4ipe - Revision history

OCA at 21:02, 16 November 2022

OCA — Wed, 16 Nov 2022 21:02:11 GMT

←Older revision		Revision as of 21:02, 16 November 2022
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	==Crystal structure of mitochondrial Hsp90 (TRAP1) with AMPPNP==		==Crystal structure of mitochondrial Hsp90 (TRAP1) with AMPPNP==
-	<StructureSection load='4ipe' size='340' side='right' caption='[[4ipe]], [[Resolution\|resolution]] 2.29Å' scene=''>	+	<StructureSection load='4ipe' size='340' side='right'caption='[[4ipe]], [[Resolution\|resolution]] 2.29Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ipe]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Brachidanio_rerio Brachidanio~~ rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IPE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4IPE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ipe]] is a 2 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=4IPE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4IPE FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trap1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7955 Brachidanio rerio])~~</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=4ipe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ipe OCA], [https://pdbe.org/4ipe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ipe RCSB], [https://www.ebi.ac.uk/pdbsum/4ipe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ipe 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=4ipe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ipe OCA], [~~http~~://pdbe.org/4ipe PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4ipe RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4ipe PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4ipe ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A8WFV1_DANRE A8WFV1_DANRE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Brachidanio~~ rerio]]	+	[[Category: Danio rerio]]
-	[[Category: ~~Agard, D A~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Lavery, L A~~]]	+	[[Category: Agard DA]]
-	[[Category: ~~Partridge, J R~~]]	+	[[Category: Lavery LA]]
-	[[Category: ~~Atp binding]]~~	+	[[Category: Partridge JR]]
-	~~[[Category: Atpase]]~~	+
-	~~[[Category: Chaperone]]~~	+
-	~~[[Category: Mitochondria~~]]	+

OCA at 08:14, 11 August 2016

OCA — Thu, 11 Aug 2016 08:14:59 GMT

←Older revision		Revision as of 08:14, 11 August 2016
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		+
	==Crystal structure of mitochondrial Hsp90 (TRAP1) with AMPPNP==		==Crystal structure of mitochondrial Hsp90 (TRAP1) with AMPPNP==
	<StructureSection load='4ipe' size='340' side='right' caption='[[4ipe]], [[Resolution\|resolution]] 2.29Å' scene=''>		<StructureSection load='4ipe' size='340' side='right' caption='[[4ipe]], [[Resolution\|resolution]] 2.29Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trap1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7955 Brachidanio rerio])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trap1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7955 Brachidanio rerio])</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=4ipe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ipe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ipe RCSB], [http://www.ebi.ac.uk/pdbsum/4ipe 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=4ipe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ipe OCA], [http://pdbe.org/4ipe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ipe RCSB], [http://www.ebi.ac.uk/pdbsum/4ipe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ipe ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4ipe" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 14:18, 5 January 2015

OCA — Mon, 05 Jan 2015 14:18:37 GMT

←Older revision		Revision as of 14:18, 5 January 2015
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4ipe]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Brachidanio_rerio Brachidanio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4IPE FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ipe]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Brachidanio_rerio Brachidanio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4IPE FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trap1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7955 Brachidanio rerio])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trap1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7955 Brachidanio rerio])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ipe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ipe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ipe RCSB], [http://www.ebi.ac.uk/pdbsum/4ipe 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=4ipe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ipe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ipe RCSB], [http://www.ebi.ac.uk/pdbsum/4ipe PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 20:
	</StructureSection>		</StructureSection>
	[[Category: Brachidanio rerio]]		[[Category: Brachidanio rerio]]
-	[[Category: Agard, D A.]]	+	[[Category: Agard, D A]]
-	[[Category: Lavery, L A.]]	+	[[Category: Lavery, L A]]
-	[[Category: Partridge, J R.]]	+	[[Category: Partridge, J R]]
	[[Category: Atp binding]]		[[Category: Atp binding]]
	[[Category: Atpase]]		[[Category: Atpase]]
	[[Category: Chaperone]]		[[Category: Chaperone]]
	[[Category: Mitochondria]]		[[Category: Mitochondria]]

