5b6l - Revision history

OCA at 16:02, 8 November 2023

2023-11-08T16:02:02Z

←Older revision		Revision as of 16:02, 8 November 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5b6l]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_BL21(DE3) Escherichia coli BL21(DE3)] and [https://en.wikipedia.org/wiki/Synechocystis_sp._PCC_6803_substr._Kazusa Synechocystis sp. PCC 6803 substr. Kazusa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B6L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5B6L FirstGlance]. <br>		<table><tr><td colspan='2'>[[5b6l]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_BL21(DE3) Escherichia coli BL21(DE3)] and [https://en.wikipedia.org/wiki/Synechocystis_sp._PCC_6803_substr._Kazusa Synechocystis sp. PCC 6803 substr. Kazusa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B6L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5B6L FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.801Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</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'>[https://proteopedia.org/fgij/fg.htm?mol=5b6l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b6l OCA], [https://pdbe.org/5b6l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5b6l RCSB], [https://www.ebi.ac.uk/pdbsum/5b6l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5b6l 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=5b6l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b6l OCA], [https://pdbe.org/5b6l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5b6l RCSB], [https://www.ebi.ac.uk/pdbsum/5b6l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5b6l ProSAT]</span></td></tr>
	</table>		</table>

OCA at 06:40, 31 May 2023

2023-05-31T06:40:23Z

←Older revision		Revision as of 06:40, 31 May 2023
Line 3:		Line 3:
	<StructureSection load='5b6l' size='340' side='right'caption='[[5b6l]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='5b6l' size='340' side='right'caption='[[5b6l]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5b6l]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Escherichia_coli_bl21~~(~~de3~~) Escherichia coli ~~bl21~~(~~de3~~)] and [~~http~~://en.wikipedia.org/wiki/~~Syny3 Syny3~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B6L OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5B6L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5b6l]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_BL21(DE3) Escherichia coli BL21(DE3)] and [https://en.wikipedia.org/wiki/Synechocystis_sp._PCC_6803_substr._Kazusa Synechocystis sp. PCC 6803 substr. Kazusa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B6L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5B6L FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</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=5b6l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b6l OCA], [https://pdbe.org/5b6l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5b6l RCSB], [https://www.ebi.ac.uk/pdbsum/5b6l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5b6l ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hhoA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1111708 SYNY3])~~</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=5b6l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b6l OCA], [~~http~~://pdbe.org/5b6l PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5b6l RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5b6l PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5b6l ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/HHOA_SYNY3 HHOA_SYNY3]] A putative protease, its function overlaps that of the related putative proteases HhoB and HtrA.<ref>PMID:16912048</ref>	+	[https://www.uniprot.org/uniprot/HHOA_SYNY3 HHOA_SYNY3] A putative protease, its function overlaps that of the related putative proteases HhoB and HtrA.<ref>PMID:16912048</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 25:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Syny3~~]]	+	[[Category: Synechocystis sp. PCC 6803 substr. Kazusa]]
-	[[Category: Dong, W]]	+	[[Category: Dong W]]
-	[[Category: Liu, L]]	+	[[Category: Liu L]]
-	[[Category: Wang, J]]	+	[[Category: Wang J]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Serine protease~~]]	+

OCA at 08:47, 11 March 2020

2020-03-11T08:47:20Z

←Older revision		Revision as of 08:47, 11 March 2020
Line 1:		Line 1:

