5vgl - Revision history

OCA at 13:48, 4 October 2023

OCA — Wed, 04 Oct 2023 13:48:24 GMT

←Older revision		Revision as of 13:48, 4 October 2023
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	<StructureSection load='5vgl' size='340' side='right'caption='[[5vgl]], [[Resolution\|resolution]] 1.40Å' scene=''>		<StructureSection load='5vgl' size='340' side='right'caption='[[5vgl]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5vgl]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Allce Allce~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VGL OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5VGL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5vgl]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Allium_cepa Allium cepa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VGL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5VGL FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5vgs\|5vgs]]</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]] 1.4Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">LFS ([http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=4679 ALLCE])~~</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=5vgl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vgl OCA], [https://pdbe.org/5vgl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5vgl RCSB], [https://www.ebi.ac.uk/pdbsum/5vgl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5vgl 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=5vgl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vgl OCA], [~~http~~://pdbe.org/5vgl PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5vgl RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5vgl PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5vgl ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/LFS_ALLCE LFS_ALLCE]
	<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: ~~Allce~~]]	+	[[Category: Allium cepa]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Banerjee, S]]	+	[[Category: Banerjee S]]
-	[[Category: Golczak, M]]	+	[[Category: Golczak M]]
-	[[Category: Kiser~~, P D~~]]	+	[[Category: Kiser PD]]
-	[[Category: Pleshinger~~, M J~~]]	+	[[Category: Pleshinger MJ]]
-	[[Category: Silvaroli~~, J A]]~~	+	[[Category: Silvaroli JA]]
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Lachrymatory factor]]~~	+
-	~~[[Category: Onion]]~~	+
-	~~[[Category: Sulfenic acid~~]]	+

OCA at 17:17, 11 December 2019

OCA — Wed, 11 Dec 2019 17:17:40 GMT

←Older revision		Revision as of 17:17, 11 December 2019
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	==Crystal structure of lachrymatory factor synthase from Allium cepa==		==Crystal structure of lachrymatory factor synthase from Allium cepa==
-	<StructureSection load='5vgl' size='340' side='right' caption='[[5vgl]], [[Resolution\|resolution]] 1.40Å' scene=''>	+	<StructureSection load='5vgl' size='340' side='right'caption='[[5vgl]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5vgl]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Allce Allce]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VGL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VGL FirstGlance]. <br>		<table><tr><td colspan='2'>[[5vgl]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Allce Allce]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VGL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VGL FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Allce]]		[[Category: Allce]]
		+	[[Category: Large Structures]]
	[[Category: Banerjee, S]]		[[Category: Banerjee, S]]
	[[Category: Golczak, M]]		[[Category: Golczak, M]]

OCA at 14:41, 6 November 2017

OCA — Mon, 06 Nov 2017 14:41:09 GMT

←Older revision		Revision as of 14:41, 6 November 2017
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	<StructureSection load='5vgl' size='340' side='right' caption='[[5vgl]], [[Resolution\|resolution]] 1.40Å' scene=''>		<StructureSection load='5vgl' size='340' side='right' caption='[[5vgl]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5vgl]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VGL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VGL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5vgl]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Allce Allce]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VGL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VGL FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5vgs\|5vgs]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5vgs\|5vgs]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LFS ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4679 ALLCE])</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=5vgl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vgl OCA], [http://pdbe.org/5vgl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vgl RCSB], [http://www.ebi.ac.uk/pdbsum/5vgl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vgl 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=5vgl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vgl OCA], [http://pdbe.org/5vgl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vgl RCSB], [http://www.ebi.ac.uk/pdbsum/5vgl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vgl ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Allce]]
	[[Category: Banerjee, S]]		[[Category: Banerjee, S]]
	[[Category: Golczak, M]]		[[Category: Golczak, M]]

