Membrane protein structure prediction. Hydrophobicity analysis and the positive-inside rule.
A new strategy for predicting the topology of bacterial inner membrane proteins is proposed on the basis of hydrophobicity analysis, automatic generation of a set of possible topologies and ranking of these according to the positive-inside rule. A straightforward implementation with no attempts at optimization predicts the correct topology for 23 out of 24 inner membrane proteins with experimentally determined topologies, and correctly identifies 135 transmembrane segments with only one overprediction.
von Heijne
G
G
Department of Molecular Biology, Karolinska Institute Center for Structural Biochemistry, Huddinge, Sweden.
D001426:Bacterial Proteins / Q000737:chemistry*; D006863:Hydrogen-Ion Concentration; D008565:Membrane Proteins / Q000737:chemistry*; D011487:Protein Conformation; D014867:Water
D001426:Bacterial Proteins; D008565:Membrane Proteins; D014867:Water