377D

5'-R(*CP*GP*UP*AP*CP*DG)-3'

Summary for 377D

• Entry DOI: 10.2210/pdb377d/pdb
• Descriptor: RNA-DNA (5'-R(*CP*GP*UP*AP*CP*DG)-3') (2 entities in total)
• Functional Keywords: a-rna, double helix, rna
• Total number of polymer chains: 4
• Total formula weight: 7500.76

Authors

Biswas, R.,Mitra, S.N.,Sundaralingam, M. (deposition date: 1998-01-26, release date: 1998-08-10, Last modification date: 2024-02-21)

Primary citation

Biswas, R.,Mitra, S.N.,Sundaralingam, M.
1.76 A structure of a pyrimidine start alternating A-RNA hexamer r(CGUAC)dG.
Acta Crystallogr.,Sect.D, 54:570-576, 1998

PubMed Abstract: The crystal structure of the alternating RNA r(CGUAC)dG with a 3'-terminal deoxy G residue has been determined at 1.76 A resolution. The crystal belongs to the orthorhombic space group C2221, unit-cell dimensions a = 29.53, b = 44.61 and c = 94.18 A, with two independent duplexes (I and II) per asymmetric unit. The structure was solved by the molecular-replacement method. The final R factor was 18.8% using 4757 reflections in the resolution range 8.0-1.76 A. The model contains a total of 496 atoms and 85 solvent molecules. The two duplexes form the repeating unit and stack in the usual head-to-tail (5',3'/5',3') fashion into a pseudocontinuous helical column. Almost all of the 2'-hydroxyl groups are engaged in the three modes of water-mediated interactions to the base N3/O2 atoms, the sugar O4' atoms and the backbone phosphates. Thus, the 2'-hydroxyl group of RNA is probably contributing to the stability of the duplexes.

PubMed: 9761851
DOI: 10.1107/S0907444997013097

Experimental method

X-RAY DIFFRACTION (1.76 Å)