OCA at 03:52, 4 August 2017

OCA — Fri, 04 Aug 2017 03:52:50 GMT

←Older revision		Revision as of 03:52, 4 August 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5vgl is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of lachrymatory factor synthase from Allium cepa==
		+	<StructureSection load='5vgl' size='340' side='right' caption='[[5vgl]], [[Resolution\|resolution]] 1.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5vgl]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VGL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VGL FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5vgs\|5vgs]]</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=5vgl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vgl OCA], [http://pdbe.org/5vgl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vgl RCSB], [http://www.ebi.ac.uk/pdbsum/5vgl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vgl ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The biochemical pathway that gives onions their savor is part of the chemical warfare against microbes and animals. This defense mechanism involves formation of a volatile lachrymatory factor (LF) ((Z)-propanethial S-oxide) that causes familiar eye irritation associated with onion chopping. LF is produced in a reaction catalyzed by lachrymatory factor synthase (LFS). The principles by which LFS facilitates conversion of a sulfenic acid substrate into LF have been difficult to experimentally examine owing to the inherent substrate reactivity and lability of LF. To shed light on the mechanism of LF production in the onion, we solved crystal structures of LFS in an apo-form and in complex with a substrate analogue, crotyl alcohol. The enzyme closely resembles the helix-grip fold characteristic for plant representatives of the START (star-related lipid transfer) domain-containing protein superfamily. By comparing the structures of LFS to that of the abscisic acid receptor, PYL10, a representative of the START protein superfamily, we elucidated structural adaptations underlying the catalytic activity of LFS. We also delineated the architecture of the active site, and based on the orientation of the ligand, we propose a mechanism of catalysis that involves sequential proton transfer accompanied by formation of a carbanion intermediate. These findings reconcile chemical and biochemical information regarding thioaldehyde S-oxide formation and close a long-lasting gap in understanding of the mechanism responsible for LF production in the onion.

-	~~Authors:~~ Silvaroli~~, J.A.~~, Pleshinger~~, M.J.~~, Banerjee, S., Kiser~~, P.D~~ , Golczak, M.	+	Enzyme That Makes You Cry-Crystal Structure of Lachrymatory Factor Synthase from Allium cepa.,Silvaroli JA, Pleshinger MJ, Banerjee S, Kiser PD, Golczak M ACS Chem Biol. 2017 Jul 26. doi: 10.1021/acschembio.7b00336. PMID:28708375<ref>PMID:28708375</ref>

-	~~Description: Crystal structure~~ of ~~lachrymatory factor synthase from Allium cepa~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Kiser, P.D , Golczak, M]]~~	+	<div class="pdbe-citations 5vgl" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Banerjee, S]]		[[Category: Banerjee, S]]
-	[[Category: Pleshinger, M.J]]	+	[[Category: Golczak, M]]
-	[[Category: Silvaroli, J.A]]	+	[[Category: Kiser, P D]]
		+	[[Category: Pleshinger, M J]]
		+	[[Category: Silvaroli, J A]]
		+	[[Category: Isomerase]]
		+	[[Category: Lachrymatory factor]]
		+	[[Category: Onion]]
		+	[[Category: Sulfenic acid]]

OCA at 11:02, 10 May 2017

OCA — Wed, 10 May 2017 11:02:38 GMT

←Older revision		Revision as of 11:02, 10 May 2017
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Silvaroli, J.A., Pleshinger, M.J., Banerjee, S., Kiser, P.D , Golczak, M.		Authors: Silvaroli, J.A., Pleshinger, M.J., Banerjee, S., Kiser, P.D , Golczak, M.

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

OCA — Wed, 19 Apr 2017 11:25:13 GMT

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

←Older revision

Revision as of 11:25, 19 April 2017

OCA: New page: '''Unreleased structure''' The entry 5vgl is ON HOLD Authors: Silvaroli, J.A., Pleshinger, M.J., Banerjee, S., Kiser, P.D , Golczak, M. Description: Crystal structure of lachrymatory f...

OCA — Wed, 19 Apr 2017 11:25:12 GMT

New page: '''Unreleased structure''' The entry 5vgl is ON HOLD Authors: Silvaroli, J.A., Pleshinger, M.J., Banerjee, S., Kiser, P.D , Golczak, M. Description: Crystal structure of lachrymatory f...

New page

'''Unreleased structure'''

The entry 5vgl is ON HOLD

Authors: Silvaroli, J.A., Pleshinger, M.J., Banerjee, S., Kiser, P.D , Golczak, M.

Description: Crystal structure of lachrymatory factor synthase from Allium cepa
[[Category: Unreleased Structures]]
[[Category: Kiser, P.D , Golczak, M]]
[[Category: Banerjee, S]]
[[Category: Pleshinger, M.J]]
[[Category: Silvaroli, J.A]]