predicting transmembrane regions

Doug Brutlag brutlag at genbank.BIO.NET
Sun Mar 11 19:48:14 EST 1990

	There are many published algorithms for finding transmembrane
helices.  My favorites in order are:

Eisenberg, D., Schwarz, E., Komaromy, M. and  Wall, R. (1984).
Analysis of membrane and surface protein sequences with the
hydrophobic moment plot. J. Mol. Biol., 179, 125-142.

Rao, J. K. M. and  Argos, P. (1986). A conformational preference
parameter to predict helices in integral membrane proteins. Biochim.
Biophys. Acta, 869, 197-214.

Klein, P., Kanehisa, M. I. and  DeLisi, C. (1985). The detection and
classification of membrane-spanning proteins. Biochim. Biophys. Acta,
815, 468-476.

Wallace, B. A., Cascio, M. and  Mielke, D. L. (1986). Evaluation of
methods for the prediction of membrane protein secondary structures.
Proc. Natl. Acad. Sci. USA, 83, 9423-9427.

Yeh, L.-S., Hunt, L. T., George, D. G. and  Barker, W. C. (1987).
Searching protein sequences for potential transmembrane segments. Fed.
Proc., 46, 2232-2232.

Engelman, D. M., Steitz, T. A. and  Goldman, A. (1986). Identifying
nonpolar transbilayer helices in amino acid sequences of membrane
proteins. Ann. Rev. Biophys. Biophys. Chem., 15, 321-353.

	You can contact the authors for copies of their programs.
Also, the PC/Gene program contains at least three of these methods
including Eisenberg's and Rao and Argos's methods.

Doug Brutlag

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