3kuy: Difference between revisions

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{{Seed}}
[[Image:3kuy.png|left|200px]]


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==DNA Stretching in the Nucleosome Facilitates Alkylation by an Intercalating Antitumor Agent==
The line below this paragraph, containing "STRUCTURE_3kuy", creates the "Structure Box" on the page.
<StructureSection load='3kuy' size='340' side='right'caption='[[3kuy]], [[Resolution|resolution]] 2.90&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'>[[3kuy]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Xenopus_laevis Xenopus laevis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KUY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3KUY 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]] 2.9&#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=ATV:2-[(2R)-OXIRAN-2-YLMETHYL]-1H-BENZO[DE]ISOQUINOLINE-1,3(2H)-DIONE'>ATV</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
{{STRUCTURE_3kuy|  PDB=3kuy  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3kuy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kuy OCA], [https://pdbe.org/3kuy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3kuy RCSB], [https://www.ebi.ac.uk/pdbsum/3kuy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3kuy ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/H32_XENLA H32_XENLA] Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ku/3kuy_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3kuy ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
DNA stretching in the nucleosome core can cause dramatic structural distortions, which may influence compaction and factor recognition in chromatin. We find that the base pair unstacking arising from stretching-induced extreme minor groove kinking near the nucleosome centre creates a hot spot for intercalation and alkylation by a novel anticancer compound. This may have far reaching implications for how chromatin structure can influence binding of intercalator species and indicates potential for the development of site selective DNA-binding agents that target unique conformational features of the nucleosome.


===DNA Stretching in the Nucleosome Facilitates Alkylation by an Intercalating Antitumor Agent===
DNA stretching in the nucleosome facilitates alkylation by an intercalating antitumour agent.,Davey GE, Wu B, Dong Y, Surana U, Davey CA Nucleic Acids Res. 2010 Apr;38(6):2081-8. Epub 2009 Dec 21. PMID:20026584<ref>PMID:20026584</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3kuy" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_20026584}}, adds the Publication Abstract to the page
*[[Histone 3D structures|Histone 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 20026584 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_20026584}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
3KUY is a 10 chains structure with sequences from [http://en.wikipedia.org/wiki/Xenopus_laevis Xenopus laevis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KUY OCA].
 
==Reference==
<ref group="xtra">PMID:20026584</ref><references group="xtra"/>
[[Category: Xenopus laevis]]
[[Category: Xenopus laevis]]
[[Category: Davey, C A.]]
[[Category: Davey CA]]
[[Category: Wu, B.]]
[[Category: Wu B]]
[[Category: Alkylation]]
[[Category: Chromatin]]
[[Category: Chromosomal protein]]
[[Category: Dna stretching]]
[[Category: Dna-binding]]
[[Category: Intercalation]]
[[Category: Methylation]]
[[Category: Nucleosome]]
[[Category: Nucleosome core]]
[[Category: Nucleus]]
[[Category: Structural protein-dna complex]]
 
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Retrieved from "https://proteopedia.org/3kuy"