5e7s - Revision history

OCA at 06:16, 5 July 2023

OCA — Wed, 05 Jul 2023 06:16:01 GMT

←Older revision		Revision as of 06:16, 5 July 2023
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	==Hexameric structure of a LonA protease domain in active state==		==Hexameric structure of a LonA protease domain in active state==
-	<StructureSection load='5e7s' size='340' side='right' caption='[[5e7s]], [[Resolution\|resolution]] 3.03Å' scene=''>	+	<StructureSection load='5e7s' size='340' side='right'caption='[[5e7s]], [[Resolution\|resolution]] 3.03Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5e7s]] is a 12 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_baa-399 Atcc baa-399~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E7S OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5E7S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5e7s]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Meiothermus_taiwanensis Meiothermus taiwanensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E7S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5E7S FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>lonA1, lon ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id~~=172827 ATCC BAA-399])</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]] 3.03Å</td></tr>
-	~~<tr id='activity'><td class~~="~~sblockLbl~~">~~<b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>~~[~~http://en.wikipedia.org/wiki/Endopeptidase_La Endopeptidase La~~]~~, with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=~~3.~~4.21.53 3.4.21.53] </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=5e7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e7s OCA], [https://pdbe.org/5e7s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5e7s RCSB], [https://www.ebi.ac.uk/pdbsum/5e7s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5e7s 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=5e7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e7s OCA], [~~http~~://pdbe.org/5e7s PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5e7s RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5e7s PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5e7s ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/A0A059VAZ3_9DEIN A0A059VAZ3_9DEIN]] ATP-dependent serine protease that mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Required for cellular homeostasis and for survival from DNA damage and developmental changes induced by stress. Degrades polypeptides processively to yield small peptide fragments that are 5 to 10 amino acids long. Binds to DNA in a double-stranded, site-specific manner.[HAMAP-Rule:MF_01973]	+	[https://www.uniprot.org/uniprot/A0A059VAZ3_9DEIN A0A059VAZ3_9DEIN] ATP-dependent serine protease that mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Required for cellular homeostasis and for survival from DNA damage and developmental changes induced by stress. Degrades polypeptides processively to yield small peptide fragments that are 5 to 10 amino acids long. Binds to DNA in a double-stranded, site-specific manner.[HAMAP-Rule:MF_01973]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc baa-399~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Endopeptidase La~~]]	+	[[Category: Meiothermus taiwanensis]]
-	[[Category: Chang, C I]]	+	[[Category: Chang C-I]]
-	[[Category: Lin, C C]]	+	[[Category: Lin C-C]]
-	[[Category: Su, S C]]	+	[[Category: Su S-C]]
-	~~[[Category: Aaa+ domain]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Lon protease]]~~	+
-	~~[[Category: Protease domain~~]]	+

OCA at 13:14, 16 November 2017

OCA — Thu, 16 Nov 2017 13:14:27 GMT

←Older revision		Revision as of 13:14, 16 November 2017
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	<StructureSection load='5e7s' size='340' side='right' caption='[[5e7s]], [[Resolution\|resolution]] 3.03Å' scene=''>		<StructureSection load='5e7s' size='340' side='right' caption='[[5e7s]], [[Resolution\|resolution]] 3.03Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5e7s]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E7S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5E7S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5e7s]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_baa-399 Atcc baa-399]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E7S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5E7S FirstGlance]. <br>
-	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endopeptidase_La Endopeptidase La], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.53 3.4.21.53] </span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">lonA1, lon ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=172827 ATCC BAA-399])</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=5e7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e7s OCA], [http://pdbe.org/5e7s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5e7s RCSB], [http://www.ebi.ac.uk/pdbsum/5e7s PDBsum]</span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endopeptidase_La Endopeptidase La], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.53 3.4.21.53] </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=5e7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e7s OCA], [http://pdbe.org/5e7s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5e7s RCSB], [http://www.ebi.ac.uk/pdbsum/5e7s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5e7s ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc baa-399]]
	[[Category: Endopeptidase La]]		[[Category: Endopeptidase La]]
	[[Category: Chang, C I]]		[[Category: Chang, C I]]

OCA at 18:06, 10 May 2016

OCA — Tue, 10 May 2016 18:06:48 GMT

←Older revision		Revision as of 18:06, 10 May 2016
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-	'''Unreleased structure'''

-	~~The entry~~ 5e7s is ~~ON HOLD until Paper~~ Publication	+	==Hexameric structure of a LonA protease domain in active state==
		+	<StructureSection load='5e7s' size='340' side='right' caption='[[5e7s]], [[Resolution\|resolution]] 3.03Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5e7s]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E7S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5E7S FirstGlance]. <br>
		+	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endopeptidase_La Endopeptidase La], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.53 3.4.21.53] </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=5e7s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e7s OCA], [http://pdbe.org/5e7s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5e7s RCSB], [http://www.ebi.ac.uk/pdbsum/5e7s PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/A0A059VAZ3_9DEIN A0A059VAZ3_9DEIN]] ATP-dependent serine protease that mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Required for cellular homeostasis and for survival from DNA damage and developmental changes induced by stress. Degrades polypeptides processively to yield small peptide fragments that are 5 to 10 amino acids long. Binds to DNA in a double-stranded, site-specific manner.[HAMAP-Rule:MF_01973]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The Lon AAA+ protease (LonA) plays important roles in protein homeostasis and regulation of diverse biological processes. LonA behaves as a homomeric hexamer in the presence of magnesium (Mg(2+)) and performs ATP-dependent proteolysis. However, it is also found that LonA can carry out Mg(2+)-dependent degradation of unfolded protein substrate in an ATP-independent manner. Here we show that in the presence of Mg(2+) LonA forms a non-secluded hexameric barrel with prominent openings, which explains why Mg(2+)-activated LonA can operate as a diffusion-based chambered protease to degrade unstructured protein and peptide substrates efficiently in the absence of ATP. A 1.85 A crystal structure of Mg(2+)-activated protease domain reveals Mg(2+)-dependent remodeling of a substrate-binding loop and a potential metal-binding site near the Ser-Lys catalytic dyad, supported by biophysical binding assays and molecular dynamics simulations. Together, these findings reveal the specific roles of Mg(2+) in the molecular assembly and activation of LonA.

