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| [[Image:1mlx.gif|left|200px]]<br /><applet load="1mlx" size="350" color="white" frame="true" align="right" spinBox="true"
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| caption="1mlx, resolution 1.25Å" />
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| '''Crystal Structure Analysis of a 2'-O-[2-(Methylthio)-ethyl]-Modified Oligodeoxynucleotide Duplex'''<br />
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| ==Overview== | | ==Crystal Structure Analysis of a 2'-O-[2-(Methylthio)-ethyl]-Modified Oligodeoxynucleotide Duplex== |
| A novel 2'-modification, 2'-O-[2-(methylthio)ethyl] or 2'-O-MTE, has been incorporated into oligonucleotides and evaluated for properties relevant to antisense activity. The results were compared with the previously characterized 2'-O-[2-(methoxy)ethyl] 2'-O-MOE modification. As expected, the 2'-O-MTE modified oligonucleotides exhibited improved binding to human serum albumin compared to the 2'-O-MOE modified oligonucleotides. The 2'-O-MTE oligonucleotides maintained high binding affinity to target RNA. Nuclease digestion of 2'-O-MTE oligonucleotides showed that they have limited resistance to exonuclease degradation. We analyzed the crystal structure of a decamer DNA duplex containing the 2'-O-MTE modifcation. Analysis of the crystal structure provides insight into the improved RNA binding affinity, protein binding affinity and limited resistance of 2'-O-MTE modified oligonucleotides to exonuclease degradation.
| | <StructureSection load='1mlx' size='340' side='right'caption='[[1mlx]], [[Resolution|resolution]] 1.25Å' scene=''> |
| | | == Structural highlights == |
| ==About this Structure== | | <table><tr><td colspan='2'>[[1mlx]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MLX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MLX FirstGlance]. <br> |
| 1MLX is a [http://en.wikipedia.org/wiki/Protein_complex 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=1MLX OCA].
| | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.25Å</td></tr> |
| | | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SMT:2-[(METHYLTHIO)ETHYLOXY]-THYMIDINE-5-MONOPHOSPHATE'>SMT</scene></td></tr> |
| ==Reference== | | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1mlx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mlx OCA], [https://pdbe.org/1mlx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mlx RCSB], [https://www.ebi.ac.uk/pdbsum/1mlx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mlx ProSAT]</span></td></tr> |
| 2'-O-[2-(methylthio)ethyl]-modified oligonucleotide: an analogue of 2'-O-[2-(methoxy)-ethyl]-modified oligonucleotide with improved protein binding properties and high binding affinity to target RNA., Prakash TP, Manoharan M, Kawasaki AM, Fraser AS, Lesnik EA, Sioufi N, Leeds JM, Teplova M, Egli M, Biochemistry. 2002 Oct 1;41(39):11642-8. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12269806 12269806]
| | </table> |
| [[Category: Protein complex]]
| | __TOC__ |
| [[Category: Egli, M.]]
| | </StructureSection> |
| [[Category: Fraser, A S.]] | | [[Category: Large Structures]] |
| [[Category: Kawasaki, A M.]]
| | [[Category: Egli M]] |
| [[Category: Leeds, J M.]]
| | [[Category: Fraser AS]] |
| [[Category: Lesnik, E A.]]
| | [[Category: Kawasaki AM]] |
| [[Category: Manoharan, M.]]
| | [[Category: Leeds JM]] |
| [[Category: Prakash, T P.]]
| | [[Category: Lesnik EA]] |
| [[Category: Sioufi, N.]]
| | [[Category: Manoharan M]] |
| [[Category: Teplova, M.]]
| | [[Category: Prakash TP]] |
| [[Category: a-form]] | | [[Category: Sioufi N]] |
| [[Category: antisense modification]] | | [[Category: Teplova M]] |
| [[Category: dna]] | |
| [[Category: double helix]] | |
| [[Category: high resolution structure]] | |
| [[Category: hydration]] | |
| [[Category: nuclease resistance]] | |
| [[Category: nucleic acid analogue]] | |
| [[Category: protein binding affinity]] | |
| [[Category: rna affinity]] | |
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| ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 13:56:31 2008''
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