School of Biotechnology

Madurai Kamaraj University, Madurai



   Dept.of Genetic Engineering

Lab   Publications Profiles Databases Collaborators

  Research Interest

  1. Structural analysis of Outer membrane protein OmpC from Salmonella typhi and E. coli
  2. Understanding structural interaction of S.typhi OmpC with the antibodies specific to OmpC.
  3. Obtaining High resolution X-ray diffraction crystals of porin-lactoferrin complex
  4. Database creation of beta barrel membrane proteins, prophage proteins and HNH domain Proteins
  5. Purification of prophage encoded proteins
  6. Structural modeling and understanding of the role of myocilin in causing Juvenile Open Angle Glaucoma
  7. Computational analysis of genomes
  8. Simulation of OmpR-Envz two component regulatory system from E .coli


Department of Genetic Engineering

Madurai Kamaraj University

Current Projects
Our group mainly focusses on Structural Biology and Bioinformatics of Integral Membrane Proteins (Porins), aggregating proteins like McrA, and Myocillin. Xray crystallography is the main tool in charactersing the OmpC, OmpF, PhoE, McrA and Myocilin. Parallely we have constructed three databases for Porins(PRNDS) , Prophages(Prophagedb) and HNH(HNHdb) domains for further analysis of these characteristic protein families to aid in target selection for structural genomics initiatives. The crystallography study is aimed at deciphering biological mechanisms like baceriocidal activity of lactoferrin through its interaction with OMPs (Outer Membrane Proteins). OMPs are engineered to serve as epitope carriers and hence aid in vaccine design. We also do simulation studies of OMPs using GROMACS and use sequence analysis related parallelised software on a cluster



  1. S.Krishnaswamy and S.Shanmugasundaram (1995). Codon analysis of cyanobacterial genes. Current Science 69: 182-185.

  2. A.Arockiasamy and S.Krishnaswamy (1995). Prediction of B Cell epitopes of S. typhi. Journal of Biosciences 20: 235-240.

  3. R. Shivapriya, R. Prasad, Iyer Lakshminarayanan, S.Krishnaswamy and K. Dharmalingam (1995). Expression of mcrA gene of E.coli is regulated by sequestration of translational signal. Gene. 157: 201-207

  4. G.Felcy Fabiola, S.Krishnaswamy, V.Nagaraj and Vasantha Pattabhi (1997) An analysis of C-H..O hydrogen bonds in beta sheets. Acta Cryst D 53: 316-320

  5. Johnson, S.Krishnaswamy, P.V. Sundaram, Vasantha Pattabhi (1997) The 1.8A structure of the first active Porcine alpha trypsin. Acta Cryst D 53 : 311-315

  6. A.Arockiasamy and S.Krishnaswamy (1999) Crystallisation of the immunologically important Outer membrane protein OmpC; the first protein crystals from from the human pathogen S. typhi FEBS Lett 453: 380-382

  7. N. Venkatesh,S. Krishnaswamy, S. Meuris and GS Murthy (1999) Epitope analysis and molecular modelling reveals the topography of C-terminal peptide of the b subunit (CTP b) of human chorionic gonodotropin. Eur. J. Biochem 265: 1061-1066.

  8. A. Arockiasamy and S. Krishnaswamy (2000) Purification of Integral Outer-Membrane Protein OmpC, a surface antigen from S.typhi for structure-function studies: A method applicable to enterobacterial major outer-membrane protein. Anal. Biochem 283: 64-70.

  9. A. Arockiasamy and S. Krishnaswamy Homology model of surface antigen OmpC from S.typhi and its functional implications (2000) J. Biomol Str Dyn. 18: 261-271

  10. T.V. Gnanasekaran, Suraj Peri, A. Arockiasamy and S. Krishnaswamy (2000) Profiles from structure based sequence alignment of porins can identify beta stranded integral membrane proteins Bioinformatics. 16, 839-842.

  11. Taru Deva and S. Krishnaswamy (2001) Structure based sequence alignment of type II restriction endonucleases. Biochimica et Biophysica Acta.1544, 217-228.

  12. S.Sujatha, A. Arockiasamy, S. Krishnaswamy and R.Usha (2001) Molecular modeling of epitope presentation using the membrane protein OmpC. Ind. J. Biochem and Biophys. 38: 294-297

  13. G. Vasanthi and S. Krishnaswamy (2002) Dipole moment analysis of membrane proteins suggests role in orientation in the membrane. Ind. J. Biochem and Biophys. 39: 93-100.

