2hsa - Revision history

OCA at 09:34, 14 February 2024

OCA — Wed, 14 Feb 2024 09:34:29 GMT

←Older revision		Revision as of 09:34, 14 February 2024
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	<StructureSection load='2hsa' size='340' side='right'caption='[[2hsa]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='2hsa' size='340' side='right'caption='[[2hsa]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2hsa]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Lycopersicon_esculentum Lycopersicon esculentum~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HSA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2hsa]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Solanum_lycopersicum Solanum lycopersicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HSA FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>~~, ~~<scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <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]] 1.5Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[2hs6\|2hs6]], [[2hs8\|2hs8]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~OPR3 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=4081 Lycopersicon esculentum])</td~~></tr>	+
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/12-oxophytodienoate_reductase 12-oxophytodienoate reductase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.42 1.3.1.42]~~ </~~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=2hsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hsa OCA], [https://pdbe.org/2hsa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hsa RCSB], [https://www.ebi.ac.uk/pdbsum/2hsa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hsa 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=2hsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hsa OCA], [https://pdbe.org/2hsa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hsa RCSB], [https://www.ebi.ac.uk/pdbsum/2hsa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hsa ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/OPR3_SOLLC OPR3_SOLLC]] Specifically cleaves olefinic bonds in cyclic enones. Involved in the biosynthesis of jasmonic acid (JA) and perhaps in biosynthesis or metabolism of other oxylipin signaling moleclules. It is required for the spatial and temporal regulation of JA levels during dehiscence of anthers, promoting the stomium degeneration program (By similarity). In vitro, reduces 9S,13S-12-oxophytodienoic acid (9S,13S-OPDA) and 9R,13R-OPDA to 9S,13S-OPC-8:0 and 9R,13R-OPC-8:0, respectively.	+	[https://www.uniprot.org/uniprot/OPR3_SOLLC OPR3_SOLLC] Specifically cleaves olefinic bonds in cyclic enones. Involved in the biosynthesis of jasmonic acid (JA) and perhaps in biosynthesis or metabolism of other oxylipin signaling moleclules. It is required for the spatial and temporal regulation of JA levels during dehiscence of anthers, promoting the stomium degeneration program (By similarity). In vitro, reduces 9S,13S-12-oxophytodienoic acid (9S,13S-OPDA) and 9R,13R-OPDA to 9S,13S-OPC-8:0 and 9R,13R-OPC-8:0, respectively.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2hsa ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2hsa ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	12-Oxophytodienoate reductase (OPR) 3, a homologue of old yellow enzyme (OYE), catalyzes the reduction of 9S,13S-12-oxophytodienoate to the corresponding cyclopentanone, which is subsequently converted to the plant hormone jasmonic acid (JA). JA and JA derivatives, as well as 12-oxophytodienoate and related cyclopentenones, are known to regulate gene expression in plant development and defense. Together with other oxygenated fatty acid derivatives, they form the oxylipin signature in plants, which resembles the pool of prostaglandins in animals. Here, we report the crystal structure of OPR3 from tomato and of two OPR3 mutants. Although the catalytic residues of OPR3 and related OYEs are highly conserved, several characteristic differences can be discerned in the substrate-binding regions, explaining the remarkable substrate stereoselectivity of OPR isozymes. Interestingly, OPR3 crystallized as an extraordinary self-inhibited dimer. Mutagenesis studies and biochemical analysis confirmed a weak dimerization of OPR3 in vitro, which correlated with a loss of enzymatic activity. Based on structural data of OPR3, a putative mechanism for a strong and reversible dimerization of OPR3 in vivo that involves phosphorylation of OPR3 is suggested. This mechanism could contribute to the shaping of the oxylipin signature, which is critical for fine-tuning gene expression in plants.
-
-	Crystal structure of 12-oxophytodienoate reductase 3 from tomato: self-inhibition by dimerization.,Breithaupt C, Kurzbauer R, Lilie H, Schaller A, Strassner J, Huber R, Macheroux P, Clausen T Proc Natl Acad Sci U S A. 2006 Sep 26;103(39):14337-42. Epub 2006 Sep 18. PMID:16983071<ref>PMID:16983071</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2hsa" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[12-oxophytodienoate reductase 3D structures\|12-oxophytodienoate reductase 3D structures]]		*[[12-oxophytodienoate reductase 3D structures\|12-oxophytodienoate reductase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: 12-oxophytodienoate reductase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lycopersicon esculentum~~]]	+	[[Category: Solanum lycopersicum]]
-	[[Category: Breithaupt, C]]	+	[[Category: Breithaupt C]]
-	[[Category: Clausen, T]]	+	[[Category: Clausen T]]
-	[[Category: Huber, R]]	+	[[Category: Huber R]]
-	~~[[Category: Alpha beta 8 barrel]]~~	+
-	~~[[Category: Flavoprotein]]~~	+
-	~~[[Category: Jasmonate biosynthesis]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 07:21, 24 March 2021

