5h5l - Revision history

OCA at 07:24, 9 August 2023

2023-08-09T07:24:15Z

←Older revision		Revision as of 07:24, 9 August 2023
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	<StructureSection load='5h5l' size='340' side='right'caption='[[5h5l]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='5h5l' size='340' side='right'caption='[[5h5l]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5h5l]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H5L OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5H5L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5h5l]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Nilaparvata_lugens Nilaparvata lugens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H5L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5H5L FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GSH:GLUTATHIONE'>GSH</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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]] 1.999Å</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=5h5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h5l OCA], [~~http~~://pdbe.org/5h5l PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5h5l RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5h5l PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5h5l ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GSH:GLUTATHIONE'>GSH</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=5h5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h5l OCA], [https://pdbe.org/5h5l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5h5l RCSB], [https://www.ebi.ac.uk/pdbsum/5h5l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5h5l ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/J9Q529_NILLU J9Q529_NILLU]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Higashiura, A]]	+	[[Category: Nilaparvata lugens]]
-	[[Category: Nakagawa, A]]	+	[[Category: Higashiura A]]
-	[[Category: Suzuki, S]]	+	[[Category: Nakagawa A]]
-	[[Category: Yamamoto, K]]	+	[[Category: Suzuki S]]
-	~~[[Category: Glutathione]]~~	+	[[Category: Yamamoto K]]
-	~~[[Category: Lepidoptera]]~~	+
-	~~[[Category: Prostaglandin]]~~	+
-	~~[[Category: Prostaglandin synthase]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 06:53, 20 May 2020

2020-05-20T06:53:06Z

←Older revision		Revision as of 06:53, 20 May 2020
Line 1:		Line 1:

	==Structure of prostaglandin synthase D of Nilaparvata lugens==		==Structure of prostaglandin synthase D of Nilaparvata lugens==
-	<StructureSection load='5h5l' size='340' side='right' caption='[[5h5l]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='5h5l' size='340' side='right'caption='[[5h5l]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5h5l]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H5L OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5H5L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5h5l]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H5L OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5H5L FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GSH:GLUTATHIONE'>GSH</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GSH:GLUTATHIONE'>GSH</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=5h5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h5l OCA], [http://pdbe.org/5h5l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h5l RCSB], [http://www.ebi.ac.uk/pdbsum/5h5l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h5l 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=5h5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h5l OCA], [http://pdbe.org/5h5l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h5l RCSB], [http://www.ebi.ac.uk/pdbsum/5h5l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h5l ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</div>		</div>
	<div class="pdbe-citations 5h5l" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5h5l" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Prostaglandin D synthase\|Prostaglandin D synthase]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Higashiura, A]]		[[Category: Higashiura, A]]
	[[Category: Nakagawa, A]]		[[Category: Nakagawa, A]]

OCA at 04:36, 21 September 2017

2017-09-21T04:36:55Z

←Older revision		Revision as of 04:36, 21 September 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5h5l is ~~ON HOLD until Nov 07 2018~~	+	==Structure of prostaglandin synthase D of Nilaparvata lugens==
		+	<StructureSection load='5h5l' size='340' side='right' caption='[[5h5l]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5h5l]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H5L OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5H5L FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GSH:GLUTATHIONE'>GSH</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=5h5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h5l OCA], [http://pdbe.org/5h5l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h5l RCSB], [http://www.ebi.ac.uk/pdbsum/5h5l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h5l ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Prostaglandins are involved in many physiological processes, and prostaglandin synthases facilitate the detoxification of xenobiotics as well as endogenous compounds, such as through glutathione conjugation. Specifically, prostaglandin D synthase (PGDS) catalyzes the isomerization of PGH2 to PGD2. Here we report the identification and structural analysis of PGDS from the brown planthopper rice pest Nilaparvata lugens (nlPGDS), which belongs to the sigma-class glutathione transferases. The structure of nlPGDS in complex with glutathione was determined at a resolution of 2.0 A by X-ray crystallography. Bound glutathione was localized to the glutathione-binding site (G-site). Enzyme activity measurements following site-directed mutagenesis of nlPGDS indicated that amino acid residues Tyr8, Leu14, Trp39, Lys43, Gln50, Val51, Gln63, and Ser64 in the G-site contribute to its catalytic activity. To our knowledge, this represents the first report of a PGDS in insects. Our findings provide insights into the mechanism of nlPGDS activity and potentially that of other insects and therefore may facilitate the development of more effective and safe insecticides.

