3ok2
From Proteopedia
(Difference between revisions)
| Line 4: | Line 4: | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[3ok2]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3OK2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3OK2 FirstGlance]. <br> | <table><tr><td colspan='2'>[[3ok2]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3OK2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3OK2 FirstGlance]. <br> | ||
| - | </td></tr><tr id=' | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.963Å</td></tr> |
| - | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A6A:2-(6-AMINO-9H-PURIN-9-YL)-1,5-ANHYDRO-2-DEOXY-6-O-PHOSPHONO-D-ALTRITOL'>A6A</scene>, <scene name='pdbligand=A6C:2-(4-AMINO-2-OXOPYRIMIDIN-1(2H)-YL)-1,5-ANHYDRO-2-DEOXY-6-O-PHOSPHONO-D-ALTRITOL'>A6C</scene>, <scene name='pdbligand=A6G:2-(2-AMINO-6-OXO-1,6-DIHYDRO-9H-PURIN-9-YL)-1,5-ANHYDRO-2-DEOXY-6-O-PHOSPHONO-D-ALTRITOL'>A6G</scene>, <scene name='pdbligand=A6U:1,5-ANHYDRO-2-DEOXY-2-(2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)-6-O-PHOSPHONO-D-ALTRITOL'>A6U</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr> | |
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3ok2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ok2 OCA], [https://pdbe.org/3ok2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ok2 RCSB], [https://www.ebi.ac.uk/pdbsum/3ok2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ok2 ProSAT]</span></td></tr> | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3ok2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ok2 OCA], [https://pdbe.org/3ok2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ok2 RCSB], [https://www.ebi.ac.uk/pdbsum/3ok2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ok2 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
| - | <div style="background-color:#fffaf0;"> | ||
| - | == Publication Abstract from PubMed == | ||
| - | Altritol nucleic acids (ANAs) are a promising new tool in the development of artificial small interfering ribonucleic acids (siRNAs) for therapeutical applications. To mimic the siRNA:messenger RNA (mRNA) interactions, the crystal structure of the ANA:RNA construct a(CCGUAAUGCC-P):r(GGCAUUACGG) was determined to 1.96 A resolution which revealed the hybrid to form an A-type helix. As this A-form is a major requirement in the RNAi process, this crystal structure confirms the potential of altritol-modified siRNAs. Moreover, in the ANA strands, a new type of intrastrand interactions was found between the O2' hydroxyl group of one residue and the sugar ring O4' atom of the next residue. These interactions were further investigated by quantum chemical methods. Besides hydration effects, these intrastrand hydrogen bonds may also contribute to the stability of ANA:RNA duplexes. | ||
| - | |||
| - | How does hydroxyl introduction influence the double helical structure: the stabilization of an altritol nucleic acid:ribonucleic acid duplex.,Ovaere M, Sponer J, Sponer JE, Herdewijn P, Van Meervelt L Nucleic Acids Res. 2012 Aug;40(15):7573-83. Epub 2012 May 25. PMID:22638588<ref>PMID:22638588</ref> | ||
| - | |||
| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| - | </div> | ||
| - | <div class="pdbe-citations 3ok2" style="background-color:#fffaf0;"></div> | ||
| - | == References == | ||
| - | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
| - | + | [[Category: Ovaere M]] | |
| - | [[Category: Ovaere | + | [[Category: Van Meervelt L]] |
| - | [[Category: | + | |
| - | + | ||
| - | + | ||
| - | + | ||
| - | + | ||
Current revision
Crystal structure of the ANA:RNA decamer without lattice translocation defects
| |||||||||||
