Proteins, 2025, 197–212.
2. Nag, N.; Shukla, H.; Uversky, V. N.; Tripathi, T. Targeting Phase-Separated Protein States for Drug Discovery. The Three Functional States of Proteins, 2025, 255–273.
3. Subedi, S.; Nag, N., Shukla, H., Padhi, A. K., & Tripathi, T. (2023). Comprehensive analysis of liquid-liquid phase separation propensities of HSV???1 proteins and their interaction with host factors. Journal of Cellular Biochemistry.
4. Shukla, R., Shukla, H., & Tripathi, T. (2021). Structure-based discovery of phenyl-diketo acids derivatives as Mycobacterium tuberculosis malate synthase inhibitors. Journal of Biomolecular Structure and Dynamics, 39(8), 2945-2958.
5. Tripathi, T., Ghosh, A., Todur, V. N., Kalita, P., Rajendran, V., Kalita, J., Shukla, R., Chetri, P. B., Shukla, H., Sonkar, A., Lyngdoh, D. L., Singh, R., Chikara, S. K., & Tripathi, T. (2020). Draft genome of the liver fluke Fasciola gigantica. ACS Omega, 5(19), 11084-11091.
6. Yadav, S., Prakash, J., Shukla, H., Das, K. C., Tripathi, T., & Dubey, V. K. (2020). Design of a multi-epitope subunit vaccine for immune protection against the Leishmania parasite. Pathogens and Global Health, 114(8), 471-481.
7. Kalita, P., Das, K. C., Shukla, H., & Tripathi, T. (2019). Conserved Arg451 residue is critical for maintaining the stability and activity of thioredoxin glutathione reductase. Archives of Biochemistry and Biophysics. https://doi.org/10.1016/j.abb.2019.108098
8. Gupta, S., Shukla, H., Kumar, A., Shukla, R., Kumari, R., Tripathi, T., Singh, R. K., & Anupurba, S. (2019). Mycobacterium tuberculosis nucleoside diphosphate kinase shows interaction with putative ATP binding cassette (ABC) transporter, Rv1273c. Journal of Biomolecular Structure and Dynamics, 1-11. https://doi.org/10.1080/07391102.2019.1595150
9. Lyngdoh, D. L., Shukla, H., Sonkar, A., Anupam, R., & Tripathi, T. (2019). Portrait of the Intrinsically Disordered Side of the HTLV-1 Proteome. ACS Omega, 4(6), 10003-10018.
10. Kalita, P., Lyngdoh, D. L., Padhi, A. K., Shukla, H., & Tripathi, T. (2019). Development of multi-epitope driven subunit vaccine against Fasciola gigantica using immunoinformatics approach. International Journal of Biological Macromolecules. https://doi.org/10.1016/j.ijbiomac.2019.07.024
11. Sonkar, A., Shukla, H., Shukla, R., Kalita, J., & Tripathi, T. (2019). Unfolding of Acinetobacter baumannii MurA proceeds through a metastable intermediate: A combined spectroscopic and structure computational investigation. International Journal of Biological Macromolecules, 126, 941-951.
12. Vijayakumar, R., Shukla, R., Shukla, H., & Tripathi, T. (2018). Structure-function studies of the asparaginyl tRNA synthetase from Fasciola gigantica: Understanding the role of catalytic and non-catalytic domains. Biochemical Journal, 475(21), 3377-3391.
13. Kalita, P., Shukla, H., Gadhave, K., Giri, R., & Tripathi, T. (2018). Role of the glutaredoxin domain and FAD in the stabilization of thioredoxin glutathione reductase. Archives of Biochemistry and Biophysics, 656, 38-45.
14. Sonkar, A., Lyngdoh, D., Shukla, R., Shukla, H., Tripathi, T., & Ahmed, S. (2018). Point mutation A394E in the central intrinsic disordered region of Rna14 leads to chromosomal instability in fission yeast. International Journal of Biological Macromolecules, 119, 785-791.
15. Kalita, P., Shukla, H., Shukla, R., & Tripathi, T. (2018). Biochemical and thermodynamic comparison of the selenocysteine containing and non-containing thioredoxin glutathione reductase of Fasciola gigantica. Biochimica et Biophysica Acta (BBA) - General Subjects, 1862(6), 1306-1316.
16. Rajendran, V., Kalita, P., Shukla, H., Kumar, A., & Tripathi, T. (2018). Aminoacyl-tRNA synthetases: Structure, function, and drug discovery. International Journal of Biological Macromolecules, 111, 400-414.
17. Tripathi, T., Ghosh, A., Todur, V. N., Kalita, P., Rajendran, V., Kalita, J., Shukla, R., Chetri, P. B., Shukla, H., Sonkar, A., Lyngdoh, D. L., Singh, R., Chikara, S. K., & Tripathi, T. (2018). Draft genome of the liver fluke Fasciola gigantica. bioRxiv. https://doi.org/10.1101/451476
18. Shukla, H., Khan, S. R., Shukla, R., Krishnan, M. Y., Akhtar, M. S., & Tripathi, T. (2018). Alternate pathway to ascorbate induced inhibition of Mycobacterium tuberculosis. Tuberculosis, 111, 161-169.
