Prediction and analysis of coiled-coil structures.

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The PredictProtein server (2003, background): “NORSp Floppy regions J. Liu and B. Rost (19,20) Protein structure PHDsec Secondary structure B. Rost (11,49,50) PHDacc Solvent accessibility B. Rost (11,51) PHDhtm Membrane helices B. Rost (11,52,53) PROFsec Secondary structure B. Rost (12) PROFacc Solvent accessibility B. Rost Unpublished GLOBE Glo”
Comparative analysis of coiled-coil prediction methods. (2006, methodology): “Weighting When originally introduced into COILS, weighting appeared to slightly decrease the performance of the program (Lupas, 1996).”
Comparing function and structure between entire proteomes (2001, methodology): “Coiled-coils are typically formed as bundles of several right-handed alpha helices twisted around each other, forming a left-handed super helix (Crick 1953; Lupas 1996a).”
An HMM model for coiled-coil domains and a comparison with PSSM-based predictions (2002, methodology): “It was perfected and implemented in COILS by A. Lupas and collaborators ( Lupas, 1996b; Lupas et al., 1991).”