Prediction of amphipathic in-plane membrane anchors in monotopic proteins using a SVM classifier |
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Authors: | Nicolas Sapay Yann Guermeur and Gilbert Deléage |
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Institution: | (1) Institut de Biologie et Chimie des Prot?ines, UMR 5086 CNRS-Univ, Lyon 1 – IFR128 BioSciences Lyon-Gerland, F-69367 Lyon Cedex 07, France;(2) LORIA-CNRS, Campus Scientifique – BP 239, 54506 Vandœuvre-l?s-Nancy Cedex, France |
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Abstract: | Background Membrane proteins are estimated to represent about 25% of open reading frames in fully sequenced genomes. However, the experimental
study of proteins remains difficult. Considerable efforts have thus been made to develop prediction methods. Most of these
were conceived to detect transmembrane helices in polytopic proteins. Alternatively, a membrane protein can be monotopic and
anchored via an amphipathic helix inserted in a parallel way to the membrane interface, so-called in-plane membrane (IPM) anchors. This
type of membrane anchor is still poorly understood and no suitable prediction method is currently available. |
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Keywords: | |
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