OCA at 18:53, 1 August 2018

OCA — Wed, 01 Aug 2018 18:53:29 GMT

←Older revision		Revision as of 18:53, 1 August 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6f30 is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Crystal structure of ectonucleotide phosphodiesterase/pyrophosphatase-3 (NPP3) in complex with UDPGlcNAc==
		+	<StructureSection load='6f30' size='340' side='right' caption='[[6f30]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6f30]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6F30 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6F30 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=UD1:URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE'>UD1</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=6f30 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6f30 OCA], [http://pdbe.org/6f30 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6f30 RCSB], [http://www.ebi.ac.uk/pdbsum/6f30 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6f30 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ENPP3_RAT ENPP3_RAT]] Hydrolase that metabolizes extracellular nucleotides, including ATP, GTP, UTP and CTP (By similarity). Limits mast cell and basophil responses during inflammation and during the chronic phases of allergic responses by eliminating the extracellular ATP that functions as signaling molecule and activates basophils and mast cells and induces the release of inflammatory cytokines. Metabolizes extracellular ATP in the lumen of the small intestine, and thereby prevents ATP-induced apoptosis of intestinal plasmacytoid dendritic cells (By similarity). Has also alkaline phosphodiesterase activity (PubMed:9096610).[UniProtKB:O14638][UniProtKB:Q6DYE8]<ref>PMID:9096610</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Ectonucleotide phosphodiesterase/pyrophosphatase-3 (NPP3) is a membrane-bound glycoprotein that regulates extracellular levels of nucleotides. NPP3 is known to contribute to the immune response on basophils by hydrolyzing ATP and to regulate the glycosyltransferase activity in Neuro2a cells. Here, we report on crystal structures of the nuclease and phosphodiesterase domains of rat NPP3 in complex with different substrates, products and substrate analogs giving insight into details of the catalytic mechanism. Complex structures with a phosphate ion, the product AMP and the substrate analog AMPNPP provide a consistent picture of the coordination of the substrate in which one zinc ion activates the threonine nucleophile whereas the other zinc ion binds the phosphate group. Co-crystal structures with the dinucleotide substrates Ap4A and UDPGlcNAc reveal a binding pocket for the larger leaving groups of these substrates. The crystal structures as well as mutational and kinetic analysis demonstrate that the larger leaving groups interact only weakly with the enzyme such that the substrate affinity is dominated by the interactions of the first nucleoside group. For this moiety, the nucleobase is stacked between Y290 and F207 and polar interactions with the protein are only formed via water molecules thus explaining the limited nucleobase selectivity.

-	~~Authors~~:	+	Crystal structure and substrate binding mode of ectonucleotide phosphodiesterase/pyrophosphatase-3 (NPP3).,Dohler C, Zebisch M, Strater N Sci Rep. 2018 Jul 18;8(1):10874. doi: 10.1038/s41598-018-28814-y. PMID:30022031<ref>PMID:30022031</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6f30" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Dohler, C]]
		+	[[Category: Strater, N]]
		+	[[Category: Zebisch, M]]
		+	[[Category: Cytosolic protein]]
		+	[[Category: Ectonucleotide phosphodiesterase/pyrophosphatase]]
		+	[[Category: Enzyme]]
		+	[[Category: Hydrolase]]

OCA at 04:45, 4 April 2018

OCA — Wed, 04 Apr 2018 04:45:51 GMT

←Older revision		Revision as of 04:45, 4 April 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6f30 is ON HOLD	+	The entry 6f30 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA at 05:49, 17 January 2018

OCA — Wed, 17 Jan 2018 05:49:45 GMT

←Older revision		Revision as of 05:49, 17 January 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6f30 is ON HOLD ~~until Paper Publication~~	+	The entry 6f30 is ON HOLD

	Authors:		Authors:

OCA: Protected "6f30" [edit=sysop:move=sysop]

OCA — Wed, 06 Dec 2017 06:13:15 GMT

Protected "6f30" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:13, 6 December 2017

OCA: New page: '''Unreleased structure''' The entry 6f30 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 06 Dec 2017 06:13:14 GMT

New page: '''Unreleased structure''' The entry 6f30 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6f30 is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]

6f30 - Revision history

OCA at 18:53, 1 August 2018

OCA at 04:45, 4 April 2018

OCA at 05:49, 17 January 2018

OCA: Protected "6f30" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 6f30 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures