Structural phylogeny
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===Torsion angles=== | ===Torsion angles=== | ||
| + | *Structural alphabets based on torsion angle distributions in the ramachandran plot | ||
| + | <pre> | ||
| + | images to be posted... | ||
| + | </pre> | ||
====Calculation==== | ====Calculation==== | ||
*Following tools can be used to calculate torsion angles of backbones | *Following tools can be used to calculate torsion angles of backbones | ||
Revision as of 03:03, 1 July 2010
Contents |
Concept
- Protein structures (3D) were parsed into a finite number of structural alphabets
- Using these structural alphabets, identify meaning structural words..
- Frequent structural words (motifs?) and popular sentences (super secondary structures?)
- Using words to relate molecules (proteins) and organismic phylogeny (genomes; book)
Procedure
Standard data set
- We are going to use the SCOP DB: sequences and structures in the Astral compendium
Torsion angles
- Structural alphabets based on torsion angle distributions in the ramachandran plot
images to be posted...
Calculation
- Following tools can be used to calculate torsion angles of backbones
