3fl6: Difference between revisions

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[[Image:3fl6.jpg|left|200px]]


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==Influence of the incorporation of a cyclohexenyl nucleic acid (CeNA) residue onto the sequence d(GCGTGCG)/d(CGCACGC)==
The line below this paragraph, containing "STRUCTURE_3fl6", creates the "Structure Box" on the page.
<StructureSection load='3fl6' size='340' side='right'caption='[[3fl6]], [[Resolution|resolution]] 1.17&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)  
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[3fl6]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FL6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FL6 FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.17&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene>, <scene name='pdbligand=XTR:[(1R,4S,6S)-6-HYDROXY-4-(5-METHYL-2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)CYCLOHEX-2-EN-1-YL]METHYL+DIHYDROGEN+PHOSPHATE'>XTR</scene></td></tr>
{{STRUCTURE_3fl6|  PDB=3fl6  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3fl6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fl6 OCA], [https://pdbe.org/3fl6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fl6 RCSB], [https://www.ebi.ac.uk/pdbsum/3fl6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fl6 ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Cyclohexene Nucleic Acids (CeNA), in which the 2'-deoxyribofuranose ring of the DNA building blocks is substituted by a cyclohexenyl ring, were designed as potential mimics of natural nucleic acids for antisense and, later, for siRNA applications. CeNA units, in contrast to HNA (hexitol nucleic acid) building blocks, show more flexibility at the level of the C2'-C3' bond due to the possibility of the cyclohexenyl moiety to adopt different conformations. In order to analyze the influence of CeNA residues onto the helix conformation and hydration of natural nucleic acid structures and to verify the cyclohexenyl ring conformation, a cyclohexenyl-thymine building block was incorporated into the non-self-complementary sequence d(GCG(xT)GCG)/d(CGCACGC) with (xT) a cyclohexene residue. The crystal structure of this sequence has been determined to a resolution of 1.17 A and contains two duplexes in the asymmetric unit. The global helices belong to the B-type family and the conformations of the cyclohexenyl rings in both duplexes are different. The cyclohexene ring adopts as well the (2)H(3)-conformation (similar to C2'-endo) as the (3)H(2)-conformation (similar to C3'-endo). The crystal packing is stabilized by cobalt hexamine residues and triplet formation.


===Influence of the incorporation of a cyclohexenyl nucleic acid (CeNA) residue onto the sequence d(GCGTGCG)/d(CGCACGC)===
Direct observation of two cyclohexenyl (CeNA) ring conformations in duplex DNA.,Robeyns K, Herdewijn P, Van Meervelt L Artif DNA PNA XNA. 2010 Jul;1(1):2-8. PMID:21687521<ref>PMID:21687521</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
==About this Structure==
</div>
3FL6 is a 4 chains structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FL6 OCA].
<div class="pdbe-citations 3fl6" style="background-color:#fffaf0;"></div>
[[Category: Herdewijn, P.]]
== References ==
[[Category: Meervelt, L Van.]]
<references/>
[[Category: Robeyns, K.]]
__TOC__
[[Category: Cena]]
</StructureSection>
[[Category: Dna]]
[[Category: Large Structures]]
[[Category: Double helix]]
[[Category: Herdewijn P]]
[[Category: Right-handed]]
[[Category: Robeyns K]]
[[Category: Sugar modification]]
[[Category: Van Meervelt L]]
 
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