Figure 4

Inspection of structural elements in the Jmol viewer. (a) The ‘Inspect Motifs’ window of Structure Motivator with the 58 octapeptides described in the text loaded and one selected ready for viewing. (b) Selected structural element (2CBP, residues 15–22[27]), highlighted in red, in secondary structure view in the context of the whole protein. (c) Close-up view of the octapeptide with hydrogen bonds visualized. The display of side-chains and residue numbers has been suppressed. The file used to generate the octapeptide in PreMotivator (‘8mer.txt’) is included in the package distributed with the application. The description ‘40-range’ indicates that a range of ± 40˚ for the angles specified in 8mer.txt was used to define the peptide.