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Principles governing amino acid composition of integral membrane proteins: application to topology prediction.

Abstract：

:A new method is suggested here for topology prediction of helical transmembrane proteins. The method is based on the hypothesis that the localizations of the transmembrane segments and the topology are determined by the difference in the amino acid distributions in various structural parts of these proteins rather than by specific amino acid compositions of these parts. A hidden Markov model with special architecture was developed to search transmembrane topology corresponding to the maximum likelihood among all the possible topologies of a given protein. The prediction accuracy was tested on 158 proteins and was found to be higher than that found using prediction methods already available. The method successfully predicted all the transmembrane segments in 143 proteins out of the 158, and for 135 of these proteins both the membrane spanning regions and the topologies were predicted correctly. The observed level of accuracy is a strong argument in favor of our hypothesis.

journal_name

J Mol Biol

journal_title

Journal of molecular biology

authors

Tusnády GE,Simon I

doi

10.1006/jmbi.1998.2107

subject

Has Abstract

pub_date

1998-10-23 00:00:00

pages

489-506

issue

2

eissn

0022-2836

issn

1089-8638

pii

S0022-2836(98)92107-6

journal_volume

283

pub_type

杂志文章

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