283D

A CURVED RNA HELIX INCORPORATING AN INTERNAL LOOP WITH G-A AND A-A NON-WATSON-CRICK BASE PAIRING

Summary for 283D

• Entry DOI: 10.2210/pdb283d/pdb
• Descriptor: RNA (5'-R(*GP*GP*CP*CP*GP*AP*AP*AP*GP*GP*CP*C)-3'), MANGANESE (II) ION (3 entities in total)
• Functional Keywords: unusual rna, double helix, curved, internal loop, mismatched, rna
• Total number of polymer chains: 1
• Total formula weight: 3944.35

Authors

Baeyens, K.J.,De Bondt, H.L.,Pardi, A.,Holbrook, S.R. (deposition date: 1996-09-03, release date: 1996-09-30, Last modification date: 2024-04-03)

Primary citation

Baeyens, K.J.,De Bondt, H.L.,Pardi, A.,Holbrook, S.R.
A curved RNA helix incorporating an internal loop with G.A and A.A non-Watson-Crick base pairing.
Proc.Natl.Acad.Sci.USA, 93:12851-12855, 1996

PubMed Abstract: The crystal structure of the RNA dodecamer 5'-GGCC(GAAA)GGCC-3' has been determined from x-ray diffraction data to 2.3-A resolution. In the crystal, these oligomers form double helices around twofold symmetry axes. Four consecutive non-Watson-Crick base pairs make up an internal loop in the middle of the duplex, including sheared G.A pairs and novel asymmetric A.A pairs. This internal loop sequence produces a significant curvature and narrowing of the double helix. The helix is curved by 34 degrees from end to end and the diameter is narrowed by 24% in the internal loop. A Mn2+ ion is bound directly to the N7 of the first guanine in the Watson-Crick region following the internal loop and the phosphate of the preceding residue. This Mn2+ location corresponds to a metal binding site observed in the hammerhead catalytic RNA.

PubMed: 8917508
DOI: 10.1073/pnas.93.23.12851

Experimental method

X-RAY DIFFRACTION (2.3 Å)