19^th International CODATA Conference
Category: Data Visualization

SSEP: Secondary Structural Elements Of Proteins (2.0)

K. Sekar (sekar@physics.iisc.ernet.in)
Bioinformatics Centre, Supercomputer Education and Research Centre, Indian Institute of Science, INDIA

SSEP is a comprehensive derived database related to the secondary structural elements present in the 25% and 90% non-redundant protein chains.  The current version provides information about the alpha-helical segments, beta-strand fragments, 310-helices, beta-and gamma-turns and hairpin loops of varying lengths.  The free graphics program RASMOL has been interfaced with the search engine to visualize the three-dimensional structures of the user queried secondary structural fragment.  Several other useful information are also incorporated in the revised version.  In addition, the package can be used to extract the three-dimensional atomic coordinates of the defined secondary structural elements. The database is updated regularly and is available through Bioinformatics web server at http://cluster.physics.iisc.ernet.in/ssep/ or http://144.16.71.148/ssep/

The details and the newly added options will be presented.

Reference
V. Shanthi, P. Selvarani, Ch. Kiran Kumar, C.S. Mohire and K. Sekar. Nucl. Acids. Res.  2003,  31(1),  448-451.