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
  • [21] Experimental studies on phase separation in critical microemulsion and micellar systems
    Mallamace, F
    Micali, N
    Chen, SH
    PHYSICA A, 1997, 235 (1-2): : 170 - 185
  • [22] Experimental studies on phase separation in critical microemulsion and micellar systems
    Universita' di Messina, Messina, Italy
    Physica A: Statistical Mechanics and its Applications, 1997, 235 (1-2): : 170 - 185
  • [23] Nanoparticles based on lipidyl-β-cyclodextrins: synthesis, characterization, and experimental and computational biophysical studies for encapsulation of atazanavir
    Furlan, Aurelien L.
    Buchoux, Sebastien
    Miao, Yong
    Banchet, Vincent
    Leteve, Mathieu
    Lambertyn, Virginie
    Michel, Jean
    Sarazin, Catherine
    Bonnet, Veronique
    NEW JOURNAL OF CHEMISTRY, 2018, 42 (24) : 20171 - 20179
  • [24] Integrating NDT with Computational Methods Such as Finite Element
    Abdul-Aziz, Ali
    MATERIALS EVALUATION, 2008, 66 (01) : 21 - 25
  • [25] Integrating Imaging and Omics: Computational Methods and Challenges
    Heriche, Jean-Karim
    Alexander, Stephanie
    Ellenberg, Jan
    ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 2, 2019, 2019, 2 : 175 - 197
  • [26] Integrating Computational Methods to Investigate the Macroecology of Microbiomes
    Mascarenhas, Rilquer
    Ruziska, Flavia M.
    Moreira, Eduardo Freitas
    Campos, Amanda B.
    Loiola, Miguel
    Reis, Kaike
    Trindade-Silva, Amaro E.
    Barbosa, Felipe A. S.
    Salles, Lucas
    Menezes, Rafael
    Veiga, Rafael
    Coutinho, Felipe H.
    Dutilh, Bas E.
    Guimaraes, Paulo R., Jr.
    Assis, Ana Paula A.
    Ara, Anderson
    Miranda, Jose G. V.
    Andrade, Roberto F. S.
    Vilela, Bruno
    Meirelles, Pedro Milet
    FRONTIERS IN GENETICS, 2020, 10
  • [27] Probing ionic liquid toxicity through biophysical and computational methods
    Padilla, Marshall Scott
    Mecozzi, Sandro
    JOURNAL OF MOLECULAR LIQUIDS, 2024, 395
  • [28] Integrating Computational and Experimental Methods to Identify Novel Sweet Peptides from Egg and Soy Proteins
    Su, Jinhao
    Liu, Kaifeng
    Cui, Huizi
    Shen, Tianze
    Fu, Xueqi
    Han, Weiwei
    INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES, 2024, 25 (10)
  • [29] Integrating genetics and epigenetics in breast cancer: biological insights, experimental, computational methods and therapeutic potential
    Cava, Claudia
    Bertoli, Gloria
    Castiglioni, Isabella
    BMC SYSTEMS BIOLOGY, 2015, 9