1UUU

STRUCTURE OF AN RNA HAIRPIN LOOP WITH A 5'-CGUUUCG-3' LOOP MOTIF BY HETERONUCLEAR NMR SPECTROSCOPY AND DISTANCE GEOMETRY, 15 STRUCTURES

1UUU の概要

• エントリーDOI: 10.2210/pdb1uuu/pdb
• 分子名称: RNA (5'-R(*GP*GP*CP*GP*UP*AP*CP*GP*UP*UP*UP*CP*GP*UP*AP*CP*GP*CP*C)-3') (1 entity in total)
• 機能のキーワード: ribonucleic acid, rna, pentaloop, hairpin, 18s ribosomal rna
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 6046.61

構造登録者

Sich, C.,Ohlenschlager, O.,Ramachandran, R.,Gorlach, M.,Brown, L.R. (登録日: 1997-08-12, 公開日: 1998-02-25, 最終更新日: 2024-05-22)

主引用文献

Sich, C.,Ohlenschlager, O.,Ramachandran, R.,Gorlach, M.,Brown, L.R.
Structure of an RNA hairpin loop with a 5'-CGUUUCG-3' loop motif by heteronuclear NMR spectroscopy and distance geometry.
Biochemistry, 36:13989-14002, 1997

PubMed Abstract: Structural features of a 19-nucleotide RNA hairpin loop (5'-GGCGUACGUUUCGUACGCC-3'), a loop motif which occurs in eukaryotic 18S rRNA, have been derived using multidimensional heteronuclear NMR spectroscopy in combination with local conformational analysis and torsion angle distance geometry followed by restrained energy minimization. A method to obtain both the 3JC4'P3' and 3JC4'P5' coupling constants from a set of spin-echo difference constant time HSQC spectra is introduced, and it is shown how these couplings can be assigned to the backbone angles beta and epsilon. A total of 280 distance constraints as well as 132 homo- and heteronuclear three-bond scalar coupling constants were derived from the NMR data. The structure which has been determined is a pentaloop rather than a triloop with no base pairing between G8 and C12. G8 is pointed to the minor groove where it forms a base triplet with C7-G13 that is further stabilized by hydrogen bonding to the 2'-hydroxyl group of C7. C12 is directed to the major groove where its conformation is stabilized by hydrogen bonding between O2 and HO2'. The NMR data suggest two possible, interconverting conformations with stacking of bases U10-G8 or U11-C7. Overall, the loop provides a variety of interaction sites for RNA or protein interactions.

PubMed: 9369470
DOI: 10.1021/bi971207g

実験手法

SOLUTION NMR