First time at Proteopedia? Click on the green links: they change the 3D image. Click and drag the molecules. Proteopedia is a 3D, interactive encyclopedia of proteins, RNA, DNA and other molecules. With a free user account, you can edit pages in Proteopedia. Visit the Main Page to learn more.
|1u6b, resolution 3.10Å ()|
|Non-Standard Residues:||, ,|
|Gene:||SNRPA (Homo sapiens)|
CRYSTAL STRUCTURE OF A SELF-SPLICING GROUP I INTRON WITH BOTH EXONS
The discovery of the RNA self-splicing group I intron provided the first demonstration that not all enzymes are proteins. Here we report the X-ray crystal structure (3.1-A resolution) of a complete group I bacterial intron in complex with both the 5'- and the 3'-exons. This complex corresponds to the splicing intermediate before the exon ligation step. It reveals how the intron uses structurally unprecedented RNA motifs to select the 5'- and 3'-splice sites. The 5'-exon's 3'-OH is positioned for inline nucleophilic attack on the conformationally constrained scissile phosphate at the intron-3'-exon junction. Six phosphates from three disparate RNA strands converge to coordinate two metal ions that are asymmetrically positioned on opposing sides of the reactive phosphate. This structure represents the first splicing complex to include a complete intron, both exons and an organized active site occupied with metal ions.
Crystal structure of a self-splicing group I intron with both exons., Adams PL, Stahley MR, Kosek AB, Wang J, Strobel SA, Nature. 2004 Jul 1;430(6995):45-50. Epub 2004 Jun 2. PMID:15175762
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
About this Structure
1u6b is a 4 chain structure with sequence from Homo sapiens. This structure supersedes the now removed PDB entry 1t42. The May 2005 RCSB PDB Molecule of the Month feature on Self-splicing RNA by David S. Goodsell is 10.2210/rcsb_pdb/mom_2005_5. Full crystallographic information is available from OCA.
- Adams PL, Stahley MR, Kosek AB, Wang J, Strobel SA. Crystal structure of a self-splicing group I intron with both exons. Nature. 2004 Jul 1;430(6995):45-50. Epub 2004 Jun 2. PMID:15175762 doi:10.1038/nature02642
- Hougland JL, Kravchuk AV, Herschlag D, Piccirilli JA. Functional identification of catalytic metal ion binding sites within RNA. PLoS Biol. 2005 Sep;3(9):e277. Epub 2005 Aug 16. PMID:16092891 doi:10.1371/journal.pbio.0030277
- Stahley MR, Adams PL, Wang J, Strobel SA. Structural metals in the group I intron: a ribozyme with a multiple metal ion core. J Mol Biol. 2007 Sep 7;372(1):89-102. Epub 2007 Jun 15. PMID:17612557 doi:10.1016/j.jmb.2007.06.026
- Forconi M, Lee J, Lee JK, Piccirilli JA, Herschlag D. Functional identification of ligands for a catalytic metal ion in group I introns. Biochemistry. 2008 Jul 1;47(26):6883-94. Epub 2008 Jun 3. PMID:18517225 doi:10.1021/bi800519a