Table of contents Protein structure prediction
Structural genomics
The universe of protein structure
Molecular dynamics simulation of the diffusion of oxygen to the binuclear center of Cytochrome C Oxydase
Protein structure prediction
Slide 6
PSI Pred *D. Jones 2000
Slide 8
Slide 9
Slide 10
Fold Recognition / Threading / Inverse Folding
Elements of a fold recognition algorithm
Dynamic programming with environmental strings
What are environments?
How do you thread a new sequence?
Why threading
Why not threading
Contact potential threading
Knowledge based threading potential I
Knowledge based threading potential II
Using contact potential
Threading query
Slide 23
Preferences used by TOPITS (RostÕ 96)
Slide 25
Threadlize
CASP3 T0081 (methylglyoxal synthase) threaded on 2liv
Slide 28
Assessing the assessment.
Casp4: our predicitons
Slide 31
CAFASP Servers for Automatic Structure Predictions
CAFASP main conclusions
CAFASP results MaxSub Evaluation on 26 Fold Recognition Targets
CAFASP results MaxSub Evaluation on 21 Hard Fold Recognition Targets
CAFASP results MaxSub Top 5 Evaluation on 21 Hard Fold Recognition Targets
Threading practical applications.
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