- Protein annotation. Can
we predict the structure and function of a sequence of a unknown protein? We develop a
combination of scores from sequence alignment, threading, secondary
structure prediction, atomically detailed modeling and more to annotate
proteins. A server
- Protein evolution.
is known that many sequences fit one fold, but how many?. Are different
folds connected by a single point mutation? What are the relationships
between sequence evolution and the structural templates in which they
- Protein folding potentials.
Mathematical programming techniques are used to find optimal sets of
parameters that are used in structure prediction calculations.
Can we learn an optimal alignment? Can we parameterize the (usually assumed
ad-hoc) gaps and the insertion parameters?