Literature DB >> 28537592

Programming molecular self-assembly of intrinsically disordered proteins containing sequences of low complexity.

Joseph R Simon1,2, Nick J Carroll1,2,3, Michael Rubinstein1,4, Ashutosh Chilkoti1,2, Gabriel P López1,2,3,5.   

Abstract

Dynamic protein-rich intracellular structures that contain phase-separated intrinsically disordered proteins (IDPs) composed of sequences of low complexity (SLC) have been shown to serve a variety of important cellular functions, which include signalling, compartmentalization and stabilization. However, our understanding of these structures and our ability to synthesize models of them have been limited. We present design rules for IDPs possessing SLCs that phase separate into diverse assemblies within droplet microenvironments. Using theoretical analyses, we interpret the phase behaviour of archetypal IDP sequences and demonstrate the rational design of a vast library of multicomponent protein-rich structures that ranges from uniform nano-, meso- and microscale puncta (distinct protein droplets) to multilayered orthogonally phase-separated granular structures. The ability to predict and program IDP-rich assemblies in this fashion offers new insights into (1) genetic-to-molecular-to-macroscale relationships that encode hierarchical IDP assemblies, (2) design rules of such assemblies in cell biology and (3) molecular-level engineering of self-assembled recombinant IDP-rich materials.

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Year:  2017        PMID: 28537592      PMCID: PMC5597244          DOI: 10.1038/nchem.2715

Source DB:  PubMed          Journal:  Nat Chem        ISSN: 1755-4330            Impact factor:   24.427


  30 in total

1.  Purification of recombinant proteins by fusion with thermally-responsive polypeptides.

Authors:  D E Meyer; A Chilkoti
Journal:  Nat Biotechnol       Date:  1999-11       Impact factor: 54.908

Review 2.  Getting RNA and protein in phase.

Authors:  Stephanie C Weber; Clifford P Brangwynne
Journal:  Cell       Date:  2012-06-08       Impact factor: 41.582

3.  Dynamic microcompartmentation in synthetic cells.

Authors:  M Scott Long; Clinton D Jones; Marcus R Helfrich; Lauren K Mangeney-Slavin; Christine D Keating
Journal:  Proc Natl Acad Sci U S A       Date:  2005-03-23       Impact factor: 11.205

4.  Solubilization of homopolymers in a solution of diblock copolymers.

Authors:  D Izzo; C M Marques
Journal:  J Phys Chem B       Date:  2005-04-07       Impact factor: 2.991

5.  In Vivo Formation of Vacuolated Multi-phase Compartments Lacking Membranes.

Authors:  Hermann Broder Schmidt; Rajat Rohatgi
Journal:  Cell Rep       Date:  2016-07-21       Impact factor: 9.423

6.  Cell-free formation of RNA granules: low complexity sequence domains form dynamic fibers within hydrogels.

Authors:  Masato Kato; Tina W Han; Shanhai Xie; Kevin Shi; Xinlin Du; Leeju C Wu; Hamid Mirzaei; Elizabeth J Goldsmith; Jamie Longgood; Jimin Pei; Nick V Grishin; Douglas E Frantz; Jay W Schneider; She Chen; Lin Li; Michael R Sawaya; David Eisenberg; Robert Tycko; Steven L McKnight
Journal:  Cell       Date:  2012-05-11       Impact factor: 41.582

7.  Sequence Determinants of Intracellular Phase Separation by Complex Coacervation of a Disordered Protein.

Authors:  Chi W Pak; Martyna Kosno; Alex S Holehouse; Shae B Padrick; Anuradha Mittal; Rustam Ali; Ali A Yunus; David R Liu; Rohit V Pappu; Michael K Rosen
Journal:  Mol Cell       Date:  2016-07-07       Impact factor: 17.970

