2KPR

Monomeric intronic human chl1 gene quadruplex DNA NMR, 17 structures

Summary for 2KPR

• Entry DOI: 10.2210/pdb2kpr/pdb
• Related: 1U64
• Descriptor: 5'-D(*GP*GP*GP*TP*GP*GP*GP*GP*AP*AP*GP*GP*GP*GP*TP*GP*GP*GP*T)-3' (1 entity in total)
• Functional Keywords: g-tetrad, g-intercalation, v-shaped loop, double-chain reversal loop, dna
• Total number of polymer chains: 1
• Total formula weight: 6102.92

Authors

Kuryavyi, V.,Patel, D.J. (deposition date: 2009-10-19, release date: 2010-03-02, Last modification date: 2024-05-22)

Primary citation

Kuryavyi, V.,Patel, D.J.
Solution Structure of a Unique G-Quadruplex Scaffold Adopted by a Guanosine-Rich Human Intronic Sequence.
Structure, 18:73-82, 2010

PubMed Abstract: We report on the solution structure of an unprecedented intramolecular G-quadruplex formed by the guanosine-rich human chl1 intronic d(G(3)-N-G(4)-N(2)-G(4)-N-G(3)-N) 19-mer sequence in K(+)-containing solution. This G-quadruplex, composed of three stacked G-tetrads containing four syn guanines, represents a new folding topology with two unique conformational features. The first guanosine is positioned within the central G-tetrad, in contrast to all previous structures of unimolecular G-quadruplexes, where the first guanosine is part of an outermost G-tetrad. In addition, a V-shaped loop, spanning three G-tetrad planes, contains no bridging nucleotides. The G-quadruplex scaffold is stabilized by a T*G*A triple stacked over the G-tetrad at one end and an unpaired guanosine stacked over the G-tetrad at the other end. Finally, the chl1 intronic DNA G-quadruplex scaffold contains a guanosine base intercalated between an extended G-G step, a feature observed in common with the catalytic site of group I introns. This unique structural scaffold provides a highly specific platform for the future design of ligands specifically targeted to intronic G-quadruplex platforms.

PubMed: 20152154
DOI: 10.1016/j.str.2009.10.015

Experimental method

SOLUTION NMR