OCA — Wed, 24 Mar 2021 07:21:11 GMT

←Older revision		Revision as of 07:21, 24 March 2021
Line 1:		Line 1:

	==Crystal structure of 12-oxophytodienoate reductase 3 (OPR3) from tomato==		==Crystal structure of 12-oxophytodienoate reductase 3 (OPR3) from tomato==
-	<StructureSection load='2hsa' size='340' side='right' caption='[[2hsa]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='2hsa' size='340' side='right'caption='[[2hsa]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2hsa]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Lycopersicon_esculentum Lycopersicon esculentum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2HSA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2hsa]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Lycopersicon_esculentum Lycopersicon esculentum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HSA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <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=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2hs6\|2hs6]], [[2hs8\|2hs8]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2hs6\|2hs6]], [[2hs8\|2hs8]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">OPR3 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4081 Lycopersicon esculentum])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">OPR3 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4081 Lycopersicon esculentum])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/12-oxophytodienoate_reductase 12-oxophytodienoate reductase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.42 1.3.1.42] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/12-oxophytodienoate_reductase 12-oxophytodienoate reductase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.42 1.3.1.42] </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=2hsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hsa OCA], [~~http~~://pdbe.org/2hsa PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2hsa RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2hsa PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2hsa 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=2hsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hsa OCA], [https://pdbe.org/2hsa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hsa RCSB], [https://www.ebi.ac.uk/pdbsum/2hsa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hsa ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/OPR3_SOLLC OPR3_SOLLC]] Specifically cleaves olefinic bonds in cyclic enones. Involved in the biosynthesis of jasmonic acid (JA) and perhaps in biosynthesis or metabolism of other oxylipin signaling moleclules. It is required for the spatial and temporal regulation of JA levels during dehiscence of anthers, promoting the stomium degeneration program (By similarity). In vitro, reduces 9S,13S-12-oxophytodienoic acid (9S,13S-OPDA) and 9R,13R-OPDA to 9S,13S-OPC-8:0 and 9R,13R-OPC-8:0, respectively.	+	[[https://www.uniprot.org/uniprot/OPR3_SOLLC OPR3_SOLLC]] Specifically cleaves olefinic bonds in cyclic enones. Involved in the biosynthesis of jasmonic acid (JA) and perhaps in biosynthesis or metabolism of other oxylipin signaling moleclules. It is required for the spatial and temporal regulation of JA levels during dehiscence of anthers, promoting the stomium degeneration program (By similarity). In vitro, reduces 9S,13S-12-oxophytodienoic acid (9S,13S-OPDA) and 9R,13R-OPDA to 9S,13S-OPC-8:0 and 9R,13R-OPC-8:0, respectively.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	==See Also==		==See Also==
-	*[[12-oxophytodienoate reductase\|12-oxophytodienoate reductase]]	+	*[[12-oxophytodienoate reductase 3D structures\|12-oxophytodienoate reductase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: 12-oxophytodienoate reductase]]		[[Category: 12-oxophytodienoate reductase]]
		+	[[Category: Large Structures]]
	[[Category: Lycopersicon esculentum]]		[[Category: Lycopersicon esculentum]]
	[[Category: Breithaupt, C]]		[[Category: Breithaupt, C]]

