5mog - Revision history

OCA at 17:42, 8 November 2023

OCA — Wed, 08 Nov 2023 17:42:06 GMT

←Older revision		Revision as of 17:42, 8 November 2023
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	<StructureSection load='5mog' size='340' side='right'caption='[[5mog]], [[Resolution\|resolution]] 2.77Å' scene=''>		<StructureSection load='5mog' size='340' side='right'caption='[[5mog]], [[Resolution\|resolution]] 2.77Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mog]] is a 5 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MOG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5MOG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mog]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Oryza_sativa_Indica_Group Oryza sativa Indica Group]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MOG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MOG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=NRF:Norflurazon'>NRF</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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]] 2.77Å</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=5mog FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mog OCA], [~~http~~://pdbe.org/5mog PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5mog RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5mog PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5mog ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=NRF:Norflurazon'>NRF</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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=5mog FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mog OCA], [https://pdbe.org/5mog PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mog RCSB], [https://www.ebi.ac.uk/pdbsum/5mog PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mog ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~CRTI_ORYSI CRTI_ORYSI~~]~~] This enzyme converts~~ phytoene into zeta-carotene via the intermediary of phytofluene by the symmetrical introduction of two double bonds at the C-11 and C-11' positions of phytoene.	+	[https://www.uniprot.org/uniprot/PDS_ORYSI PDS_ORYSI] Converts phytoene into zeta-carotene via the intermediary of phytofluene by the symmetrical introduction of two double bonds at the C-11 and C-11' positions of phytoene with a concomitant isomerization of two neighboring double bonds at the C9 and C9' positions from trans to cis. Active with decylplastoquinone (DPQ) as substrate (PubMed:26147209, PubMed:29176862). Also active with other benzoquinones, which are strongly preferred over naphthoquinones as substrates (PubMed:26147209).<ref>PMID:26147209</ref> <ref>PMID:29176862</ref>
	<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: Beyer, P]]	+	[[Category: Oryza sativa Indica Group]]
-	[[Category: Brausemann, A]]	+	[[Category: Beyer P]]
-	[[Category: Einsle, O]]	+	[[Category: Brausemann A]]
-	[[Category: Gemmecker, S]]	+	[[Category: Einsle O]]
-	[[Category: Koschmieder, J]]	+	[[Category: Gemmecker S]]
-	~~[[Category: Carotenoid biosynthesis]]~~	+	[[Category: Koschmieder J]]
-	~~[[Category: Inhibitor]]~~	+
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 07:25, 19 August 2020

OCA — Wed, 19 Aug 2020 07:25:00 GMT

←Older revision		Revision as of 07:25, 19 August 2020
Line 1:		Line 1:

	==Oryza sativa phytoene desaturase inhibited by norflurazon==		==Oryza sativa phytoene desaturase inhibited by norflurazon==
-	<StructureSection load='5mog' size='340' side='right' caption='[[5mog]], [[Resolution\|resolution]] 2.77Å' scene=''>	+	<StructureSection load='5mog' size='340' side='right'caption='[[5mog]], [[Resolution\|resolution]] 2.77Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mog]] is a 5 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MOG OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5MOG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mog]] is a 5 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MOG OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5MOG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=NRF:Norflurazon'>NRF</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=NRF:Norflurazon'>NRF</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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=5mog FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mog OCA], [http://pdbe.org/5mog PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mog RCSB], [http://www.ebi.ac.uk/pdbsum/5mog PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mog 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=5mog FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mog OCA], [http://pdbe.org/5mog PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mog RCSB], [http://www.ebi.ac.uk/pdbsum/5mog PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mog ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Beyer, P]]		[[Category: Beyer, P]]
	[[Category: Brausemann, A]]		[[Category: Brausemann, A]]

