1slp
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FIRST STEM LOOP OF THE SL1 RNA FROM CAENORHABDITIS ELEGANS, NMR, 16 STRUCTURES
OverviewOverview
BACKGROUND: RNA splicing is both ubiquitous and essential for the, maturation of precursor mRNA molecules in eukaryotes. The process of, trans-splicing involves the transfer of a short spliced leader (SL) RNA, sequence to a consensus acceptor site on a separate pre-mRNA transcript., In Caenorhabditis elegans, a majority of pre-mRNA transcripts receive the, 22-nucleotide SL from the SL1 RNA. Very little is known about the various, roles that RNA structures play in the complex conformational, rearrangements and reactions involved in premRNA splicing. RESULTS: We, have determined the solution structure of a domain of the first stem loop, of the SL1 RNA of C. elegans, using homonuclear and heteronuclear NMR, techniques; this domain contains the splice-donor site and a, nine-nucleotide hairpin loop. In solution, the SL1 RNA fragment adopts a, stem-loop structure: nucleotides in the stem region form a classical, A-type helix while nucleotides in the hairpin loop specify a novel, conformation that includes a helix, that extends for the first three, residues; a syn guanosine nucleotide at the turn region; and an, extrahelical adenine that defines a pocket with nucleotides at the base of, the loop. CONCLUSION: The proximity of this pocket to the splice donor, site, combined with the observation that the nucleotides in this motif are, conserved among all nematode SL RNAs, suggests that this pocket may, provide a recognition site for a protein or RNA molecule in the, trans-splicing process.
About this StructureAbout this Structure
1SLP is a Protein complex structure of sequences from Caenorhabditis elegans. Known structural/functional Site: . Full crystallographic information is available from OCA.
ReferenceReference
Solution structure of the donor site of a trans-splicing RNA., Greenbaum NL, Radhakrishnan I, Patel DJ, Hirsh D, Structure. 1996 Jun 15;4(6):725-33. PMID:8805553
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