-	~~Authors: Yamamoto~~, K., ~~Higashiura~~, A., Suzuki, S., ~~Nakagawa~~, A.	+	Molecular structure of a prostaglandin D synthase requiring glutathione from the brown planthopper, Nilaparvata lugens.,Yamamoto K, Higashiura A, Suzuki M, Aritake K, Urade Y, Nakagawa A Biochem Biophys Res Commun. 2017 Oct 14;492(2):166-171. doi:, 10.1016/j.bbrc.2017.08.032. Epub 2017 Aug 11. PMID:28803983<ref>PMID:28803983</ref>

-	~~Description: Structure~~ of ~~prostaglandin synthase D~~ of ~~Nilaparvata lugens~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Yamamoto, K]]~~	+	<div class="pdbe-citations 5h5l" style="background-color:#fffaf0;"></div>
-	~~[[Category: Suzuki, S]]~~	+	== References ==
-	~~[[Category: Nakagawa, A]]~~	+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Higashiura, A]]		[[Category: Higashiura, A]]
		+	[[Category: Nakagawa, A]]
		+	[[Category: Suzuki, S]]
		+	[[Category: Yamamoto, K]]
		+	[[Category: Glutathione]]
		+	[[Category: Lepidoptera]]
		+	[[Category: Prostaglandin]]
		+	[[Category: Prostaglandin synthase]]
		+	[[Category: Transferase]]

OCA at 09:25, 9 March 2017

2017-03-09T09:25:30Z

←Older revision		Revision as of 09:25, 9 March 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5h5l is ON HOLD until ~~May~~ 07 2018	+	The entry 5h5l is ON HOLD until Nov 07 2018

	Authors: Yamamoto, K., Higashiura, A., Suzuki, S., Nakagawa, A.		Authors: Yamamoto, K., Higashiura, A., Suzuki, S., Nakagawa, A.
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	Description: Structure of prostaglandin synthase D of Nilaparvata lugens		Description: Structure of prostaglandin synthase D of Nilaparvata lugens
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Yamamoto, K]]
	[[Category: Suzuki, S]]		[[Category: Suzuki, S]]
	[[Category: Nakagawa, A]]		[[Category: Nakagawa, A]]
-	[[Category: Yamamoto, K]]
	[[Category: Higashiura, A]]		[[Category: Higashiura, A]]

OCA: Protected "5h5l" [edit=sysop:move=sysop]

2016-12-09T13:46:13Z

Protected "5h5l" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:46, 9 December 2016

OCA: New page: '''Unreleased structure''' The entry 5h5l is ON HOLD until May 07 2018 Authors: Yamamoto, K., Higashiura, A., Suzuki, S., Nakagawa, A. Description: Structure of prostaglandin synthase ...

2016-12-09T13:46:11Z

New page: '''Unreleased structure''' The entry 5h5l is ON HOLD until May 07 2018 Authors: Yamamoto, K., Higashiura, A., Suzuki, S., Nakagawa, A. Description: Structure of prostaglandin synthase ...

New page

'''Unreleased structure'''

The entry 5h5l is ON HOLD until May 07 2018

Authors: Yamamoto, K., Higashiura, A., Suzuki, S., Nakagawa, A.

Description: Structure of prostaglandin synthase D of Nilaparvata lugens
[[Category: Unreleased Structures]]
[[Category: Suzuki, S]]
[[Category: Nakagawa, A]]
[[Category: Yamamoto, K]]
[[Category: Higashiura, A]]