	==Structure of Deg protease HhoA from Synechocystis sp. PCC 6803==		==Structure of Deg protease HhoA from Synechocystis sp. PCC 6803==
-	<StructureSection load='5b6l' size='340' side='right' caption='[[5b6l]], [[Resolution\|resolution]] 2.80Å' scene=''>	+	<StructureSection load='5b6l' size='340' side='right'caption='[[5b6l]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5b6l]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/ ] and [http://en.wikipedia.org/wiki/~~Escherichia_coli_bl21(de3) Escherichia coli bl21(de3)~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B6L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5B6L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5b6l]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli_bl21(de3) Escherichia coli bl21(de3)] and [http://en.wikipedia.org/wiki/Syny3 Syny3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B6L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5B6L FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hhoA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1111708 SYNY3])</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=5b6l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b6l OCA], [http://pdbe.org/5b6l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5b6l RCSB], [http://www.ebi.ac.uk/pdbsum/5b6l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5b6l 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=5b6l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b6l OCA], [http://pdbe.org/5b6l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5b6l RCSB], [http://www.ebi.ac.uk/pdbsum/5b6l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5b6l ProSAT]</span></td></tr>
	</table>		</table>
Line 23:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Syny3]]
	[[Category: Dong, W]]		[[Category: Dong, W]]
	[[Category: Liu, L]]		[[Category: Liu, L]]

OCA at 11:25, 26 October 2016

2016-10-26T11:25:24Z

←Older revision		Revision as of 11:25, 26 October 2016
Line 10:		Line 10:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/HHOA_SYNY3 HHOA_SYNY3]] A putative protease, its function overlaps that of the related putative proteases HhoB and HtrA.<ref>PMID:16912048</ref>		[[http://www.uniprot.org/uniprot/HHOA_SYNY3 HHOA_SYNY3]] A putative protease, its function overlaps that of the related putative proteases HhoB and HtrA.<ref>PMID:16912048</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The high temperature requirement A (HtrA) proteases are oligomeric serine proteases essential for protein quality control. HtrA homolog A (HhoA) from the photosynthetic cyanobacterium Synechocystis sp. PCC 6803 assembles into a proteolytically active hexamer. Herein, we present the crystal structure of the hexameric HhoA in complex with the copurified peptide. Our data indicate the presence of three methionines in close proximity to the peptide-binding site of the PDZ domain. Unexpectedly, we observed that a zinc ion is accommodated within the central channel formed by a HhoA trimer. However, neither calcium nor magnesium showed affinity for HhoA. The role of the zinc ion in HhoA was tested in an in vitro proteolytic assay against the nonspecific substrate beta-casein and was found to be inhibitory. Our findings provide insights into the regulation of HhoA by a redox-related mechanism involving methionine residues and by zinc ion-binding within the central channel.
		+
		+	Crystal structure of the zinc-bound HhoA protease from Synechocystis sp. PCC 6803.,Dong W, Wang J, Niu G, Zhao S, Liu L FEBS Lett. 2016 Oct;590(19):3435-3442. doi: 10.1002/1873-3468.12416. Epub 2016, Sep 23. PMID:27616292<ref>PMID:27616292</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5b6l" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:45, 21 September 2016

2016-09-21T13:45:33Z

←Older revision		Revision as of 13:45, 21 September 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5b6l is ~~ON HOLD~~ ~~until Paper Publication~~	+	==Structure of Deg protease HhoA from Synechocystis sp. PCC 6803==
-		+	<StructureSection load='5b6l' size='340' side='right' caption='[[5b6l]], [[Resolution\|resolution]] 2.80Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5b6l]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/ ] and [http://en.wikipedia.org/wiki/Escherichia_coli_bl21(de3) Escherichia coli bl21(de3)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B6L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5B6L FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</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=5b6l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b6l OCA], [http://pdbe.org/5b6l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5b6l RCSB], [http://www.ebi.ac.uk/pdbsum/5b6l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5b6l ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/HHOA_SYNY3 HHOA_SYNY3]] A putative protease, its function overlaps that of the related putative proteases HhoB and HtrA.<ref>PMID:16912048</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Dong, W]]
		+	[[Category: Liu, L]]
		+	[[Category: Wang, J]]
		+	[[Category: Hydrolase]]
		+	[[Category: Serine protease]]

OCA: Protected "5b6l" [edit=sysop:move=sysop]

2016-06-20T09:04:06Z

Protected "5b6l" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:04, 20 June 2016

OCA: New page: '''Unreleased structure''' The entry 5b6l is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

2016-06-20T09:04:05Z

New page: '''Unreleased structure''' The entry 5b6l is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5b6l is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]