Departmental Facilities
Research Scholars
Major Research Areas
Ongoing Projects
Dr.(Mrs.) Shailly Tomar
Shailly Tomar Associate Professor shailfbt[at] 01332-285849
Areas of Interest
  • Antiviral research , Discovery of structure based antivirals against RNA arboviruses (Chikungunya)
  • Molecular and Structural Virology, Structural studies (X-ray and Cryo Electron microscopy (CryoEM) of pathogenic virus/viral proteins
  • Molecular biology and Biochemistry, Studies of potential drug targets (Dengue, Zika, E. histolytica, Bacteria)
  • Molecular diagnostics , Molecular diagnosis of infectious viral diseases epidemic in India and Indian subcontinent
Professional Background
20012003Teaching AssistantDepartment of Biological Sciences, Purdue University
20032006Research AssistantDepartment of Biological Sciences, Purdue University
20062007Young Scientist DSTDepartment of Biotechnology, IIT, Roorkee
20072010LecturerDepartment of Biotechnology IIT Roorkee
2010April,2014Assistant ProfessorDepartment of Biotechnology IIT Roorkee
April,2014PresentAssociate ProfessorIIT Roorkee
Honors and Awards
American Society of Virology, Travel GrantMcGill University, Montreal, Canada2004
American Society of Virology, Travel GrantUniversity of Wisconsin, Madison, USA2006
Educational Details
B. Sc. (Hons)Botany Delhi University, Delhi1999
M.Sc.BiophysicsAll India Institute of Medical Sciences, New Delhi2001
Ph.D.VirologyPurdue University2006
Administrative Background
July 2013PresentFaculty coordinatorAarohi, Child care center
20102010WardenSarojini Bhawan
20102010WardenSarojini Bhawan
2010PresentPanel Member Vigilance expert IITRoorkee
Sponsored Research Projects
TopicFunding AgencyYear
Structure function studies of alphavirus nonstructural protein, NSP1DST2010
Heterologous production and molecular characterization of alphavirus replication proteinsSRIC-IITR2010
Structural studies of tamarind proteinase inhibitor (TPI) and its complex with trypsin.CSIR2012
Targeting viral protease of emerging and neglected RNA alphaviruses.SRIC-MHRD2013
Three Dimensional Analysis of Alphavirus Capsid ProteaseDRDO2014
Structural analysis of chitinase from Tamarindus indica DST2013
In silico development of anti-amoebic molecules based on the structure of E. histolytica ODCICMR2014
Probing intermolecular contacts between capsid protein and envelope proteins of Chikungunya VirusICMR2017
  • American Society for Virology, Member
  • Indian Society for Biophysics, Member
Teaching Engagements
TitleCourse CodeClass NameSemester
Biphysical TechniquesBTN 611MSc II yearAutumn
Molecular separation techniquesIBT 301BTech institute electiveSpring
Genetics and Molecular BiologyBTN 201BTechSpring
Biophysics and Biochemistry BT 213BTech II nd yearAutumn
Molecular separation TechniquesIBT 01BTechAutumn
Separation and Analysis of BiomoleculesBTN 348BTech III yr Dept. ElectiveSpring
Research Scholar Groups
Scholar NameInterest
Ms. Vedita SinghIdentification of Antivirals against Arboviruses
Rajat MudgalStudies of structural proteins of alphaviruses
Mr. Akshay PareekMolecular characterization of RNA dependent RNA polymerase (RdRp)
Rajesh SharmaCharacterzation of alphavirus nonstructural proteins
Harvijay SinghStudies on alpahvirus cysteine protease for antiviral drug discovery
Ramanjit KaurBiochemical and Biophysical charcaterization of alphavirus genome modification enzyme
Anjali MalikStudies on enzymes of polyamine synthesis pathway
Benazir FatmaStudies on the N-terminal domain of capsid protein
PHDs Supervised
TopicScholar NameStatus of PHDRegistration Year
Studies of therapeutic protein target: Ornithine decarboxylase from Entamoeba histolyticaPreeti A2007
Studies of shikimate pathway enzymesSatya TapasA2007
Structural studies of macromoleculesShikha NarangA2009
Structural studies of enzymes involved in bioremediation.Sonali Dhindwal AAug, 2009
Molecular characterization of Aura virus capsid proteinMegha AggarwalASep, 2009
National International Collaboration
Alphaviruses, Chikungunya Virus, Dengue Virus, Antiviral drug discovery Prof. R. J. Kuhn, Department of Biological Sciences, Purdue UniversityRP
Polyamine biosynthesis pathway enzymes of E. histolytica. Dr. Serge Ankri, The Ruth and Bruce Rappaport Faculty of Medicine, Israel RP
Refereed Journal Papers

