413D

A'-FORM RNA DOUBLE HELIX IN THE SINGLE CRYSTAL STRUCTURE OF R(UGAGCUUCGGCUC)

PDB DOI: https://doi.org/10.2210/pdb413D/pdb
Entry: 413D supersedes: 373D
NAKB: 413D

Classification: RNA
Mutation(s): No

Deposited: 1998-07-10 Released: 1998-07-10
Deposition Author(s): Tanaka, Y., Fujii, S., Hiroaki, H., Sakata, T., Tanaka, T., Uesugi, S., Tomita, K.-I., Kyogoku, Y.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.224
R-Value Work: 0.182
R-Value Observed: 0.182

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

A'-form RNA double helix in the single crystal structure of r(UGAGCUUCGGCUC).

Tanaka, Y., Fujii, S., Hiroaki, H., Sakata, T., Tanaka, T., Uesugi, S., Tomita, K., Kyogoku, Y.

(1999) Nucleic Acids Res 27: 949-955

PubMed: 9927725 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1093/nar/27.4.949
Primary Citation of Related Structures:
413D

PubMed Abstract:
Here we demonstrate the presence of the A'-RNA conformation using the single crystal structure of a tridecamer: r(UGAGCUUCGGCUC). The average A'-RNA conformation deduced from X-ray fiber diffraction data had only been available previously, but now the presence of the A'-RNA conformation has been found in a single crystal structure for the first time. Statistical analysis showed that the A'-RNA conformation is distinguishable from the A-RNA conformation in a plot of the major groove width against the base pair inclination angle. The major groove of the A'-RNA conformation is wide enough to accommodate a protein or peptide while that of the A-RNA conformation is too narrow to do so. The presence of the A'-RNA conformation is significant for protein-RNA interaction.

Organizational Affiliation

Division of Molecular Biophysics, Institute for Protein Research, Osaka University, 3-2 Yamadaoka, Suita, Osaka 565, Japan. tanaka@protein.osaka-u.ac.jp