OCA at 09:14, 9 August 2017

OCA — Wed, 09 Aug 2017 09:14:38 GMT

←Older revision		Revision as of 09:14, 9 August 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5mog is ~~ON HOLD until Paper~~ Publication	+	==Oryza sativa phytoene desaturase inhibited by norflurazon==
		+	<StructureSection load='5mog' size='340' side='right' caption='[[5mog]], [[Resolution\|resolution]] 2.77Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5mog]] is a 5 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MOG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MOG FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=IMD:IMIDAZOLE'>IMD</scene>, <scene name='pdbligand=NRF:Norflurazon'>NRF</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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=5mog FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mog OCA], [http://pdbe.org/5mog PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mog RCSB], [http://www.ebi.ac.uk/pdbsum/5mog PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mog ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CRTI_ORYSI CRTI_ORYSI]] This enzyme converts phytoene into zeta-carotene via the intermediary of phytofluene by the symmetrical introduction of two double bonds at the C-11 and C-11' positions of phytoene.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Cyanobacteria and plants synthesize carotenoids via a poly-cis pathway starting with phytoene, a membrane-bound C40 hydrocarbon. Phytoene desaturase (PDS) introduces two double bonds and concomitantly isomerizes two neighboring double bonds from trans to cis. PDS assembles into homo-tetramers that interact monotopically with membranes. A long hydrophobic tunnel is proposed to function in the sequential binding of phytoene and the electron acceptor plastoquinone. The herbicidal inhibitor norflurazon binds at a plastoquinone site thereby blocking reoxidation of FADred. Comparison with the sequence-dissimilar bacterial carotene desaturase CRTI reveals substantial similarities in the overall protein fold, defining both as members of the GR2 family of flavoproteins. However, the PDS active center architecture is unprecedented: no functional groups are found in the immediate flavin vicinity that might participate in dehydrogenation and isomerization. This suggests that the isoalloxazine moiety is sufficient for catalysis. Despite mechanistic differences, an ancient evolutionary relation of PDS and CRTI is apparent.

-	~~Authors: Brausemann~~, A., Gemmecker, S., Koschmieder, J., ~~Beyer~~, P., Einsle, O.	+	Structure of Phytoene Desaturase Provides Insights into Herbicide Binding and Reaction Mechanisms Involved in Carotene Desaturation.,Brausemann A, Gemmecker S, Koschmieder J, Ghisla S, Beyer P, Einsle O Structure. 2017 Aug 1;25(8):1222-1232.e3. doi: 10.1016/j.str.2017.06.002. Epub, 2017 Jun 29. PMID:28669634<ref>PMID:28669634</ref>

-	~~Description: Oryza sativa phytoene desaturase inhibited by norflurazon~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Brausemann, A]]~~	+	<div class="pdbe-citations 5mog" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Beyer, P]]		[[Category: Beyer, P]]
-	[[Category: ~~Gemmecker~~, S]]	+	[[Category: Brausemann, A]]
	[[Category: Einsle, O]]		[[Category: Einsle, O]]
		+	[[Category: Gemmecker, S]]
	[[Category: Koschmieder, J]]		[[Category: Koschmieder, J]]
		+	[[Category: Carotenoid biosynthesis]]
		+	[[Category: Inhibitor]]
		+	[[Category: Isomerase]]
		+	[[Category: Oxidoreductase]]

OCA at 11:30, 9 March 2017

OCA — Thu, 09 Mar 2017 11:30:02 GMT

←Older revision		Revision as of 11:30, 9 March 2017
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	Description: Oryza sativa phytoene desaturase inhibited by norflurazon		Description: Oryza sativa phytoene desaturase inhibited by norflurazon
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Beyer, P]]
	[[Category: Brausemann, A]]		[[Category: Brausemann, A]]
		+	[[Category: Beyer, P]]
	[[Category: Gemmecker, S]]		[[Category: Gemmecker, S]]
	[[Category: Einsle, O]]		[[Category: Einsle, O]]
	[[Category: Koschmieder, J]]		[[Category: Koschmieder, J]]

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

OCA — Thu, 22 Dec 2016 19:15:14 GMT

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

←Older revision

Revision as of 19:15, 22 December 2016

OCA: New page: '''Unreleased structure''' The entry 5mog is ON HOLD until Paper Publication Authors: Brausemann, A., Gemmecker, S., Koschmieder, J., Beyer, P., Einsle, O. Description: Oryza sativa ph...

OCA — Thu, 22 Dec 2016 19:15:12 GMT

New page: '''Unreleased structure''' The entry 5mog is ON HOLD until Paper Publication Authors: Brausemann, A., Gemmecker, S., Koschmieder, J., Beyer, P., Einsle, O. Description: Oryza sativa ph...

New page

'''Unreleased structure'''

The entry 5mog is ON HOLD until Paper Publication

Authors: Brausemann, A., Gemmecker, S., Koschmieder, J., Beyer, P., Einsle, O.

Description: Oryza sativa phytoene desaturase inhibited by norflurazon
[[Category: Unreleased Structures]]
[[Category: Beyer, P]]
[[Category: Brausemann, A]]
[[Category: Gemmecker, S]]
[[Category: Einsle, O]]
[[Category: Koschmieder, J]]