5i7z - Revision history

OCA at 12:33, 6 March 2024

OCA — Wed, 06 Mar 2024 12:33:51 GMT

←Older revision		Revision as of 12:33, 6 March 2024
Line 10:		Line 10:
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/O97111_DROME O97111_DROME]		[https://www.uniprot.org/uniprot/O97111_DROME O97111_DROME]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Par-6 is a scaffold protein that organizes other proteins into a complex required to initiate and maintain cell polarity. Cdc42-GTP binds the CRIB module of Par-6 and alters the binding affinity of the adjoining PDZ domain. Allosteric regulation of the Par-6 PDZ domain was first demonstrated using a peptide identified in a screen of typical carboxyl-terminal ligands. Crumbs, a membrane protein that localizes a conserved polarity complex, was subsequently identified as a functional partner for Par-6 that likely interacts with the PDZ domain. Here we show by nuclear magnetic resonance that Par-6 binds a Crumbs carboxyl-terminal peptide and report the crystal structure of the PDZ-peptide complex. The Crumbs peptide binds Par-6 more tightly than the previously studied carboxyl peptide ligand and interacts with the CRIB-PDZ module in a Cdc42-dependent manner. The Crumbs:Par-6 crystal structure reveals specific PDZ-peptide contacts that contribute to its higher affinity and Cdc42-enhanced binding. Comparisons with existing structures suggest that multiple C-terminal Par-6 ligands respond to a common conformational switch that transmits the allosteric effects of GTPase binding.
-
-	Binding of Crumbs to the Par-6 CRIB-PDZ Module Is Regulated by Cdc42.,Whitney DS, Peterson FC, Kittell AW, Egner JM, Prehoda KE, Volkman BF Biochemistry. 2016 Mar 15;55(10):1455-61. doi: 10.1021/acs.biochem.5b01342. Epub , 2016 Mar 3. PMID:26894406<ref>PMID:26894406</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5i7z" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 08:26, 23 August 2023

OCA — Wed, 23 Aug 2023 08:26:13 GMT

←Older revision		Revision as of 08:26, 23 August 2023
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	<StructureSection load='5i7z' size='340' side='right'caption='[[5i7z]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='5i7z' size='340' side='right'caption='[[5i7z]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5i7z]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Drome Drome~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I7Z OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5I7Z FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5i7z]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I7Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5I7Z FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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]] 1.801Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~par-6, CG5884, Dmel_CG5884 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=7227 DROME]~~)</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=5i7z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i7z OCA], [~~http~~://pdbe.org/5i7z PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5i7z RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5i7z PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5i7z 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=5i7z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i7z OCA], [https://pdbe.org/5i7z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5i7z RCSB], [https://www.ebi.ac.uk/pdbsum/5i7z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5i7z ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/O97111_DROME O97111_DROME]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Drome~~]]	+	[[Category: Drosophila melanogaster]]
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Peterson~~, F C~~]]	+	[[Category: Peterson FC]]
-	[[Category: Prehoda~~, K E~~]]	+	[[Category: Prehoda KE]]
-	[[Category: Volkman~~, B F~~]]	+	[[Category: Volkman BF]]
-	[[Category: Whitney~~, D S]]~~	+	[[Category: Whitney DS]]
-	~~[[Category: Cell polarity]]~~	+
-	~~[[Category: Pdz]]~~	+
-	~~[[Category: Signaling protein~~]]	+

OCA at 16:16, 11 December 2019

OCA — Wed, 11 Dec 2019 16:16:16 GMT

←Older revision		Revision as of 16:16, 11 December 2019
Line 1:		Line 1:

	==Crystal structure of a Par-6 PDZ-Crumbs 3 C-terminal peptide complex==		==Crystal structure of a Par-6 PDZ-Crumbs 3 C-terminal peptide complex==
-	<StructureSection load='5i7z' size='340' side='right' caption='[[5i7z]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='5i7z' size='340' side='right'caption='[[5i7z]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5i7z]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I7Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I7Z FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5i7z]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Drome Drome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I7Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I7Z FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">par-6, CG5884, Dmel_CG5884 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 DROME])</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=5i7z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i7z OCA], [http://pdbe.org/5i7z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i7z RCSB], [http://www.ebi.ac.uk/pdbsum/5i7z PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i7z ProSAT]</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=5i7z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i7z OCA], [http://pdbe.org/5i7z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i7z RCSB], [http://www.ebi.ac.uk/pdbsum/5i7z PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i7z ProSAT]</span></td></tr>
	</table>		</table>
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Drome]]
		+	[[Category: Large Structures]]
	[[Category: Peterson, F C]]		[[Category: Peterson, F C]]
	[[Category: Prehoda, K E]]		[[Category: Prehoda, K E]]

