Literature DB >> 32087632

Model for disordered proteins with strongly sequence-dependent liquid phase behavior.

Antonia Statt1, Helena Casademunt2, Clifford P Brangwynne1, Athanassios Z Panagiotopoulos1.   

Abstract

Phase separation of intrinsically disordered proteins is important for the formation of membraneless organelles or biomolecular condensates, which play key roles in the regulation of biochemical processes within cells. In this work, we investigated the phase separation of different sequences of a coarse-grained model for intrinsically disordered proteins and discovered a surprisingly rich phase behavior. We studied both the fraction of total hydrophobic parts and the distribution of hydrophobic parts. Not surprisingly, sequences with larger hydrophobic fractions showed conventional liquid-liquid phase separation. The location of the critical point was systematically influenced by the terminal beads of the sequence due to changes in interfacial composition and tension. For sequences with lower hydrophobicity, we observed not only conventional liquid-liquid phase separation but also re-entrant phase behavior in which the liquid phase density decreases at lower temperatures. For some sequences, we observed the formation of open phases consisting of aggregates, rather than a normal liquid. These aggregates had overall lower densities than the conventional liquid phases and exhibited complex geometries with large interconnected string-like or membrane-like clusters. Our findings suggest that minor alterations in the ordering of residues may lead to large changes in the phase behavior of the protein, a fact of significant potential relevance for biology.

Entities:  

Year:  2020        PMID: 32087632     DOI: 10.1063/1.5141095

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  27 in total

1.  Comparative roles of charge, π, and hydrophobic interactions in sequence-dependent phase separation of intrinsically disordered proteins.

Authors:  Suman Das; Yi-Hsuan Lin; Robert M Vernon; Julie D Forman-Kay; Hue Sun Chan
Journal:  Proc Natl Acad Sci U S A       Date:  2020-11-02       Impact factor: 11.205

2.  Liquid network connectivity regulates the stability and composition of biomolecular condensates with many components.

Authors:  Jorge R Espinosa; Jerelle A Joseph; Ignacio Sanchez-Burgos; Adiran Garaizar; Daan Frenkel; Rosana Collepardo-Guevara
Journal:  Proc Natl Acad Sci U S A       Date:  2020-06-01       Impact factor: 11.205

3.  'RNA modulation of transport properties and stability in phase-separated condensates.

Authors:  Andrés R Tejedor; Adiran Garaizar; Jorge Ramírez; Jorge R Espinosa
Journal:  Biophys J       Date:  2021-11-09       Impact factor: 4.033

4.  Assembly of model postsynaptic densities involves interactions auxiliary to stoichiometric binding.

Authors:  Yi-Hsuan Lin; Haowei Wu; Bowen Jia; Mingjie Zhang; Hue Sun Chan
Journal:  Biophys J       Date:  2021-10-09       Impact factor: 4.033

5.  A Polycomb domain found in committed cells impairs differentiation when introduced into PRC1 in pluripotent cells.

Authors:  Elizabeth S Jaensch; Jinjin Zhu; Jesse C Cochrane; Sharon K Marr; Theresa A Oei; Manashree Damle; Ethan Z McCaslin; Robert E Kingston
Journal:  Mol Cell       Date:  2021-10-11       Impact factor: 17.970

6.  Sequence Determines the Switch in the Fibril Forming Regions in the Low-Complexity FUS Protein and Its Variants.

Authors:  Abhinaw Kumar; Debayan Chakraborty; Mauro Lorenzo Mugnai; John E Straub; D Thirumalai
Journal:  J Phys Chem Lett       Date:  2021-09-13       Impact factor: 6.888

7.  Hydropathy Patterning Complements Charge Patterning to Describe Conformational Preferences of Disordered Proteins.

Authors:  Wenwei Zheng; Gregory Dignon; Matthew Brown; Young C Kim; Jeetain Mittal
Journal:  J Phys Chem Lett       Date:  2020-04-17       Impact factor: 6.475

8.  A predictive coarse-grained model for position-specific effects of post-translational modifications.

Authors:  Theodora Myrto Perdikari; Nina Jovic; Gregory L Dignon; Young C Kim; Nicolas L Fawzi; Jeetain Mittal
Journal:  Biophys J       Date:  2021-02-12       Impact factor: 4.033

9.  Thermodynamics and kinetics of phase separation of protein-RNA mixtures by a minimal model.

Authors:  Jerelle A Joseph; Jorge R Espinosa; Ignacio Sanchez-Burgos; Adiran Garaizar; Daan Frenkel; Rosana Collepardo-Guevara
Journal:  Biophys J       Date:  2021-02-09       Impact factor: 4.033

10.  Sequence effects on internal structure of droplets of associative polymers.

Authors:  Kulveer Singh; Yitzhak Rabin
Journal:  Biophys J       Date:  2020-08-27       Impact factor: 4.033

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