6YCV

2'-F-riboguanosine and LNA modified hybrid type G-quadruplex with V-loop

Summary for 6YCV

• Entry DOI: 10.2210/pdb6ycv/pdb
• Related: 6RS3 6TC8
• NMR Information: BMRB: 34499
• Descriptor: DNA (5'-D(*GP*GP*GP*AP*TP*GP*GP*GP*AP*CP*AP*CP*AP*(GF2))-R(P*(LCG))-D(P*GP*GP*AP*CP*GP*GP*G)-3') (1 entity in total)
• Functional Keywords: g-quadruplex, v-loop, lna, 2'-f-riboguanosine, dna
• Biological source: synthetic construct
• Total number of polymer chains: 1
• Total formula weight: 7018.49

Authors

Weisz, K.,Haase, L. (deposition date: 2020-03-19, release date: 2020-09-02, Last modification date: 2024-05-15)

Primary citation

Haase, L.,Weisz, K.
Locked nucleic acid building blocks as versatile tools for advanced G-quadruplex design.
Nucleic Acids Res., 48:10555-10566, 2020

PubMed Abstract: A hybrid-type G-quadruplex is modified with LNA (locked nucleic acid) and 2'-F-riboguanosine in various combinations at the two syn positions of its third antiparallel G-tract. LNA substitution in the central tetrad causes a complete rearrangement to either a V-loop or antiparallel structure, depending on further modifications at the 5'-neighboring site. In the two distinct structural contexts, LNA-induced stabilization is most effective compared to modifications with other G surrogates, highlighting a potential use of LNA residues for designing not only parallel but various more complex G4 structures. For instance, the conventional V-loop is a structural element strongly favored by an LNA modification at the V-loop 3'-end in contrast with an alternative V-loop, clearly distinguishable by altered conformational properties and base-backbone interactions as shown in a detailed analysis of V-loop structures.

PubMed: 32890406
DOI: 10.1093/nar/gkaa720

Experimental method

SOLUTION NMR