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We present a novel method that predicts transmembrane domains in proteinsusing solely information contained in the sequence itself. The PRED-TMRalgorithm described, refines a standard hydrophobicity analysis with adetection of potential termini ('edges', starts and ends) of transmembraneregions. This allows one both to discard highly hydrophobic regions notdelimited by clear start and end configurations and to confirm putativetransmembrane segments not distinguishable by their hydrophobic composition.The accuracy obtained on a test set of 101 non-homologous transmembraneproteins with reliable topologies compares well with that of other popularexisting methods. Only a slight decrease in prediction accuracy was observedwhen the algorithm was applied to all transmembrane proteins of the SwissProtdatabase (release 35). A WWW server running the PRED-TMR algorithm is availableat http://o2.db.uoa. gr/PRED-TMR/

A novel method for predicting transmembrane segments in proteins based on a statistical analysis of the SwissProt database: the PRED-TMR algorithm