ArticleNucleic acids research2016
The intrinsic mechanics of B-DNA in solution characterized by NMR.
Article in Nucleic acids research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed, 19 citations in OpenAlex.
- Mechanical codes of chemical-scale specificity in DNA motifs.Chemical science · 2023Article
- Homologous pairing in short double-stranded DNA-grafted colloidal microspheres.Biophysical journal · 2022Article
- Nucleosome assembly and disassembly pathways in vitro.PloS one · 2022Article
- Mechanical Flexibility of DNA: A Quintessential Tool for DNA Nanotechnology.Sensors (Basel, Switzerland) · 2020Review
- Slow motions in A·T rich DNA sequence.Scientific reports · 2020Article
- Observation of the Unbiased Conformers of Putative DNA-Scaffold Ribosugars.ACS central science · 2020Article
- Substrate conformational dynamics facilitate structure-specific recognition of gapped DNA by DNA polymerase.Nucleic acids research · 2019Article
- Modulation of the helical properties of DNA: next-to-nearest neighbour effects and beyond.Nucleic acids research · 2019Article
- Comparative analysis of inosine-substituted duplex DNA by circular dichroism and X-ray crystallography.Journal of biomolecular structure & dynamics · 2018Article
- Intrinsic structural variability in GNRA-like tetraloops: insight from molecular dynamics simulation.Journal of molecular modeling · 2017Article
- Recent Methods for Purification and Structure Determination of Oligonucleotides.International journal of molecular sciences · 2016Review
- High-resolution biophysical analysis of the dynamics of nucleosome formation.Scientific reports · 2016Article
Corrections and comments
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Authors and funding
7 authors at 6 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Experimental characterization of the structural couplings in free B-DNA in solution has been elusive, because of subtle effects that are challenging to tackle. Here, the exploitation of the NMR measurements collected on four dodecamers containing a substantial set of dinucleotide sequences provides new, consistent correlations revealing the DNA intrinsic mechanics. The difference between two successive residual dipolar couplings (ΔRDCs) involving C6/8-H6/8, C3'-H3' and C4'-H4' vectors are correlated to the(31)P chemical shifts (δP), which reflect the populations of the BI and BII backbone states. The δPs are also correlated to the internucleotide distances (Dinter) involving H6/8, H2' and H2″ protons. Calculations of NMR quantities on high resolution X-ray structures and controlled models of DNA enable to interpret these couplings: the studied ΔRDCs depend mostly on roll, while Dinterare mainly sensitive to twist or slide. Overall, these relations demonstrate how δP measurements inform on key inter base parameters, in addition to probe the BI↔BII backbone equilibrium, and shed new light into coordinated motions of phosphate groups and bases in free B-DNA in solution. Inspection of the 5' and 3' ends of the dodecamers also supplies new information on the fraying events, otherwise neglected.
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