5jrg
From Proteopedia
(Difference between revisions)
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| - | '''Unreleased structure''' | ||
| - | + | ==Crystal structure of the nucleosome containing the DNA with tetrahydrofuran (THF)== | |
| + | <StructureSection load='5jrg' size='340' side='right' caption='[[5jrg]], [[Resolution|resolution]] 2.50Å' scene=''> | ||
| + | == Structural highlights == | ||
| + | <table><tr><td colspan='2'>[[5jrg]] is a 10 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JRG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JRG FirstGlance]. <br> | ||
| + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr> | ||
| + | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr> | ||
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5jrg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jrg OCA], [http://pdbe.org/5jrg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jrg RCSB], [http://www.ebi.ac.uk/pdbsum/5jrg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jrg ProSAT]</span></td></tr> | ||
| + | </table> | ||
| + | == Function == | ||
| + | [[http://www.uniprot.org/uniprot/H2B1J_HUMAN H2B1J_HUMAN]] 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.<ref>PMID:11859126</ref> <ref>PMID:12860195</ref> <ref>PMID:15019208</ref> Has broad antibacterial activity. May contribute to the formation of the functional antimicrobial barrier of the colonic epithelium, and to the bactericidal activity of amniotic fluid.<ref>PMID:11859126</ref> <ref>PMID:12860195</ref> <ref>PMID:15019208</ref> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Huge amounts (>10,000/day) of apurinic/apyrimidinic (AP) sites are produced in genomes, but their structures in chromatin remain undetermined. We determined the crystal structure of the nucleosome containing AP-site analogs at two symmetric sites, which revealed structural polymorphism: one forms an inchworm configuration without an empty space at the AP site, and the other forms a B-form-like structure with an empty space and the orphan base. This unexpected inchworm configuration of the AP site is important to understand the AP DNA repair mechanism, because it may not be recognized by the major AP-binding protein, APE1, during the base excision repair process. | ||
| - | + | Polymorphism of apyrimidinic DNA structures in the nucleosome.,Osakabe A, Arimura Y, Matsumoto S, Horikoshi N, Sugasawa K, Kurumizaka H Sci Rep. 2017 Jan 31;7:41783. doi: 10.1038/srep41783. PMID:28139742<ref>PMID:28139742</ref> | |
| - | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |
| - | + | </div> | |
| - | + | <div class="pdbe-citations 5jrg" style="background-color:#fffaf0;"></div> | |
| + | == References == | ||
| + | <references/> | ||
| + | __TOC__ | ||
| + | </StructureSection> | ||
[[Category: Arimura, Y]] | [[Category: Arimura, Y]] | ||
| - | [[Category: Osakabe, A]] | ||
[[Category: Horikoshi, N]] | [[Category: Horikoshi, N]] | ||
| + | [[Category: Kurumizaka, H]] | ||
| + | [[Category: Osakabe, A]] | ||
| + | [[Category: Ap-site]] | ||
| + | [[Category: Chromatin formation]] | ||
| + | [[Category: Dna binding]] | ||
| + | [[Category: Dna binding protein-dna complex]] | ||
| + | [[Category: Histone fold]] | ||
| + | [[Category: Nucleosome]] | ||
| + | [[Category: Nucleus]] | ||
Revision as of 16:45, 9 March 2017
Crystal structure of the nucleosome containing the DNA with tetrahydrofuran (THF)
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