2akg: Difference between revisions

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{{Seed}}
[[Image:2akg.png|left|200px]]


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==Thallium form of the G-Quadruplex from Oxytricha Nova, d(G4T4G4)2==
The line below this paragraph, containing "STRUCTURE_2akg", creates the "Structure Box" on the page.
<StructureSection load='2akg' size='340' side='right'caption='[[2akg]]' 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'>[[2akg]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2AKG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2AKG 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">Solution NMR</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=2akg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2akg OCA], [https://pdbe.org/2akg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2akg RCSB], [https://www.ebi.ac.uk/pdbsum/2akg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2akg ProSAT]</span></td></tr>
{{STRUCTURE_2akg|  PDB=2akg  |  SCENE=  }}
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Monovalent cations play an important role in many biological functions. The guanine rich sequence, d(G4T4G4), requires monovalent cations for formation of the G-quadruplex, d(G4T4G4)2. This requirement can be satisfied by thallium (Tl+), a potassium (K+) surrogate. To verify that the structure of d(G4T4G4)2 in the presence of Tl+ is similar to the K+-form of the G-quadruplex, the solution structure of the Tl+-form of d(G4T4G4)2 was determined. The 10 lowest energy structures have an all atom RMSD of 0.76 +/- 0.16 A. Comparison of this structure to the identical G-quadruplex formed in the presence of K+ validates the isomorphous nature of Tl+ and K+. Using a 1H-205Tl spin-echo difference experiment we show that, in the Tl+-form of d(G4T4G4)2, small scalar couplings (&lt;1 Hz) exist between 205Tl and protons in the G-quadruplex. These data comprise the first 1H-205Tl scalar couplings observed in a biological system and have the potential to provide important constraints for structure determination. These experiments can be applied to any system in which the substituted Tl+ cations are in slow exchange with the bulk ions in solution.


===Thallium form of the G-Quadruplex from Oxytricha Nova, d(G4T4G4)2===
205Tl NMR methods for the characterization of monovalent cation binding to nucleic acids.,Gill ML, Strobel SA, Loria JP J Am Chem Soc. 2005 Nov 30;127(47):16723-32. PMID:16305263<ref>PMID:16305263</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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The line below this paragraph, {{ABSTRACT_PUBMED_16305263}}, adds the Publication Abstract to the page
<div class="pdbe-citations 2akg" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 16305263 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_16305263}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2AKG OCA].
[[Category: Gill ML]]
 
[[Category: Loria JP]]
==Reference==
[[Category: Strobel SA]]
205Tl NMR methods for the characterization of monovalent cation binding to nucleic acids., Gill ML, Strobel SA, Loria JP, J Am Chem Soc. 2005 Nov 30;127(47):16723-32. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16305263 16305263]
[[Category: Gill, M L.]]
[[Category: Loria, J P.]]
[[Category: Strobel, S A.]]
[[Category: Deoxyribonucleic acid]]
[[Category: G-quadruplex]]
[[Category: Thallium]]
 
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