Abstract:
:A very conserved pseudoknot structure has been shown to fold in influenza virus RNA. The pseudoknot encompasses the 3' splice site of segment 8 RNA in both influenza A and B viruses. By sequence comparison of influenza virus strains, we derive a consensus motif that defines a novel RNA pseudoknot family. The orientation of the coaxially stacked stems in the influenza pseudoknot differs from that in classical H-pseudoknots. Apart from the size of the loops, the topology of the influenza pseudoknot resembles that of some long-range pseudoknotted conformations. A seed alignment of the influenza pseudoknot family, containing representative strain sequences together with a consensus structure description, has been submitted to the RNA families (Rfam) database.
journal_name
RNA Bioljournal_title
RNA biologyauthors
Gultyaev AP,Olsthoorn RCdoi
10.4161/rna.7.2.11287subject
Has Abstractpub_date
2010-03-01 00:00:00pages
125-9issue
2eissn
1547-6286issn
1555-8584pii
11287journal_volume
7pub_type
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