DNA with Parallel Strand Orientation: A Nanometer Distance Study with Spin Labels in the Watson-Crick and the Reverse Watson-Crick Double Helix

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dc.contributor.authorWunnicke, Dorith
dc.contributor.authorDing, Ping
dc.contributor.authorYang, Haozhe
dc.contributor.authorSeela, Frank
dc.contributor.authorSteinhoff, Heinz-Juergen
dc.date.accessioned2021-12-23T16:05:47Z-
dc.date.available2021-12-23T16:05:47Z-
dc.date.issued2015
dc.identifier.issn15206106
dc.identifier.urihttps://osnascholar.ub.uni-osnabrueck.de/handle/unios/7205-
dc.description.abstractParallel-stranded (ps) DNA characterized by its sugar phosphate backbones pointing in the same direction represents an alternative pairing system to antiparallel-stranded (aps) DNA with the potential to inhibit transcription and translation. 25-mer oligonucleotides were selected containing only dA.dT base pairs to compare spin-labeled nucleobase distances over a range of 10 or 15 base pairs in ps DNA with those in aps DNA. By means of the copper(I)-catalyzed Huisgen-Meldal-Sharpless alkyne-azide cycloaddition, the spin label 4-azido-2,2,6,6-tetramethylpiperidine-1-oxyl was clicked to 7-ethynyl-7-deaza-2'-deoxyadenosine or 5-ethynyl-2'-deoxyuridine to yield 25-mer oligonucleotides incorporating two spin labels. The interspin distances between spin labeled residues were determined by pulse EPR spectroscopy. The results reveal that in ps DNA these distances are between 5 and 10% longer than in aps DNA when the labeled DNA segment is located near the center of the double helix. The interspin distance in ps DNA becomes shorter compared with aps DNA when one of the spin labels occupies a position near the end of the double helix.
dc.description.sponsorshipDFGGerman Research Foundation (DFG)European Commission [STE640/12]; The research of the manuscript was supported by a grant of the DFG to H.-J.S., STE640/12.
dc.language.isoen
dc.publisherAMER CHEMICAL SOC
dc.relation.ispartofJOURNAL OF PHYSICAL CHEMISTRY B
dc.subjectCHAIN ORIENTATION
dc.subjectChemistry
dc.subjectChemistry, Physical
dc.subjectDUPLEX DNA
dc.subjectEPR SPECTROSCOPY
dc.subjectFORCE-FIELD
dc.subjectNMR STRUCTURE
dc.subjectNUCLEIC-ACIDS
dc.subjectOLIGONUCLEOTIDE DUPLEXES
dc.subjectSEQUENCE
dc.subjectTRANSITION
dc.subjectTRIPLEX DNA
dc.titleDNA with Parallel Strand Orientation: A Nanometer Distance Study with Spin Labels in the Watson-Crick and the Reverse Watson-Crick Double Helix
dc.typejournal article
dc.identifier.doi10.1021/acs.jpcb.5b02935
dc.identifier.isiISI:000363994000015
dc.description.volume119
dc.description.issue43
dc.description.startpage13593
dc.description.endpage13599
dc.contributor.orcid0000-0002-5888-0157
dc.contributor.orcid0000-0002-5016-4041
dc.contributor.researcheridH-3791-2014
dc.publisher.place1155 16TH ST, NW, WASHINGTON, DC 20036 USA
dcterms.isPartOf.abbreviationJ. Phys. Chem. B
crisitem.author.deptFB 04 - Physik-
crisitem.author.deptidfb04-
crisitem.author.parentorgUniversität Osnabrück-
crisitem.author.netidStHe633-
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