How do intrinsically disordered protein regions encode a driving force for liquid-liquid phase separation?

被引:190
作者
Borcherds, Wade [1 ]
Bremer, Anne [1 ]
Borgia, Madeleine B. [1 ]
Mittag, Tanja [1 ]
机构
[1] St Jude Childrens Res Hosp, Dept Struct Biol, 332 N Lauderdale St, Memphis, TN 38105 USA
关键词
SEQUENCE DETERMINANTS; DOMAIN; MUTATIONS; AGGREGATION; TRANSITIONS; POLYMERS; DIAGRAMS; DROPLETS;
D O I
10.1016/j.sbi.2020.09.004
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
Liquid-liquid phase separation is the mechanism underlying the formation of biomolecular condensates. Disordered protein regions often drive phase separation, but molecular interactions of disordered protein regions are not well understood, sometimes leading to the conflation that all disordered protein regions drive phase separation. Given the critical role of phase separation in many cellular processes, and that dysfunction of phase separation can lead to debilitating diseases, it is important that we understand the interactions and sequence properties underlying phase behavior. A conceptual framework that divides IDRs into interacting and solvating regions has proven particularly useful, and analytical instantiations and coarse-grained models can test our understanding of the driving forces against experimental phase behavior. Validated simulation paradigms enable the exploration of sequence space to help our understanding of how disordered protein regions can encode phase behavior, which IDRs may mediate phase separation in cells, and which IDRs are in contrast highly soluble.
引用
收藏
页码:41 / 50
页数:10
相关论文
共 72 条
[1]   The C-Terminal RGG Domain of Human Lsm4 Promotes Processing Body Formation Stimulated by Arginine Dimethylation [J].
Arribas-Layton, Marcos ;
Dennis, Jaclyn ;
Bennett, Eric J. ;
Damgaard, Christian K. ;
Lykke-Andersen, Jens .
MOLECULAR AND CELLULAR BIOLOGY, 2016, 36 (17) :2226-2235
[2]   Biomolecular condensates: organizers of cellular biochemistry [J].
Banani, Salman F. ;
Lee, Hyun O. ;
Hyman, Anthony A. ;
Rosen, Michael K. .
NATURE REVIEWS MOLECULAR CELL BIOLOGY, 2017, 18 (05) :285-298
[3]   Transcription Factors Activate Genes through the Phase-Separation Capacity of Their Activation Domains [J].
Boija, Ann ;
Klein, Isaac A. ;
Sabari, Benjamin R. ;
Dall'Agnese, Alessandra ;
Coffey, Eliot L. ;
Zamudio, Alicia V. ;
Li, Charles H. ;
Shrinivas, Krishna ;
Manteiga, John C. ;
Hannett, Nancy M. ;
Abraham, Brian J. ;
Afeyan, Lena K. ;
Guo, Yang E. ;
Rimel, Jenna K. ;
Fant, Charli B. ;
Schuijers, Jurian ;
Lee, Tong Ihn ;
Taatjes, Dylan J. ;
Young, Richard A. .
CELL, 2018, 175 (07) :1842-+
[4]   Structural and hydrodynamic properties of an intrinsically disordered region of a germ cell-specific protein on phase separation [J].
Brady, Jacob P. ;
Farber, Patrick J. ;
Sekhar, Ashok ;
Lin, Yi-Hsuan ;
Huang, Rui ;
Bah, Alaji ;
Nott, Timothy J. ;
Chan, Hue Sun ;
Baldwin, Andrew J. ;
Forman-Kay, Julie D. ;
Kay, Lewis E. .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2017, 114 (39) :E8194-E8203
[5]  
Brangwynne CP, 2015, NAT PHYS, V11, P899, DOI [10.1038/nphys3532, 10.1038/NPHYS3532]
[6]   Phase separation of YAP reorganizes genome topology for long-term YAP target gene expression [J].
Cai, Danfeng ;
Feliciano, Daniel ;
Dong, Peng ;
Flores, Eduardo ;
Gruebele, Martin ;
Porat-Shliom, Natalie ;
Sukenik, Shahar ;
Liu, Zhe ;
Lippincott-Schwartz, Jennifer .
NATURE CELL BIOLOGY, 2019, 21 (12) :1578-+
[7]   Insights into RNA Biology from an Atlas of Mammalian mRNA-Binding Proteins [J].
Castello, Alfredo ;
Fischer, Bernd ;
Eichelbaum, Katrin ;
Horos, Rastislav ;
Beckmann, Benedikt M. ;
Strein, Claudia ;
Davey, Norman E. ;
Humphreys, David T. ;
Preiss, Thomas ;
Steinmetz, Lars M. ;
Krijgsveld, Jeroen ;
Hentze, Matthias W. .
CELL, 2012, 149 (06) :1393-1406
[8]   Physical Principles Underlying the Complex Biology of Intracellular Phase Transitions [J].
Choi, Jeong-Mo ;
Holehouse, Alex S. ;
Pappu, Rohit V. .
ANNUAL REVIEW OF BIOPHYSICS, VOL 49, 2020, 2020, 49 :107-133
[9]   LASSI: A lattice model for simulating phase transitions of multivalent proteins [J].
Choi, Jeong-Mo ;
Dar, Furqan ;
Pappu, Rohit, V .
PLOS COMPUTATIONAL BIOLOGY, 2019, 15 (10)
[10]  
Choi JM, ARXIV200403278