1nz1

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[[Image:1nz1.gif|left|200px]]
[[Image:1nz1.gif|left|200px]]
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{{Structure
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|PDB= 1nz1 |SIZE=350|CAPTION= <scene name='initialview01'>1nz1</scene>
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The line below this paragraph, containing "STRUCTURE_1nz1", creates the "Structure Box" on the page.
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|SITE=
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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|LIGAND= <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=SSU:URIDINE-5&#39;-PHOSPHOROTHIOATE'>SSU</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>
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{{STRUCTURE_1nz1| PDB=1nz1 | SCENE= }}
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|RELATEDENTRY=[[1lc6|1LC6]], [[1nyz|1NYZ]], [[1nc0|1NC0]]
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1nz1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nz1 OCA], [http://www.ebi.ac.uk/pdbsum/1nz1 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1nz1 RCSB]</span>
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'''Solution structure of the S. cerevisiae U6 Intramolecular stem-loop containing an SP phosphorothioate at nucleotide U80'''
'''Solution structure of the S. cerevisiae U6 Intramolecular stem-loop containing an SP phosphorothioate at nucleotide U80'''
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==About this Structure==
==About this Structure==
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1NZ1 is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NZ1 OCA].
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NZ1 OCA].
==Reference==
==Reference==
Structure of the U6 RNA intramolecular stem-loop harboring an S(P)-phosphorothioate modification., Reiter NJ, Nikstad LJ, Allmann AM, Johnson RJ, Butcher SE, RNA. 2003 May;9(5):533-42. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12702812 12702812]
Structure of the U6 RNA intramolecular stem-loop harboring an S(P)-phosphorothioate modification., Reiter NJ, Nikstad LJ, Allmann AM, Johnson RJ, Butcher SE, RNA. 2003 May;9(5):533-42. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12702812 12702812]
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[[Category: Protein complex]]
 
[[Category: Allman, A M.]]
[[Category: Allman, A M.]]
[[Category: Butcher, S E.]]
[[Category: Butcher, S E.]]
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[[Category: Nikstad, L J.]]
[[Category: Nikstad, L J.]]
[[Category: Reiter, N J.]]
[[Category: Reiter, N J.]]
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[[Category: phosphorothioate]]
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[[Category: Phosphorothioate]]
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[[Category: rdc]]
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[[Category: Rdc]]
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[[Category: residual dipolar coupling]]
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[[Category: Residual dipolar coupling]]
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[[Category: sp phosphorothioate]]
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[[Category: Sp phosphorothioate]]
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[[Category: stem-loop]]
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[[Category: Stem-loop]]
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[[Category: u6 rna]]
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[[Category: U6 rna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 03:09:27 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 22:37:29 2008''
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Revision as of 00:09, 3 May 2008

Image:1nz1.gif

Template:STRUCTURE 1nz1

Solution structure of the S. cerevisiae U6 Intramolecular stem-loop containing an SP phosphorothioate at nucleotide U80


Overview

Phosphorothioate-substitution experiments are often used to elucidate functionally important metal ion-binding sites on RNA. All previous experiments with S(P)-phosphorothioate-substituted RNAs have been done in the absence of structural information for this particular diastereomer. Yeast U6 RNA contains a metal ion-binding site that is essential for spliceosome function and includes the pro-S(P) oxygen 5' of U(80). S(P)-phosphorothioate substitution at this location creates spliceosomes dependent on thiophilic ions for the first step of splicing. We have determined the solution structure of the U(80) S(P)-phosphorothioate-substituted U6 intramolecular stem-loop (ISL), and also report the refined NMR structure of the unmodified U6 ISL. Both structures were determined with inclusion of (1)H-(13)C residual dipolar couplings. The precision of the structures with and without phosphorothioate (RMSD = 1.05 and 0.79 A, respectively) allows comparison of the local and long-range structural effect of the modification. We find that the U6-ISL structure is unperturbed by the phosphorothioate. Additionally, the thermodynamic stability of the U6 ISL is dependent on the protonation state of the A(79)-C(67) wobble pair and is not affected by the adjacent phosphorothioate. These results indicate that a single S(P)-phosphorothioate substitution can be structurally benign, and further validate the metal ion rescue experiments used to identify the essential metal-binding site(s) in the spliceosome.

About this Structure

Full crystallographic information is available from OCA.

Reference

Structure of the U6 RNA intramolecular stem-loop harboring an S(P)-phosphorothioate modification., Reiter NJ, Nikstad LJ, Allmann AM, Johnson RJ, Butcher SE, RNA. 2003 May;9(5):533-42. PMID:12702812 Page seeded by OCA on Sat May 3 03:09:27 2008

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