OCA at 10:04, 27 September 2017

OCA — Wed, 27 Sep 2017 10:04:09 GMT

←Older revision		Revision as of 10:04, 27 September 2017
Line 5:		Line 5:
	<table><tr><td colspan='2'>[[5i7z]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I7Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I7Z FirstGlance]. <br>		<table><tr><td colspan='2'>[[5i7z]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I7Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I7Z FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=5i7z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i7z OCA], [http://pdbe.org/5i7z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i7z RCSB], [http://www.ebi.ac.uk/pdbsum/5i7z PDBsum]</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=5i7z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i7z OCA], [http://pdbe.org/5i7z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i7z RCSB], [http://www.ebi.ac.uk/pdbsum/5i7z PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5i7z ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 18:13, 10 May 2016

OCA — Tue, 10 May 2016 18:13:31 GMT

←Older revision		Revision as of 18:13, 10 May 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5i7z is ~~ON HOLD~~	+	==Crystal structure of a Par-6 PDZ-Crumbs 3 C-terminal peptide complex==
		+	<StructureSection load='5i7z' size='340' side='right' caption='[[5i7z]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5i7z]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5I7Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5I7Z FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=5i7z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5i7z OCA], [http://pdbe.org/5i7z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5i7z RCSB], [http://www.ebi.ac.uk/pdbsum/5i7z PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Par-6 is a scaffold protein that organizes other proteins into a complex required to initiate and maintain cell polarity. Cdc42-GTP binds the CRIB module of Par-6 and alters the binding affinity of the adjoining PDZ domain. Allosteric regulation of the Par-6 PDZ domain was first demonstrated using a peptide identified in a screen of typical carboxyl-terminal ligands. Crumbs, a membrane protein that localizes a conserved polarity complex, was subsequently identified as a functional partner for Par-6 that likely interacts with the PDZ domain. Here we show by nuclear magnetic resonance that Par-6 binds a Crumbs carboxyl-terminal peptide and report the crystal structure of the PDZ-peptide complex. The Crumbs peptide binds Par-6 more tightly than the previously studied carboxyl peptide ligand and interacts with the CRIB-PDZ module in a Cdc42-dependent manner. The Crumbs:Par-6 crystal structure reveals specific PDZ-peptide contacts that contribute to its higher affinity and Cdc42-enhanced binding. Comparisons with existing structures suggest that multiple C-terminal Par-6 ligands respond to a common conformational switch that transmits the allosteric effects of GTPase binding.

-	~~Authors: Whitney, D.S~~., Peterson, ~~F.C.~~, Prehoda, K.E.~~, Volkman, B~~.F.	+	Binding of Crumbs to the Par-6 CRIB-PDZ Module Is Regulated by Cdc42.,Whitney DS, Peterson FC, Kittell AW, Egner JM, Prehoda KE, Volkman BF Biochemistry. 2016 Mar 15;55(10):1455-61. doi: 10.1021/acs.biochem.5b01342. Epub , 2016 Mar 3. PMID:26894406<ref>PMID:26894406</ref>

-	~~Description: Crystal structure of~~ a ~~Par~~-~~6 PDZ~~-~~Crumbs 3 C-terminal peptide complex~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Prehoda, K.E]]	+	<div class="pdbe-citations 5i7z" style="background-color:#fffaf0;"></div>
-	[[Category: Whitney, D.S]]	+	== References ==
-	[[Category: ~~Peterson, F.C~~]]	+	<references/>
-	[[Category: ~~Volkman, B.F~~]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Peterson, F C]]
		+	[[Category: Prehoda, K E]]
		+	[[Category: Volkman, B F]]
		+	[[Category: Whitney, D S]]
		+	[[Category: Cell polarity]]
		+	[[Category: Pdz]]
		+	[[Category: Signaling protein]]

OCA: Protected "5i7z" [edit=sysop:move=sysop]

OCA — Fri, 26 Feb 2016 16:57:26 GMT

Protected "5i7z" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:57, 26 February 2016

OCA: New page: '''Unreleased structure''' The entry 5i7z is ON HOLD Authors: Whitney, D.S., Peterson, F.C., Prehoda, K.E., Volkman, B.F. Description: Crystal structure of a Par-6 PDZ-Crumbs 3 C-termi...

OCA — Fri, 26 Feb 2016 16:57:25 GMT

New page: '''Unreleased structure''' The entry 5i7z is ON HOLD Authors: Whitney, D.S., Peterson, F.C., Prehoda, K.E., Volkman, B.F. Description: Crystal structure of a Par-6 PDZ-Crumbs 3 C-termi...

New page

'''Unreleased structure'''

The entry 5i7z is ON HOLD

Authors: Whitney, D.S., Peterson, F.C., Prehoda, K.E., Volkman, B.F.

Description: Crystal structure of a Par-6 PDZ-Crumbs 3 C-terminal peptide complex
[[Category: Unreleased Structures]]
[[Category: Prehoda, K.E]]
[[Category: Whitney, D.S]]
[[Category: Peterson, F.C]]
[[Category: Volkman, B.F]]