OCA at 05:44, 27 August 2014

OCA — Wed, 27 Aug 2014 05:44:38 GMT

←Older revision		Revision as of 05:44, 27 August 2014
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-	~~{{STRUCTURE_4ipe\| PDB=4ipe \| SCENE= }}~~	+	==Crystal structure of mitochondrial Hsp90 (TRAP1) with AMPPNP==
-	===Crystal structure of mitochondrial Hsp90 (TRAP1) with AMPPNP===	+	<StructureSection load='4ipe' size='340' side='right' caption='[[4ipe]], [[Resolution\|resolution]] 2.29Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4ipe]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Brachidanio_rerio Brachidanio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IPE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4IPE FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">trap1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7955 Brachidanio rerio])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ipe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ipe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ipe RCSB], [http://www.ebi.ac.uk/pdbsum/4ipe PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	While structural symmetry is a prevailing feature of homo-oligomeric proteins, asymmetry provides unique mechanistic opportunities. We present the crystal structure of full-length TRAP1, the mitochondrial Hsp90 molecular chaperone, in a catalytically active closed state. The TRAP1 homodimer adopts a distinct, asymmetric conformation, where one protomer is reconfigured via a helix swap at the middle:C-terminal domain (MD:CTD) interface. This interface plays a critical role in client binding. Solution methods validate the asymmetry and show extension to Hsp90 homologs. Point mutations that disrupt unique contacts at each MD:CTD interface reduce catalytic activity and substrate binding and demonstrate that each protomer needs access to both conformations. Crystallographic data on a dimeric NTD:MD fragment suggests that asymmetry arises from strain induced by simultaneous NTD and CTD dimerization. The observed asymmetry provides the potential for an additional step in the ATPase cycle, allowing sequential ATP hydrolysis steps to drive both client remodeling and client release.

-	~~==About this Structure==~~	+	Structural asymmetry in the closed state of mitochondrial Hsp90 (TRAP1) supports a two-step ATP hydrolysis mechanism.,Lavery LA, Partridge JR, Ramelot TA, Elnatan D, Kennedy MA, Agard DA Mol Cell. 2014 Jan 23;53(2):330-43. doi: 10.1016/j.molcel.2013.12.023. PMID:24462206<ref>PMID:24462206</ref>
-	~~[[4ipe]] is~~ a 2 ~~chain structure~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.ac.il/~~oca-bin~~/~~ocashort?id~~=~~4IPE OCA~~].	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Brachidanio rerio]]
	[[Category: Agard, D A.]]		[[Category: Agard, D A.]]
	[[Category: Lavery, L A.]]		[[Category: Lavery, L A.]]

OCA at 07:02, 22 January 2014

OCA — Wed, 22 Jan 2014 07:02:18 GMT

←Older revision		Revision as of 07:02, 22 January 2014
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-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4ipe\| PDB=4ipe \| SCENE= }}
		+	===Crystal structure of mitochondrial Hsp90 (TRAP1) with AMPPNP===

-	~~The entry~~ 4ipe is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
-		+	[[4ipe]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IPE OCA].
-	~~Authors~~: ~~Partridge, J~~.R.~~, Lavery, L~~.A., Agard, D.A.	+	[[Category: Agard, D A.]]
-		+	[[Category: Lavery, L A.]]
-	~~Description~~: ~~Crystal structure of mitochondrial Hsp90 (TRAP1) with AMPPNP~~	+	[[Category: Partridge, J R.]]
		+	[[Category: Atp binding]]
		+	[[Category: Atpase]]
		+	[[Category: Chaperone]]
		+	[[Category: Mitochondria]]

OCA at 13:25, 20 February 2013

OCA — Wed, 20 Feb 2013 13:25:20 GMT

←Older revision		Revision as of 13:25, 20 February 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4ipe is ON HOLD	+	The entry 4ipe is ON HOLD until Paper Publication

	Authors: Partridge, J.R., Lavery, L.A., Agard, D.A.		Authors: Partridge, J.R., Lavery, L.A., Agard, D.A.

	Description: Crystal structure of mitochondrial Hsp90 (TRAP1) with AMPPNP		Description: Crystal structure of mitochondrial Hsp90 (TRAP1) with AMPPNP

OCA: Protected "4ipe" [edit=sysop:move=sysop]

OCA — Wed, 16 Jan 2013 08:28:53 GMT

Protected "4ipe" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:28, 16 January 2013

OCA: New page: '''Unreleased structure''' The entry 4ipe is ON HOLD Authors: Partridge, J.R., Lavery, L.A., Agard, D.A. Description: Crystal structure of mitochondrial Hsp90 (TRAP1) with AMPPNP

OCA — Wed, 16 Jan 2013 08:28:52 GMT

New page: '''Unreleased structure''' The entry 4ipe is ON HOLD Authors: Partridge, J.R., Lavery, L.A., Agard, D.A. Description: Crystal structure of mitochondrial Hsp90 (TRAP1) with AMPPNP

New page

'''Unreleased structure'''

The entry 4ipe is ON HOLD

Authors: Partridge, J.R., Lavery, L.A., Agard, D.A.

Description: Crystal structure of mitochondrial Hsp90 (TRAP1) with AMPPNP