Mesostate

From CSBLwiki

Revision as of 16:26, 26 August 2010 (view source) Igchoi (Talk | contribs) (→Concept) ← Older edit		Revision as of 16:29, 26 August 2010 (view source) Igchoi (Talk | contribs) (→Mesostate) Newer edit →
Line 22:		Line 22:
	*Data production by [[배형섭]]		*Data production by [[배형섭]]
	*[http://roselab.jhu.edu/dist/manual/meso_lett.html Torsion angle mesostate] by LINUS (Rose Lab)		*[http://roselab.jhu.edu/dist/manual/meso_lett.html Torsion angle mesostate] by LINUS (Rose Lab)
-	[[file:F1.large.jpg|150px|thumb|left|Mesostate - it contains an error http://www.pnas.org/content/102/45/16227/F1.large.jpg]]	+	[[file:F1.large.jpg|150px|thumb|left|Mesostate - it contains an error www.pnas.org/content/102/45/16227/F1.large.jpg]]
	====Calculation====		====Calculation====

---

Revision as of 16:29, 26 August 2010

Contents 1 Concept 2 Procedure 2.1 Standard data set 2.2 Torsion angles 2.2.1 Mesostate 2.2.2 Calculation 2.2.3 Alphabet assignment 2.3 Profiling 2.4 Applications 3 Status(result) 4 References

Concept

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...

Mesostate

• Data production by 배형섭
• Torsion angle mesostate by LINUS (Rose Lab)

Calculation

• Following tools can be used to calculate torsion angles of backbones
  • MMTK (python molecular modeling toolkit)
  • DSSP (by C. Sander)

Alphabet assignment

• Information theory

Profiling

• Normalization?
• Distance metric?

Applications

Status(result)

• TBA

References

1. Error fetching PMID 19188606: [FPP]