CYANA Command: structures secondary

Parameters

structures=integer

(default: 1)

mode=classic|normal|psipred|simple|ovw|sep

(default: normal)

Description

Computes the secondary structure using the DSSP algorithm (Kabsch & Sander, 1983), which is based exclusively on the detection of hydrogen bonds. If multiple structures are selected, the secondary structure is reported for the individual structures only if information level is set to full or higher. Otherwise only the consensus secondary structure is reported. The consensus secondary structure for a structure bundle is obtained by considering all hydrogen bonds that occur in a minimal number of structures, as defined by the structures parameter. The default is to use all hydrogen bonds that are found in any structure.

The following modes are supported for the output of the results:

classic

Output exactly as in the DSSP publication (Kabsch & Sander, 1983)

normal

psipred

　simple

ovw

seo