7r9w - Revision history

OCA at 09:25, 25 October 2023

OCA — Wed, 25 Oct 2023 09:25:58 GMT

←Older revision		Revision as of 09:25, 25 October 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7r9w]] 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=7R9W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7R9W FirstGlance]. <br>		<table><tr><td colspan='2'>[[7r9w]] 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=7R9W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7R9W 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=JO4:4-phenoxybenzoic+acid'>JO4</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]] 1.75Å</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=JO4:4-phenoxybenzoic+acid'>JO4</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=7r9w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7r9w OCA], [https://pdbe.org/7r9w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7r9w RCSB], [https://www.ebi.ac.uk/pdbsum/7r9w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7r9w 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=7r9w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7r9w OCA], [https://pdbe.org/7r9w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7r9w RCSB], [https://www.ebi.ac.uk/pdbsum/7r9w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7r9w ProSAT]</span></td></tr>
	</table>		</table>

OCA at 10:34, 15 February 2023

OCA — Wed, 15 Feb 2023 10:34:07 GMT

←Older revision		Revision as of 10:34, 15 February 2023
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	==LC3A in complex with Fragment 1-1==		==LC3A in complex with Fragment 1-1==
-	<StructureSection load='7r9w' size='340' side='right'caption='[[7r9w]]' scene=''>	+	<StructureSection load='7r9w' size='340' side='right'caption='[[7r9w]], [[Resolution\|resolution]] 1.75Å' 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=7R9W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7R9W FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7r9w]] 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=7R9W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7R9W 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=7r9w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7r9w OCA], [https://pdbe.org/7r9w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7r9w RCSB], [https://www.ebi.ac.uk/pdbsum/7r9w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7r9w 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=JO4:4-phenoxybenzoic+acid'>JO4</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=7r9w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7r9w OCA], [https://pdbe.org/7r9w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7r9w RCSB], [https://www.ebi.ac.uk/pdbsum/7r9w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7r9w ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/MLP3A_HUMAN MLP3A_HUMAN] Involved in formation of autophagosomal vacuoles (autophagosomes).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Autophagy-related proteins (Atgs) drive the lysosome-mediated degradation pathway, autophagy, to enable the clearance of dysfunctional cellular components and maintain homeostasis. In humans, this process is driven by the mammalian Atg8 (mAtg8) family of proteins comprising the LC3 and GABARAP subfamilies. The mAtg8 proteins play essential roles in the formation and maturation of autophagosomes and the capture of specific cargo through binding to the conserved LC3-interacting region (LIR) sequence within target proteins. Modulation of interactions of mAtg8 with its target proteins via small-molecule ligands would enable further interrogation of their function. Here we describe unbiased fragment and DNA-encoded library (DEL) screening approaches for discovering LC3 small-molecule ligands. Both strategies resulted in compounds that bind to LC3, with the fragment hits favoring a conserved hydrophobic pocket in mATG8 proteins, as detailed by LC3A-fragment complex crystal structures. Our findings demonstrate that the malleable LIR-binding surface can be readily targeted by fragments; however, rational design of additional interactions to drive increased affinity proved challenging. DEL libraries, which combine small, fragment-like building blocks into larger scaffolds, yielded higher-affinity binders and revealed an unexpected potential for reversible, covalent ligands. Moreover, DEL hits identified possible vectors for synthesizing fluorescent probes or bivalent molecules for engineering autophagic degradation of specific targets.
		+
		+	A Multifaceted Hit-Finding Approach Reveals Novel LC3 Family Ligands.,Steffek M, Helgason E, Popovych N, Rouge L, Bruning JM, Li KS, Burdick DJ, Cai J, Crawford T, Xue J, Decurtins W, Fang C, Grubers F, Holliday MJ, Langley A, Petersen A, Satz AL, Song A, Stoffler D, Strebel Q, Tom JYK, Skelton N, Staben ST, Wichert M, Mulvihill MM, Dueber EC Biochemistry. 2022 Jan 5. doi: 10.1021/acs.biochem.1c00682. PMID:34985287<ref>PMID:34985287</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7r9w" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Dueber E]]		[[Category: Dueber E]]

OCA at 09:58, 12 January 2022

OCA — Wed, 12 Jan 2022 09:58:33 GMT

←Older revision		Revision as of 09:58, 12 January 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7r9w is ~~ON HOLD until Paper Publication~~	+	==LC3A in complex with Fragment 1-1==
-		+	<StructureSection load='7r9w' size='340' side='right'caption='[[7r9w]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7R9W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7R9W FirstGlance]. <br>
-	~~Description~~:	+	</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=7r9w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7r9w OCA], [https://pdbe.org/7r9w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7r9w RCSB], [https://www.ebi.ac.uk/pdbsum/7r9w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7r9w ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Dueber E]]
		+	[[Category: Helgason E]]
		+	[[Category: Mulvihill M]]
		+	[[Category: Rouge L]]
		+	[[Category: Steffek M]]

OCA at 09:18, 4 August 2021

OCA — Wed, 04 Aug 2021 09:18:35 GMT

←Older revision		Revision as of 09:18, 4 August 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7r9w is ON HOLD	+	The entry 7r9w is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7r9w" [edit=sysop:move=sysop]

OCA — Wed, 07 Jul 2021 09:00:53 GMT

Protected "7r9w" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:00, 7 July 2021

OCA: New page: '''Unreleased structure''' The entry 7r9w is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 07 Jul 2021 09:00:52 GMT

New page: '''Unreleased structure''' The entry 7r9w is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7r9w is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]