3fdt

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[[Image:3fdt.png|left|200px]]
 
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==Crystal structure of the complex of human chromobox homolog 5 (CBX5) with H3K9(me)3 peptide==
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The line below this paragraph, containing "STRUCTURE_3fdt", creates the "Structure Box" on the page.
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<StructureSection load='3fdt' size='340' side='right'caption='[[3fdt]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[3fdt]] is a 2 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=3FDT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FDT FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</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&#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=M3L:N-TRIMETHYLLYSINE'>M3L</scene></td></tr>
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{{STRUCTURE_3fdt| PDB=3fdt | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3fdt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fdt OCA], [https://pdbe.org/3fdt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fdt RCSB], [https://www.ebi.ac.uk/pdbsum/3fdt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fdt ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/CBX5_HUMAN CBX5_HUMAN] Component of heterochromatin that recognizes and binds histone H3 tails methylated at 'Lys-9' (H3K9me), leading to epigenetic repression. In contrast, it is excluded from chromatin when 'Tyr-41' of histone H3 is phosphorylated (H3Y41ph). Can interact with lamin-B receptor (LBR). This interaction can contribute to the association of the heterochromatin with the inner nuclear membrane. Involved in the formation of functional kinetochore through interaction with MIS12 complex proteins.<ref>PMID:19783980</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fd/3fdt_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=3fdt ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The eight mammalian Cbx proteins are chromodomain-containing proteins involved in regulation of heterochromatin, gene expression, and developmental programs. They are evolutionarily related to the Drosophila HP1 (dHP1) and Pc (dPc) proteins that are key components of chromatin-associated complexes capable of recognizing repressive marks such as trimethylated Lys-9 and Lys-27, respectively, on histone H3. However, the binding specificity and function of the human homologs, Cbx1-8, remain unclear. To this end we employed structural, biophysical, and mutagenic approaches to characterize the molecular determinants of sequence contextual methyllysine binding to human Cbx1-8 proteins. Although all three human HP1 homologs (Cbx1, -3, -5) replicate the structural and binding features of their dHP counterparts, the five Pc homologs (Cbx2, -4, -6, -7, -8) bind with lower affinity to H3K9me3 or H3K27me3 peptides and are unable to distinguish between these two marks. Additionally, peptide permutation arrays revealed a greater sequence tolerance within the Pc family and suggest alternative nonhistone sequences as potential binding targets for this class of chromodomains. Our structures explain the divergence of peptide binding selectivity in the Pc subfamily and highlight previously unrecognized features of the chromodomain that influence binding and specificity.
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===Crystal structure of the complex of human chromobox homolog 5 (CBX5) with H3K9(me)3 peptide===
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Recognition and specificity determinants of the human cbx chromodomains.,Kaustov L, Ouyang H, Amaya M, Lemak A, Nady N, Duan S, Wasney GA, Li Z, Vedadi M, Schapira M, Min J, Arrowsmith CH J Biol Chem. 2011 Jan 7;286(1):521-9. Epub 2010 Nov 3. PMID:21047797<ref>PMID:21047797</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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The line below this paragraph, {{ABSTRACT_PUBMED_21047797}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 3fdt" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 21047797 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_21047797}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[3fdt]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FDT OCA].
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==Reference==
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<ref group="xtra">PMID:21047797</ref><references group="xtra"/>
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[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
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[[Category: Amaya, M F.]]
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[[Category: Large Structures]]
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[[Category: Arrowsmith, C H.]]
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[[Category: Synthetic construct]]
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[[Category: Bochkarev, A.]]
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[[Category: Amaya MF]]
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[[Category: Bountra, C.]]
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[[Category: Arrowsmith CH]]
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[[Category: Edwards, A M.]]
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[[Category: Bochkarev A]]
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[[Category: Kozieradzki, I.]]
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[[Category: Bountra C]]
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[[Category: Loppnau, P.]]
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[[Category: Edwards AM]]
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[[Category: Min, J.]]
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[[Category: Kozieradzki I]]
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[[Category: Ouyang, H.]]
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[[Category: Loppnau P]]
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[[Category: Ravichandran, M.]]
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[[Category: Min J]]
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[[Category: SGC, Structural Genomics Consortium.]]
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[[Category: Ouyang H]]
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[[Category: Weigelt, J.]]
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[[Category: Ravichandran M]]
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[[Category: Weigelt J]]

Current revision

Crystal structure of the complex of human chromobox homolog 5 (CBX5) with H3K9(me)3 peptide

PDB ID 3fdt

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