Protein Domain Boundary Predictions: A Structural Biology Perspective

Kirillova, Svetlana; Kumar, Suresh; Carugo, Oliviero

By definition, if the two classifications C and K are identical, all the indices (J, R, and FM) are equal to one. It is also important to observe that these indices can be computed independently of the fact that the classifications C and K contain the same number of clusters. This means that the values of J, R, and FM can be computed also if in one case, for example the classification C, all the residues were predicted to be in a unique domain while in the other case, for example the classification K, some residues were assigned to different domains. The only constraint to the computation of J, R, and FM is that both classifications C and K must include the same number of residues, and in the present case this is obvious.