2MXK

Structural features of a 3' splice site influenza A: 19-nt duplex

Summary for 2MXK

• Entry DOI: 10.2210/pdb2mxk/pdb
• Related: 2MXJ 2MXL
• NMR Information: BMRB: 25415
• Descriptor: RNA (5'-R(*GP*CP*AP*GP*GP*CP*CP*CP*A)-3'), RNA (5'-R(*UP*GP*GP*GP*AP*GP*UP*GP*CP*A)-3') (2 entities in total)
• Functional Keywords: influenza a, segment 7, splice site, internal loop, rna
• Biological source: synthetic construct; More
• Total number of polymer chains: 2
• Total formula weight: 6126.80

Authors

Turner, D.H.,Kennedy, S.D.,Chen, J.L. (deposition date: 2015-01-06, release date: 2015-05-06, Last modification date: 2024-05-01)

Primary citation

Chen, J.L.,Kennedy, S.D.,Turner, D.H.
Structural features of a 3' splice site in influenza a.
Biochemistry, 54:3269-3285, 2015

PubMed Abstract: Influenza A is an RNA virus with a genome of eight negative sense segments. Segment 7 mRNA contains a 3' splice site for alternative splicing to encode the essential M2 protein. On the basis of sequence alignment and chemical mapping experiments, the secondary structure surrounding the 3' splice site has an internal loop, adenine bulge, and hairpin loop when it is in the hairpin conformation that exposes the 3' splice site. We report structural features of a three-dimensional model of the hairpin derived from nuclear magnetic resonance spectra and simulated annealing with restrained molecular dynamics. Additional insight was provided by modeling based on (1)H chemical shifts. The internal loop containing the 3' splice site has a dynamic guanosine and a stable imino (cis Watson-Crick/Watson-Crick) GA pair. The adenine bulge also appears to be dynamic with the A either stacked in the stem or forming a base triple with a Watson-Crick GC pair. The hairpin loop is a GAAA tetraloop closed by an AC pair.

PubMed: 25909229
DOI: 10.1021/acs.biochem.5b00012

Experimental method

SOLUTION NMR