2AP0
Solution Structure of the C27A ScYLV P1-P2 Frameshifting Pseudoknot, 20 Lowest Energy Structures
Summary for 2AP0
| Entry DOI | 10.2210/pdb2ap0/pdb |
| Related | 2AP5 |
| Descriptor | C27A Sugarcane Yellow Leaf Virus RNA pseudoknot (1 entity in total) |
| Functional Keywords | rna pseudoknot; frameshifting, rna |
| Total number of polymer chains | 1 |
| Total formula weight | 9024.50 |
| Authors | Cornish, P.V.,Giedroc, D.P. (deposition date: 2005-08-15, release date: 2006-09-05, Last modification date: 2024-05-22) |
| Primary citation | Cornish, P.V.,Stammler, S.N.,Giedroc, D.P. The global structures of a wild-type and poorly functional plant luteoviral mRNA pseudoknot are essentially identical Rna, 12:1959-1969, 2006 Cited by PubMed Abstract: The helical junction region of a -1 frameshift stimulating hairpin-type mRNA pseudoknot from sugarcane yellow leaf virus (ScYLV) is characterized by a novel C27.(G7-C14) loop 2-stem 1 minor groove base triple, which is stacked on a C8+.(G12-C28) loop 1-stem 2 major groove base triple. Substitution of C27 with adenosine reduces frameshifting efficiency to a level just twofold above the slip-site alone. Here, we show that the global structure of the C27A ScYLV RNA is nearly indistinguishable from the wild-type counterpart, despite the fact that the helical junction region is altered and incorporates the anticipated isostructural A27.(G7-C14) minor groove base triple. This interaction mediates a 2.3-A displacement of C8+ driven by an A27 N6-C8+ O2 hydrogen bond as part of an A(n-1).C+.G-Cn base quadruple. The helical junction regions of the C27A ScYLV and the beet western yellows virus (BWYV) pseudoknots are essentially superimposable, the latter of which contains an analogous A25.(G7-C14) minor groove base triple. These results reveal that the global ground-state structure is not strongly correlated with frameshift stimulation and point to a reduced thermodynamic stability and/or enhanced kinetic lability that derives from an altered helical junction architecture in the C27A ScYLV RNA as a significant determinant for setting frameshifting efficiencies in plant luteoviral mRNA pseudoknots. PubMed: 17000902DOI: 10.1261/rna.199006 PDB entries with the same primary citation |
| Experimental method | SOLUTION NMR |
Structure validation
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