In-house developed internet computing servers

Contact Person : Professor K. Sekar

  • PSST: Protein Sequence Search Tool - A web based interactive search engine
    S. Saravanan, A. Ajmal Khan and K. Sekar
    CURR. SCIENCE. (2000), 550-552.
    and
    PSST(2.0): PDB Sequence Search Tool - A web based interactive search engine
    P.Ananthalakshmi, K.Samaya Mohan, C.Chockalingam, C.Mayilarasi and K. Sekar
    APPL. BIOINFO. (2005).4(2), 141-145.  
    http://pranag.physics.iisc.ernet.in/psst/

  • PDB Goodies - a web-based GUI to manipulate the Protein Data Bank file
    A.S.Z. Hussain, V. Shanthi, S.S. Sheik, J. Jeyakanthan, P. Selvarani and K. Sekar
    ACTA CRYST. (2002), D58, 1385-1386  
    http://dicsoft2.physics.iisc.ernet.in/pdbgoodies/

  • RP: Ramachandran plot on the web
    S.S. Sheik, P. Sundararajan, A.S.Z. Hussain and K. Sekar
    BIONFORMATICS (2002), 18, 1548-1549.
    and
    RP(2.0): Ramachandran plot on the web
    K. Gopalakrishnan, G. Sowmiya, S.S. Sheik and K. Sekar
    PROTEIN PEPT. LETT. (2007), 14, 669-671.  
    http://dicsoft1.physics.iisc.ernet.in/rp/

  • WAP: Water Analysis Package - a Web-based package to calculate geometrical parameters between water oxygen and protein atoms
    V. Shanthi, C.K. Rajesh, J. Jayalakshmi, V.G. Vijay and K. Sekar
    J. APPL. CRYST. (2003), 36, 167-168.
    http://dicsoft2.physics.iisc.ernet.in/wap/

  • CAP: Conformation Angles Package - Displaying the conformation angles of side chains in proteins
    S.S. Sheik, P. Sundararajan, V. Shanthi and K. Sekar
    BIOINFORMATICS. (2003), 19, 1043-1044.  
    http://dicsoft1.physics.iisc.ernet.in/cap/
  • SEM : Symmetry Equivalent Molecules - A web based GUI to generate and visualize the macromolecules
    A.S.Z. Hussain, Ch.Kiran Kumar, C.K. Rajesh, S.S.Sheik and K. Sekar
    NUCL. ACIDS RES. (2003), 31, 3356-3358.  
    http://dicsoft2.physics.iisc.ernet.in/sem/

  • BSDD: Biomolecules Segment Display Device - A web based interactive display tool
    P. Selvarani, V. Shanthi, C.K. Rajesh, S. Saravanan and K. Sekar
    NUCL. ACIDS RES. (2004), 32, W645-W648.  
    and
    BSDD(2.0): Biomolecules Segment Display Device
    Sanjeev Kumar, S.Praveen, R.Karthi, R.Sabarinathan, M.Kalaivani, S.Sathiyamoorthy and K. Sekar
    CURR. SCIENCE (2009). 97, 28-32.
    http://iris.physics.iisc.ernet.in/bsdd/

  • FF : Fragment Finder - A web based software to identify similar three-dimensional structural motif
    P. Ananthalakshmi, Ch. Kirankumar, M. Jeyasimhan, K. Sumathi and K. Sekar
    NUCL ACIDS RES. (2005), 33, W85-W88.  
    http://cluster.physics.iisc.ernet.in/ff/

  • 3dSS: 3-Dimensional Structural Superposition
    K.Sumathi, P. Ananthalakshmi, M.N.A.Md.Roshan and K. Sekar
    NUCL. ACIDS RES. (2006). 34, W128-W134.  
    http://cluster.physics.iisc.ernet.in/3dss/

  • PSAP: Protein Structure Analysis Package
    B.Balamurugan, M.N.A.Md.Roshan, B.Shaahul Hameed, K.Sumathi, R.Senthil Kumar, A.Udayakumar, K.H.Venkatesh Babu, M.Kalaivani, G.Sowmiya, P.Sivasankari, S.Saravanan, C.Vasuki Ranjani, K.Gopalakrishnan, K.N.Selvakumar, M.Jaikumar, T.Brindha, Daliah Michael and K. Sekar
    J. APPL. CRYST. (2007). 40, 773-777.
    http://iris.physics.iisc.ernet.in/psap/

  • RPMS : Ramachandran Plot for Multiple Structures
    K.Gopalakrishnan, S. Saravanan, R. Sarani and K. Sekar
    J. APPL. CRYST. (2008). 41, 219-221.
    http://cluster.physics.iisc.ernet.in/rpms/

  • CSSP : Consensus Secondary Structure Prediction
    Ankit Gupta, Avnish Deshpande, Janardhan Kumar Amburi, Radhakrishnan Sabarinathan, Ramaswamy Senthilkumar and K. Sekar
    J. APPL. CRYST. (2009) 42, 336-338.
    http://bioserver1.physics.iisc.ernet.in/cssp/

  • SSMBS: A Web-server to locate Sequentially Separated Motifs in Biological Sequences
    Chetan Kumar and K. Sekar
    J. APPL. CRYST (2010). 43, 203-205.
    http://dicsoft1.physics.iisc.ernet.in/ssmbs/

  • FAIR: A Server for Internal Sequence Repeats
    R. Senthilkumar, R. Sabarinathan, B. Shaahul Hameed, Nirjhar Banerjee, N.Chidambarathanu, R. Karthi  and    K. Sekar
    BIOINFORMATION (2010). 4(7), 271-275.
    http://bioserver1.physics.iisc.ernet.in/fair/

  • ProSTRIP: A method to find similar structural repeats in three-dimensional protein structures
    R. Sabarinathan, Raunak Basu and K. Sekar
    COMPUT. BIO. CHEM. (2010). 34(2), 126-130.  
    http://cluster.physics.iisc.ernet.in/prostrip/

  • BSSB: Blast Server for Structural Biologists
    M. Uthayakumar, G. Sowmiya, R. Sabarinathan, N.A. Udaya Prakash, M. Kirti Vaishnavi and K. Sekar
    J. APPL. CRYST. (2011). 44, 651-654.
    http://bioserver1.physics.iisc.ernet.in/bssb/

  • RPS: Repeats in Protein Sequences
    K.H. Venkatesh, M. Uthayakumar, M. Kirti Vaishnavi, R. Senthilkumar, M. Shankar, C. Archana, S. Sathya Priya and K. Sekar
    J. APPL. CRYST. (2011). 44, 647-650.
    http://bioserver1.physics.iisc.ernet.in/rps/

  • Fragment Finder 2.0: A computing server to identify structurally similar fragments
    R. Nagarajan, S. Siva Balan, R. Sabarinathan, M. Kirti Vaishnavi and K. Sekar
    J. APPL. CRYST. (IN PRESS).
    http://cluster.physics.iisc.ernet.in/ff/