6pzs - Revision history

OCA at 07:38, 11 October 2023

OCA — Wed, 11 Oct 2023 07:38:53 GMT

←Older revision		Revision as of 07:38, 11 October 2023
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	<StructureSection load='6pzs' size='340' side='right'caption='[[6pzs]], [[Resolution\|resolution]] 1.79Å' scene=''>		<StructureSection load='6pzs' size='340' side='right'caption='[[6pzs]], [[Resolution\|resolution]] 1.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6pzs]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PZS OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6PZS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6pzs]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Danio_rerio Danio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PZS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6PZS FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>, <scene name='pdbligand=P7J:4-[({[(1R,2R,5R)-6,6-dimethylbicyclo[3.1.1]heptan-2-yl]methyl}amino)methyl]-N-hydroxybenzamide'>P7J</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.79Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Histone_deacetylase Histone deacetylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.98 3.5.1.98] </span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>, <scene name='pdbligand=P7J:4-[({[(1R,2R,5R)-6,6-dimethylbicyclo[3.1.1]heptan-2-yl]methyl}amino)methyl]-N-hydroxybenzamide'>P7J</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6pzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pzs OCA], [~~http~~://pdbe.org/6pzs PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6pzs RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6pzs PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6pzs 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=6pzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pzs OCA], [https://pdbe.org/6pzs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6pzs RCSB], [https://www.ebi.ac.uk/pdbsum/6pzs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6pzs ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/F8W4B7_DANRE F8W4B7_DANRE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6pzs" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6pzs" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Histone deacetylase 3D structures\|Histone deacetylase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Histone deacetylase~~]]	+	[[Category: Danio rerio]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Christianson~~, D W~~]]	+	[[Category: Christianson DW]]
-	[[Category: Osko~~, J D]]~~	+	[[Category: Osko JD]]
-	~~[[Category: Hydrolase-hydrolase inhibitor complex]]~~	+
-	~~[[Category: Metallohydrolase~~]]	+

OCA at 08:03, 5 February 2020

OCA — Wed, 05 Feb 2020 08:03:54 GMT

←Older revision		Revision as of 08:03, 5 February 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6pzs is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of Danio rerio histone deacetylase 6 catalytic domain 2 complexed with JR005==
		+	<StructureSection load='6pzs' size='340' side='right'caption='[[6pzs]], [[Resolution\|resolution]] 1.79Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6pzs]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PZS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PZS FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>, <scene name='pdbligand=P7J:4-[({[(1R,2R,5R)-6,6-dimethylbicyclo[3.1.1]heptan-2-yl]methyl}amino)methyl]-N-hydroxybenzamide'>P7J</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Histone_deacetylase Histone deacetylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.98 3.5.1.98] </span></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6pzs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pzs OCA], [http://pdbe.org/6pzs PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6pzs RCSB], [http://www.ebi.ac.uk/pdbsum/6pzs PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6pzs ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Inhibition of histone deacetylase 6 (HDAC6) has emerged as a promising therapeutic strategy for the treatment of cancer, chemotherapy-induced peripheral neuropathy, and neurodegenerative disease. The recent X-ray crystal structure determination of HDAC6 enables an understanding of structural features directing affinity and selectivity in the active site. Here, we present the X-ray crystal structures of five HDAC6-inhibitor complexes that illuminate key molecular features of the inhibitor linker and capping groups that facilitate and differentiate binding to HDAC6. In particular, aromatic and heteroaromatic linkers nestle within an aromatic cleft defined by F583 and F643, and different aromatic linkers direct the capping group toward shallow pockets defined by the L1 loop, the L2 loop, or somewhere in between these pockets. These results expand our understanding of factors contributing to the selective inhibition of HDAC6, particularly regarding interactions that can be targeted in the region of the L2 pocket.

-	~~Authors~~:	+	Exploring Structural Determinants of Inhibitor Affinity and Selectivity in Complexes with Histone Deacetylase 6.,Osko JD, Porter NJ, Narayana Reddy PA, Xiao YC, Rokka J, Jung M, Hooker JM, Salvino JM, Christianson DW J Med Chem. 2020 Jan 9;63(1):295-308. doi: 10.1021/acs.jmedchem.9b01540. Epub, 2019 Dec 19. PMID:31793776<ref>PMID:31793776</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6pzs" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Histone deacetylase]]
		+	[[Category: Large Structures]]
		+	[[Category: Christianson, D W]]
		+	[[Category: Osko, J D]]
		+	[[Category: Hydrolase-hydrolase inhibitor complex]]
		+	[[Category: Metallohydrolase]]

OCA at 13:47, 28 August 2019

OCA — Wed, 28 Aug 2019 13:47:41 GMT

←Older revision		Revision as of 13:47, 28 August 2019
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Wed, 07 Aug 2019 04:23:46 GMT

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

←Older revision

Revision as of 04:23, 7 August 2019

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

OCA — Wed, 07 Aug 2019 04:23:44 GMT

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

New page

'''Unreleased structure'''

The entry 6pzs is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]