3c1c: Difference between revisions

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-{{Seed}}
-[[Image:3c1c.png|left|200px]]
-<!--
+==The effect of H3 K79 dimethylation and H4 K20 trimethylation on nucleosome and chromatin structure==
-The line below this paragraph, containing "STRUCTURE_3c1c", creates the "Structure Box" on the page.
+<StructureSection load='3c1c' size='340' side='right'caption='[[3c1c]], [[Resolution|resolution]] 3.15&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'>[[3c1c]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Xenopus_laevis Xenopus laevis] and [https://en.wikipedia.org/wiki/Xenopus_tropicalis Xenopus tropicalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C1C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C1C 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]] 3.15&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=M2L:(2R)-2-AMINO-3-(2-DIMETHYLAMINOETHYLSULFANYL)PROPANOIC+ACID'>M2L</scene></td></tr>
-{{STRUCTURE_3c1c|  PDB=3c1c  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3c1c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c1c OCA], [https://pdbe.org/3c1c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c1c RCSB], [https://www.ebi.ac.uk/pdbsum/3c1c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c1c 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/c1/3c1c_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=3c1c ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Histone methylation regulates chromatin function dependent on the site and degree of the modification. In addition to creating binding sites for proteins, methylated lysine residues are likely to influence chromatin structure directly. Here we present crystal structures of nucleosomes reconstituted with methylated histones and investigate the folding behavior of resulting arrays. We demonstrate that dimethylation of histone H3 at lysine residue 79 locally alters the nucleosomal surface, whereas trimethylation of H4 at lysine residue 20 affects higher-order structure.
-===The effect of H3 K79 dimethylation and H4 K20 trimethylation on nucleosome and chromatin structure===
+The effect of H3K79 dimethylation and H4K20 trimethylation on nucleosome and chromatin structure.,Lu X, Simon MD, Chodaparambil JV, Hansen JC, Shokat KM, Luger K Nat Struct Mol Biol. 2008 Oct;15(10):1122-4. Epub 2008 Sep 14. PMID:18794842<ref>PMID:18794842</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3c1c" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_18794842}}, adds the Publication Abstract to the page
+*[[Histone 3D structures|Histone 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 18794842 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_18794842}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-C1C is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Eukaryota Eukaryota] and [http://en.wikipedia.org/wiki/Xenopus_laevis Xenopus laevis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C1C OCA].
-==Reference==
-The effect of H3K79 dimethylation and H4K20 trimethylation on nucleosome and chromatin structure., Lu X, Simon MD, Chodaparambil JV, Hansen JC, Shokat KM, Luger K, Nat Struct Mol Biol. 2008 Oct;15(10):1122-4. Epub 2008 Sep 14. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18794842 18794842]
-[[Category: Eukaryota]]
-[[Category: Protein complex]]
 [[Category: Xenopus laevis]]
-[[Category: Chodaparambil, J.]]
+[[Category: Xenopus tropicalis]]
-[[Category: Hansen, J.]]
+[[Category: Chodaparambil J]]
-[[Category: Lu, X.]]
+[[Category: Hansen J]]
-[[Category: Luger, K.]]
+[[Category: Lu X]]
-[[Category: Shokat, K.]]
+[[Category: Luger K]]
-[[Category: Simon, M.]]
+[[Category: Shokat K]]
-[[Category: Acetylation]]
+[[Category: Simon M]]
-[[Category: Chromatin]]
-[[Category: Chromosomal protein]]
-[[Category: Dna-binding]]
-[[Category: Histone h3]]
-[[Category: Histone modification]]
-[[Category: Methylation]]
-[[Category: Nucleosomal array]]
-[[Category: Nucleosomal surface]]
-[[Category: Nucleosome]]
-[[Category: Nucleosome core]]
-[[Category: Nucleus]]
-[[Category: Phosphoprotein]]
-[[Category: Structural protein/dna complex]]
-[[Category: Trimethylation]]
-[[Category: Ubl conjugation]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct 22 09:56:34 2008''