Ab initio folding of mixed-fold FSD-EY protein using formula-based polarizable hydrogen bond (PHB) charge model

作者：Zhang, Dawei^*; Lazim, Raudah^*; Yip, Yew Mun

来源：Chemical Physics Letters, 2017, 684: 24-29.

DOI：10.1016/j.cplett.2017.06.020

• EXCHANGE MOLECULAR-DYNAMICS
• ELECTROSTATIC POLARIZATION
• THERMAL-STABILITY
• HELIX

We conducted an all-atom ab initio folding of FSD-EY, a protein with a beta beta alpha configuration using non-polarizable (AMBER) and polarizable force fields (PHB designed by Gao et al.) in implicit solvent. The effect of reducing the polarization effect integrated into the force field by the PHB model, termed the PHB0.7 was also examined in the folding of FSD-EY. This model incorporates into the force field 70% of the original polarization effect to minimize the likelihood of over-stabilizing the backbone hydrogen bonds. Precise folding of the beta-sheet of FSD-EY was further achieved by relaxing the REMD structure obtained in explicit water.

• 出版日期2017-9-16
• 单位南阳理工学院; 河南大学