ab initio prediction but provides medium resolution (5 A for 60-residue proteins) and
overemphasizes $\beta$-structures and has to be run with secondary-structure-prediction
information. For prediction of the structure of mostly $\alpha$-protein, and for running
dynamics of large proteins, the best is the GAB force field. All these force fields
were trained by using our procedure of hierarchical optimization \cite{oldziej_2004,oldziej_2004_02}.
ab initio prediction but provides medium resolution (5 A for 60-residue proteins) and
overemphasizes $\beta$-structures and has to be run with secondary-structure-prediction
information. For prediction of the structure of mostly $\alpha$-protein, and for running
dynamics of large proteins, the best is the GAB force field. All these force fields
were trained by using our procedure of hierarchical optimization \cite{oldziej_2004,oldziej_2004_02}.