130 results found
    1. Cell Biology
    2. Computational and Systems Biology

    Intrinsically disordered linkers determine the interplay between phase separation and gelation in multivalent proteins

    Tyler S Harmon et al.
    Computational modeling and theoretical analysis reveal how disordered linkers determine whether linear multivalent proteins undergo gelation with or without phase separation.
    1. Physics of Living Systems
    2. Cell Biology

    Phase transitions of multivalent proteins can promote clustering of membrane receptors

    Sudeep Banjade, Michael K Rosen
    A new and general mechanism describes the organization of membrane proteins and their cytoplasmic ligands into micrometer-scale clusters, based on polymerization and concomitant phase separation of multivalent proteins.
    1. Cell Biology

    Switch-like Arp2/3 activation upon WASP and WIP recruitment to an apparent threshold level by multivalent linker proteins in vivo

    Yidi Sun et al.
    Intersectin counterparts in yeast recruit WASP and WIP to endocytic sites to establish a robust multivalent SH3 domain-PRM interaction network which gives actin assembly onset a switch-like behavior in vivo.
    1. Computational and Systems Biology
    2. Immunology and Inflammation

    Tailored design of protein nanoparticle scaffolds for multivalent presentation of viral glycoprotein antigens

    George Ueda et al.
    De novo protein nanoparticles were designed from scratch to present viral glycoprotein antigens, providing a systematic way to study the influence of antigen presentation geometry on immune response.
    1. Structural Biology and Molecular Biophysics

    Multivalency regulates activity in an intrinsically disordered transcription factor

    Sarah Clark et al.
    Binding of multiple LC8 copies to the intrinsically disordered region of the transcription factor ASCIZ exemplifies a new and potentially widespread molecular mechanism for negative feedback regulation.
    1. Physics of Living Systems
    2. Structural Biology and Molecular Biophysics

    Dynamic metastable long-living droplets formed by sticker-spacer proteins

    Srivastav Ranganathan, Eugene I Shakhnovich
    Multi-scale simulations reveal a potential, ATP-independent mechanism resulting in the formation of the long-living multi-droplet state by multi-valent, spacer-sticker proteins.
    1. Structural Biology and Molecular Biophysics

    Nucleophosmin integrates within the nucleolus via multi-modal interactions with proteins displaying R-rich linear motifs and rRNA

    Diana M Mitrea et al.
    Nucleolar protein localization involves the phase separation within the nucleolar matrix via three types of multivalent features: acidic tracts, nucleic acid binding domains and arginine-rich low complexity sequences.
    1. Physics of Living Systems
    2. Structural Biology and Molecular Biophysics

    Phase Separation: Restricting the sizes of condensates

    Furqan Dar, Rohit Pappu
    Computer simulations of model proteins with sticker-and-spacer architectures shed light on the formation of biomolecular condensates in cells.
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    1. Biochemistry and Chemical Biology
    2. Cell Biology

    Multisite dependency of an E3 ligase controls monoubiquitylation-dependent cell fate decisions

    Achim Werner et al.
    Simultaneous phosphorylation of multiple substrate motifs drives switch-like target recognition and monoubiquitylation by an E3 ligase during metazoan development.
    1. Chromosomes and Gene Expression
    2. Computational and Systems Biology

    Computational prediction of CTCF/cohesin-based intra-TAD loops that insulate chromatin contacts and gene expression in mouse liver

    Bryan J Matthews, David J Waxman
    Certain types of 3D chromatin loops are easy to predict from existing or easily obtainable 2D information, which benefits gene expression studies in tissues/cells/organisms without extensive pre-existing 3D information.

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