Bottom - Index of papers - Previous - Next - Paper in HTML - Abstract - CUBIC
| Title: | Secondary structure assignment |
| Author: | Burkhard Rost |
| Quote: |
The automatic assignment of protein secondary structure from 3D co-ordinates is an important and in principle a simple bioinformatics tool. The assignments are used in 3D structure visualisations to simplify the presentation of a protein in order to highlight functional aspects. Structural comparisons of proteins are performed faster when first comparing secondary structure. Secondary structure has also been used to improve sequence searches. Hence, secondary structure is important to assure the optimal yield of an experimental structure and to cleverly select the targets for structural genomics. Here, we review the principles of the most popular assignment methods DSSP, STRIDE, DEFINE and P-Curve. We also compare these methods and suggest evaluation criteria for 'good' assignments. Finally, we describe an extension from discrete to continuous assignment of secondary structure.
Top -
Index of papers -
Paper in HTML -
Abstract -
Paper as PDF -
Appendix -
CUBIC