5uqd: Difference between revisions

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<StructureSection load='5uqd' size='340' side='right'caption='[[5uqd]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
<StructureSection load='5uqd' size='340' side='right'caption='[[5uqd]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[5uqd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Caeel Caeel]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5UQD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5UQD FirstGlance]. <br>
<table><tr><td colspan='2'>[[5uqd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5UQD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5UQD FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=PG0:2-(2-METHOXYETHOXY)ETHANOL'>PG0</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.798&#8491;</td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">dpy-21, CELE_Y59A8B.1, Y59A8B.1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6239 CAEEL])</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=PG0:2-(2-METHOXYETHOXY)ETHANOL'>PG0</scene></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=5uqd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5uqd OCA], [https://pdbe.org/5uqd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5uqd RCSB], [https://www.ebi.ac.uk/pdbsum/5uqd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5uqd 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=5uqd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5uqd OCA], [https://pdbe.org/5uqd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5uqd RCSB], [https://www.ebi.ac.uk/pdbsum/5uqd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5uqd ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[https://www.uniprot.org/uniprot/DPY21_CAEEL DPY21_CAEEL]] Required for X chromosome dosage compensation by reducing X-linked gene transcription in hermaphrodites throughout development (PubMed:14660541, PubMed:23028348, PubMed:3779843, PubMed:3478715, PubMed:26641248, PubMed:22393255). Might be involved in the regulation of histone H4 post-translational modifications on the X chromosome leading to transcriptional repression of X-linked genes (PubMed:22393255, PubMed:23028348, PubMed:26641248). Involved in the regulation of growth, fecundity and body fat metabolism downstream of the TOR complex 2 and the protein kinase sgk-1 pathway (PubMed:23884442). Also involved in male tail development (PubMed:6537930).<ref>PMID:14660541</ref> <ref>PMID:22393255</ref> <ref>PMID:23028348</ref> <ref>PMID:23884442</ref> <ref>PMID:26641248</ref> <ref>PMID:3478715</ref> <ref>PMID:3779843</ref> <ref>PMID:6537930</ref> 
[https://www.uniprot.org/uniprot/DPY21_CAEEL DPY21_CAEEL] Required for X chromosome dosage compensation by reducing X-linked gene transcription in hermaphrodites throughout development (PubMed:14660541, PubMed:23028348, PubMed:3779843, PubMed:3478715, PubMed:26641248, PubMed:22393255). Might be involved in the regulation of histone H4 post-translational modifications on the X chromosome leading to transcriptional repression of X-linked genes (PubMed:22393255, PubMed:23028348, PubMed:26641248). Involved in the regulation of growth, fecundity and body fat metabolism downstream of the TOR complex 2 and the protein kinase sgk-1 pathway (PubMed:23884442). Also involved in male tail development (PubMed:6537930).<ref>PMID:14660541</ref> <ref>PMID:22393255</ref> <ref>PMID:23028348</ref> <ref>PMID:23884442</ref> <ref>PMID:26641248</ref> <ref>PMID:3478715</ref> <ref>PMID:3779843</ref> <ref>PMID:6537930</ref>  
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Chromatin modification and higher-order chromosome structure play key roles in gene regulation, but their functional interplay in controlling gene expression is elusive. We have discovered the machinery and mechanism underlying the dynamic enrichment of histone modification H4K20me1 on hermaphrodite X chromosomes during C. elegans dosage compensation and demonstrated H4K20me1's pivotal role in regulating higher-order chromosome structure and X-chromosome-wide gene expression. The structure and the activity of the dosage compensation complex (DCC) subunit DPY-21 define a Jumonji demethylase subfamily that converts H4K20me2 to H4K20me1 in worms and mammals. Selective inactivation of demethylase activity eliminates H4K20me1 enrichment in somatic cells, elevates X-linked gene expression, reduces X chromosome compaction, and disrupts X chromosome conformation by diminishing the formation of topologically associating domains (TADs). Unexpectedly, DPY-21 also associates with autosomes of germ cells in a DCC-independent manner to enrich H4K20me1 and trigger chromosome compaction. Our findings demonstrate the direct link between chromatin modification and higher-order chromosome structure in long-range regulation of gene expression.
 
Dynamic Control of X Chromosome Conformation and Repression by a Histone H4K20 Demethylase.,Brejc K, Bian Q, Uzawa S, Wheeler BS, Anderson EC, King DS, Kranzusch PJ, Preston CG, Meyer BJ Cell. 2017 Aug 26. pii: S0092-8674(17)30877-2. doi: 10.1016/j.cell.2017.07.041. PMID:28867287<ref>PMID:28867287</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 5uqd" style="background-color:#fffaf0;"></div>
== References ==
== References ==
<references/>
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Caeel]]
[[Category: Caenorhabditis elegans]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Anderson, E C]]
[[Category: Anderson EC]]
[[Category: Bian, Q]]
[[Category: Bian Q]]
[[Category: Brejc, K]]
[[Category: Brejc K]]
[[Category: King, D S]]
[[Category: King DS]]
[[Category: Kranzusch, P J]]
[[Category: Kranzusch PJ]]
[[Category: Meyer, B J]]
[[Category: Meyer BJ]]
[[Category: Preston, C G]]
[[Category: Preston CG]]
[[Category: Uzawa, S]]
[[Category: Uzawa S]]
[[Category: Wheeler, B S]]
[[Category: Wheeler BS]]
[[Category: H4k20me2 demethylase]]
[[Category: Jmjc]]
[[Category: Oxidoreductase]]
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