19. Shukla, R., Shukla, H., & Tripathi, T. (2018). Activity loss by H46 mutation in Mycobacterium tuberculosis isocitrate lyase is due to decrease in structural plasticity and collective motions of the active site. Tuberculosis, 108, 143-150.
20. Shukla, R., Shukla, H., Sonkar, A., Pandey, T., & Tripathi, T. (2018). Structure-based screening and molecular dynamics simulations offer novel natural compounds as potential inhibitors of Mycobacterium tuberculosis isocitrate lyase. Journal of Biomolecular Structure and Dynamics, 36(8), 2045-2057.
21. Shukla, R., Shukla, H., Kalita, P., & Tripathi, T. (2018). Structural insights into natural compounds as inhibitors of Fasciola gigantica thioredoxin glutathione reductase. Journal of Cellular Biochemistry, 119, 3067-3080.
22. Shukla, R., Shukla, H., Kalita, P., Sonkar, A., Pandey, T., Singh, D. B., Kumar, A., & Tripathi, T. (2018). Identification of potential inhibitors of Fasciola gigantica thioredoxin1: Computational screening, molecular dynamics simulation and binding free energy studies. Journal of Biomolecular Structure and Dynamics, 36(8), 2147-2162.
23. Shukla, R., Shukla, H., & Tripathi, T. (2018). Structural and energetic understanding of novel natural inhibitors of Mycobacterium tuberculosis malate synthase. Journal of Cellular Biochemistry, 120(2), 2469-2482.
24. Shukla, H., & Tripathi, T. (2018). Studying parasite gene function and interaction through ribozymes and riboswitches design mechanism. In S. Singh (Ed.), Synthetic Biology: Omics tools and their applications (pp. 51-74). Springer Singapore.
25. Kalita, J., Shukla, R., Shukla, H., Gadhave, K., Giri, R., & Tripathi, T. (2017). Comprehensive analysis of the catalytic and structural properties of a mu-class glutathione s-transferase from Fasciola gigantica. Scientific Reports, 7, 17547.
26. Pandey, T., Shukla, R., Shukla, H., Sonkar, A., Tripathi, T., & Singh, A. K. (2017). A combined biochemical and computational studies of the rho-class glutathione s-transferase sll1545 of Synechocystis PCC 6803. International Journal of Biological Macromolecules, 94, 378-385.
27. Singh, A. K., Rastogi, S., Shukla, H., Asalam, M., Rath, S. K., & Akhtar, M. S. (2017). Cdc15 Phosphorylates the C-terminal Domain of RNA Polymerase II for Transcription during Mitosis. Journal of Biological Chemistry, 292(13), 5507-5518.
28. Shukla, H., Shukla, R., Sonkar, A., & Tripathi, T. (2017). Alterations in conformational topology and interaction dynamics caused by L418A mutation leads to activity loss of Mycobacterium tuberculosis isocitrate lyase. Biochemical and Biophysical Research Communications, 490(2), 276-282.
29. Shukla, H., Kumar, R., Sonkar, A., Mitra, K., Akhtar, M. S., & Tripathi, T. (2017). Salt-regulated reversible fibrillation of Mycobacterium tuberculosis isocitrate lyase: Concurrent restoration of structure and activity. International Journal of Biological Macromolecules, 104, 89-96.
30. Shukla, H., Shukla, R., Sonkar, A., Pandey, T., & Tripathi, T. (2017). Distant Phe345 mutation compromises the stability and activity of Mycobacterium tuberculosis isocitrate lyase by modulating its structural flexibility. Scientific Reports, 7, 1058. https://doi.org/10.1038/s41598-017-01235-z
31. Sonkar, A., Shukla, H., Shukla, R., Kalita, J., Pandey, T., & Tripathi, T. (2017). UDP-N-acetylglucosamine enolpyruvyl transferase (MurA) of Acinetobacter baumannii (AbMurA): Structural and functional properties. International Journal of Biological Macromolecules, 97, 106-114.
32. Shukla, H., Kumar, V., Singh, A. K., Rastogi, S., Khan, S. R., Siddiqi, M. I., Krishnan, M. Y., & Akhtar, M. S. (2015). Isocitrate lyase of Mycobacterium tuberculosis is inhibited by quercetin through binding at N-terminus. International Journal of Biological Macromolecules, 78, 137-141.
33. Shukla, H., Kumar, V., Singh, A. K., Singh, N., Kashif, M., Siddiqi, M. I., Krishnan, M. Y., & Akhtar, M. S. (2015). Insight into the structural flexibility and function of Mycobacterium tuberculosis Isocitrate Lyase. Biochimie, 110, 73-80.
34. Shukla, H., Singh, S. K., Singh, A. K., Mitra, K., & Akhtar, M. S. (2015). The C-terminus hot spot region helps in the fibril formation of bacteriophage-associated Hyaluronate Lyase (HylP2). Scientific Reports, 5, 1442.
35. Gautam, A., Shukla, H., Khan, S., Rishi, P., & Bhakuni, V. (2010). Structural and functional features of UDP-N-acetylenolpyruvylglucosamine reductase of Mycobacterium tuberculosis H37Rv. International Journal of Integrative Biology.

