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  5. Faculty of Biochemistry, Chemistry and Pharmacy: Research Data
  6. Dissecting the stabilities of tetrads in G-quadruplexes by hydrogen exchange to derive a structure-activity relation for a thrombin-binding DNA G-quadruplex aptamer
 
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Title(s)
TitleLanguage
Dissecting the stabilities of tetrads in G-quadruplexes by hydrogen exchange to derive a structure-activity relation for a thrombin-binding DNA G-quadruplex aptamer
en
 
Author(s)
NameORCIDGNDAffiliation
Wirmer-Bartoschek, Julia 
0000-0002-0642-1311
Organic Chemistry and Chemical Biology 
Ferner, Jan-Peter 
0000-0002-2009-3203
Organic Chemistry and Chemical Biology 
Heckel, Alexander 
0000-0003-3541-4548
Organic Chemistry and Chemical Biology 
Schwalbe, Harald Jochen 
0000-0001-5693-7909
Organic Chemistry and Chemical Biology 
 
Faculty
14 Biochemistry, Chemistry and Pharmacy
 
Date Issued
18 September 2025
 
Publisher(s)
Goethe-Universität Frankfurt
 
Handle
https://gude.uni-frankfurt.de/handle/gude/656
 
DOI
10.25716/gude.1rvp-c027
 

Type(s) of data
Dataset
 
Language(s)
en
 
Subject Keyword(s)
  • NMR

  • thrombin binding apta...

  • nucleic acids

  • G-quadruplexes

  • hydrogen exchange

 
Abstract(s)
AbstractLanguage
Guanosine- and deoxyguanosine-rich nucleic acids can form G-quadruplex structures (G4) that are stabilized by guanine tetrads (G4 tetrads). G4s find numerous application in biotechnology and we study here the so called TBA aptamer, developed by SELEX procedures, that adopts a G4 conformation and inhibits clotting of thrombin. We investigate the TBA G4 and its variants with either four adenosine desoxynucleotides or four abasic sites attached either to the 5’-terminus (A4-TBA and ab4-TBA) or the 3’-terminus (TBA-ab4 and TBA-A4). Biophysical characterization of the variants reveals that the structure of the aptamer remains unchanged but that their different thermal stabilities correlate with the anti-clotting activity of TBA. Hydrogen exchange quantified by nuclear magnetic resonance spectroscopy (NMR) reveals individual G4 tetrad thermodynamics. Our data indicate that while enthalpy, entropy and free energy of base pair opening shows surprisingly low variation, a hotspot for stabilization of the G4 is present at the 3’-terminal tetrad of TBA.
en
 
Description(s)
DescriptionLanguage
NMR assignment raw data (Bruker format), NMR hydrogen exchange raw data (Bruker format), CD melting curve raw data (text-files)
en
 

Funder(s)
NameType of identifierFunder identifierAward numberAward titleAward URI
German Research Foundation
ROR
https://ror.org/018mejw64
531012774
Hessian Ministry for Science and the Arts
ROR
https://ror.org/00zd5gr55
BMRZ
 

License
All rights reserved
 

Views
6
Acquisition Date
Sep 20, 2025
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Downloads
3
Acquisition Date
Sep 20, 2025
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