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Molecular Cell
Article
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Molecular Cell
Article . 2005
License: Elsevier Non-Commercial
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Molecular Cell
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Molecular Cell
Article . 2005
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Mathematical Modeling of Nucleotide Excision Repair Reveals Efficiency of Sequential Assembly Strategies

Authors: Politi, A.; Moné, M.J.; Houtsmuller, A.; Hoogstraten, D.; Vermeulen, W.; Heinrich, R.; van Driel, R.;

Mathematical Modeling of Nucleotide Excision Repair Reveals Efficiency of Sequential Assembly Strategies

Abstract

Nucleotide excision repair (NER) requires the concerted action of many different proteins that assemble at sites of damaged DNA in a sequential fashion. We have constructed a mathematical model delineating hallmarks and general characteristics for NER. We measured the assembly kinetics of the putative damage-recognition factor XPC-HR23B at sites of DNA damage in the nuclei of living cells. These and other in vivo kinetic data allowed us to scrutinize the dynamic behavior of the nucleotide excision repair process in detail. A sequential assembly mechanism appears remarkably advantageous in terms of repair efficiency. Alternative mechanisms for repairosome formation, including random assembly and preassembly, can readily become kinetically unfavorable. Based on the model, new experiments can be defined to gain further insight into this complex process and to critically test model predictions. Our work provides a kinetic framework for NER and rationalizes why many multiprotein processes within the cell nucleus show sequential assembly strategy.

Keywords

570, DNA Repair, 500, Cell Biology, CHO Cells, EMC MM-03-24-01, Models, Biological, DNA-Binding Proteins, Kinetics, Transcription Factors, TFII, Cricetulus, Genes, Reporter, Cricetinae, Animals, Humans, EMC MGC-01-12-03, Molecular Biology, Transcription Factor TFIIH, DNA Damage, Protein Binding

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    This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
    53
    popularity
    This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
    Top 10%
    influence
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    Top 10%
    impulse
    This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
    Top 10%
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citations
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
53
Top 10%
Top 10%
Top 10%
hybrid