ci049686v_si_002.pdf (29.82 kB)
Prediction of Membrane Protein Types by Incorporating Amphipathic Effects
journal contribution
posted on 2005-03-28, 00:00 authored by Kuo-Chen Chou, Yu-Dong CaiAccording to their intramolecular arrangement and position in a cell, membrane proteins are generally
classified into the following six types: (1) type I transmembrane, (2) type II transmembrane, (3) multipass
transmembrane, (4) lipid chain-anchored membrane, (5) GPI-anchored membrane, and (6) peripheral
membrane. Situated in a heteropolar environment, these six types of membrane proteins must have quite
different amphiphilic sequence-order patterns in order to stabilize their respective frameworks. To incorporate
such a feature into the predictor, the amphiphilic pseudo amino acid composition has been formulated that
contains a series of hydrophobic and hydrophilic correlation factors. The success rates thus obtained have
been remarkably enhanced in identifying the types of membrane proteins, as demonstrated by the jackknife
test and independent data set test, respectively.