8.  Phase transitions in the assembly of multivalent signalling proteins.

Authors:  Pilong Li; Sudeep Banjade; Hui-Chun Cheng; Soyeon Kim; Baoyu Chen; Liang Guo; Marc Llaguno; Javoris V Hollingsworth; David S King; Salman F Banani; Paul S Russo; Qiu-Xing Jiang; B Tracy Nixon; Michael K Rosen
Journal:  Nature       Date:  2012-03-07       Impact factor: 49.962

9.  Phase transition of a disordered nuage protein generates environmentally responsive membraneless organelles.

Authors:  Timothy J Nott; Evangelia Petsalaki; Patrick Farber; Dylan Jervis; Eden Fussner; Anne Plochowietz; Timothy D Craggs; David P Bazett-Jones; Tony Pawson; Julie D Forman-Kay; Andrew J Baldwin
Journal:  Mol Cell       Date:  2015-03-05       Impact factor: 17.970

Review 10.  The physical chemistry of cytoplasm and its influence on cell function: an update.

Authors:  Kate Luby-Phelps
Journal:  Mol Biol Cell       Date:  2013-09       Impact factor: 4.138

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  61 in total

1.  Engineered Ribonucleoprotein Granules Inhibit Translation in Protocells.

Authors:  Joseph R Simon; Seyed Ali Eghtesadi; Michael Dzuricky; Lingchong You; Ashutosh Chilkoti
Journal:  Mol Cell       Date:  2019-06-04       Impact factor: 17.970

2.  The Role of Cohesiveness in the Permeability of the Spatial Assemblies of FG Nucleoporins.

Authors:  Chad Gu; Andrei Vovk; Tiantian Zheng; Rob D Coalson; Anton Zilman
Journal:  Biophys J       Date:  2019-03-07       Impact factor: 4.033

Review 3.  Methods for producing microstructured hydrogels for targeted applications in biology.

Authors:  Cristobal Garcia Garcia; Kristi L Kiick
Journal:  Acta Biomater       Date:  2018-11-20       Impact factor: 8.947

4.  Relation between single-molecule properties and phase behavior of intrinsically disordered proteins.

Authors:  Gregory L Dignon; Wenwei Zheng; Robert B Best; Young C Kim; Jeetain Mittal
Journal:  Proc Natl Acad Sci U S A       Date:  2018-09-14       Impact factor: 11.205

Review 5.  Intrinsically disordered proteins in crowded milieu: when chaos prevails within the cellular gumbo.

Authors:  Alexander V Fonin; April L Darling; Irina M Kuznetsova; Konstantin K Turoverov; Vladimir N Uversky
Journal:  Cell Mol Life Sci       Date:  2018-07-31       Impact factor: 9.261

Review 6.  Physical Chemistry of Cellular Liquid-Phase Separation.

Authors:  Emily P Bentley; Benjamin B Frey; Ashok A Deniz
Journal:  Chemistry       Date:  2019-02-07       Impact factor: 5.236

7.  Microfluidic characterization of macromolecular liquid-liquid phase separation.

Authors:  Anne Bremer; Tanja Mittag; Michael Heymann
Journal:  Lab Chip       Date:  2020-11-10       Impact factor: 6.799

8.  Pi-Pi contacts are an overlooked protein feature relevant to phase separation.

Authors:  Robert McCoy Vernon; Paul Andrew Chong; Brian Tsang; Tae Hun Kim; Alaji Bah; Patrick Farber; Hong Lin; Julie Deborah Forman-Kay
Journal:  Elife       Date:  2018-02-09       Impact factor: 8.140

9.  Organizing biochemistry in space and time using prion-like self-assembly.

Authors:  Christopher M Jakobson; Daniel F Jarosz
Journal:  Curr Opin Syst Biol       Date:  2017-12-06

Review 10.  Biomolecular Assemblies: Moving from Observation to Predictive Design.

Authors:  Corey J Wilson; Andreas S Bommarius; Julie A Champion; Yury O Chernoff; David G Lynn; Anant K Paravastu; Chen Liang; Ming-Chien Hsieh; Jennifer M Heemstra
Journal:  Chem Rev       Date:  2018-10-03       Impact factor: 60.622

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