OCA at 06:15, 27 June 2018

OCA — Wed, 27 Jun 2018 06:15:04 GMT

←Older revision		Revision as of 06:15, 27 June 2018
Line 1:		Line 1:
		+
	==Crystal structure of 12-oxophytodienoate reductase 3 (OPR3) from tomato==		==Crystal structure of 12-oxophytodienoate reductase 3 (OPR3) from tomato==
	<StructureSection load='2hsa' size='340' side='right' caption='[[2hsa]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='2hsa' size='340' side='right' caption='[[2hsa]], [[Resolution\|resolution]] 1.50Å' scene=''>
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	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">OPR3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4081 Lycopersicon esculentum])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">OPR3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4081 Lycopersicon esculentum])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/12-oxophytodienoate_reductase 12-oxophytodienoate reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.42 1.3.1.42] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/12-oxophytodienoate_reductase 12-oxophytodienoate reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.42 1.3.1.42] </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=2hsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hsa OCA], [http://pdbe.org/2hsa PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2hsa RCSB], [http://www.ebi.ac.uk/pdbsum/2hsa PDBsum]</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=2hsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hsa OCA], [http://pdbe.org/2hsa PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2hsa RCSB], [http://www.ebi.ac.uk/pdbsum/2hsa PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2hsa ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hs/2hsa_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hs/2hsa_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 02:17, 9 February 2016

OCA — Tue, 09 Feb 2016 02:17:34 GMT

←Older revision		Revision as of 02:17, 9 February 2016
Line 19:		Line 19:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2hsa ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 17:38, 10 September 2015

OCA — Thu, 10 Sep 2015 17:38:27 GMT

←Older revision		Revision as of 17:38, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2hsa' size='340' side='right' caption='[[2hsa]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='2hsa' size='340' side='right' caption='[[2hsa]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2hsa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Solanum_lycopersicum Solanum lycopersicum~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HSA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2hsa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lycopersicon_esculentum Lycopersicon esculentum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HSA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <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"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2hs6\|2hs6]], [[2hs8\|2hs8]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2hs6\|2hs6]], [[2hs8\|2hs8]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">OPR3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4081 ~~Solanum lycopersicum~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">OPR3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4081 Lycopersicon esculentum])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/12-oxophytodienoate_reductase 12-oxophytodienoate reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.42 1.3.1.42] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/12-oxophytodienoate_reductase 12-oxophytodienoate reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.42 1.3.1.42] </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=2hsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hsa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hsa RCSB], [http://www.ebi.ac.uk/pdbsum/2hsa PDBsum]</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=2hsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hsa OCA], [http://pdbe.org/2hsa PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2hsa RCSB], [http://www.ebi.ac.uk/pdbsum/2hsa PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/OPR3_SOLLC OPR3_SOLLC]] Specifically cleaves olefinic bonds in cyclic enones. Involved in the biosynthesis of jasmonic acid (JA) and perhaps in biosynthesis or metabolism of other oxylipin signaling moleclules. It is required for the spatial and temporal regulation of JA levels during dehiscence of anthers, promoting the stomium degeneration program (By similarity). In vitro, reduces 9S,13S-12-oxophytodienoic acid (9S,13S-OPDA) and 9R,13R-OPDA to 9S,13S-OPC-8:0 and 9R,13R-OPC-8:0, respectively.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 27:		Line 29:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2hsa" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[12-oxophytodienoate reductase\|12-oxophytodienoate reductase]]
	== References ==		== References ==
	<references/>		<references/>
Line 32:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: 12-oxophytodienoate reductase]]		[[Category: 12-oxophytodienoate reductase]]
-	[[Category: ~~Solanum lycopersicum~~]]	+	[[Category: Lycopersicon esculentum]]
	[[Category: Breithaupt, C]]		[[Category: Breithaupt, C]]
	[[Category: Clausen, T]]		[[Category: Clausen, T]]

