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dc.contributor.author
Cerofolini, Linda
dc.contributor.author
Amato, Jussara
dc.contributor.author
Giachetti, Andrea
dc.contributor.author
Limongelli, Vittorio
dc.contributor.author
Novellino, Ettore
dc.contributor.author
Parrinello, Michele
dc.contributor.author
Fragai, Marco
dc.contributor.author
Randazzo, Antonio
dc.contributor.author
Luchinat, Claudio
dc.date.accessioned
2020-07-07T06:01:52Z
dc.date.available
2017-06-11T16:22:04Z
dc.date.available
2019-04-04T12:25:27Z
dc.date.available
2020-07-07T05:59:53Z
dc.date.available
2020-07-07T06:01:52Z
dc.date.issued
2014-12-01
dc.identifier.issn
1362-4962
dc.identifier.issn
0301-5610
dc.identifier.other
10.1093/nar/gku1084
en_US
dc.identifier.uri
http://hdl.handle.net/20.500.11850/98611
dc.identifier.doi
10.3929/ethz-b-000098611
dc.description.abstract
The occurrence of a G-triplex folding intermediate of thrombin binding aptamer (TBA) has been recently predicted by metadynamics calculations, and experimentally supported by Nuclear Magnetic Resonance (NMR), Circular Dichroism (CD) and Differential Scanning Calorimetry (DSC) data collected on a 3′ end TBA-truncated 11-mer oligonucleotide (11-mer-3′-t-TBA). Here we present the solution structure of 11-mer-3′-t-TBA in the presence of potassium ions. This structure is the first experimental example of a G-triplex folding, where a network of Hoogsteen-like hydrogen bonds stabilizes six guanines to form two G:G:G triad planes. The G-triplex folding of 11-mer-3′-t-TBA is stabilized by the potassium ion and destabilized by increasing the temperature. The superimposition of the experimental structure with that predicted by metadynamics shows a great similarity, with only significant differences involving two loops. These new structural data show that 11-mer-3′-t-TBA assumes a G-triplex DNA conformation as its stable form, reinforcing the idea that G-triplex folding intermediates may occur in vivo in human guanine-rich sequences. NMR and CD screening of eight different constructs obtained by removing from one to four bases at either the 3′ and the 5′ ends show that only the 11-mer-3′-t-TBA yields a relatively stable G-triplex.
en_US
dc.format
application/pdf
en_US
dc.language.iso
en
en_US
dc.publisher
Oxford University Press
en_US
dc.rights.uri
http://creativecommons.org/licenses/by-nc/4.0/
dc.title
G-triplex structure and formation propensity
en_US
dc.type
Journal Article
dc.rights.license
Creative Commons Attribution-NonCommercial 4.0 International
dc.date.published
2014-11-06
ethz.journal.title
Nucleic Acids Research
ethz.journal.volume
42
en_US
ethz.journal.issue
21
en_US
ethz.journal.abbreviated
Nucleic Acids Res.
ethz.pages.start
13393
en_US
ethz.pages.end
13404
en_US
ethz.size
12 p.
en_US
ethz.version.deposit
publishedVersion
en_US
ethz.notes
It was possible to publish this article open access thanks to a Swiss National Licence with the publisher
en_US
ethz.identifier.wos
ethz.identifier.nebis
000038633
ethz.publication.place
Oxford
en_US
ethz.publication.status
published
en_US
ethz.date.deposited
2017-06-11T16:22:20Z
ethz.source
ECIT
ethz.identifier.importid
imp593652f894e6b77541
ethz.ecitpid
pub:154231
ethz.eth
yes
en_US
ethz.availability
Open access
en_US
ethz.date.embargoend
2017-12-01
ethz.rosetta.installDate
2017-07-14T18:40:47Z
ethz.rosetta.lastUpdated
2020-07-07T06:02:11Z
ethz.rosetta.versionExported
true
ethz.COinS
ctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.atitle=G-triplex%20structure%20and%20formation%20propensity&rft.jtitle=Nucleic%20Acids%20Research&rft.date=2014-12-01&rft.volume=42&rft.issue=21&rft.spage=13393&rft.epage=13404&rft.issn=1362-4962&0301-5610&rft.au=Cerofolini,%20Linda&Amato,%20Jussara&Giachetti,%20Andrea&Limongelli,%20Vittorio&Novellino,%20Ettore&rft.genre=article&
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