2pkv: Difference between revisions

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[[Image:2pkv.png|left|200px]]


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==D-(GGTATACC) ambient pressure==
The line below this paragraph, containing "STRUCTURE_2pkv", creates the "Structure Box" on the page.
<StructureSection load='2pkv' size='340' side='right'caption='[[2pkv]], [[Resolution|resolution]] 1.60&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'>[[2pkv]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PKV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PKV 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]] 1.6&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2pkv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pkv OCA], [https://pdbe.org/2pkv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2pkv RCSB], [https://www.ebi.ac.uk/pdbsum/2pkv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2pkv ProSAT]</span></td></tr>
{{STRUCTURE_2pkv|  PDB=2pkv  |  SCENE=  }}
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The behaviour of the d(GGTATACC) oligonucleotide has been investigated by X-ray crystallography at 295 K in the range from ambient pressure to 2 GPa (approximately 20,000 atm). Four 3D-structures of the A-DNA form (at ambient pressure, 0.55, 1.09 and 1.39 GPa) were refined at 1.60 or 1.65 A resolution. In addition to the diffraction pattern of the A-form, the broad meridional streaks previously explained by occluded B-DNA octamers within the channels of the crystalline A-form matrix were observed up to at least 2 GPa. This work highlights an important property of nucleic acids, their capability to withstand very high pressures, while keeping in such conditions a nearly invariant geometry of base pairs that store and carry genetic information. The double-helix base-paired architecture behaves as a molecular spring, which makes it especially adapted to very harsh conditions. These features may have contributed to the emergence of a RNA World at prebiotic stage.


===D-(GGTATACC) ambient pressure===
Adaptation of the base-paired double-helix molecular architecture to extreme pressure.,Girard E, Prange T, Dhaussy AC, Migianu-Griffoni E, Lecouvey M, Chervin JC, Mezouar M, Kahn R, Fourme R Nucleic Acids Res. 2007;35(14):4800-8. Epub 2007 Jul 7. PMID:17617642<ref>PMID:17617642</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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<div class="pdbe-citations 2pkv" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 17617642 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_17617642}}
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</StructureSection>
==About this Structure==
[[Category: Large Structures]]
[[2pkv]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PKV OCA].
[[Category: Fourme R]]
 
[[Category: Girard E]]
==Reference==
[[Category: Kahn R]]
<ref group="xtra">PMID:17617642</ref><ref group="xtra">PMID:2911354</ref><ref group="xtra">PMID:11524565</ref><ref group="xtra">PMID:16478683</ref><ref group="xtra">PMID:3586017</ref><references group="xtra"/>
[[Category: Prange T]]
[[Category: Fourme, R.]]
[[Category: Girard, E.]]
[[Category: Kahn, R.]]
[[Category: Prange, T.]]
[[Category: Crystal structure]]
[[Category: Dna]]
[[Category: High pressure]]

Latest revision as of 14:03, 30 August 2023

D-(GGTATACC) ambient pressureD-(GGTATACC) ambient pressure

Structural highlights

2pkv is a 2 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.6Å
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Publication Abstract from PubMed

The behaviour of the d(GGTATACC) oligonucleotide has been investigated by X-ray crystallography at 295 K in the range from ambient pressure to 2 GPa (approximately 20,000 atm). Four 3D-structures of the A-DNA form (at ambient pressure, 0.55, 1.09 and 1.39 GPa) were refined at 1.60 or 1.65 A resolution. In addition to the diffraction pattern of the A-form, the broad meridional streaks previously explained by occluded B-DNA octamers within the channels of the crystalline A-form matrix were observed up to at least 2 GPa. This work highlights an important property of nucleic acids, their capability to withstand very high pressures, while keeping in such conditions a nearly invariant geometry of base pairs that store and carry genetic information. The double-helix base-paired architecture behaves as a molecular spring, which makes it especially adapted to very harsh conditions. These features may have contributed to the emergence of a RNA World at prebiotic stage.

Adaptation of the base-paired double-helix molecular architecture to extreme pressure.,Girard E, Prange T, Dhaussy AC, Migianu-Griffoni E, Lecouvey M, Chervin JC, Mezouar M, Kahn R, Fourme R Nucleic Acids Res. 2007;35(14):4800-8. Epub 2007 Jul 7. PMID:17617642[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

  1. ↑ Girard E, Prange T, Dhaussy AC, Migianu-Griffoni E, Lecouvey M, Chervin JC, Mezouar M, Kahn R, Fourme R. Adaptation of the base-paired double-helix molecular architecture to extreme pressure. Nucleic Acids Res. 2007;35(14):4800-8. Epub 2007 Jul 7. PMID:17617642 doi:gkm511

2pkv, resolution 1.60Å

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