1kpz
From Proteopedia
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|PDB= 1kpz |SIZE=350|CAPTION= <scene name='initialview01'>1kpz</scene> | |PDB= 1kpz |SIZE=350|CAPTION= <scene name='initialview01'>1kpz</scene> | ||
|SITE= | |SITE= | ||
| - | |LIGAND= | + | |LIGAND= <scene name='pdbligand=A:ADENOSINE-5'-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5'-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=CH:N3-PROTONATED+CYTIDINE-5'-MONOPHOSPHATE'>CH</scene>, <scene name='pdbligand=G:GUANOSINE-5'-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=U:URIDINE-5'-MONOPHOSPHATE'>U</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1kpy|1KPY]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1kpz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kpz OCA], [http://www.ebi.ac.uk/pdbsum/1kpz PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1kpz RCSB]</span> | ||
}} | }} | ||
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[[Category: triple helix]] | [[Category: triple helix]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:51:55 2008'' |
Revision as of 18:51, 30 March 2008
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| Ligands: | , , , , | ||||||
| Related: | 1KPY
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| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
PEMV-1 P1-P2 Frameshifting Pseudoknot Regularized Average Structure
Overview
A hairpin-type messenger RNA pseudoknot from pea enation mosaic virus RNA1 (PEMV-1) regulates the efficiency of programmed -1 ribosomal frameshifting. The solution structure and 15N relaxation rates reveal that the PEMV-1 pseudoknot is a compact-folded structure composed almost entirely of RNA triple helix. A three nucleotide reverse turn in loop 1 positions a protonated cytidine, C(10), in the correct orientation to form an A((n-1)).C(+).G-C(n) major groove base quadruple, like that found in the beet western yellows virus pseudoknot and the hepatitis delta virus ribozyme, despite distinct structural contexts. A novel loop 2-loop 1 A.U Hoogsteen base-pair stacks on the C(10)(+).G(28) base-pair of the A(12).C(10)(+).G(28)-C(13) quadruple and forms a wedge between the pseudoknot stems stabilizing a bent and over-rotated global conformation. Substitution of key nucleotides that stabilize the unique conformation of the PEMV-1 pseudoknot greatly reduces ribosomal frameshifting efficacy.
About this Structure
1KPZ is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Solution structure of a luteoviral P1-P2 frameshifting mRNA pseudoknot., Nixon PL, Rangan A, Kim YG, Rich A, Hoffman DW, Hennig M, Giedroc DP, J Mol Biol. 2002 Sep 20;322(3):621-33. PMID:12225754
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