GPCRs Family classification from sequence alone.

Version 1.01

Papasaikas, P.K., Bagos, P.G., Litou, Z.I., Promponas V.J., Hamodrakas, S.J
Department of Cell Biology and Biophysics, Faculty of Biology, University of Athens.
Panepistimiopolis, Athens 15701, Greece

The PRED-GPCR system is based on a probabilistic method that uses family specific profile HMMs in order to determine to which GPCR family a query sequence belongs or resembles. The approach proposed in this method exploits the descriptive power of profile HMMs along with an exhaustive discrimination assessment method to select only highly selective and sensitive profiles, for each family. The collection of these profiles constitutes a signature library, which is scanned, for significant matches with a given query sequence.

The output report for a query sequence consists of two sections:

  • A ranked list of the profile HMM matches, below the selected individual motif E-value cutoff, along with their corresponding family.

  • A ranked list of the Combined P-values, E-values as well as the number of profiles matched for each family.

>> Query the PRED-GPCR signatures library
>> Browse through the PRED-GPCR families

To cross-evaluate your results you can browse through Swiss-Prot, Trembl, Pfam and Prosite family related entries.

HELP PAGE   For more information on using the PRED-GPCR system please consult our Help page

Obtain the paper describing this method:

Papasaikas PK, Bagos PG, Litou ZI, Hamodrakas SJ
A novel method for GPCR recognition and family
classification from sequence alone using signatures
derived from profile hidden Markov models.
SAR QSAR Environ Res. 2003 Oct-Dec;14(5-6):413-20.

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