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| - | [[Image:1mlx.gif|left|200px]] | |
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| - | {{Structure
| + | ==Crystal Structure Analysis of a 2'-O-[2-(Methylthio)-ethyl]-Modified Oligodeoxynucleotide Duplex== |
| - | |PDB= 1mlx |SIZE=350|CAPTION= <scene name='initialview01'>1mlx</scene>, resolution 1.25Å
| + | <StructureSection load='1mlx' size='340' side='right'caption='[[1mlx]], [[Resolution|resolution]] 1.25Å' scene=''> |
| - | |SITE=
| + | == Structural highlights == |
| - | |LIGAND= <scene name='pdbligand=DA:2'-DEOXYADENOSINE-5'-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5'-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=SMT:2'-[(METHYLTHIO)ETHYLOXY]-THYMIDINE-5'-MONOPHOSPHATE'>SMT</scene>
| + | <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> |
| - | |ACTIVITY=
| + | </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> |
| - | |GENE=
| + | <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> |
| - | |DOMAIN=
| + | <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> |
| - | |RELATEDENTRY=
| + | </table> |
| - | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1mlx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mlx OCA], [http://www.ebi.ac.uk/pdbsum/1mlx PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1mlx RCSB]</span>
| + | __TOC__ |
| - | }}
| + | </StructureSection> |
| - | | + | [[Category: Large Structures]] |
| - | '''Crystal Structure Analysis of a 2'-O-[2-(Methylthio)-ethyl]-Modified Oligodeoxynucleotide Duplex'''
| + | [[Category: Egli M]] |
| - | | + | [[Category: Fraser AS]] |
| - | | + | [[Category: Kawasaki AM]] |
| - | ==Overview==
| + | [[Category: Leeds JM]] |
| - | 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.
| + | [[Category: Lesnik EA]] |
| - | | + | [[Category: Manoharan M]] |
| - | ==About this Structure==
| + | [[Category: Prakash TP]] |
| - | 1MLX 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=1MLX OCA].
| + | [[Category: Sioufi N]] |
| - | | + | [[Category: Teplova M]] |
| - | ==Reference==
| + | |
| - | 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://www.ncbi.nlm.nih.gov/pubmed/12269806 12269806]
| + | |
| - | [[Category: Protein complex]] | + | |
| - | [[Category: Egli, M.]] | + | |
| - | [[Category: Fraser, A S.]] | + | |
| - | [[Category: Kawasaki, A M.]] | + | |
| - | [[Category: Leeds, J M.]] | + | |
| - | [[Category: Lesnik, E A.]] | + | |
| - | [[Category: Manoharan, M.]] | + | |
| - | [[Category: Prakash, T P.]] | + | |
| - | [[Category: Sioufi, N.]] | + | |
| - | [[Category: Teplova, M.]] | + | |
| - | [[Category: a-form]]
| + | |
| - | [[Category: antisense modification]]
| + | |
| - | [[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]]
| + | |
| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 22:17:50 2008''
| + | |
