Figure 4.

A sample PDB output from the Protinfo PPC server. The predicted protein complex models are returned to the user in PDB format via email. (A) Structure and interface confidence scores are provided with each prediction. Each model is also accompanied by several parameters, such as (B) sequence identity scores, (C) total target/template length ratio, (D) total length of insertion/deletion regions and (E) List of all insertion/deletion regions, which are useful in assessing the reliability of the predictions. (F) A summary of interacting residues is also provided as a tab delimited list where the first column represents a residue on one protein chain and the remaining columns shows other residues on other protein chain that it is interacting with. This information can be used to suggest residues that are mediating protein complex interactions.