The Secondary Structure – Coiled Coil track predicts structures according to the formula of Lupas et al., 1991. You may use this track with the Transmembrane – Goldman-Engleman-Steitz track to predict transmembrane alpha helices.
In the Tracks panel, expand Secondary Structure and check the box next to Coiled Coil. The track will now be visible in the Analysis view
Select the track in the Tracks panel. Open the Track Options section, which appears as follows:
- Threshold – threshold needed to determine a positive score in the region graph. 1.3 is the default value because it is the minimum score for a known coiled-coil. If you need less stringent coiled-coil predictions (e.g., for globular proteins), you may want to lower this to 1.1. If you want to predict very stringent coiled-coils, (e.g., for fibrous proteins), raise it to 1.5.
Click if you wish to return to the default value.
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