Iowa State University
Plant Sciences Institute

Laurence H. Baker Center for Bioinformatics and Biological Statistics


!!! Please use our improved CDM Secondary Structure Prediction Server that also includes GOR V results !!!

GOR V PROTEIN SECONDARY STRUCTURE PREDICTION SERVER

The GOR (Garnier-Osguthorpe-Robson) method uses both information theory
and Bayesian statistics for predicting the secondary structure of proteins.
Over the years, the method has been improved by including larger databases
and more detailed statistics, which account not only for amino acid
composition, but also for amino acid pairs and triplets. The most crucial
change in the algorithm was the inclusion of evolutionary information using
PSI-BLAST (Altschul et al. Nucl. Acids Res. 25, 3389, 1997) to increase the
information content for improved discrimination among secondary structures.
In GOR V, the prediction accuracy Q3 using full-jackknifing reached 73.5%.


Sequence name (optional):

Your e-mail address :

Paste a protein sequence below:
(Please use one-letter amino acid codes with no comment line--the submission is limited to 1000 residues)


References for GOR V:

* Kloczkowski, A., Ting, K.-L, Jernigan, R.L., Garnier, J., "Combining the
GOR V algorithm with evolutionary information for protein secondary
structure prediction from amino acid sequence", Proteins, 49, 154-166, 2002. pdf

* Sen, T.Z., Jernigan, R.L., Garnier, J., Kloczkowski, A., "GOR V server for
protein secondary structure prediction", Bioinformatics, 21(11), 2787-2788,
2005.
pdf

General References for GOR:

* Garnier, J., Osguthrope, D.J., Robson, B. J. Mol. Bio., 130, 97-120, 1978.
* Gibrat, J.F., Garnier, J., Robson, B. J. Mol. Bio., 198, 425-443, 1987.
* Garnier, J., Gibrat, J.F., Robson, B. Methods Enzymol., 266, 540-553, 1996.
* Kloczkowski, A., Ting, K.-L, Jernigan, R.L., Garnier, J. Polymer, 43, 441-449, 2002.

Please refer your questions/comments about this server to Taner Z. Sen associated with the Jernigan group.