title: Simulations of flow induced structural transition of the β-switch region of glycoprotein Ibα.
abstract: Binding of glycoprotein Ibα to von Willebrand factor induces platelet adhesion to injured vessel walls and initiates a multistep hemostatic process. It has been hypothesized that the flow condition could induce a loop to β-sheet conformational change in the β-switch region of glycoprotein Ibα, which regulates it binding to the von Willebrand factor and facilitates the blood clot formation and wound healing. In this work, direct molecular dynamics (MD), flow MD and metadynamics, were employed to investigate the mechanisms of this flow induced conformational transition process. Specifically, the free energy landscape of the whole transition process was drawn by metadynamics with the path collective variable approach. The results reveal that without flow, the free energy landscape has two main basins, including a random loop basin stabilized by large conformational entropy and a partially folded β-sheet basin. The free energy barrier separating these two basins is relatively high and the β-switch could not fold from loop to β-sheet state spontaneously. The fully β-sheet conformations located in high free energy regions, which are also unstable and gradually unfold into partially folded β-sheet state with flow. Relatively weak flow could trigger some folding of the β-switch but could not fold it into fully β-sheet state. Under strong flow conditions, the β-switch could readily overcome the high free energy barrier and fold into fully β-sheet state.
authors.affiliation: State Key Laboratory of Multiphase Complex Systems, Institute of Process Engineering (IPE), Chinese Academy of Sciences (CAS), Beijing 100190, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China.
authors.forename: Mengzhi
authors.initials: M
authors.lastname: Han
authors.affiliation: State Key Laboratory of Multiphase Complex Systems, Institute of Process Engineering (IPE), Chinese Academy of Sciences (CAS), Beijing 100190, PR China. Electronic address: xuji@ipe.ac.cn.
authors.forename: Ji
authors.initials: J
authors.lastname: Xu
authors.affiliation: State Key Laboratory of Multiphase Complex Systems, Institute of Process Engineering (IPE), Chinese Academy of Sciences (CAS), Beijing 100190, PR China. Electronic address: yren@ipe.ac.cn.
authors.forename: Ying
authors.initials: Y
authors.lastname: Ren
authors.affiliation: State Key Laboratory of Multiphase Complex Systems, Institute of Process Engineering (IPE), Chinese Academy of Sciences (CAS), Beijing 100190, PR China.
authors.forename: Jinghai
authors.initials: J
authors.lastname: Li
mesh_terms: D019038:Platelet Glycoprotein GPIb-IX Complex / Q000737:chemistry*; D011487:Protein Conformation
chemical_list: D019038:Platelet Glycoprotein GPIb-IX Complex
keywords: Free energy landscape; Glycoprotein Ibα; Metadynamics; Molecular dynamics; Protein conformational transition