1uuu
From Proteopedia
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STRUCTURE OF AN RNA HAIRPIN LOOP WITH A 5'-CGUUUCG-3' LOOP MOTIF BY HETERONUCLEAR NMR SPECTROSCOPY AND DISTANCE GEOMETRY, 15 STRUCTURES
Overview
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.
About this Structure
1UUU is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Structure of an RNA hairpin loop with a 5'-CGUUUCG-3' loop motif by heteronuclear NMR spectroscopy and distance geometry., Sich C, Ohlenschlager O, Ramachandran R, Gorlach M, Brown LR, Biochemistry. 1997 Nov 18;36(46):13989-4002. PMID:9369470
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