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3r93

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Current revision (12:14, 14 March 2024) (edit) (undo)
 
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<StructureSection load='3r93' size='340' side='right'caption='[[3r93]], [[Resolution|resolution]] 2.06&Aring;' scene=''>
<StructureSection load='3r93' size='340' side='right'caption='[[3r93]], [[Resolution|resolution]] 2.06&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[3r93]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R93 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3R93 FirstGlance]. <br>
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<table><tr><td colspan='2'>[[3r93]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R93 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3R93 FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene></td></tr>
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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]] 2.057&#8491;</td></tr>
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<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=M3L:N-TRIMETHYLLYSINE'>M3L</scene></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>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene></td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3lwe|3lwe]]</div></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">MPHOSPH8, MPP8 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
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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=3r93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r93 OCA], [https://pdbe.org/3r93 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3r93 RCSB], [https://www.ebi.ac.uk/pdbsum/3r93 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3r93 ProSAT]</span></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=3r93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r93 OCA], [https://pdbe.org/3r93 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3r93 RCSB], [https://www.ebi.ac.uk/pdbsum/3r93 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3r93 ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
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[[https://www.uniprot.org/uniprot/MPP8_HUMAN MPP8_HUMAN]] Involved in transcriptional regulation. Specifically recognizes and binds methylated 'Lys-9' of histone H3 (H3K9me) and promotes DNA methylation by recruiting DNMT3A to target CpG sites; these can be situated within the coding region of the gene. Mediates down-regulation of CDH1 expression.<ref>PMID:20871592</ref>
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[https://www.uniprot.org/uniprot/H32_HUMAN H32_HUMAN]
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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BACKGROUND: M-phase phosphoprotein 8 (MPP8) was initially identified to be a component of the RanBPM-containing large protein complex, and has recently been shown to bind to methylated H3K9 both in vivo and in vitro. MPP8 binding to methylated H3K9 is suggested to recruit the H3K9 methyltransferases GLP and ESET, and DNA methyltransferase 3A to the promoter of the E-cadherin gene, mediating the E-cadherin gene silencing and promote tumor cell motility and invasion. MPP8 contains a chromodomain in its N-terminus, which is used to bind the methylated H3K9. METHODOLOGY/PRINCIPAL FINDINGS: Here, we reported the crystal structures of human MPP8 chromodomain alone and in complex with the trimethylated histone H3K9 peptide (residue 1-15). The complex structure unveils that the human MPP8 chromodomain binds methylated H3K9 through a conserved recognition mechanism, which was also observed in Drosophila HP1, a chromodomain containing protein that binds to methylated H3K9 as well. The structure also reveals that the human MPP8 chromodomain forms homodimer, which is mediated via an unexpected domain swapping interaction through two beta strands from the two protomer subunits. CONCLUSIONS/SIGNIFICANCE: Our findings reveal the molecular mechanism of selective binding of human MPP8 chromodomain to methylated histone H3K9. The observation of human MPP8 chromodomain in both solution and crystal lattice may provide clues to study MPP8-mediated gene regulation furthermore.
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Structural basis for specific binding of human MPP8 chromodomain to histone H3 methylated at lysine 9.,Li J, Li Z, Ruan J, Xu C, Tong Y, Pan PW, Tempel W, Crombet L, Min J, Zang J PLoS One. 2011;6(10):e25104. Epub 2011 Oct 12. PMID:22022377<ref>PMID:22022377</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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<div class="pdbe-citations 3r93" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Human]]
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[[Category: Homo sapiens]]
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Crombet, L]]
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[[Category: Crombet L]]
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[[Category: Li, J]]
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[[Category: Li J]]
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[[Category: Li, Z]]
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[[Category: Li Z]]
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[[Category: Min, J]]
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[[Category: Min J]]
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[[Category: Pan, P W]]
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[[Category: Pan PW]]
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[[Category: Ruan, J]]
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[[Category: Ruan J]]
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[[Category: Structural genomic]]
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[[Category: Tempel W]]
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[[Category: Tempel, W]]
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[[Category: Tong Y]]
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[[Category: Tong, Y]]
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[[Category: Xu C]]
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[[Category: Xu, C]]
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[[Category: Zang J]]
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[[Category: Zang, J]]
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[[Category: Cell cycle]]
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[[Category: Chromodomain]]
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[[Category: Epigenetic]]
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[[Category: M-phase]]
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[[Category: Sgc]]
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Current revision

Crystal structure of the chromo domain of M-phase phosphoprotein 8 bound to H3K9Me3 peptide

PDB ID 3r93

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