results in CASP2
Domingues F., Floeckner H., Jaritz M.
and Sippl M. Center of Applied Molecular Engineering University
Current methods for Protein structure prediction were tested
Second Meeting on the Critical Assessment of Techniques for
Structure Prediction (CASP2).
Predictions were submitted for protein structures soon to be
experimentalists. The meeting took place last December, when the
predictions were compared to the experimental models by
accessors. 152 groups participated in the experiment and 947
predictions were accepted.
We participated in the Fold Recognition category, where the goal
identify a fold related to a target sequence in a database of
structures. Also, the targets have no considerable sequence
to the known folds. We used ProFIT to produce the prediction
PROSAII to evaluate them. There were 7 targets whose folds were
recognizable. We submitted predictions for 6 of these targets. We
submitted an additional prediction for a target that turned out
a new type of fold, therefore not predictable by fold
these 6 predictions, 3 of them were considered
"correct" by the
accessors, so that our model shared high structure similarity to
experimental one. In one case (t0031) our model was considered by
accessors to be the "best" accepted prediction. Besides
"correct" predictions, we also predicted the correct
fold type for
target t0038. The predicted model had considerable structure
to the target (5 out of 9 beta strands can be superimposed to 2
failed to predict two targets. Both these targets of them were
multiple domain proteins.