Research experience: >14 years

Research interest: Structure-function-folding-flexibility-dynamics relationship of proteins using biochemical, biophysical, molecular biology, and computational approaches.

Ph.D. Thesis: Biophysical and Aggregational studies on Recombinant Isocitrate and Hyaluronate Lyases

Ph.D. Supervisor: Dr. Sohail Akhtar, Senior Scientist, Molecular and Structural Biology Division, Central Drug Research Institute, Lucknow.

Position and Employment:

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)

Memberships:

• Life Member of the Bioinformatics and Drug Discovery Society, India, since 2017.
• Life member of the Society of Biological Chemists, India, since 2017

Publications

(Total citations-880, h index-17 and i10 index- 21)

1. Subedi, S., Nag, N., Shukla, H., Padhi, AK ., Tripathi. T. >Comprehensive analysis of liquid–liquid phase separation propensities of HSVâ?1 proteins and their interaction with host factors - Journal of Cellular Biochemistry, 2023
2. Shukla, R., Shukla, H. and Tripathi, T. >Structure-based discovery of phenyl-diketo acids derivatives as Mycobacterium tuberculosis malate synthase inhibitors. J Biomol Struct Dyn.  2021, 39 (8), 2945-2958.
3. 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. and Tripathi, T. Draft genome of the liver fluke Fasciola gigantica. ACS Omega. 2020, 5 (19), 11084-11091
4. Yadav, S. Prakash, J. Shukla, H. Das,K.C. Tripathi, T. Dubey, V.K. Design of a multi-epitope subunit vaccine for immune-protection against Leishmania parasite. Pathog Glob Health 2020, 114 (8): 471-481
5. Kalita, P. Das, K.C. Shukla, H. and Tripathi, T*. Conserved Arg451 residue is critical for maintaining the stability and activity of thioredoxin glutathione reductase. Arch Biochem Biophys 2019, doi: 10.1016/j.abb.2019.108098.
6. Gupta S, Shukla H, Kumar A, Shukla R, Kumari R, Tripathi T, Singh RK, Anupurba S. Mycobacterium tuberculosis nucleoside diphosphate kinase shows interaction with putative ATP binding cassette (ABC) transporter, Rv1273c. J Biomol Struct Dyn. 2019, Mar 21:1-11. doi: 10.1080/07391102.2019.1595150.
7. DL Lyngdoh, H Shukla, A Sonkar, R Anupam, T Tripathi. Portrait of the Intrinsically Disordered Side of the HTLV-1 Proteome. ACS Omega. 2019, 4 (6), 10003-10018
8. P Kalita, DL Lyngdoh, AK Padhi, H Shukla, T Tripathi. Development of multi-epitope driven subunit vaccine against Fasciola gigantica using immunoinformatics approach. Int J Biol Macromol. 2019, doi: 10.1016/j.ijbiomac.2019.07.024.
9. Sonkar, A., Shukla, H., Shukla, R., Kalita, J., and Tripathi, T. Unfolding of Acinetobacter baumannii MurA proceeds through a metastable intermediate: A combined spectroscopic and structure computational investigation. Int J Biol Macromol. 2019, 126: 941-951.
10. Vijayakumar, R., Shukla, R., Shukla, H. and Tripathi, T. Structure-function studies of the asparaginyl tRNA synthetase from Fasciola gigantica: Understanding the role of catalytic and non-catalytic domains. Biochem J 2018, 475(21): 3377-3391.
11. Kalita, P., Shukla, H., Gadhave, K., Giri, R. and Tripathi, T. Role of the glutaredoxin domain and FAD in the stabilization of thioredoxin glutathione reductase. Arch Biochem Biophys 2018, 656: 38-45.
12. Sonkar, A., Lyngdoh, D., Shukla, R., Shukla, H., Tripathi, T. and Ahmed, S. Point mutation A394E in the central intrinsic disordered region of Rna14 leads to chromosomal instability in fission yeast. Int J Biol Macromol. 2018, 119: 785-791.
13. Kalita, P., Shukla, H., Shukla, R. and Tripathi, T. Biochemical and thermodynamic comparison of the selenocysteine containing and non-containing thioredoxin glutathione reductase of Fasciola gigantica. BBA- Gen Subjects. 2018, 1862(6): 1306-1316.
14. V Rajendran, P Kalita, H Shukla, A Kumar, T Tripathi. Aminoacyl-tRNA synthetases: Structure, function, and drug discovery. Int J Biol Macromol. 2018, 111, 400-414
15. 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. and Tripathi, T. Draft genome of the liver fluke Fasciola gigantica. bioRxiv 2018, doi: 10.1101/451476
16. Shukla, H., Khan, S.R., Shukla, R., Krishnan, M.Y., Akhtar, M.S. and Tripathi, T. Alternate pathway to ascorbate induced inhibition of Mycobacterium tuberculosis. Tuberculosis 2018, 111: 161-169.
