ArticleProceedings of the National Academy of Sciences of the United States of America2005
Dissecting the mechanical unfolding of ubiquitin.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2005. 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.
- ATP-independent unfolding of ubiquitin by Ufd1 initiates Cdc48/p97-mediated substrate processing.Nature structural & molecular biology · 2026Article
- Direct observation of ATP-driven ubiquitin chain handling by Cdc48.Nature communications · 2026Article
- SUMO enhances unfolding of SUMO-polyubiquitin-modified substrates by the Ufd1/Npl4/Cdc48 complex.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Translocation of polyubiquitinated protein substrates by the hexameric Cdc48 ATPase.Molecular cell · 2022Article
- Reproducibility in the unfolding process of protein induced by an external electric field.Chemical science · 2020Article
- Substrate processing by the Cdc48 ATPase complex is initiated by ubiquitin unfolding.Science (New York, N.Y.) · 2019Article
- As Simple As Possible, but Not Simpler: Exploring the Fidelity of Coarse-Grained Protein Models for Simulated Force Spectroscopy.PLoS computational biology · 2016Article
- The role of binding site on the mechanical unfolding mechanism of ubiquitin.Scientific reports · 2015Article
- Article
- Insights into Ligand-Protein Binding from Local Mechanical Response.Journal of chemical theory and computation · 2011Article
- Direct quantification of the attempt frequency determining the mechanical unfolding of ubiquitin protein.The Journal of biological chemistry · 2011Article
- Minimum energy compact structures in force-quench polyubiquitin folding are domain swapped.Proceedings of the National Academy of Sciences of the United States of America · 2011Article
- Water's role in the force-induced unfolding of ubiquitin.Proceedings of the National Academy of Sciences of the United States of America · 2010Article
- Molecular basis for the structural stability of an enclosed β-barrel loop.Journal of molecular biology · 2010Article
- Multiple Unfolding Intermediates Obtained by Molecular Dynamic Simulations under Stretching for Immunoglobulin-Binding Domain of Protein G.The open biochemistry journal · 2009Article
- Direct observation of an ensemble of stable collapsed states in the mechanical folding of ubiquitin.Proceedings of the National Academy of Sciences of the United States of America · 2009Article
- Osmolyte-induced separation of the mechanical folding phases of ubiquitin.Proceedings of the National Academy of Sciences of the United States of America · 2009Article
- An effective all-atom potential for proteins.PMC biophysics · 2009Article
- Changing the mechanical unfolding pathway of FnIII10 by tuning the pulling strength.Biophysical journal · 2009Article
- Formation and growth of oligomers: a Monte Carlo study of an amyloid tau fragment.PLoS computational biology · 2008Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The unfolding behavior of ubiquitin under the influence of a stretching force recently was investigated experimentally by single-molecule constant-force methods. Many observed unfolding traces had a simple two-state character, whereas others showed clear evidence of intermediate states. Here, we use Monte Carlo simulations to investigate the force-induced unfolding of ubiquitin at the atomic level. In agreement with experimental data, we find that the unfolding process can occur either in a single step or through intermediate states. In addition to this randomness, we find that many quantities, such as the frequency of occurrence of intermediates, show a clear systematic dependence on the strength of the applied force. Despite this diversity, one common feature can be identified in the simulated unfolding events, which is the order in which the secondary-structure elements break. This order is the same in two- and three-state events and at the different forces studied. The observed order remains to be verified experimentally but appears physically reasonable.
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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.