1. Tomar S., Yadav S., Chandra V., Kumar P., and Singh T.P. 2001. Purification, crystallization and preliminary X-ray diffraction
     studies of disintegrin (schistatin) from saw-scaled viper (Echis carinatus). Acta Crystallogr D Biol Crystallogr. 57:1669-70.
2. Bilgrami S., Tomar S., Yadav S., Kaur P., Kumar J., Jabeen T., Sharma S., and Singh T.P. 2004 Crystal structure of schistatin, a
    disintegrin homodimer from saw-scaled viper (Echis carinatus) at 2.5 A resolution. J Mol Biol. 341(3):829-37.
3. Tomar S., Hardy R. W., Smith J. L., and Kuhn R. J., 2006. Catalytic core of alphavirus nonstructural protein, nsP4 possesses terminal adenylyl transferase activity. J Virol. 80(20): 9962-9.

4. Patil D. N., Preeti, Chaudhry A, Tomar S., Sharma A. K., and Kumar P. (2009) Isolation, purification, crystallization and
    preliminary crystallographic studies of chitinase from tamarind   (Tamarindus   indica)    seeds.    Acta Crystallographica
   Section F 65, 343-345.
5. Patil D. N., Preeti, Chaudhry A, Sharma A. K., Kumar P.* and Tomar S.* (2009) Purification, crystallization and preliminary
    crystallographic studies of a Kunitz-type proteinase inhibitor from tamarind (Tamarindus indica) seeds. Acta Crystallographica
    Section F. 65: 736-738.
6. Tomar S., Patil D. N., Datta M., Tapas S., Preeti, Sharma A. K., Tomar S.* and Kumar P.* (2009) Crystallization and preliminary
    X-ray diffraction analysis of the complex of Kunitz-type tamarind trypsin inhibitor and porcine pancreatic trypsin. Acta
    Crystallographica Section F65: 1179-1181.
7. Patil D. N., Preeti, Chaudhry A, Tomar S., Sharma A. K., and Kumar P. (2009) Isolation, purification, crystallization and
    preliminary crystallographic studies of chitinase from tamarind (Tamarindus indica) seeds. Acta Crystallographica Section F 65,

8. Tapas S., Patel G. K., Dhindwal S. and Tomar S. (2010) In silico sequence analysis and homology modeling of DAHP synthase
     from Pseudomonas fragi Journal of Mol. Model. 17(CCP4), 621-31.
9. Datta M. and Tomar S. (2010) Molecular cloning and structural characterization of catalytic domain of class III chitinase from
    Tamarindus indica. IJLST 3(2) 16-28.
10. Sakshi,  Patil D. N., Tomar S.,  Sylvestre M. and Kumar P. (2010) Expression, purification, crystallization and preliminary
     crystallographic studies of cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase from Pandoraea pnomenusa B-356. Acta Cryst.
     F66, 1517-1520.

11. Dhindwal S, Patil DN, Mohammadi M, Sylvestre M, Tomar S, Kumar P. (2011) Biochemical studies and ligand bound structures
      of biphenyl dehydrogenase from Pandoraea pnomenusa strain B-356 reveal a basis for broad specificity of the enzyme. J Biol
      Chem. 286(42):37011-22. doi: 10.1074/jbc.M111.291013.
12. Tomar S, Narwal M, Harms E, Smith JL, Kuhn RJ.(2011) Heterologous production, purification and characterization of
      enzymatically active Sindbis virus nonstructural protein nsP1.Protein Expr Purif. 79(2):277-84.
13. Aggarwal M., Dhindwal S., Pratap S., Kuhn R. J., Kumar P. and Tomar S . Crystallization, high-resolution data collection and
      preliminary crystallographic analysis of Aura virus capsid protease and its complex with dioxane. (2011) Acta Crystallogr Sect       F Struct Biol Cryst Commun. Nov 1 ;67(Pt 11):1394-8. Epub Oct 27