17. Shukla, R., Shukla, H. and Tripathi, T. 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 2018, 108:143-150.
18. Shukla, R., Shukla, H., Sonkar, A., Pandey, T. and Tripathi, T. Structure-based screening and molecular dynamics simulations offer novel natural compounds as potential inhibitors of Mycobacterium tuberculosis isocitrate lyase. J Biomol Struct Dyn. 2018, 36(8): 2045-2057.
19. Shukla, R., Shukla, H., Kalita, P. and Tripathi, T. Structural insights into natural compounds as inhibitors of Fasciola gigantica thioredoxin glutathione reductase. J Cell Biochem 2018, 119: 3067-3080.
20. Shukla, R., Shukla, H., Kalita, P., Sonkar, A., Pandey, T., Singh, D.B., Kumar, A. and Tripathi, T. Identification of potential inhibitors of Fasciola gigantica thioredoxin1: Computational screening, molecular dynamics simulation and binding free energy studies. J Biomol Struct Dyn. 2018, 36(8): 2147-2162.
21. Shukla, R., Shukla, H. and Tripathi, T. Structural and energetic understanding of novel natural inhibitors of Mycobacterium tuberculosis malate synthase. J Cell Biochem 2018, 120 (2), 2469-2482.
22. Shukla, H. and Tripathi, T. Studying parasite gene function and interaction through ribozymes and riboswitches design mechanism. In Synthetic Biology: Omics tools and their applications. S. Singh, ed. 2018, (Springer Singapore). pp. 51-74. ISBN 978-981-10-8692-2.
23. Kalita, J., Shukla, R., Shukla, H., Gadhave, K., Giri, R. and Tripathi, T. Comprehensive analysis of the catalytic and structural properties of a mu-class glutathione s-transferase from Fasciola gigantica. Sci Rep. 2017, 7: 17547.
24. Pandey, T., Shukla, R., Shukla, H., Sonkar, A., Tripathi, T and Singh, A.K. A combined biochemical and computational studies of the rho-class glutathione s-transferase sll1545 of Synechocystis PCC 6803. Int J Biol Macromol. 2017, 94: 378-385.
25. Singh, AK., Rastogi, S., Shukla, H., Asalam, M., Rath, SK., Akhtar, MS. Cdc15 Phosphorylates the C-terminal Domain of RNA Polymerase II for Transcription during Mitosis. J Biol Chem. 2017, 292(13):5507-5518.
26. Shukla, H., Shukla, R., Sonkar, A. and Tripathi, T. Alterations in conformational topology and interaction dynamics caused by L418A mutation leads to activity loss of Mycobacterium tuberculosis isocitrate lyase. Biochem Biophys Res Commun. 2017, 490(2): 276-282.
27. Shukla, H., Kumar, R., Sonkar, A., Mitra, K., Akhtar, M.S. and Tripathi, T. Salt-regulated reversible fibrillation of Mycobacterium tuberculosis isocitrate lyase: Concurrent restoration of structure and activity. Int J Biol Macromol. 2017, 104: 89-96.
28. Shukla, H., Shukla, R., Sonkar, A., Pandey, T. and Tripathi, T. Distant Phe345 mutation compromises the stability and activity of Mycobacterium tuberculosis isocitrate lyase by modulating its structural flexibility. Sci Rep. 2017, 7: 1058: doi.10.1038/s41598-017-01235-z.
29. Sonkar, A., Shukla, H., Shukla, R., Kalita, J., Pandey, T. and Tripathi, T. UDP-N- acetylglucosamine enolpyruvyl transferase (MurA) of Acinetobacter baumannii (AbMurA): Structural and functional properties. Int J Biol Macromol. 2017, 97: 106-114.
30. Shukla, H., Kumar, V., Singh, AK., Rastogi, S., Khan, SR,. Siddiqi, MI., Krishnan, MY., Akhtar, MS. Isocitrate lyase of Mycobacterium tuberculosis is inhibited by quercetin through binding at N-terminus. Int J Biol Macromol. 2015, 78: 137-141.
31. Shukla, H., Kumar, V., Singh, AK., Singh, N., Kashif, M., Siddiqi, MI., Krishnan, MY., Akhtar, MS. Insight into the structural flexibility and function of Mycobacterium tuberculosis Isocitrate Lyase. Biochimie. 2015, 110: 73-80.
32. Shukla, H., Singh, SK., Amit Kumar Singh, Kalyan Mitra, Md. Sohail Akhtar. The C-terminus hot spot region helps in the fibril formation of bacteriophage-associated Hyaluronate Lyase (HylP2). Sci Rep. 2015, 5: 1442
33. Gautam, A., Shukla, H., Khan, S., Rishi, P., and Bhakuni, V. Structural and functional features of UDP-N-acetylenolpyruvylglucosamine reductase of Mycobacterium tuberculosis H37Rv International Journal of Integrative Biology 2010

Conferences:

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