Biophysical studies of phase separation integrating experimental and computational methods

被引:29
|
作者
Fawzi, Nicolas L. [1 ]
Parekh, Sapun H. [2 ]
Mittal, Jeetain [3 ]
机构
[1] Brown Univ, Dept Mol Pharmacol Physiol & Biotechnol, Providence, RI 02912 USA
[2] Univ Texas Austin, Dept Biomed Engn, Austin, TX 78712 USA
[3] Lehigh Univ, Dept Chem & Biomol Engn, 111 Res Dr, Bethlehem, PA 18015 USA
关键词
Protein nuclear magnetic resonance spectroscopy (NMR); Phase; separation; Biomolecular condensates; Membraneless organelles; Molecular dynamics simulations; Advanced sampling techniques; Hyperspectral imaging; Raman spectroscopy; Forster resonance; energy transfer (FRET); Fluorescence lifetime imaging; Magic angle; MOLECULAR-INTERACTIONS; DISORDERED PROTEINS; RNA; TRANSITION; DYNAMICS; SIMULATION; GRANULES; BEHAVIOR; DOMAINS; PI;
D O I
10.1016/j.sbi.2021.04.004
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Biomolecular phase separation that contributes to the formation of membraneless organelles and biomolecular condensates has recently gained tremendous attention because of the importance of these assemblies in physiology, disease, and engineering applications. Understanding and directing biomolecular phase separation requires a multi scale view of the biophysical properties of these phases. Yet, many classic tools to characterize biomolecular properties do not apply in these condensed phases. Here, we discuss insights obtained from spectroscopic methods, in particular nuclear magnetic resonance and optical spectroscopy, in understanding the molecular and atomic interactions that underlie the formation of protein-rich condensates. We also review approaches closely coupling nuclear magnetic resonance data with computational methods especially coarse-grained and all-atom molecular simulations, which provide insight into molecular features of phase separation. Finally, we point to future methodolical developments, particularly visualizing biophysical properties of condensates in cells.
引用
收藏
页码:78 / 86
页数:9
相关论文
共 50 条
  • [1] Computational and experimental studies of phase separation in pentacene:C60 mixtures
    Zheng, Ying
    Pregler, Sharon K.
    Myers, Jason D.
    Ouyang, Jiaomin
    Sinnott, Susan B.
    Xue, Jiangeng
    JOURNAL OF VACUUM SCIENCE & TECHNOLOGY B, 2009, 27 (01): : 169 - 179
  • [2] Integrating computational and experimental methods for efficient biocatalytic synthesis of polyesters
    Pellis, Alessandro
    Gardossi, Lucia
    ENZYMATIC POLYMERIZATIONS, 2019, 627 : 23 - 55
  • [3] Editorial Overview: Biophysical and computational methods
    Lowe, Alan R.
    Itzhaki, Laura S.
    CURRENT OPINION IN STRUCTURAL BIOLOGY, 2019, 58 : VII - IX
  • [4] Editorial overview: Biophysical and computational methods
    Chandra, Nagasuma
    Menon, Gautam I.
    CURRENT OPINION IN STRUCTURAL BIOLOGY, 2020, 64 : VI - VIII
  • [5] Integrating microarray experimental and computational methods for improved drug target prediction
    Christadore, Lisa M.
    ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 2010, 240
  • [6] Integrating computational and experimental worlds
    Rastogi, Ananya
    NATURE COMPUTATIONAL SCIENCE, 2024, 4 (06): : 391 - 392
  • [7] Editorial overview: COSB biophysical and computational methods
    Voth, Gregory A.
    Yeager, Mark
    CURRENT OPINION IN STRUCTURAL BIOLOGY, 2018, 52 : VI - VII
  • [8] Electrochemical Sensing of Paracetamol Using Functionalized MWCNTs: Integrating Computational and Experimental Methods
    Lochab, Amit
    Baweja, Shefali
    Jindal, Kajal
    Chowdhuri, Arijit
    Tomar, Monika
    Saxena, Reena
    ANALYSIS & SENSING, 2025, 5 (02):
  • [10] Theoretical and computational methods of protein liquid-liquid phase separation
    Zhang Peng-Cheng
    Fang Wen-Yu
    Bao Lei
    Kang Wen-Bin
    ACTA PHYSICA SINICA, 2020, 69 (13)