481d

[[Image:481d.jpg|left|200px]]

|PDB= 481d |SIZE=350|CAPTION= <scene name='initialview01'>481d</scene>, resolution 1.60&Aring;

|SITE=

|LIGAND= <scene name='pdbligand=6HA:1&#39;,5&#39;-ANHYDRO-2&#39;,3&#39;-DIDEOXY-2&#39;-(ADENIN-9-YL)-6&#39;-O-PHOSPHORYL-D-ARABINO-HEXITOL'>6HA</scene>, <scene name='pdbligand=6HC:1&#39;,5&#39;-ANHYDRO-2&#39;,3&#39;-DIDEOXY-2&#39;-(CYTOSIN-1-YL)-6&#39;-O-PHOSPHORYL-D-ARABINO-HEXITOL'>6HC</scene>, <scene name='pdbligand=6HG:1&#39;,5&#39;-ANHYDRO-2&#39;,3&#39;-DIDEOXY-2&#39;-(GUANIN-9-YL)-6&#39;-O-PHOSPHORYL-D-ARABINO-HEXITOL'>6HG</scene>, <scene name='pdbligand=6HT:1&#39;,5&#39;-ANHYDRO-2&#39;,3&#39;-DIDEOXY-2&#39;-(THYMIN-1-YL)-6&#39;-O-PHOSPHORYL-D-ARABINO-HEXITOL'>6HT</scene>

|ACTIVITY=

|GENE=

|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=481d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=481d OCA], [http://www.ebi.ac.uk/pdbsum/481d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=481d RCSB]</span>

 

 

 

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.

 

481D 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=481D OCA].

 

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://www.ncbi.nlm.nih.gov/pubmed/11829600 11829600]

[[Category: Protein complex]]

[[Category: Declercq, R.]]

[[Category: Meervelt, L Van.]]