1yd9: Difference between revisions

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-[[Image:1yd9.png|left|200px]]
-{{STRUCTURE_1yd9|  PDB=1yd9  |  SCENE=  }}
+==1.6A Crystal Structure of the Non-Histone Domain of the Histone Variant MacroH2A1.1.==
+<StructureSection load='1yd9' size='340' side='right'caption='[[1yd9]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
-===1.6A Crystal Structure of the Non-Histone Domain of the Histone Variant MacroH2A1.1.===
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1yd9]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YD9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YD9 FirstGlance]. <br>
-{{ABSTRACT_PUBMED_16107708}}
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.6&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AU:GOLD+ION'>AU</scene></td></tr>
-==About this Structure==
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1yd9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yd9 OCA], [https://pdbe.org/1yd9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yd9 RCSB], [https://www.ebi.ac.uk/pdbsum/1yd9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yd9 ProSAT]</span></td></tr>
-[[1yd9]] is a 4 chain structure of [[Histone]] with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YD9 OCA].
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/H2AY_RAT H2AY_RAT] Variant histone H2A which replaces conventional H2A in a subset of nucleosomes where it represses transcription. 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. Involved in stable X chromosome inactivation. Inhibits the binding of transcription factors and interferes with the activity of remodeling SWI/SNF complexes. Inhibits histone acetylation by EP300 and recruits class I HDACs, which induces a hypoacetylated state of chromatin. In addition, isoform 1, but not isoform 2, binds ADP-ribose and O-acetyl-ADP-ribose, and may be involved in ADP-ribose-mediated chromatin modulation.<ref>PMID:16107708</ref>
+== 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/yd/1yd9_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=1yd9 ConSurf].
+<div style="clear:both"></div>
 ==See Also==
-*[[Histone|Histone]]
+*[[Histone 3D structures|Histone 3D structures]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:016107708</ref><references group="xtra"/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Rattus norvegicus]]
-[[Category: Caron, C.]]
+[[Category: Caron C]]
-[[Category: Chakravarthy, S.]]
+[[Category: Chakravarthy S]]
-[[Category: Khochbin, S.]]
+[[Category: Khochbin S]]
-[[Category: Luger, K.]]
+[[Category: Luger K]]
-[[Category: Pehrson, J R.]]
+[[Category: Pehrson JR]]
-[[Category: Perche, P Y.]]
+[[Category: Perche PY]]
-[[Category: Swamy, G Y.S K.]]
+[[Category: Swamy GYSK]]
-[[Category: A1pp domain]]
-[[Category: Alpha-beta structure]]
-[[Category: Macro-domain]]
-[[Category: Structural protein]]