Structural phylogeny
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==Procedure== | ==Procedure== | ||
===Standard data set=== | ===Standard data set=== | ||
| - | *[http://scop.berkeley.edu the SCOP DB] | + | *We are going to use [http://scop.berkeley.edu the SCOP DB]: sequences and structures in the [http://astral.berkeley.edu/ Astral] compendium |
| + | |||
===Torsion angles=== | ===Torsion angles=== | ||
====Utilities(calculation)==== | ====Utilities(calculation)==== | ||
Revision as of 03:01, 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