-	~~Authors: Lin, C.~~-C., Su, ~~S.-C.~~, Chang, C.-I.	+	Structural Basis for the Magnesium-Dependent Activation and Hexamerization of the Lon AAA+ Protease.,Su SC, Lin CC, Tai HC, Chang MY, Ho MR, Babu CS, Liao JH, Wu SH, Chang YC, Lim C, Chang CI Structure. 2016 May 3;24(5):676-86. doi: 10.1016/j.str.2016.03.003. Epub 2016 Mar, 31. PMID:27041593<ref>PMID:27041593</ref>

-	~~Description: Hexameric structure of~~ a ~~LonA protease domain in active state~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Chang, C.-I]]	+	<div class="pdbe-citations 5e7s" style="background-color:#fffaf0;"></div>
-	[[Category: Su, ~~S.-~~C]]	+	== References ==
-	[[Category: ~~Lin~~, C~~.-C~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Endopeptidase La]]
		+	[[Category: Chang, C I]]
		+	[[Category: Lin, C C]]
		+	[[Category: Su, S C]]
		+	[[Category: Aaa+ domain]]
		+	[[Category: Hydrolase]]
		+	[[Category: Lon protease]]
		+	[[Category: Protease domain]]

OCA at 14:01, 26 February 2016

OCA — Fri, 26 Feb 2016 14:01:32 GMT

←Older revision		Revision as of 14:01, 26 February 2016
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	The entry 5e7s is ON HOLD until Paper Publication		The entry 5e7s is ON HOLD until Paper Publication

-	Authors: Lin, C.-C., Su, S.-C., Chang, C.I.	+	Authors: Lin, C.-C., Su, S.-C., Chang, C.-I.

-	Description: ~~Crystal~~ structure ~~of AAA alpha and protease domains~~ of a ~~Lon~~ protease ~~at 3.0 angstrom resolution~~	+	Description: Hexameric structure of a LonA protease domain in active state
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Chang, C.-I]]
	[[Category: Su, S.-C]]		[[Category: Su, S.-C]]
	[[Category: Lin, C.-C]]		[[Category: Lin, C.-C]]
-	[[Category: Chang, C.I]]

OCA at 22:51, 20 February 2016

OCA — Sat, 20 Feb 2016 22:51:44 GMT

←Older revision		Revision as of 22:51, 20 February 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5e7s is ON HOLD	+	The entry 5e7s is ON HOLD until Paper Publication

	Authors: Lin, C.-C., Su, S.-C., Chang, C.I.		Authors: Lin, C.-C., Su, S.-C., Chang, C.I.

OCA at 22:47, 27 January 2016

OCA — Wed, 27 Jan 2016 22:47:36 GMT

←Older revision		Revision as of 22:47, 27 January 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5e7s is ON HOLD ~~until Paper Publication~~	+	The entry 5e7s is ON HOLD

	Authors: Lin, C.-C., Su, S.-C., Chang, C.I.		Authors: Lin, C.-C., Su, S.-C., Chang, C.I.

OCA at 02:30, 1 December 2015

OCA — Tue, 01 Dec 2015 02:30:03 GMT

←Older revision		Revision as of 02:30, 1 December 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5e7s is ON HOLD	+	The entry 5e7s is ON HOLD until Paper Publication

	Authors: Lin, C.-C., Su, S.-C., Chang, C.I.		Authors: Lin, C.-C., Su, S.-C., Chang, C.I.

-	Description: Crystal structure of AAA alpha and protease domains of a Lon protease ~~with the magnesium~~	+	Description: Crystal structure of AAA alpha and protease domains of a Lon protease at 3.0 angstrom resolution
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Su, S.-C]]		[[Category: Su, S.-C]]
	[[Category: Lin, C.-C]]		[[Category: Lin, C.-C]]
	[[Category: Chang, C.I]]		[[Category: Chang, C.I]]

OCA: Protected "5e7s" [edit=sysop:move=sysop]

OCA — Thu, 22 Oct 2015 04:28:41 GMT

Protected "5e7s" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:28, 22 October 2015

OCA: New page: '''Unreleased structure''' The entry 5e7s is ON HOLD Authors: Lin, C.-C., Su, S.-C., Chang, C.I. Description: Crystal structure of AAA alpha and protease domains of a Lon protease with...

OCA — Thu, 22 Oct 2015 04:28:40 GMT

New page: '''Unreleased structure''' The entry 5e7s is ON HOLD Authors: Lin, C.-C., Su, S.-C., Chang, C.I. Description: Crystal structure of AAA alpha and protease domains of a Lon protease with...

New page

'''Unreleased structure'''

The entry 5e7s is ON HOLD

Authors: Lin, C.-C., Su, S.-C., Chang, C.I.

Description: Crystal structure of AAA alpha and protease domains of a Lon protease with the magnesium
[[Category: Unreleased Structures]]
[[Category: Su, S.-C]]
[[Category: Lin, C.-C]]
[[Category: Chang, C.I]]