3PHP

STRUCTURE OF THE 3' HAIRPIN OF THE TYMV PSEUDOKNOT: PREFORMATION IN RNA FOLDING

Summary for 3PHP

• Entry DOI: 10.2210/pdb3php/pdb
• NMR Information: BMRB: 4250
• Descriptor: RNA (5'-R(*GP*GP*UP*UP*CP*CP*GP*AP*GP*GP*GP*UP*CP*AP*UP*CP*GP*GP*AP*AP*CP*CP*A) -3') (1 entity in total)
• Functional Keywords: rna, pseudoknot, tymv, ribonucleic acid
• Total number of polymer chains: 1
• Total formula weight: 7418.47

Authors

Kolk, M.H.,Van Der Graaf, M.,Wijmenga, S.S.,Pleij, C.W.A.,Heus, H.A.,Hilbers, C.W. (deposition date: 1998-10-13, release date: 1998-10-21, Last modification date: 2023-12-27)

Primary citation

Kolk, M.H.,van der Graaf, M.,Fransen, C.T.,Wijmenga, S.S.,Pleij, C.W.,Heus, H.A.,Hilbers, C.W.
Structure of the 3'-hairpin of the TYMV pseudoknot: preformation in RNA folding.
EMBO J., 17:7498-7504, 1998

PubMed Abstract: The solution structure of an RNA-hairpin present in the pseudoknot, which is found at the 3'-terminus of turnip yellow mosaic virus genomic RNA, has been solved by nuclear magnetic resonance spectroscopy. The loop, which contains the sequence 5'-GGGUCA-3', was found to be highly structured and, contrary to expectations, does not attain its stability through GA or GC base pair formation but by triple interactions between the tilted adenosine and the minor groove sides of the first two guanosines. Interestingly, a very similar conformation was found for the cognate pseudoknot, implying that the 3'-hairpin is preformed for folding into a pseudoknotted structure. These findings suggest a mechanism of 'predetermined-fit' as a principle in RNA folding.

PubMed: 9857204
DOI: 10.1093/emboj/17.24.7498

Experimental method

SOLUTION NMR