Jove
Visualize
Contact Us

Related Concept Videos

Assembly of Cytoskeletal Filaments01:18

Assembly of Cytoskeletal Filaments

26.9K
Cytoskeletal filaments are polymeric forms of smaller protein subunits. However, individual cytoskeletal filaments may easily disassemble or associate with other similar filaments to form rigid structures. Microfilaments, made of actin monomers, rely on actin-binding proteins to form bundles and create networks of individual actin filaments. Microtubules rely on microtubule-associated proteins (MAPs) to form sturdy cylindrical structures. However, the proteins involved in forming complex...
26.9K
Non-equilibrium in the Cell01:16

Non-equilibrium in the Cell

5.2K
An important concept in studying metabolism and energy is that of chemical equilibrium. Most chemical reactions are reversible. They can proceed in both directions, releasing energy into their environment in one direction, and absorbing it from the environment in the other direction. The same is true for the chemical reactions involved in cell metabolism, such as the breaking down and building up of proteins into and from individual amino acids, respectively. Reactants within a closed system...
5.2K
Actin Polymerization and Cell Motility01:13

Actin Polymerization and Cell Motility

6.3K
Actin is a family of globular proteins that are highly abundant in eukaryotic cells. It makes up approximately 1-5% of total cell protein concentration. Actin monomers polymerize to form a complex network of polarized filaments, the actin cytoskeleton, that plays a crucial role in many cellular processes, including cell motility, division, endocytosis, and metastasis of cancer cells.
Actin cytoskeleton dynamics can produce pushing, pulling, and resistance forces that help the cell to migrate....
6.3K
Assembly of Complex Microtubule Structures01:32

Assembly of Complex Microtubule Structures

2.3K
Complex microtubule structures are present in resting cells and in dividing cells. In resting cells, they are responsible for maintaining the cellular architecture, tracks for intracellular transport, positioning of organelles, assembly of cilia and flagella. They mediate the bipolar spindle assembly for chromosomal segregation and positioning of the cell division plate in dividing cells. The formation of microtubule complex structures depends on the cell type, cell stage, and cell function.
2.3K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Clathrin is an Intrinsic Driver of Membrane Fission.

bioRxiv : the preprint server for biology·2026
Same author

Mechanisms of enhanced or impaired DNA target selectivity driven by protein dimerization.

PNAS nexus·2026
Same author

Transforming macromolecular structures into simulations of self-assembly with ioNERDSS.

bioRxiv : the preprint server for biology·2026
Same author

Quantitative benefit-risk analysis for prophylactic vaccines in the context of FDAs benefit-risk framework.

NPJ vaccines·2026
Same author

Mechanically heterogeneous hydrogel with cell-programmed network restructuring promotes tissue regeneration by mechano-epigenetic modulation.

Nature communications·2026
Same author

Predicting protein curvature sorting across membrane compositions.

Biophysical journal·2026
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Video

Updated: Dec 20, 2025

Self-Assembly of Microtubule Tactoids
08:49

Self-Assembly of Microtubule Tactoids

Published on: June 23, 2022

4.4K

NERDSS: A Nonequilibrium Simulator for Multibody Self-Assembly at the Cellular Scale.

Matthew J Varga1, Yiben Fu1, Spencer Loggia1

  • 1TC Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, Maryland.

Biophysical Journal
|May 30, 2020
PubMed
Summary

A new simulator, NERDSS, bridges molecular and reaction-diffusion models to predict cellular self-assembly dynamics. It enables design and prediction of complex molecular structures and processes previously inaccessible to existing software.

More Related Videos

Liquid-cell Transmission Electron Microscopy for Tracking Self-assembly of Nanoparticles
08:39

Liquid-cell Transmission Electron Microscopy for Tracking Self-assembly of Nanoparticles

Published on: October 16, 2017

13.0K
Self-assembly of Complex Two-dimensional Shapes from Single-stranded DNA Tiles
10:23

Self-assembly of Complex Two-dimensional Shapes from Single-stranded DNA Tiles

Published on: May 8, 2015

12.0K

Related Experiment Videos

Last Updated: Dec 20, 2025

Self-Assembly of Microtubule Tactoids
08:49

Self-Assembly of Microtubule Tactoids

Published on: June 23, 2022

4.4K
Liquid-cell Transmission Electron Microscopy for Tracking Self-assembly of Nanoparticles
08:39

Liquid-cell Transmission Electron Microscopy for Tracking Self-assembly of Nanoparticles

Published on: October 16, 2017

13.0K
Self-assembly of Complex Two-dimensional Shapes from Single-stranded DNA Tiles
10:23

Self-assembly of Complex Two-dimensional Shapes from Single-stranded DNA Tiles

Published on: May 8, 2015

12.0K

Area of Science:

  • Computational Biology
  • Biophysics
  • Systems Biology

Background:

  • Predictive modeling of cellular self-assembly faces a spatiotemporal resolution gap.
  • Molecular models struggle with long-timescale dynamics, while reaction-diffusion models lack molecular structure detail.

Purpose of the Study:

  • Introduce the nonequilibrium reaction-diffusion self-assembly simulator (NERDSS) to bridge this gap.
  • Enable simulation of user-defined molecular assembly models with integrated molecular and large-scale dynamics.

Main Methods:

  • NERDSS integrates reaction-diffusion algorithms with generalized software for user-defined molecules.
  • Models incorporate diffusion, binding, unbinding, chemical transformations, and spatial localization.
  • Rule-based formatting languages ensure model portability, usability, and reproducibility.

Main Results:

  • NERDSS successfully models clathrin-mediated endocytosis, designing multicomponent systems for lattice formation and disassembly.
  • Simulations reveal spatial constraints on lattice growth and the role of membrane localization and cooperativity.
  • NERDSS adaptability is shown through viral lattice assembly and circadian clock models.

Conclusions:

  • NERDSS overcomes limitations of existing software, enabling simulation of previously inaccessible self-assembly models.
  • The simulator has broad applications for predicting in vivo self-assembly and designing in vitro assemblies.
  • NERDSS facilitates understanding of complex biological processes through integrated multiscale modeling.