6l1c - Revision history

OCA at 10:48, 22 November 2023

OCA — Wed, 22 Nov 2023 10:48:39 GMT

←Older revision		Revision as of 10:48, 22 November 2023
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	<StructureSection load='6l1c' size='340' side='right'caption='[[6l1c]], [[Resolution\|resolution]] 1.58Å' scene=''>		<StructureSection load='6l1c' size='340' side='right'caption='[[6l1c]], [[Resolution\|resolution]] 1.58Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6l1c]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6L1C OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6L1C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6l1c]] is a 1 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=6L1C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6L1C FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>~~, ~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.58Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~PHF20L1, CGI-72 ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=9606 HUMAN])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6l1c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l1c OCA], [~~http~~://pdbe.org/6l1c PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6l1c RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6l1c PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6l1c 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=6l1c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l1c OCA], [https://pdbe.org/6l1c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6l1c RCSB], [https://www.ebi.ac.uk/pdbsum/6l1c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6l1c ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/P20L1_HUMAN P20L1_HUMAN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gao, J]]	+	[[Category: Gao J]]
-	[[Category: Lv~~, M Q]]~~	+	[[Category: Lv MQ]]
-	~~[[Category: Metal binding protein]]~~	+
-	~~[[Category: Phf20l1]]~~	+
-	~~[[Category: Tudor]]~~	+
-	~~[[Category: Y24l~~]]	+

OCA at 07:20, 30 September 2020

OCA — Wed, 30 Sep 2020 07:20:39 GMT

←Older revision		Revision as of 07:20, 30 September 2020
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	==Crystal Structure Of of PHF20L1 Tudor1 Y24L mutant==		==Crystal Structure Of of PHF20L1 Tudor1 Y24L mutant==
-	<StructureSection load='6l1c' size='340' side='right'caption='[[6l1c]]' scene=''>	+	<StructureSection load='6l1c' size='340' side='right'caption='[[6l1c]], [[Resolution\|resolution]] 1.58Å' 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=6L1C OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6L1C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6l1c]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6L1C OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6L1C 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=6l1c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l1c OCA], [http://pdbe.org/6l1c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6l1c RCSB], [http://www.ebi.ac.uk/pdbsum/6l1c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6l1c ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PHF20L1, CGI-72 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=6l1c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l1c OCA], [http://pdbe.org/6l1c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6l1c RCSB], [http://www.ebi.ac.uk/pdbsum/6l1c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6l1c ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The first Tudor domain (Tudor1) of PHF20L1 recognizes (non)histone methylation to play versatile roles. However, the underlying ligand-recognition mechanism remains unknown as a closed state revealed in the free-form structure. NMR relaxation dispersion and molecular dynamics simulations suggest a pre-existing low-population conformation with a remarkable rearrangement of aromatic cage residues of PHF20L1 Tudor1. Such an open-form conformation is utilized to recognize lysine 142 methylated DNMT1, a cosolvent, and an NMR fragment screening hit, as revealed by the complex crystal structures. Intriguingly, the ligand binding capacity was enhanced by mutation that tunes up the open-state population only. The recognition of DNMT1 by PHF20L1 was further validated in cancer cells. This conformational selection mechanism will enable the discovery of small molecule inhibitors against the seemingly "undruggable" PHF20L1 Tudor1.
		+
		+	Conformational Selection in Ligand Recognition by the First Tudor Domain of PHF20L1.,Lv M, Gao J, Li M, Ma R, Li F, Liu Y, Liu M, Zhang J, Yao X, Wu J, Shi Y, Tang Y, Pan Y, Zhang Z, Ruan K J Phys Chem Lett. 2020 Sep 17;11(18):7932-7938. doi: 10.1021/acs.jpclett.0c02039., Epub 2020 Sep 9. PMID:32885980<ref>PMID:32885980</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6l1c" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gao J]]	+	[[Category: Gao, J]]
-	[[Category: Lv MQ]]	+	[[Category: Lv, M Q]]
		+	[[Category: Metal binding protein]]
		+	[[Category: Phf20l1]]
		+	[[Category: Tudor]]
		+	[[Category: Y24l]]

OCA at 11:08, 23 September 2020

OCA — Wed, 23 Sep 2020 11:08:36 GMT

←Older revision		Revision as of 11:08, 23 September 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6l1c ~~is ON HOLD until Sep 28 2021~~	+	==Crystal Structure Of of PHF20L1 Tudor1 Y24L mutant==
-		+	<StructureSection load='6l1c' size='340' side='right'caption='[[6l1c]]' scene=''>
-	~~Authors~~: Lv, M.Q., ~~Gao~~, J.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6L1C OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6L1C FirstGlance]. <br>
-	~~Description: Crystal Structure Of of PHF20L1 Tudor1 Y24L mutant~~	+	</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=6l1c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6l1c OCA], [http://pdbe.org/6l1c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6l1c RCSB], [http://www.ebi.ac.uk/pdbsum/6l1c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6l1c ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: Gao, J]]	+	__TOC__
-	[[Category: Lv~~, M.Q~~]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Gao J]]
		+	[[Category: Lv MQ]]

OCA at 07:18, 30 October 2019

OCA — Wed, 30 Oct 2019 07:18:25 GMT

←Older revision		Revision as of 07:18, 30 October 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6l1c is ON HOLD	+	The entry 6l1c is ON HOLD until Sep 28 2021

	Authors: Lv, M.Q., Gao, J.		Authors: Lv, M.Q., Gao, J.
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	Description: Crystal Structure Of of PHF20L1 Tudor1 Y24L mutant		Description: Crystal Structure Of of PHF20L1 Tudor1 Y24L mutant
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Lv, M.Q]]
	[[Category: Gao, J]]		[[Category: Gao, J]]
		+	[[Category: Lv, M.Q]]

OCA: Protected "6l1c" [edit=sysop:move=sysop]

OCA — Thu, 10 Oct 2019 03:34:13 GMT

Protected "6l1c" [edit=sysop:move=sysop]

←Older revision

Revision as of 03:34, 10 October 2019

OCA: New page: '''Unreleased structure''' The entry 6l1c is ON HOLD Authors: Lv, M.Q., Gao, J. Description: Crystal Structure Of of PHF20L1 Tudor1 Y24L mutant Category: Unreleased Structures [[Ca...

OCA — Thu, 10 Oct 2019 03:34:12 GMT

New page: '''Unreleased structure''' The entry 6l1c is ON HOLD Authors: Lv, M.Q., Gao, J. Description: Crystal Structure Of of PHF20L1 Tudor1 Y24L mutant Category: Unreleased Structures [[Ca...

New page

'''Unreleased structure'''

The entry 6l1c is ON HOLD

Authors: Lv, M.Q., Gao, J.

Description: Crystal Structure Of of PHF20L1 Tudor1 Y24L mutant
[[Category: Unreleased Structures]]
[[Category: Lv, M.Q]]
[[Category: Gao, J]]