Figure 2
From: Transmembrane helix prediction using amino acid property features and latent semantic analysis
Predictions of membrane segments in specific proteins: (A) KcsA potassium channel, (B) aquaporin and (C) human immunodeficiency virus glycoprotein GP41. Observed segments (red) and predicted segments by TMpro, TMHMM version 2.0, SOSUI, DAS-TMfilter and PRODIV-TMHMM are shown in this order. Experimentally observed segments are not known for GP41. For aquaporin, the analog output of TMpro neural network is also shown. This representation reveals that the 3rd predicted helix, which is unusually long, shows a relative minimum in its center. Although it is not sufficient for automatic prediction, it does indicate the possibility of a separating loop, as is observed experimentally.