6z7v - Revision history

OCA at 13:43, 24 January 2024

OCA — Wed, 24 Jan 2024 13:43:19 GMT

←Older revision		Revision as of 13:43, 24 January 2024
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-	====	+	==Crystal structure of Mindy2 (C266A) in complex with Lys48 linked di-ubiquitin (K48-Ub2)==
-	<StructureSection load='6z7v' size='340' side='right'caption='[[6z7v]]' scene=''>	+	<StructureSection load='6z7v' size='340' side='right'caption='[[6z7v]], [[Resolution\|resolution]] 2.65Å' 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'>[[6z7v]] is a 9 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=6Z7V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6Z7V 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=6z7v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6z7v OCA], [https://pdbe.org/6z7v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6z7v RCSB], [https://www.ebi.ac.uk/pdbsum/6z7v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6z7v 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]] 2.65Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</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=6z7v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6z7v OCA], [https://pdbe.org/6z7v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6z7v RCSB], [https://www.ebi.ac.uk/pdbsum/6z7v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6z7v ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/MINY2_HUMAN MINY2_HUMAN] Hydrolase that can remove 'Lys-48'-linked conjugated ubiquitin from proteins (PubMed:27292798). Binds to polyubiquitin chains of different linkage types, including 'Lys-6', 'Lys-11', 'Lys-29', 'Lys-33', 'Lys-48' and 'Lys-63' (PubMed:28082312). May play a regulatory role at the level of protein turnover (PubMed:27292798).<ref>PMID:27292798</ref> <ref>PMID:28082312</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Of the eight distinct polyubiquitin (polyUb) linkages that can be assembled, the roles of K48-linked polyUb (K48-polyUb) are the most established, with K48-polyUb modified proteins being targeted for degradation. MINDY1 and MINDY2 are members of the MINDY family of deubiquitinases (DUBs) that have exquisite specificity for cleaving K48-polyUb, yet we have a poor understanding of their catalytic mechanism. Here, we analyze the crystal structures of MINDY1 and MINDY2 alone and in complex with monoUb, di-, and penta-K48-polyUb, identifying 5 distinct Ub binding sites in the catalytic domain that explain how these DUBs sense both Ub chain length and linkage type to cleave K48-polyUb chains. The activity of MINDY1/2 is inhibited by the Cys-loop, and we find that substrate interaction relieves autoinhibition to activate these DUBs. We also find that MINDY1/2 use a non-canonical catalytic triad composed of Cys-His-Thr. Our findings highlight multiple layers of regulation modulating DUB activity in MINDY1 and MINDY2.
		+
		+	Mechanism of activation and regulation of deubiquitinase activity in MINDY1 and MINDY2.,Abdul Rehman SA, Armstrong LA, Lange SM, Kristariyanto YA, Grawert TW, Knebel A, Svergun DI, Kulathu Y Mol Cell. 2021 Sep 10. pii: S1097-2765(21)00691-2. doi:, 10.1016/j.molcel.2021.08.024. PMID:34529927<ref>PMID:34529927</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6z7v" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Abdul Rehman SA]]
		+	[[Category: Kulathu Y]]
		+	[[Category: Lange SM]]

OCA at 12:10, 9 June 2021

OCA — Wed, 09 Jun 2021 12:10:13 GMT

←Older revision		Revision as of 12:10, 9 June 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 6z7v ~~is ON HOLD until Jun 01 2022~~	+	====
-		+	<StructureSection load='6z7v' size='340' side='right'caption='[[6z7v]]' scene=''>
-	~~Authors~~: ~~Abdul Rehman, S~~.A.~~, Lange, S~~.M.~~, Kulathu, Y~~.	+	== 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>
-	~~Description~~: ~~Crystal structure of Mindy2 (C266A) in complex with Lys48 linked di-ubiquitin (K48-Ub2)~~	+	</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=6z7v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6z7v OCA], [https://pdbe.org/6z7v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6z7v RCSB], [https://www.ebi.ac.uk/pdbsum/6z7v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6z7v ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Lange~~, S.M]]	+	__TOC__
-	[[Category: ~~Abdul Rehman, S.A~~]]	+	</StructureSection>
-	[[Category: ~~Kulathu, Y~~]]	+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 05:22, 24 February 2021

OCA — Wed, 24 Feb 2021 05:22:55 GMT

←Older revision		Revision as of 05:22, 24 February 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6z7v is ON HOLD	+	The entry 6z7v is ON HOLD until Jun 01 2022

	Authors: Abdul Rehman, S.A., Lange, S.M., Kulathu, Y.		Authors: Abdul Rehman, S.A., Lange, S.M., Kulathu, Y.

OCA at 09:09, 3 February 2021

OCA — Wed, 03 Feb 2021 09:09:30 GMT

←Older revision		Revision as of 09:09, 3 February 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6z7v is ON HOLD ~~until Jun 01 2022~~	+	The entry 6z7v is ON HOLD

-	Authors: Abdul Rehman, S.A., Kulathu, Y.	+	Authors: Abdul Rehman, S.A., Lange, S.M., Kulathu, Y.

-	Description: Crystal structure of Mindy2 (C266A) in complex with Lys48 linked di-ubiquitin	+	Description: Crystal structure of Mindy2 (C266A) in complex with Lys48 linked di-ubiquitin (K48-Ub2)
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Lange, S.M]]
	[[Category: Abdul Rehman, S.A]]		[[Category: Abdul Rehman, S.A]]
	[[Category: Kulathu, Y]]		[[Category: Kulathu, Y]]

OCA at 07:47, 22 July 2020

OCA — Wed, 22 Jul 2020 07:47:26 GMT

←Older revision		Revision as of 07:47, 22 July 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6z7v is ON HOLD	+	The entry 6z7v is ON HOLD until Jun 01 2022

	Authors: Abdul Rehman, S.A., Kulathu, Y.		Authors: Abdul Rehman, S.A., Kulathu, Y.

OCA: Protected "6z7v" [edit=sysop:move=sysop]

OCA — Wed, 10 Jun 2020 05:09:03 GMT

Protected "6z7v" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:09, 10 June 2020

OCA: New page: '''Unreleased structure''' The entry 6z7v is ON HOLD Authors: Abdul Rehman, S.A., Kulathu, Y. Description: Crystal structure of Mindy2 (C266A) in complex with Lys48 linked di-ubiquitin...

OCA — Wed, 10 Jun 2020 05:09:02 GMT

New page: '''Unreleased structure''' The entry 6z7v is ON HOLD Authors: Abdul Rehman, S.A., Kulathu, Y. Description: Crystal structure of Mindy2 (C266A) in complex with Lys48 linked di-ubiquitin...

New page

'''Unreleased structure'''

The entry 6z7v is ON HOLD

Authors: Abdul Rehman, S.A., Kulathu, Y.

Description: Crystal structure of Mindy2 (C266A) in complex with Lys48 linked di-ubiquitin
[[Category: Unreleased Structures]]
[[Category: Abdul Rehman, S.A]]
[[Category: Kulathu, Y]]