OCA at 08:02, 16 January 2015

OCA — Fri, 16 Jan 2015 08:02:22 GMT

←Older revision		Revision as of 08:02, 16 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2hsa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Solanum_lycopersicum Solanum lycopersicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HSA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2hsa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Solanum_lycopersicum Solanum lycopersicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HSA FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2hs6\|2hs6]], [[2hs8\|2hs8]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2hs6\|2hs6]], [[2hs8\|2hs8]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">OPR3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4081 Solanum lycopersicum])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">OPR3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4081 Solanum lycopersicum])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/12-oxophytodienoate_reductase 12-oxophytodienoate reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.42 1.3.1.42] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/12-oxophytodienoate_reductase 12-oxophytodienoate reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.42 1.3.1.42] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2hsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hsa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hsa RCSB], [http://www.ebi.ac.uk/pdbsum/2hsa PDBsum]</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=2hsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hsa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hsa RCSB], [http://www.ebi.ac.uk/pdbsum/2hsa PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:
	[[Category: 12-oxophytodienoate reductase]]		[[Category: 12-oxophytodienoate reductase]]
	[[Category: Solanum lycopersicum]]		[[Category: Solanum lycopersicum]]
-	[[Category: Breithaupt, C.]]	+	[[Category: Breithaupt, C]]
-	[[Category: Clausen, T.]]	+	[[Category: Clausen, T]]
-	[[Category: Huber, R.]]	+	[[Category: Huber, R]]
	[[Category: Alpha beta 8 barrel]]		[[Category: Alpha beta 8 barrel]]
	[[Category: Flavoprotein]]		[[Category: Flavoprotein]]
	[[Category: Jasmonate biosynthesis]]		[[Category: Jasmonate biosynthesis]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 09:16, 30 September 2014

OCA — Tue, 30 Sep 2014 09:16:12 GMT

←Older revision		Revision as of 09:16, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2hsa.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of 12-oxophytodienoate reductase 3 (OPR3) from tomato==
		+	<StructureSection load='2hsa' size='340' side='right' caption='[[2hsa]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2hsa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Solanum_lycopersicum Solanum lycopersicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2HSA FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2hs6\|2hs6]], [[2hs8\|2hs8]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">OPR3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4081 Solanum lycopersicum])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/12-oxophytodienoate_reductase 12-oxophytodienoate reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.1.42 1.3.1.42] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2hsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hsa OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2hsa RCSB], [http://www.ebi.ac.uk/pdbsum/2hsa PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hs/2hsa_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	12-Oxophytodienoate reductase (OPR) 3, a homologue of old yellow enzyme (OYE), catalyzes the reduction of 9S,13S-12-oxophytodienoate to the corresponding cyclopentanone, which is subsequently converted to the plant hormone jasmonic acid (JA). JA and JA derivatives, as well as 12-oxophytodienoate and related cyclopentenones, are known to regulate gene expression in plant development and defense. Together with other oxygenated fatty acid derivatives, they form the oxylipin signature in plants, which resembles the pool of prostaglandins in animals. Here, we report the crystal structure of OPR3 from tomato and of two OPR3 mutants. Although the catalytic residues of OPR3 and related OYEs are highly conserved, several characteristic differences can be discerned in the substrate-binding regions, explaining the remarkable substrate stereoselectivity of OPR isozymes. Interestingly, OPR3 crystallized as an extraordinary self-inhibited dimer. Mutagenesis studies and biochemical analysis confirmed a weak dimerization of OPR3 in vitro, which correlated with a loss of enzymatic activity. Based on structural data of OPR3, a putative mechanism for a strong and reversible dimerization of OPR3 in vivo that involves phosphorylation of OPR3 is suggested. This mechanism could contribute to the shaping of the oxylipin signature, which is critical for fine-tuning gene expression in plants.

