ArticlePhysical review. E, Statistical, nonlinear, and soft matter physics2013
Simplified biased random walk model for RecA-protein-mediated homology recognition offers rapid and accurate self-assembly of long linear arrays of binding sites.
Article in Physical review. E, Statistical, nonlinear, and soft matter physics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed, 18 citations in OpenAlex.
- Modeling the Homologous Recombination Process: Methods, Successes and Challenges.International journal of molecular sciences · 2023Review
- Mismatch sensing by nucleofilament deciphers mechanism of RecA-mediated homologous recombination.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Slow extension of the invading DNA strand in a D-loop formed by RecA-mediated homologous recombination may enhance recognition of DNA homology.The Journal of biological chemistry · 2019Article
- A change of view: homologous recombination at single-molecule resolution.Nature reviews. Genetics · 2018Review
- ATP hydrolysis provides functions that promote rejection of pairings between different copies of long repeated sequences.Nucleic acids research · 2017Article
- Mechanisms of fast and stringent search in homologous pairing of double-stranded DNA.PLoS computational biology · 2017Article
- ATP hydrolysis Promotes Duplex DNA Release by the RecA Presynaptic Complex.The Journal of biological chemistry · 2016Article
- DNA Sequence Alignment during Homologous Recombination.The Journal of biological chemistry · 2016Review
- Integrating multi-scale data on homologous recombination into a new recognition mechanism based on simulations of the RecA-ssDNA/dsDNA structure.Nucleic acids research · 2015Article
- The poor homology stringency in the heteroduplex allows strand exchange to incorporate desirable mismatches without sacrificing recognition in vivo.Nucleic acids research · 2015Article
- RecA-mediated sequence homology recognition as an example of how searching speed in self-assembly systems can be optimized by balancing entropic and enthalpic barriers.Physical review. E, Statistical, nonlinear, and soft matter physics · 2014Article
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
Inspired by RecA-protein-based homology recognition, we consider the pairing of two long linear arrays of binding sites. We propose a fully reversible, physically realizable biased random walk model for rapid and accurate self-assembly due to the spontaneous pairing of matching binding sites, where the statistics of the searched sample are included. In the model, there are two bound conformations, and the free energy for each conformation is a weakly nonlinear function of the number of contiguous matched bound sites.
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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.