KOPS - The Institutional Repository of the University of Konstanz

Thermodynamics of force-induced B-DNA melting : Single-strand discreteness matters

Thermodynamics of force-induced B-DNA melting : Single-strand discreteness matters

Cite This

Files in this item

Files Size Format View

There are no files associated with this item.

THEODORAKOPOULOS, Nikos, 2019. Thermodynamics of force-induced B-DNA melting : Single-strand discreteness matters. In: Physical Review E. 99(3), 032404. ISSN 2470-0045. eISSN 2470-0053. Available under: doi: 10.1103/PhysRevE.99.032404

@article{Theodorakopoulos2019Therm-45583, title={Thermodynamics of force-induced B-DNA melting : Single-strand discreteness matters}, year={2019}, doi={10.1103/PhysRevE.99.032404}, number={3}, volume={99}, issn={2470-0045}, journal={Physical Review E}, author={Theodorakopoulos, Nikos}, note={Article Number: 032404} }

<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bibo="http://purl.org/ontology/bibo/" xmlns:dspace="http://digital-repositories.org/ontologies/dspace/0.1.0#" xmlns:foaf="http://xmlns.com/foaf/0.1/" xmlns:void="http://rdfs.org/ns/void#" xmlns:xsd="http://www.w3.org/2001/XMLSchema#" > <rdf:Description rdf:about="https://kops.uni-konstanz.de/rdf/resource/123456789/45583"> <dc:date rdf:datatype="http://www.w3.org/2001/XMLSchema#dateTime">2019-04-05T06:58:20Z</dc:date> <dcterms:isPartOf rdf:resource="https://kops.uni-konstanz.de/rdf/resource/123456789/41"/> <dspace:isPartOfCollection rdf:resource="https://kops.uni-konstanz.de/rdf/resource/123456789/41"/> <dcterms:abstract xml:lang="eng">Overstretching of B-DNA is currently understood as force-induced melting. Depending on the geometry of the stretching experiment, the force threshold for the overstretching transition is around 65 or 110 pN. Although the mechanisms behind force-induced melting have been correctly described by Rouzina and Bloomfield [Biophys. J. 80, 882 (2001)], neither force threshold has been exactly calculated by theory. In this work, a detailed analysis of the force-extension curve is presented, based on a description of single-stranded (ss) DNA in terms of the discrete Kratky-Porod model, consistent with (i) the contour length expected from the crystallographically determined monomer distance and (ii) a high value of the elastic stretch modulus arising from covalent bonding. The value estimated for the ss-DNA persistence length, λ=1.0 nm, is at the low end of currently known estimates and reflects the intrinsic stiffness of the partially, or fully stretched state, where electrostatic repulsion effects are expected to be minimal. A detailed analysis of single- and double-stranded DNA free energies provides estimates of the overstretching force thresholds. In the unconstrained geometry, the predicted threshold is 64 pN. In the constrained geometry, after allowing for the entropic penalty of the plectonemic topology of the molten state, the predicted threshold is 111 pN.</dcterms:abstract> <dc:creator>Theodorakopoulos, Nikos</dc:creator> <dc:language>eng</dc:language> <dcterms:available rdf:datatype="http://www.w3.org/2001/XMLSchema#dateTime">2019-04-05T06:58:20Z</dcterms:available> <dcterms:issued>2019</dcterms:issued> <void:sparqlEndpoint rdf:resource="http://localhost/fuseki/dspace/sparql"/> <dc:contributor>Theodorakopoulos, Nikos</dc:contributor> <foaf:homepage rdf:resource="http://localhost:8080/jspui"/> <bibo:uri rdf:resource="https://kops.uni-konstanz.de/handle/123456789/45583"/> <dcterms:title>Thermodynamics of force-induced B-DNA melting : Single-strand discreteness matters</dcterms:title> </rdf:Description> </rdf:RDF>

This item appears in the following Collection(s)

Search KOPS


My Account