-	~~{{STRUCTURE_2hsa\| PDB=2hsa \| SCENE= }}~~	+	Crystal structure of 12-oxophytodienoate reductase 3 from tomato: self-inhibition by dimerization.,Breithaupt C, Kurzbauer R, Lilie H, Schaller A, Strassner J, Huber R, Macheroux P, Clausen T Proc Natl Acad Sci U S A. 2006 Sep 26;103(39):14337-42. Epub 2006 Sep 18. PMID:16983071<ref>PMID:16983071</ref>

-	~~===Crystal structure~~ of ~~12-oxophytodienoate reductase 3 (OPR3) from tomato===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16983071}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2hsa]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Solanum_lycopersicum Solanum lycopersicum]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2HSA OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:016983071<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: 12-oxophytodienoate reductase]]		[[Category: 12-oxophytodienoate reductase]]
	[[Category: Solanum lycopersicum]]		[[Category: Solanum lycopersicum]]

OCA: Protected "2hsa" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 11:32:39 GMT

Protected "2hsa" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:32, 7 January 2013

OCA at 11:32, 7 January 2013

OCA — Mon, 07 Jan 2013 11:32:37 GMT

←Older revision		Revision as of 11:32, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2hsa.png\|left\|200px]]		[[Image:2hsa.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2hsa", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2hsa\| PDB=2hsa \| SCENE= }}		{{STRUCTURE_2hsa\| PDB=2hsa \| SCENE= }}

	===Crystal structure of 12-oxophytodienoate reductase 3 (OPR3) from tomato===		===Crystal structure of 12-oxophytodienoate reductase 3 (OPR3) from tomato===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16983071}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16983071 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16983071}}		{{ABSTRACT_PUBMED_16983071}}

	==About this Structure==		==About this Structure==
-	~~2HSA~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Solanum_lycopersicum Solanum lycopersicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSA OCA].	+	[[2hsa]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Solanum_lycopersicum Solanum lycopersicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSA OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16983071~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016983071</ref><references group="xtra"/>
	[[Category: 12-oxophytodienoate reductase]]		[[Category: 12-oxophytodienoate reductase]]
	[[Category: Solanum lycopersicum]]		[[Category: Solanum lycopersicum]]
Line 32:		Line 20:
	[[Category: Flavoprotein]]		[[Category: Flavoprotein]]
	[[Category: Jasmonate biosynthesis]]		[[Category: Jasmonate biosynthesis]]
-		+	[[Category: Oxidoreductase]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 05:39:58 2009''~~	+

OCA at 03:39, 17 February 2009

OCA — Tue, 17 Feb 2009 03:39:58 GMT

←Older revision		Revision as of 03:39, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2HSA is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Solanum_lycopersicum Solanum lycopersicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSA OCA].	+	2HSA is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Solanum_lycopersicum Solanum lycopersicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HSA OCA].

	==Reference==		==Reference==
-	Crystal structure of 12-oxophytodienoate reductase 3 from tomato: self-inhibition by dimerization., Breithaupt C, Kurzbauer R, Lilie H, Schaller A, Strassner J, Huber R, Macheroux P, Clausen T, Proc Natl Acad Sci U S A. 2006 Sep 26;103(39):14337-42. Epub 2006 Sep 18. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/16983071 16983071]~~	+	<ref group="xtra">PMID:16983071</ref><references group="xtra"/>
	[[Category: 12-oxophytodienoate reductase]]		[[Category: 12-oxophytodienoate reductase]]
-	[[Category: Single protein]]
	[[Category: Solanum lycopersicum]]		[[Category: Solanum lycopersicum]]
	[[Category: Breithaupt, C.]]		[[Category: Breithaupt, C.]]
Line 34:		Line 33:
	[[Category: Jasmonate biosynthesis]]		[[Category: Jasmonate biosynthesis]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Jul 28 09~~:03:~~26 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 05:39:58 2009''