Difference between revisions of "Dssp"
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turns and bridges are used for the search of alpha-helices and |
turns and bridges are used for the search of alpha-helices and |
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beta-ladders. |
beta-ladders. |
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| − | + | Geometrical features are bends, chirality, SS bonds and solvent exposure. |
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With these features dssp assigns the secondary structure (8 different states). |
With these features dssp assigns the secondary structure (8 different states). |
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Revision as of 21:10, 2 June 2011
DSSP - Define Secondary Structure of Proteins
Basic Information
| Author | Kabsch W, Sander C. |
|---|---|
| Year | 1983 |
| Reference | PubMed 6667333 |
DSSP performs a search for patterns in the resolved structure of a protein. Therefore it predicts H-Bonds by a cutoff in the energy bond. It searches for "n-turns" and bridges. "n-turns" are H-Bonds between the 0H of residue i and the NH of residue i+n (n = 3 or 4 or 5; 4 is the classical alpha-Helix), whereas bridges are H-Bonds not near each other in sequence (repeated bridges form beta-Sheets).
Details
DSSP knowns different features and depending on the predicted features of an amino acid is the secondary structure assigned.
First it searches for H-Bonds by a cutoff in the energy bond. With the H-Bonds it searches for turns and bridges. These turns and bridges are used for the search of alpha-helices and beta-ladders. Geometrical features are bends, chirality, SS bonds and solvent exposure. With these features dssp assigns the secondary structure (8 different states).
