OCA at 12:30, 24 January 2024

OCA — Wed, 24 Jan 2024 12:30:53 GMT

←Older revision		Revision as of 12:30, 24 January 2024
Line 1:		Line 1:

	==Crystal structure of CobB Ac2 (A76G,I131C,V162A) in complex with H4K16Cr-2'OH-ADPr peptide intermediate after soaking==		==Crystal structure of CobB Ac2 (A76G,I131C,V162A) in complex with H4K16Cr-2'OH-ADPr peptide intermediate after soaking==
-	<StructureSection load='6rxq' size='340' side='right'caption='[[6rxq]]' scene=''>	+	<StructureSection load='6rxq' size='340' side='right'caption='[[6rxq]], [[Resolution\|resolution]] 1.70Å' 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=6RXQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6RXQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6rxq]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12] and [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6RXQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6RXQ 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=6rxq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6rxq OCA], [~~http~~://pdbe.org/6rxq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6rxq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6rxq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6rxq 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]] 1.7Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=KMQ:[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]+[(2~{R},3~{R},4~{R},5~{S})-4-[(~{E})-but-2-enoxy]-3,5-bis(oxidanyl)oxolan-2-yl]methyl+hydrogen+phosphate'>KMQ</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=6rxq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6rxq OCA], [https://pdbe.org/6rxq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6rxq RCSB], [https://www.ebi.ac.uk/pdbsum/6rxq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6rxq ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/NPD_ECOLI NPD_ECOLI] NAD-dependent lysine deacetylase and desuccinylase that specifically removes acetyl and succinyl groups on target proteins. Modulates the activities of several proteins which are inactive in their acylated form. Activates the enzyme acetyl-CoA synthetase by deacetylating 'Lys-609' in the inactive, acetylated form of the enzyme. May also modulate the activity of other propionyl-adenosine monophosphate (AMP)-forming enzymes.<ref>PMID:10811920</ref> <ref>PMID:24176774</ref> <ref>PMID:15019790</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Lysine acylations, a family of diverse protein modifications varying in acyl group length, charge and saturation, are linked to many important physiological processes. Only a small set of substrate-promiscuous lysine acetyltransferases and deacetylases (KDACs) install and remove this vast variety of modifications. Engineered KDACs that remove only one type of acylation would help to dissect the different contributions of distinct acylations to cell physiology. Therefore, we developed a bacterial selection system for the directed evolution of KDACs with which we identified variants up to 400 times more selective for butyryl- compared to crotonyl-lysine. Structural analyses revealed that the enzyme adopts different conformational states depending on the type of acylation of the bound peptide. We used the butyryl-selective KDAC variant to shift the cellular acylation spectrum towards increased lysine crotonylation. Hence, these new enzymes will help dissecting the different roles of lysine acylations in cell physiology.
		+
		+	Evolved, Selective Erasers of Distinct Lysine Acylations.,Spinck M, Neumann-Staubitz P, Ecke M, Gasper R, Neumann H Angew Chem Int Ed Engl. 2020 Mar 18. doi: 10.1002/anie.202002899. PMID:32187803<ref>PMID:32187803</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6rxq" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Saccharomyces cerevisiae S288C]]
	[[Category: Gasper R]]		[[Category: Gasper R]]
	[[Category: Neumann H]]		[[Category: Neumann H]]
	[[Category: Spinck M]]		[[Category: Spinck M]]

OCA at 06:58, 15 April 2020

OCA — Wed, 15 Apr 2020 06:58:16 GMT

←Older revision		Revision as of 06:58, 15 April 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 6rxq is ON HOLD~~	+	==Crystal structure of CobB Ac2 (A76G,I131C,V162A) in complex with H4K16Cr-2'OH-ADPr peptide intermediate after soaking==
-		+	<StructureSection load='6rxq' size='340' side='right'caption='[[6rxq]]' scene=''>
-	~~Authors: Spinck, M., Gasper, R., Neumann, H.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6RXQ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6RXQ FirstGlance]. <br>
-	~~Description:~~ Crystal structure of CobB Ac2 (A76G,I131C,V162A) in complex with H4K16Cr-2'OH-ADPr peptide intermediate after soaking	+	</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=6rxq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6rxq OCA], [http://pdbe.org/6rxq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6rxq RCSB], [http://www.ebi.ac.uk/pdbsum/6rxq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6rxq ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: Gasper, R]]	+	__TOC__
-	[[Category: Neumann, H]]	+	</StructureSection>
-	[[Category: Spinck, M]]	+	[[Category: Large Structures]]
		+	[[Category: Gasper R]]
		+	[[Category: Neumann H]]
		+	[[Category: Spinck M]]

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

OCA — Wed, 19 Jun 2019 04:30:16 GMT

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

←Older revision

Revision as of 04:30, 19 June 2019

OCA: New page: '''Unreleased structure''' The entry 6rxq is ON HOLD Authors: Spinck, M., Gasper, R., Neumann, H. Description: Crystal structure of CobB Ac2 (A76G,I131C,V162A) in complex with H4K16Cr-...

OCA — Wed, 19 Jun 2019 04:30:15 GMT

New page: '''Unreleased structure''' The entry 6rxq is ON HOLD Authors: Spinck, M., Gasper, R., Neumann, H. Description: Crystal structure of CobB Ac2 (A76G,I131C,V162A) in complex with H4K16Cr-...

New page

'''Unreleased structure'''

The entry 6rxq is ON HOLD

Authors: Spinck, M., Gasper, R., Neumann, H.

Description: Crystal structure of CobB Ac2 (A76G,I131C,V162A) in complex with H4K16Cr-2'OH-ADPr peptide intermediate after soaking
[[Category: Unreleased Structures]]
[[Category: Gasper, R]]
[[Category: Neumann, H]]
[[Category: Spinck, M]]

6rxq - Revision history

OCA at 12:30, 24 January 2024

OCA at 06:58, 15 April 2020

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

OCA: New page: '''Unreleased structure''' The entry 6rxq is ON HOLD Authors: Spinck, M., Gasper, R., Neumann, H. Description: Crystal structure of CobB Ac2 (A76G,I131C,V162A) in complex with H4K16Cr-...