481d: Difference between revisions

From Proteopedia
Jump to navigationJump to search
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
New page: left|200px<br /><applet load="481d" size="350" color="white" frame="true" align="right" spinBox="true" caption="481d, resolution 1.60Å" /> '''CRYSTAL STRUCTURE OF...
 
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
 
(11 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:481d.jpg|left|200px]]<br /><applet load="481d" size="350" color="white" frame="true" align="right" spinBox="true"
caption="481d, resolution 1.60&Aring;" />
'''CRYSTAL STRUCTURE OF A HEXITOL NUCLEIC ACID (HNA) DUPLEX AT 1.6A RESOLUTION'''<br />


==Overview==
==CRYSTAL STRUCTURE OF A HEXITOL NUCLEIC ACID (HNA) DUPLEX AT 1.6A RESOLUTION==
A huge variety of chemically modified oligonucleotide derivatives has been, synthesized for possible antisense applications. One such derivative, hexitol nucleic acid (HNA), is a DNA analogue containing the standard, nucleoside bases, but with a phosphorylated 1',5'-anhydrohexitol backbone., Hexitol nucleic acids are some of the strongest hybridizing antisense, compounds presently known, but HNA duplexes are even more stable. We, present here the first high-resolution structure of a double helical, nucleic acid with all sugars being hexitols. Although designed to have a, restricted conformational flexibility, the hexitol oligomer h(GTGTACAC) is, able to crystallize in two different double helical conformations. Both, structures display a high x-displacement, normal Watson-Crick base, pairing, similar base stacking patterns, and a very deep major groove, together with a minor groove with increased hydrophobicity. One of the, conformations displays a major groove which is wide enough to accommodate, a second HNA double helix resulting in the formation of a double helix of, HNA double helices. Both structures show most similarities with the A-type, helical structure, the anhydrohexitol chair conformation thereby acting as, a good mimic for the furanose C3'-endo conformation observed in RNA. As, compared to the quasi-linear structure of homo-DNA, the axial position of, the base in HNA allows efficient base stacking and hence double helix, formation.
<StructureSection load='481d' size='340' side='right'caption='[[481d]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[481d]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=481D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=481D FirstGlance]. <br>
481D 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=481D 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]] 1.6&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6HA:1,5-ANHYDRO-2,3-DIDEOXY-2-(ADENIN-9-YL)-6-O-PHOSPHORYL-D-ARABINO-HEXITOL'>6HA</scene>, <scene name='pdbligand=6HC:1,5-ANHYDRO-2,3-DIDEOXY-2-(CYTOSIN-1-YL)-6-O-PHOSPHORYL-D-ARABINO-HEXITOL'>6HC</scene>, <scene name='pdbligand=6HG:1,5-ANHYDRO-2,3-DIDEOXY-2-(GUANIN-9-YL)-6-O-PHOSPHORYL-D-ARABINO-HEXITOL'>6HG</scene>, <scene name='pdbligand=6HT:1,5-ANHYDRO-2,3-DIDEOXY-2-(THYMIN-1-YL)-6-O-PHOSPHORYL-D-ARABINO-HEXITOL'>6HT</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=481d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=481d OCA], [https://pdbe.org/481d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=481d RCSB], [https://www.ebi.ac.uk/pdbsum/481d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=481d ProSAT]</span></td></tr>
Crystal structure of double helical hexitol nucleic acids., Declercq R, Van Aerschot A, Read RJ, Herdewijn P, Van Meervelt L, J Am Chem Soc. 2002 Feb 13;124(6):928-33. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11829600 11829600]
</table>
[[Category: Protein complex]]
__TOC__
[[Category: Declercq, R.]]
</StructureSection>
[[Category: Meervelt, L.Van.]]
[[Category: Large Structures]]
[[Category: dna analogue]]
[[Category: Declercq R]]
[[Category: double helix]]
[[Category: Van Meervelt L]]
[[Category: hexitol nucleic acid]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jan 29 21:45:14 2008''

Latest revision as of 06:46, 3 April 2024

CRYSTAL STRUCTURE OF A HEXITOL NUCLEIC ACID (HNA) DUPLEX AT 1.6A RESOLUTION

481d, resolution 1.60Å

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "https://proteopedia.org/index.php?title=481d&oldid=4119033"