After this lecture you will:
The lecture handout is available on-line (local access).
The method used in the TMHMM program is described in:
Sonnhammer, E.L.L., von Heijne, G. and Krogh, A. (1998) "A Hidden Markov Model for Predicting Transmembrane Helices in Protein Sequences", Proceedings of ISMB 6, pp 175-182 (available from Erik Sonnhammer's publications page)
Several methods for predicting membrane spanning regions are evaluated in:
Möller, S., Croning, M.D. and Apweiler, R. (2001) "Evaluation of methods for the prediction of membrane spanning regions", Bioinformatics, 17, 646-653 (PubMed)
Approaches to modelling the transmembrane domain of phospholamban are described in:
Adams, P.D., Arkin, I.T., Engelman, D.M. and Brünger, A.T. (1995) "Computational searching and mutagenesis suggest a structure for the pentameric transmembrane domain of phospholamban", Nat Struct Biol., 2, 154-162 (available from Axel Brünger's publications page)
Herzyk, P., Hubbard, R.E. (1998) "Using experimental information to produce a model of the transmembrane domain of the ion channel phospholamban" Biophys J., 74, 1203-1214 (PubMed)