ArticleBiophysical journal2010
Exploring the paths of (virus) assembly.
Article in Biophysical journal, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
26 citing papers in PubMed.
- Article
- Theoretical Studies on Assembly, Physical Stability, and Dynamics of Viruses.Sub-cellular biochemistry · 2024Review
- Virus self-assembly proceeds through contact-rich energy minima.Science advances · 2021Article
- Rapidly Forming Early Intermediate Structures Dictate the Pathway of Capsid Assembly.Journal of the American Chemical Society · 2020Article
- Assembly Reactions of Hepatitis B Capsid Protein into Capsid Nanoparticles Follow a Narrow Path through a Complex Reaction Landscape.ACS nano · 2019Article
- Characterization of Virus Capsids and Their Assembly Intermediates by Multicycle Resistive-Pulse Sensing with Four Pores in Series.Analytical chemistry · 2018Article
- Molecular dynamics study of T = 3 capsid assembly.Journal of biological physics · 2018Article
- Nanofluidic Devices with 8 Pores in Series for Real-Time, Resistive-Pulse Analysis of Hepatitis B Virus Capsid Assembly.Analytical chemistry · 2017Article
- Allosteric Control of Icosahedral Capsid Assembly.The journal of physical chemistry. B · 2016Article
- Recent advances in coarse-grained modeling of virus assembly.Current opinion in virology · 2016Review
- Modeling Effects of RNA on Capsid Assembly Pathways via Coarse-Grained Stochastic Simulation.PloS one · 2016Article
- Assembly and Release of Hepatitis B Virus.Cold Spring Harbor perspectives in medicine · 2015Review
- Article
- Assembly constraints drive co-evolution among ribosomal constituents.Nucleic acids research · 2015Article
- Mechanisms of virus assembly.Annual review of physical chemistry · 2015Review
- Using Markov state models to study self-assembly.The Journal of chemical physics · 2014Article
- Detection of late intermediates in virus capsid assembly by charge detection mass spectrometry.Journal of the American Chemical Society · 2014Article
- Applying molecular crowding models to simulations of virus capsid assembly in vitro.Biophysical journal · 2014Article
- Stochastic dynamics of virus capsid formation: direct versus hierarchical self-assembly.BMC biophysics · 2012Article
- RNA encapsidation by SV40-derived nanoparticles follows a rapid two-state mechanism.Journal of the American Chemical Society · 2012Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
Assembly of viruses that have hundreds of subunits or folding of proteins that have hundreds of amino acids-complex biological reactions-are often spontaneous and rapid. Here, we examine the complete set of intermediates available for the assembly of a hypothetical viruslike particle and the connectivity between these intermediates in a graph-theory-inspired study. Using a build-up procedure, assuming ideal geometry, we enumerated the complete set of 2,423,313 species for formation of an icosahedron from 30 dimeric subunits. Stability of each n-subunit intermediate was defined by the number of contacts between subunits. The probability of forming an intermediate was based on the number of paths to it from its precedecessors. When defining population subsets predicted to have the greatest impact on assembly, both stability- and probability-based criteria select a small group of compact and degenerate species; ergo, only a few hundred intermediates make a measurable contribution to assembly. Though the number of possible intermediates grows combinatorially with the number of subunits in the capsid, the number of intermediates that make a significant contribution to the reaction grows by a much smaller function, a result that may contribute to our understanding of assembly and folding reactions.
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Registered trials
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.