1AJL

FIVE-NUCLEOTIDE BULGE LOOP FROM TETRAHYMENA THERMOPHILA GROUP I INTRON

Summary for 1AJL

• Entry DOI: 10.2210/pdb1ajl/pdb
• Related: 1AJT
• Descriptor: RNA (5'-R(*GP*GP*UP*AP*AP*UP*AP*AP*GP*CP*UP*C)-3'), RNA (5'-R(*GP*AP*GP*UP*AP*CP*C)-3') (2 entities in total)
• Functional Keywords: rna bulge loop, group i intron, ribonucleic acid, rna
• Biological source: Tetrahymena thermophila; More
• Total number of polymer chains: 2
• Total formula weight: 6056.74

Authors

Luebke, K.J.,Landry, S.M.,Tinoco Junior, I. (deposition date: 1997-05-06, release date: 1997-07-07, Last modification date: 2024-05-22)

Primary citation

Luebke, K.J.,Landry, S.M.,Tinoco, I.
Solution conformation of a five-nucleotide RNA bulge loop from a group I intron.
Biochemistry, 36:10246-10255, 1997

PubMed Abstract: We present the solution conformation, determined by NMR spectroscopy, of a five-nucleotide RNA bulge loop. The bulge interrupts the stem of a 25-nucleotide RNA hairpin, and its sequence and flanking sequences are those of a conserved bulge from a Group I intron. The secondary structure of the bulge loop in the hairpin context is that predicted by the secondary structure prediction algorithm of Zuker. It differs, however, from the secondary structure deduced from sequence covariation of the bulge in the context of the functionally folded Group I introns and observed in the crystal structure of an independently folding domain of the Group I intron from Tetrahymena thermophila. This difference represents an exception to the heierarchical model of RNA folding in which preformed elements of secondary structure interact to form a tertiary structure. The three-dimensional structure of the bulge loop is characterized by discontinuous base stacking. Adjacent adenines stack with each other and with the flanking double helices. However, the position of the central uracil is not well defined by NOE distance constraints and is a point of discontinuity in the base stacking.

PubMed: 9254623
DOI: 10.1021/bi9701540

Experimental method

SOLUTION NMR