Template-based docking
Some targets produced only low-reliability HHpred or DALI results, yet we observed that the identified proteins had similar functional annotations as the CASP targets. If the alignment of CASP server models to these multimeric structures using TM-align24 seemed plausible, we simply aligned CASP server models to different chains of the templates and then relaxed the resulting models to remove structural clashes using the same methods as in the case of free docking.