9j8w: Difference between revisions
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==Cryo-EM structure of NCP-UV-DDB complex containing CPD== | |||
<StructureSection load='9j8w' size='340' side='right'caption='[[9j8w]], [[Resolution|resolution]] 3.38Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[9j8w]] is a 11 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9J8W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9J8W FirstGlance]. <br> | |||
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 3.38Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TTD:CIS-SYN+CYCLOBUTANE+THYMINE+DIMER'>TTD</scene></td></tr> | |||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=9j8w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9j8w OCA], [https://pdbe.org/9j8w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9j8w RCSB], [https://www.ebi.ac.uk/pdbsum/9j8w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9j8w ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/H31_HUMAN H31_HUMAN] | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
In mammalian global genomic nucleotide excision repair, UV-DDB plays a central role in recognizing DNA lesions, such as 6-4 photoproducts and cyclobutane pyrimidine dimers, within chromatin. In the present study, we perform cryo-electron microscopy analyses coupled with chromatin-immunoprecipitation to reveal that the cellular UV-DDB binds to UV-damaged DNA lesions in a chromatin unit, the nucleosome, at a position approximately 20 base-pairs from the nucleosomal dyad in human cells. An alternative analysis of the in vitro reconstituted UV-DDB-cyclobutane pyrimidine dimer nucleosome structure demonstrates that the DDB2 subunit of UV-DDB specifically recognizes the cyclobutane pyrimidine dimer lesion at this position on the nucleosome. We also determine the structures of UV-DDB bound to DNA lesions at other positions in purified cellular human nucleosomes. These cellular and reconstituted UV-DDB-nucleosome complex structures provide important evidence for understanding the mechanism by which UV lesions in chromatin are recognized and repaired in mammalian cells. | |||
Structural basis of cyclobutane pyrimidine dimer recognition by UV-DDB in the nucleosome.,Matsumoto S, Takizawa Y, Ogasawara M, Hashimoto K, Negishi L, Xu W, Tachibana H, Yamamoto J, Iwai S, Sugasawa K, Kurumizaka H Nat Commun. 2025 Nov 11;16(1):9709. doi: 10.1038/s41467-025-65486-5. PMID:41219227<ref>PMID:41219227</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
[[Category: | </div> | ||
<div class="pdbe-citations 9j8w" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Homo sapiens]] | |||
[[Category: Large Structures]] | |||
[[Category: Synthetic construct]] | |||
[[Category: Hashimoto K]] | |||
[[Category: Iwai S]] | |||
[[Category: Kurumizaka H]] | |||
[[Category: Matsumoto S]] | |||
[[Category: Negishi L]] | |||
[[Category: Ogasawara M]] | |||
[[Category: Sugasawa K]] | |||
[[Category: Tachibana H]] | |||
[[Category: Takizawa Y]] | |||
[[Category: Xu W]] | |||
[[Category: Yamamoto J]] | |||
