5g5r - Revision history

OCA at 13:39, 26 July 2023

OCA — Wed, 26 Jul 2023 13:39:47 GMT

←Older revision		Revision as of 13:39, 26 July 2023
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	<StructureSection load='5g5r' size='340' side='right'caption='[[5g5r]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='5g5r' size='340' side='right'caption='[[5g5r]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5g5r]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5G5R OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5G5R FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5g5r]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus] and [https://en.wikipedia.org/wiki/Lama_glama Lama glama]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5G5R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5G5R FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.4Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[http://en.wikipedia.org/wiki/S2P_endopeptidase S2P endopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.85 3.4.24.85]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5g5r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5g5r OCA], [~~http~~://pdbe.org/5g5r PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5g5r RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5g5r PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5g5r 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=5g5r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5g5r OCA], [https://pdbe.org/5g5r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5g5r RCSB], [https://www.ebi.ac.uk/pdbsum/5g5r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5g5r ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/O29915_ARCFU O29915_ARCFU]
	<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: Archaeoglobus fulgidus]]
		+	[[Category: Lama glama]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: S2P endopeptidase]]~~	+	[[Category: Baumann U]]
-	[[Category: Baumann, U]]	+	[[Category: Schacherl M]]
-	[[Category: Schacherl, M]]	+
-	~~[[Category: Camelid antibody]]~~	+
-	~~[[Category: Cbs domain]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Metalloprotease]]~~	+
-	~~[[Category: Nanobody]]~~	+
-	~~[[Category: Nucleotide-binding]]~~	+
-	~~[[Category: Regulatory domain]]~~	+
-	~~[[Category: Site-2 protease~~]]	+

OCA at 06:40, 13 May 2020

OCA — Wed, 13 May 2020 06:40:13 GMT

←Older revision		Revision as of 06:40, 13 May 2020
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	==CBS domain tandem of site-2 protease from Archaeoglobus fulgidus in complex with llama Nanobody - apo form==		==CBS domain tandem of site-2 protease from Archaeoglobus fulgidus in complex with llama Nanobody - apo form==
-	<StructureSection load='5g5r' size='340' side='right' caption='[[5g5r]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='5g5r' size='340' side='right'caption='[[5g5r]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5g5r]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5G5R OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5G5R FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5g5r]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5G5R OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5G5R FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/S2P_endopeptidase S2P endopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.85 3.4.24.85] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/S2P_endopeptidase S2P endopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.85 3.4.24.85] </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=5g5r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5g5r OCA], [http://pdbe.org/5g5r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5g5r RCSB], [http://www.ebi.ac.uk/pdbsum/5g5r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5g5r ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5g5r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5g5r OCA], [http://pdbe.org/5g5r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5g5r RCSB], [http://www.ebi.ac.uk/pdbsum/5g5r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5g5r ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: S2P endopeptidase]]		[[Category: S2P endopeptidase]]
	[[Category: Baumann, U]]		[[Category: Baumann, U]]

OCA at 13:39, 24 May 2017

OCA — Wed, 24 May 2017 13:39:47 GMT

←Older revision		Revision as of 13:39, 24 May 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5g5r is ~~ON HOLD until Paper~~ Publication	+	==CBS domain tandem of site-2 protease from Archaeoglobus fulgidus in complex with llama Nanobody - apo form==
		+	<StructureSection load='5g5r' size='340' side='right' caption='[[5g5r]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5g5r]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5G5R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5G5R FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/S2P_endopeptidase S2P endopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.85 3.4.24.85] </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=5g5r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5g5r OCA], [http://pdbe.org/5g5r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5g5r RCSB], [http://www.ebi.ac.uk/pdbsum/5g5r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5g5r ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Regulated intramembrane proteolysis by members of the site-2 protease family (S2P) is an essential signal transduction mechanism conserved from bacteria to humans. There is some evidence that extra-membranous domains, like PDZ and CBS domains, regulate the proteolytic activity of S2Ps and that some members act as dimers. Here we report the crystal structure of the regulatory CBS domain pair of S2P from Archaeoglobus fulgidus, AfS2P, in the apo and nucleotide-bound form in complex with a specific Nanobody from llama. Cross-linking and SEC-MALS analyses show for the first time the dimeric architecture of AfS2P both in the membrane and in detergent micelles. The CBS domain pair dimer (CBS module) displays an unusual head-to-tail configuration and nucleotide binding triggers no major conformational changes in the magnesium-free state. In solution, MgATP drives monomerization of the CBS module. We propose a model of the so far unknown architecture of the transmembrane domain dimer and for a regulatory mechanism of AfS2P that involves the interaction of positively charged arginine residues located at the cytoplasmic face of the transmembrane domain with the negatively charged phosphate groups of ATP moieties bound to the CBS domain pairs. Binding of MgATP could promote opening of the CBS module to allow lateral access of the globular cytoplasmic part of the substrate.

-	~~Authors:~~ Schacherl, M., ~~Baumann~~, U.	+	Crystallographic and biochemical characterization of the dimeric architecture of site-2 protease.,Schacherl M, Gompert M, Pardon E, Lamkemeyer T, Steyaert J, Baumann U Biochim Biophys Acta. 2017 May 11. pii: S0005-2736(17)30159-1. doi:, 10.1016/j.bbamem.2017.05.006. PMID:28502790<ref>PMID:28502790</ref>

-	~~Description: CBS domain tandem~~ of ~~site~~-~~2 protease from Archaeoglobus fulgidus in complex with llama Nanobody~~ -~~apo form~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5g5r" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: S2P endopeptidase]]
	[[Category: Baumann, U]]		[[Category: Baumann, U]]
	[[Category: Schacherl, M]]		[[Category: Schacherl, M]]
		+	[[Category: Camelid antibody]]
		+	[[Category: Cbs domain]]
		+	[[Category: Hydrolase]]
		+	[[Category: Metalloprotease]]
		+	[[Category: Nanobody]]
		+	[[Category: Nucleotide-binding]]
		+	[[Category: Regulatory domain]]
		+	[[Category: Site-2 protease]]

OCA: Protected "5g5r" [edit=sysop:move=sysop]

OCA — Mon, 20 Jun 2016 11:07:10 GMT

Protected "5g5r" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:07, 20 June 2016

OCA: New page: '''Unreleased structure''' The entry 5g5r is ON HOLD until Paper Publication Authors: Schacherl, M., Baumann, U. Description: CBS domain tandem of site-2 protease from Archaeoglobus fu...

OCA — Mon, 20 Jun 2016 11:07:09 GMT

New page: '''Unreleased structure''' The entry 5g5r is ON HOLD until Paper Publication Authors: Schacherl, M., Baumann, U. Description: CBS domain tandem of site-2 protease from Archaeoglobus fu...

New page

'''Unreleased structure'''

The entry 5g5r is ON HOLD until Paper Publication

Authors: Schacherl, M., Baumann, U.

Description: CBS domain tandem of site-2 protease from Archaeoglobus fulgidus in complex with llama Nanobody -apo form
[[Category: Unreleased Structures]]
[[Category: Baumann, U]]
[[Category: Schacherl, M]]