2LX1

Major Conformation of the Internal Loop 5'GAGU/3'UGAG

Summary for 2LX1

• Entry DOI: 10.2210/pdb2lx1/pdb
• NMR Information: BMRB: 18656
• Descriptor: RNA (5'-R(*GP*AP*CP*GP*AP*GP*UP*GP*UP*CP*A)-3') (1 entity in total)
• Functional Keywords: rna, loop, switch, stacked adenines, inverted sugars
• Total number of polymer chains: 2
• Total formula weight: 7092.36

Authors

Kennedy, S.D.,Turner, D.H. (deposition date: 2012-08-12, release date: 2012-11-21, Last modification date: 2024-05-15)

Primary citation

Kennedy, S.D.,Kierzek, R.,Turner, D.H.
Novel conformation of an RNA structural switch.
Biochemistry, 51:9257-9259, 2012

PubMed Abstract: The RNA duplex, (5'GACGAGUGUCA)(2), has two conformations in equilibrium. The nuclear magnetic resonance solution structure reveals that the major conformation of the loop, 5'GAGU/3'UGAG, is novel and contains two unusual Watson-Crick/Hoogsteen GG pairs with G residues in the syn conformation, two A residues stacked on each other in the center of the helix with inverted sugars, and two bulged-out U residues. The structure provides a benchmark for testing approaches for predicting local RNA structure and a sequence that allows the design of a unique arrangement of functional groups and/or a conformational switch into nucleic acids.

PubMed: 23134175
DOI: 10.1021/bi301372t

Experimental method

SOLUTION NMR