Protein structures can be reliably predicted by template-based modeling (TBM) when experimental structures of homologous proteins are available. GalaxyTBM is a TBM method in which the more reliable core region is modeled first from multiple templates and less reliable, variable local regions, such as loops or termini, are then detected and re-modeled by an ab initio method. Application of GalaxyTBM to CASP9 targets demonstrates that accurate protein structure prediction is possible by use of a multiple-template-based approach, and ab initio modeling of variable regions can further enhance the model quality.
Department of Chemistry, Seoul National University, Seoul, Korea
GalaxyTBM funding source(s)
This work was supported by the KOSEF/MEST Grant No. 2011–0012456 and the Center for Marine Natural Products and Drug Discovery (CMDD), one of the MarineBio21 programs funded by the Ministry of Land, Transport, and Maritime Affairs.