Licari Giuseppe, Strakova Karolina, Matile Stefan, Tajkhorshid Emad
NIH Center for Macromolecular Modeling and Bioinformatics , Beckman Institute for Advanced Science and Technology , Department of Biochemistry , Center for Biophysics and Quantitative Biology , University of Illinois at Urbana-Champaign , Urbana , Illinois , USA . Email:
School of Chemistry and Biochemistry , National Centre of Competence in Research (NCCR) Chemical Biology , University of Geneva , Geneva , Switzerland.
Chem Sci. 2020 May 21;11(22):5637-5649. doi: 10.1039/d0sc02175j. eCollection 2020 Jun 14.
Lateral forces in biological membranes affect a variety of dynamic cellular processes. Recent synthetic efforts have introduced fluorescent "flippers" as environment-sensitive planarizable push-pull probes that can detect lipid packing and membrane tension, and respond to lipid-induced mechanical forces by a shift in their spectroscopic properties. Herein, we investigate the molecular origin of the mechanosensitivity of the best known flipper, Flipper-TR, by an extended set of molecular dynamics (MD) simulations in membranes of increasing complexity and under different physicochemical conditions, revealing unprecedented details of the sensing process. Simulations enabled by accurate refinement of Flipper-TR force field using quantum mechanical calculations allowed us to unambiguously correlate the planarization of the two fluorescent flippers to spectroscopic response. In particular, Flipper-TR conformation exhibits bimodal distribution in disordered membranes and a unimodal distribution in highly ordered membranes. Such dramatic change was associated with a shift in Flipper-TR excitation spectra, as supported both by our simulated and experimentally-measured spectra. Flipper-TR sensitivity to phase-transition is confirmed by a temperature-jump protocol that alters the lipid phase of an ordered membrane, triggering an instantaneous mechanical twisting of the probe. Simulations show that the probe is also sensitive to surface tension, since even in a naturally disordered membrane, the unimodal distribution of coplanar flippers can be achieved if a sufficiently negative surface tension is applied to the membrane. MD simulations in ternary mixtures containing raft-like nanodomains show that the probe can discriminate lipid domains in phase-separated complex bilayers. A histogram-based approach, called DOB-phase classification, is introduced that can differentiate regions of disordered and ordered lipid phases by comparing dihedral distributions of Flipper-TR. Moreover, a new sensing mechanism involving the orientation of Flipper-TR is elucidated, corroborating experimental evidence that the probe tilt angle is strongly dependent on lipid ordering. The obtained atomic-resolution description of Flipper-TR mechanosensitivity is key to the interpretation of experimental data and to the design of novel mechanosensors with improved spectroscopic properties.
生物膜中的侧向力会影响多种动态细胞过程。最近的合成研究引入了荧光“翻转器”,作为对环境敏感的可平面化推拉探针,能够检测脂质堆积和膜张力,并通过其光谱性质的变化来响应脂质诱导的机械力。在此,我们通过一系列在复杂度不断增加的膜以及不同物理化学条件下进行的扩展分子动力学(MD)模拟,研究了最著名的翻转器Flipper-TR的机械敏感性的分子起源,揭示了传感过程前所未有的细节。利用量子力学计算对Flipper-TR力场进行精确优化后所进行的模拟,使我们能够明确地将两个荧光翻转器的平面化与光谱响应相关联。特别是,Flipper-TR构象在无序膜中呈现双峰分布,而在高度有序的膜中呈现单峰分布。这种显著变化与Flipper-TR激发光谱的变化相关,这在我们的模拟光谱和实验测量光谱中均得到了支持。通过改变有序膜脂质相的温度跃变实验方案证实了Flipper-TR对相变的敏感性,该方案会触发探针的瞬时机械扭转。模拟表明,该探针对表面张力也很敏感,因为即使在天然无序的膜中,如果对膜施加足够负的表面张力,也可以实现共面翻转器的单峰分布。在含有筏状纳米域的三元混合物中进行的MD模拟表明,该探针能够区分相分离复杂双层膜中的脂质域。引入了一种基于直方图的方法,称为DOB相分类,通过比较Flipper-TR的二面角分布来区分无序和有序脂质相区域。此外,阐明了一种涉及Flipper-TR取向的新传感机制,证实了实验证据,即探针倾斜角强烈依赖于脂质有序性。所获得的Flipper-TR机械敏感性的原子分辨率描述对于解释实验数据以及设计具有改进光谱性质的新型机械传感器至关重要。