7QB3

Solution structure of a lanthanide-binding DNA aptamer

Summary for 7QB3

• Entry DOI: 10.2210/pdb7qb3/pdb
• NMR Information: BMRB: 34685
• Descriptor: Lanthanide-binding aptamer, LUTETIUM (III) ION (2 entities in total)
• Functional Keywords: aptamer, lanthanide, dna
• Biological source: synthetic construct
• Total number of polymer chains: 1
• Total formula weight: 8817.51

Authors

Andralojc, W.,Gdaniec, Z. (deposition date: 2021-11-18, release date: 2021-12-01, Last modification date: 2024-06-19)

Primary citation

Andralojc, W.,Wieruszewska, J.,Pasternak, K.,Gdaniec, Z.
Solution Structure of a Lanthanide-binding DNA Aptamer Determined Using High Quality pseudocontact shift restraints.
Chemistry, 28:e202202114-e202202114, 2022

PubMed Abstract: In this contribution we report the high-resolution NMR structure of a recently identified lanthanide-binding aptamer (LnA). We demonstrate that the rigid lanthanide binding by LnA allows for the measurement of anisotropic paramagnetic NMR restraints which to date remain largely inaccessible for nucleic acids. One type of such restraints - pseudocontact shifts (PCS) induced by four different paramagnetic lanthanides - was extensively used throughout the current structure determination study and the measured PCS turned out to be exceptionally well reproduced by the final aptamer structure. This finding opens the perspective for a broader application of paramagnetic effects in NMR studies of nucleic acids through the transplantation of the binding site found in LnA into other DNA/RNA systems.

PubMed: 36043489
DOI: 10.1002/chem.202202114

Experimental method

SOLUTION NMR