  14. G. Vasanthi, and S. Krishnaswamy (2003) Dipole moment in TIM alpha/beta fold proteins. Ind. J. Biochem and Biophys. 40: 194-202

  15. Janakaraj Kanagavalli, Subbaiah Ramasamy Krishnadas,Eswari Pandaranayaka, S. Krishnaswamy, Periasamy Sundaresan(2003) Evaluation and understanding of myocilin mutations in Indian primary open angle glaucoma patients. Molecular Vision 9:606-614.

  16. Preeti Mehta, Sherwood Casjens and S. Krishnaswamy (2004) Analysis of the lambdoid prophage element e14 in the E.coli K-12 genome BMC Microbiol 4:4.

  17. Preeti Mehta, Krishnamohan Katta, S. Krishnaswamy (2004) HNH family sub-classification leads to identification of commonality in the His-Me endonuclease superfamily. Protein Science 13:295�300.

  18. A.Arockiasamy, G.S.Murthy, M.R. Rukmini, N. Sundara Baalaji, Umesh Chandra Katpally, and S. Krishnaswamy, (2004) Conformational epitope mapping of OmpC, a major cell surface antigen from Salmonella typhi. J. Struct. Biol. 148: 22-33.

  19. A. Arockiasamy, P.D. Kumar, N. Sundara Baalaji, M.R. Rukmini, and S.Krishnaswamy (2004) Folding and structural stability of OmpC from Salmonella typhi: Role of LPS and environment. Current Science 87: 197-202.

  20. A.V.S.K. Mohan Katta, Rajeshwari Marikkannu, Rajiv V. Basaiawmoit and S. Krishnaswamy(2004) Consensus based validation of membrane porins. In silico biology 4: 0046.

  21. K.V. Srividhya and S. Krishnaswamy (2004) A simulation model of Escherichia coliosmoregulatory switch using E-CELL system. BMC Microbiology 4: 44.

  22. Janakaraj Kanagavalli, Eswari Pandaranayaka, Subbaiah R Krishnadas, Sankaran Krishnaswamy, Periasamy Sundaresan (2004) A Review of Genetic and Structural Understanding of the Role of Myocilin in Primary Open Angle Glaucoma. Indian Journal of Ophthalmology 52:271-280.

  23. Uma Maheswari, Anton Montsant, Johannes Goll, S. Krishnasamy, Rajyashri, K.R., Villoo Morawala Patell and Chris Bowler (2005) The Diatom EST Database Nucl Acids Res. 33: D344-D347

  24. P.D. Kumar and S. Krishnaswamy (2005) Overexpression, refolding, and puri.cation of the major immunodominant outer membrane porin OmpC from Salmonella typhi: characterization of refolded OmpC. Protein Expression and Purification 40: 126-133.

  25. N. Sundara Baalaji, K. Ravi Acharya, T.P. Singh and S. Krishnaswamy (2005) High-resolution diffraction from crystals of a membrane protein complex: bacterial Outer Membrane Protein, OmpC with antibacterial eukaryotic protein, Lactoferrin. Acta Cryst F 61 773-775.

Book Chapter
  1. N. Gautham, Karthe and S. Krishnaswamy (1999) Effect of alternating sequence on the structure of left handed Z DNA. Perspectives in Structural Biology, Univ Press, 593-601.



Principal Investigator

Prof. S. Krishnaswamy
Research Students
N. Sundara Baalaji
P.D Kumar
K.A.V.S.Krishna Mohan
Sankar M.R
Balasubramanian D
Alaguraj V.
Palanivelu S
Eswari P.J
Poornima G
Sam (Arockiasamy)


Taru Deva
Preeti Mehta
Rukmini M.R
Rajeshwari M
Ezhilarasi M
Navaneeth Krishnan
Jahnavi P

PRNDS Porin Database Server
Prophage Database Server
HNH Database

Dr.G.S.Murthy, IISc, India
Dr.Anjali Karande, IISc, India
Dr.Ravi Acharya K, University of Bath, UK
Dr.T.P.Singh, AIIMS, India
Dr.Joel Sussman, Weizmann Institute, Israel
Dr.M.K.Mathew, NCBS, India
Dr.Jayant B. Udgaonkar, NCBS, India