Figure 5.

Application of POLYVIEW-3D to the analysis and further assessment (in terms of the overlap between predicted and observed interaction interfaces) of protein docking models, generated for LicT using the ClusPro server (see text for details). An overall view of the top scoring model is shown, with PRD1 domains forming a qualitatively correct dimer interface. The residues found to be within the interaction interface in this model, which are also predicted by SPPIDER as interaction sites, are highlighted in red, residues observed in the model within interacting sites and not predicted as such are shown in blue, and residues predicted to be interacting sites but not involved in interactions in the model of the complex are shown in yellow, respectively.

Porollo and Meller BMC Bioinformatics 2007 8:316   doi:10.1186/1471-2105-8-316
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