14. Preeti, Tapas S, Kumar P, Madhubala R, Tomar S. Biochemical, mutational and in silico structural evidence for a functional
      dimeric form of the ornithine decarboxylase from Entamoeba histolytica. (2012) PLoS Negl Trop Dis. 6(2):e1559. Epub 2012
      Feb 28.
15. Kumar P, Patil DN, Chaudhary A, Tomar S, Yernool D, Singh N, Dasauni P, Kundu S, Kumar P.   (2012) Purification and
      Biophysical Characterization of an 11S Globulin from Wrightia tinctoria exhibiting Hemagglutinating Activity. Protein Pept            Lett. 20(5):499-509. .
16. Patil DN, Chaudhary A, Sharma AK, Tomar S, Kumar P. (2012) Structural basis for dual inhibitory role of tamarind Kunitz
      inhibitor (TKI) against factor Xa and trypsin. FEBS J. Dec;279(24):4547-64. doi: 10.1111/febs.12042. Epub 2012 Nov 22.
17. Pratap, Shivendra; Narwal, Manju; Dev, Aditya; Dhindwal, Sonali; Tomar, S; Kumar, Pravindra. (2012) Crimean-Congo
       Hemorrhagic Fever Virus: Strategies to Combat with an Emerging Threat to Human. Current Bioinformatics, 7(4), 467-477.
18. Megha Aggarwal, Satya Tapas, Preeti, Anjul Siwach, Pravindra Kumar, Richard J. Kuhn and Shailly Tomar (2012) Crystal
      structure of Aura virus capsid protease and its complex with dioxane: new insights into capsid-glycoprotein molecular contacts.
     PLoS ONE 7(12):e51288. doi: 10.1371/journal.pone.0051288. Epub 2012 Dec 14

19. Preeti; Satya Tapas; Pravindra Kumar; Rentala Madhubala; Shailly Tomar. (2013) Structural Insight into DFMO Resistant
      Ornithine Decarboxylase from Entamoeba histolytica: An Inkling to Adaptive Evolution. PLoS ONE 8(1):e53397. doi:
      10.1371/journal.pone.0053397. Epub 2013 Jan 11.
20. Patil DN, Datta M, Dev A, Dhindwal S, Singh N, Dasauni P, Kundu S, Sharma AK, Tomar S, Kumar P. (2013) Structural
      investigation of a novel N-acetyl glucosamine binding chi-lectin which reveals evolutionary relationship with class III        
      chitinases. PLoS One. 8 (5):e63779. doi: 10.1371/journal.pone.0063779.


21. Aggarwal M, Dhindhwal S, Kumar P, Kuhn RJ, Tomar S. (2014) Trans-protease activity and structural insights into the active form of the alphavirus capsid protease. J Virol. , 88(21):12242-53. doi: 10.1128/JVI.01692-14. Epub 2014 Aug 6.


22. Batra M., Sharma R., Chandra V., Aggarwal M., Agarwal U., Gupta P, Singh R.P., Tomar S.. (2015)  In silico and proteomic analysis of protein methyltransferase CheR from Bacillus subtilis. International Journal of Biological Macromolecules. 77:168-80. DOI:10.1016/j.ijbiomac.2015.03.023

23. Dhindwal S., Priyadarshini P., Patil D.N., Tapas S., Kumar P., Tomar S. and Kumar P. (2015) Ligand-bound structures of 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase from Moraxella catarrhalis reveal a water channel connecting to the active site for the second step of catalysis. Acta Crystallographica Section D Biological Crystallography 71(Pt 2):239-55. doi: 10.1107/S1399004714025218. Epub 2015 Jan 23

24. Kesari P., Patil D.N., Kumar P., Tomar S., Sharma A.K., Kumar P. (2015)  Structural and functional evolution of chitinase-like-proteins from plants. Proteomics 15(10):1693-705. DOI:10.1002/pmic.201400421

25. Aggarwal M, Sharma R, Kumar P, Parida M, Tomar S. (2015) Kinetic characterization of trans-proteolytic activity of Chikungunya virus capsid protease and development of a FRET-based HTS assay. Sci Rep. 5:14753. doi: 10.1038/srep14753.PMID:26439734.

26. Batra M, Sharma R, Malik A, Dhindwal S, Kumar P, Tomar S. (2016)  Crystal structure of pentapeptide-independent chemotaxis receptor methyltransferase (CheR) reveals idiosyncratic structural determinants for receptor recognition. J Struct Biol. Aug 17. pii: S1047-8477(16)30174-5. doi: 10.1016/j.jsb.2016.08.005.

27. Sharma R, Fatma B, Saha A, Bajpai S, Sistla S, Dash PK, Parida M, Kumar P, Tomar S. (2016) Inhibition of chikungunya virus by picolinate that targets viral capsid protein. Virology. 2016 Nov;498:265-76. doi: 10.1016/j.virol.2016.08.029.