5tth - Revision history

OCA at 13:11, 4 October 2023

2023-10-04T13:11:49Z

←Older revision		Revision as of 13:11, 4 October 2023
Line 3:		Line 3:
	<StructureSection load='5tth' size='340' side='right'caption='[[5tth]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='5tth' size='340' side='right'caption='[[5tth]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5tth]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"micrococcus_scarlatinae"_klein_1884 "micrococcus scarlatinae" klein 1884~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TTH OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5TTH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5tth]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Danio_rerio Danio rerio] and [https://en.wikipedia.org/wiki/Streptococcus_pyogenes Streptococcus pyogenes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TTH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5TTH FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=ADP:ADENOSINE~~-~~5-DIPHOSPHATE'>ADP</scene>~~, ~~<scene name='pdbligand=BEF:BERYLLIUM+TRIFLUORIDE+ION'>BEF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 3.2Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[4j0b\|4j0b]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=BEF:BERYLLIUM+TRIFLUORIDE+ION'>BEF</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">fba2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1314 "Micrococcus scarlatinae" Klein 1884])~~</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=5tth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tth OCA], [https://pdbe.org/5tth PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5tth RCSB], [https://www.ebi.ac.uk/pdbsum/5tth PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5tth 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=5tth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tth OCA], [~~http~~://pdbe.org/5tth PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5tth RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5tth PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5tth ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q8G9G1_STRPY Q8G9G1_STRPY] [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 ==
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Micrococcus scarlatinae klein 1884~~]]	+	[[Category: Danio rerio]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Agard~~, D A~~]]	+	[[Category: Streptococcus pyogenes]]
-	[[Category: Betegon, M]]	+	[[Category: Agard DA]]
-	[[Category: Elnatan, D]]	+	[[Category: Betegon M]]
-	[[Category: Liu, Y]]	+	[[Category: Elnatan D]]
-	~~[[Category: Structural genomic]]~~	+	[[Category: Liu Y]]
-	~~[[Category: Atp]]~~	+
-	~~[[Category: Chaperone]]~~	+
-	~~[[Category: Hsp90]]~~	+
-	~~[[Category: Nesg]]~~	+
-	~~[[Category: PSI, Protein structure initiative]]~~	+
-	~~[[Category: Trap1~~]]	+

OCA at 13:20, 10 May 2019

2019-05-10T13:20:11Z

←Older revision		Revision as of 13:20, 10 May 2019
Line 1:		Line 1:

	==Heterodimeric SpyCatcher/SpyTag-fused zebrafish TRAP1 in ATP/ADP-hybrid state==		==Heterodimeric SpyCatcher/SpyTag-fused zebrafish TRAP1 in ATP/ADP-hybrid state==
-	<StructureSection load='5tth' size='340' side='right' caption='[[5tth]], [[Resolution\|resolution]] 3.20Å' scene=''>	+	<StructureSection load='5tth' size='340' side='right'caption='[[5tth]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5tth]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_scarlatinae"_klein_1884 "micrococcus scarlatinae" klein 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TTH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TTH FirstGlance]. <br>		<table><tr><td colspan='2'>[[5tth]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_scarlatinae"_klein_1884 "micrococcus scarlatinae" klein 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TTH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TTH FirstGlance]. <br>
Line 23:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Micrococcus scarlatinae klein 1884]]		[[Category: Micrococcus scarlatinae klein 1884]]
		+	[[Category: Large Structures]]
	[[Category: Agard, D A]]		[[Category: Agard, D A]]
	[[Category: Betegon, M]]		[[Category: Betegon, M]]

