ArticleBiophysical journal2019
The Interplay of Structural and Cellular Biophysics Controls Clustering of Multivalent Molecules.
Article in Biophysical journal, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
- Mesoscale simulations of membrane-tethered reactions to parameterize cell-scale models of signaling.Biophysical journal · 2026Article
- Biomolecular Phase Boundaries are Described by a Solubility Product That Accounts for Variable Stoichiometry and Soluble Oligomers.Journal of the American Chemical Society · 2025Article
- Biomolecular phase boundaries are described by a solubility product that accounts for variable stoichiometry and soluble oligomers.bioRxiv : the preprint server for biology · 2025Article
- Mesoscale simulations of membrane-tethered reactions to parameterize cell-scale models of signaling.bioRxiv : the preprint server for biology · 2025Article
- Parallelization of Particle-Based Reaction-Diffusion Simulations Using MPI.Journal of computational chemistry · 2025Article
- Protein interactions, calcium, phosphorylation, and cholesterol modulate CFTR cluster formation on membranes.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Multi-condensate state as a functional strategy to optimize the cell signaling output.Nature communications · 2024Article
- Multi-condensate state as a functional strategy to optimize the cell signaling output.bioRxiv : the preprint server for biology · 2024Article
- Laser-Induced Intracellular Delivery: Exploiting Gold-Coated Spiky Polymeric Nanoparticles and Gold Nanorods under Near-Infrared Pulses for Single-Cell Nano-Photon-Poration.Micromachines · 2024Article
- Postsynaptic protein assembly in three and two dimensions studied by mesoscopic simulations.Biophysical journal · 2023Article
- MolClustPy: a Python package to characterize multivalent biomolecular clusters.Bioinformatics (Oxford, England) · 2023Article
- The maximum solubility product marks the threshold for condensation of multivalent biomolecules.Biophysical journal · 2023Article
- MolClustPy: A Python Package to Characterize Multivalent Biomolecular Clusters.bioRxiv : the preprint server for biology · 2023Article
- The solubility product extends the buffering concept to heterotypic biomolecular condensates.eLife · 2021Article
- A novel stochastic simulation approach enables exploration of mechanisms for regulating polarity site movement.PLoS computational biology · 2021Article
- Mechanistic dissection of spatial organization in NF-κB signaling pathways by hybrid simulations.Integrative biology : quantitative biosciences from nano to macro · 2021Article
- Article
- Quantifying the roles of space and stochasticity in computer simulations for cell biology and cellular biochemistry.Molecular biology of the cell · 2021Article
- Understanding the Targeting Mechanisms of Multi-Specific Biologics in Immunotherapy with Multiscale Modeling.iScience · 2020Article
- Understand the Functions of Scaffold Proteins in Cell Signaling by a Mesoscopic Simulation Method.Biophysical journal · 2020Article
Corrections and comments
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3 authors.
Funding
Abstract
Dynamic molecular clusters are assembled through weak multivalent interactions and are platforms for cellular functions, especially receptor-mediated signaling. Clustering is also a prerequisite for liquid-liquid phase separation. It is not well understood, however, how molecular structure and cellular organization control clustering. Using coarse-grained kinetic Langevin dynamics, we performed computational experiments on a prototypical ternary system modeled after membrane-bound nephrin, the adaptor Nck1, and the actin nucleation promoting factor NWASP. Steady-state cluster size distributions favored stoichiometries that optimized binding (stoichiometry matching) but still were quite broad. At high concentrations, the system can be driven beyond the saturation boundary such that cluster size is limited only by the number of available molecules. This behavior would be predictive of phase separation. Domains close to binding sites sterically inhibited clustering much less than terminal domains because the latter effectively restrict access to the cluster interior. Increased flexibility of interacting molecules diminished clustering by shielding binding sites within compact conformations. Membrane association of nephrin increased the cluster size distribution in a density-dependent manner. These properties provide insights into how molecular ensembles function to localize and amplify cell signaling.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.