6lsd - Revision history

OCA at 14:48, 29 November 2023

2023-11-29T14:48:55Z

←Older revision		Revision as of 14:48, 29 November 2023
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-	====	+	==Crystal Structure of YEATS domain of human YEATS2 in complex with H3K27bz peptide==
-	<StructureSection load='6lsd' size='340' side='right'caption='[[6lsd]]' scene=''>	+	<StructureSection load='6lsd' size='340' side='right'caption='[[6lsd]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6lsd]] is a 4 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=6LSD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6LSD FirstGlance]. <br>
-	</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=6lsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6lsd OCA], [https://pdbe.org/6lsd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6lsd RCSB], [https://www.ebi.ac.uk/pdbsum/6lsd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6lsd ProSAT]</span></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]] 2.05Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=LBZ:(2~{S})-2-azanyl-6-benzamido-hexanoic+acid'>LBZ</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=6lsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6lsd OCA], [https://pdbe.org/6lsd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6lsd RCSB], [https://www.ebi.ac.uk/pdbsum/6lsd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6lsd ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/YETS2_HUMAN YETS2_HUMAN] Component of the ATAC complex, a complex with histone acetyltransferase activity on histones H3 and H4.<ref>PMID:19103755</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Histone modifications and their functional readout serve as an important mechanism for gene regulation. Lysine benzoylation (Kbz) on histones is a recently identified acylation mark associated with active transcription. However, it remains to be explored whether putative readers exist to recognize this epigenetic mark. Here, our systematic binding studies demonstrated that the DPF and YEATS, but not the Bromodomain family members, are readers for histone Kbz. Co-crystal structural analyses revealed a 'hydrophobic encapsulation' and a 'tip-sensor' mechanism for Kbz readout by DPF and YEATS, respectively. Moreover, the DPF and YEATS family members display subtle yet unique features to create somewhat flexible engagements of different acylation marks. For instance, YEATS2 but not the other YEATS proteins exhibits best preference for Kbz than lysine acetylation and crotonylation due to its wider 'tip-sensor' pocket. The levels of histone benzoylation in cultured cells or in mice are upregulated upon sodium benzoate treatment, highlighting its dynamic regulation. In summary, our work identifies the first readers for histone Kbz and reveals the molecular basis underlying Kbz recognition, thus paving the way for further functional dissections of histone benzoylation.
		+
		+	Histone benzoylation serves as an epigenetic mark for DPF and YEATS family proteins.,Ren X, Zhou Y, Xue Z, Hao N, Li Y, Guo X, Wang D, Shi X, Li H Nucleic Acids Res. 2021 Jan 11;49(1):114-126. doi: 10.1093/nar/gkaa1130. PMID:33290558<ref>PMID:33290558</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6lsd" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Li HT]]
		+	[[Category: Ren XL]]

OCA at 08:00, 27 January 2021

2021-01-27T08:00:30Z

←Older revision		Revision as of 08:00, 27 January 2021
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	<StructureSection load='6lsd' size='340' side='right'caption='[[6lsd]]' scene=''>		<StructureSection load='6lsd' size='340' side='right'caption='[[6lsd]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6lsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6lsd OCA], [~~http~~://pdbe.org/6lsd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6lsd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6lsd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6lsd ProSAT]</span></td></tr>	+	</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=6lsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6lsd OCA], [https://pdbe.org/6lsd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6lsd RCSB], [https://www.ebi.ac.uk/pdbsum/6lsd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6lsd ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 09:32, 18 November 2020

2020-11-18T09:32:17Z

←Older revision		Revision as of 09:32, 18 November 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6lsd ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='6lsd' size='340' side='right'caption='[[6lsd]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6lsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6lsd OCA], [http://pdbe.org/6lsd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6lsd RCSB], [http://www.ebi.ac.uk/pdbsum/6lsd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6lsd ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 05:48, 22 July 2020

2020-07-22T05:48:10Z

←Older revision		Revision as of 05:48, 22 July 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6lsd is ON HOLD	+	The entry 6lsd is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6lsd" [edit=sysop:move=sysop]

2020-01-22T13:47:36Z

Protected "6lsd" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:47, 22 January 2020

OCA: New page: '''Unreleased structure''' The entry 6lsd is ON HOLD Authors: Description: Category: Unreleased Structures

2020-01-22T13:47:35Z

New page: '''Unreleased structure''' The entry 6lsd is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6lsd is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]