OCA at 19:18, 15 November 2017

2017-11-15T19:18:48Z

←Older revision		Revision as of 19:18, 15 November 2017
Line 3:		Line 3:
	<StructureSection load='5tth' size='340' side='right' caption='[[5tth]], [[Resolution\|resolution]] 3.20Å' scene=''>		<StructureSection load='5tth' size='340' side='right' caption='[[5tth]], [[Resolution\|resolution]] 3.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5tth]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TTH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TTH FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5tth]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_scarlatinae"_klein_1884 "micrococcus scarlatinae" klein 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TTH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TTH FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=BEF:BERYLLIUM+TRIFLUORIDE+ION'>BEF</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=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=BEF:BERYLLIUM+TRIFLUORIDE+ION'>BEF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4j0b\|4j0b]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4j0b\|4j0b]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">fba2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1314 "Micrococcus scarlatinae" Klein 1884])</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=5tth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tth OCA], [http://pdbe.org/5tth PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tth RCSB], [http://www.ebi.ac.uk/pdbsum/5tth PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tth 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=5tth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tth OCA], [http://pdbe.org/5tth PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tth RCSB], [http://www.ebi.ac.uk/pdbsum/5tth PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tth ProSAT]</span></td></tr>
	</table>		</table>
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Micrococcus scarlatinae klein 1884]]
	[[Category: Agard, D A]]		[[Category: Agard, D A]]
	[[Category: Betegon, M]]		[[Category: Betegon, M]]

OCA at 11:12, 24 August 2017

2017-08-24T11:12:25Z

←Older revision		Revision as of 11:12, 24 August 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5tth is ~~ON HOLD until Paper~~ Publication	+	==Heterodimeric SpyCatcher/SpyTag-fused zebrafish TRAP1 in ATP/ADP-hybrid state==
		+	<StructureSection load='5tth' size='340' side='right' caption='[[5tth]], [[Resolution\|resolution]] 3.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5tth]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TTH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TTH FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=BEF:BERYLLIUM+TRIFLUORIDE+ION'>BEF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4j0b\|4j0b]]</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=5tth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tth OCA], [http://pdbe.org/5tth PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tth RCSB], [http://www.ebi.ac.uk/pdbsum/5tth PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tth ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Hsp90 is a homodimeric ATP-dependent molecular chaperone that remodels its substrate 'client' proteins, facilitating their folding and activating them for biological function. Despite decades of research, the mechanism connecting ATP hydrolysis and chaperone function remains elusive. Particularly puzzling has been the apparent lack of cooperativity in hydrolysis of the ATP in each protomer. A crystal structure of the mitochondrial Hsp90, TRAP1, revealed that the catalytically active state is closed in a highly strained asymmetric conformation. This asymmetry, unobserved in other Hsp90 homologs, is due to buckling of one of the protomers and is most pronounced at the broadly conserved client-binding region. Here, we show that rather than being cooperative or independent, ATP hydrolysis on the two protomers is sequential and deterministic. Moreover, dimer asymmetry sets up differential hydrolysis rates for each protomer, such that the buckled conformation favors ATP hydrolysis. Remarkably, after the first hydrolysis, the dimer undergoes a flip in the asymmetry while remaining in a closed state for the second hydrolysis. From these results, we propose a model where direct coupling of ATP hydrolysis and conformational flipping rearranges client-binding sites, providing a paradigm of how energy from ATP hydrolysis can be used for client remodeling.

-	~~Authors~~:	+	Symmetry broken and rebroken during the ATP hydrolysis cycle of the mitochondrial Hsp90 TRAP1.,Elnatan D, Betegon M, Liu Y, Ramelot T, Kennedy MA, Agard DA Elife. 2017 Jul 25;6. pii: e25235. doi: 10.7554/eLife.25235. PMID:28742020<ref>PMID:28742020</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5tth" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Agard, D A]]
		+	[[Category: Betegon, M]]
		+	[[Category: Elnatan, D]]
		+	[[Category: Liu, Y]]
		+	[[Category: Structural genomic]]
		+	[[Category: Atp]]
		+	[[Category: Chaperone]]
		+	[[Category: Hsp90]]
		+	[[Category: Nesg]]
		+	[[Category: PSI, Protein structure initiative]]
		+	[[Category: Trap1]]

OCA at 14:06, 18 January 2017

2017-01-18T14:06:29Z

←Older revision		Revision as of 14:06, 18 January 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5tth is ON HOLD	+	The entry 5tth is ON HOLD until Paper Publication

	Authors:		Authors:

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

2016-12-09T17:51:26Z

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

←Older revision

Revision as of 17:51, 9 December 2016

OCA: New page: '''Unreleased structure''' The entry 5tth is ON HOLD Authors: Description: Category: Unreleased Structures

2016-12-09T17:51:25Z

New page: '''Unreleased structure''' The entry 5tth is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5tth is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]