Conferences

1. Poster presentation at "Recent Advancements in Biochemical Engineering and Biotechnology (RABEB-2019)" held on March 15-16, 2019, at IIT-BHU, Varanasi.
2. Oral presentation at "Trends in Biochemical Research-2018" held on March 27, 2018, at NEHU, Shillong.
3. Poster presentation at "58th Annual Conference of Association of Microbiologists of India (AMI-2017) - International Symposium on Microbes for Sustainable Development: Scope and Applications (MSDSA-2017)" held on November 16-19, 2017, at BBAU, Lucknow.
4. Participated in the "23rd National Seminar on Trends in Biochemistry" held on October 3-4, 2016, at North Eastern Hill University.
5. Participated in the "Science Communication Workshop (SciComm 101)" held on June 9, 2017, at North Eastern Hill University.
6. Poster presentation at "NTD ASIA 2017: NTDs without borders: From bench to community" held on March 8-9, 2017, at Khon Kaen, Thailand.
7. Poster presentation at "85th Annual Meeting of the Society of Biological Chemists, India [SBC (I)]" held on November 21-24, 2016, at CSIR-Central Food Technological Research Institute (CFTRI).
8. Poster presentation at "National Symposium on Biophysics and Golden Jubilee Meeting of the Indian Biophysical Society" held in February 2015, organized by Centre for Interdisciplinary Research in Basic Sciences, Jamia Milia Islamia, New Delhi.
9. Poster presentation at "82nd Annual Meeting of The Society of Biological Chemists (India) and International Conference on Genomes: Mechanism and Function" held in December 2013, organized by the School of Life Sciences, University of Hyderabad, Hyderabad.
10. Poster presentation at "Recent Advances in Biochemistry and Biotechnology: Applications in Health, Environment and Agriculture" held in October 2013, organized by the Department of Biochemistry, University of Lucknow, Lucknow.
11. Poster presentation at "5th International Symposium (CTDDR) on Drug Development for Orphan/Neglected Diseases" held in February 2013 at CSIR-Central Drug Research Institute, Lucknow, India.
12. Participated in the workshop on "Microarray data analysis Using 'R/BIOCONDUCTOR'" held in January 2013, jointly organized by Rajiv Gandhi Centre for Biotechnology, India, and Oklahoma Medical Research Foundation, USA.
13. Poster presentation at "23rd National Congress of Parasitology" held in November 2011, jointly organized by Centre for Biotechnology, Anna University, Chennai, and Indian Society for Parasitology.
14. Participated in the "80th Annual Meeting of the Society of Biological Chemists (India)" held in November 2011, organized by CSIR-Central Institute of Medicinal and Aromatic Plants, Lucknow.

PhD Ongoing: 2

M.Sc. Dissertation supervised: 3

M.Sc. Dissertation ongoing: 4