1h0q: Difference between revisions

Revision as of 18:15, 2 May 2008

NMR SOLUTION STRUCTURE OF A FULLY MODIFIED LOCKED NUCLEIC ACID (LNA) HYBRIDIZED TO RNA

OverviewOverview

LNA is a bicyclic nucleic acid analogue that contains one or more 2'-O,4'-C methylene linkage(s), which effectively locks the furanose ring in a C3'-endo conformation. We report here the NMR solution structure of a nonamer LNA:RNA hybrid and a structural characterization of a nonamer LNA:DNA hybrid, where the LNA strands are composed entirely of LNA nucleotides. This is the first structural characterization of fully modified LNA oligonucleotides. The high-resolution structure reveals that the LNA:RNA hybrid adopts an almost canonical A-type duplex morphology. The helix axis is almost straight and the duplex geometry is regular. This shows that fully modified LNA oligomers can hybridize with complementary RNA and form duplexes within the Watson-Crick framework. The LNA:DNA hybrid structurally resembles an RNA:DNA hybrid as shown by determination of deoxyribose sugar puckers and analysis of NOESY NMR spectra.

About this StructureAbout this Structure

1H0Q is a Single protein structure. Full crystallographic information is available from OCA.

ReferenceReference

NMR studies of fully modified locked nucleic acid (LNA) hybrids: solution structure of an LNA:RNA hybrid and characterization of an LNA:DNA hybrid., Nielsen KE, Rasmussen J, Kumar R, Wengel J, Jacobsen JP, Petersen M, Bioconjug Chem. 2004 May-Jun;15(3):449-57. PMID:15149171 Page seeded by OCA on Fri May 2 18:15:59 2008

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

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 [[Image:1h0q.gif|left|200px]]
- {{Structure
+<!--
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+The line below this paragraph, containing "STRUCTURE_1h0q", creates the "Structure Box" on the page.
-|SITE=
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|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=LCA:[(1R,3R,4R,7S)-7-HYDROXY-3-(ADENIN-9-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL+DIHYDROGEN+PHOSPHATE'>LCA</scene>, <scene name='pdbligand=LCC:[(1R,3R,4R,7S)-7-HYDROXY-3-(5-METHYLCYTOSIN-1-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL+DIHYDROGEN+PHOSPHATE'>LCC</scene>, <scene name='pdbligand=LCG:[(1R,3R,4R,7S)-7-HYDROXY-3-(GUANIN-9-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL+DIHYDROGEN+PHOSPHATE'>LCG</scene>, <scene name='pdbligand=LKC:4-AMINO-1-[(1S,3R,4R,7S)-7-HYDROXY-1-(HYDROXYMETHYL)-2,5-DIOXABICYCLO[2.2.1]HEPT-3-YL]-5-METHYLPYRIMIDIN-2(1H)-ONE'>LKC</scene>, <scene name='pdbligand=TLN:[(1R,3R,4R,7S)-7-HYDROXY-3-(THYMIN-1-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL+DIHYDROGEN+PHOSPHATE'>TLN</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>
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+or leave the SCENE parameter empty for the default display.
-|GENE=
+-->
-|DOMAIN=
+{{STRUCTURE_1h0q|  PDB=1h0q  |  SCENE=  }}
-|RELATEDENTRY=
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1h0q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1h0q OCA], [http://www.ebi.ac.uk/pdbsum/1h0q PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1h0q RCSB]</span>
-}}
 '''NMR SOLUTION STRUCTURE OF A FULLY MODIFIED LOCKED NUCLEIC ACID (LNA) HYBRIDIZED TO RNA'''
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 ==About this Structure==
-H0Q is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1H0Q OCA].
+H0Q is a [[Single protein]] structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1H0Q OCA].
 ==Reference==
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 [[Category: Rasmussen, J.]]
 [[Category: Wengel, J.]]
-[[Category: dna/rna hybrid]]
+[[Category: Dna/rna hybrid]]
-[[Category: hybrid]]
+[[Category: Hybrid]]
-[[Category: lna]]
+[[Category: Lna]]
-[[Category: locked nucleic acid]]
+[[Category: Locked nucleic acid]]
-[[Category: rna]]
+[[Category: Rna]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 18:15:59 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 20:55:20 2008''