5ero - Revision history

OCA at 08:19, 12 July 2023

OCA — Wed, 12 Jul 2023 08:19:13 GMT

←Older revision		Revision as of 08:19, 12 July 2023
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	<StructureSection load='5ero' size='340' side='right'caption='[[5ero]], [[Resolution\|resolution]] 2.55Å' scene=''>		<StructureSection load='5ero' size='340' side='right'caption='[[5ero]], [[Resolution\|resolution]] 2.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ero]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~3b 3b~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ERO OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5ERO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ero]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Diaporthe_amygdali Diaporthe amygdali]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ERO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ERO FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=210:PAMIDRONATE'>210</scene>, <scene name='pdbligand=CO:COBALT+(II)+ION'>CO</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]] 2.55Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5er8\|5er8]]~~, [[~~5erm~~\|~~5erm]], [[5ern\|5ern~~]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=210:PAMIDRONATE'>210</scene>, <scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>PaFS ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~1214568 3B])</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=5ero FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ero OCA], [https://pdbe.org/5ero PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ero RCSB], [https://www.ebi.ac.uk/pdbsum/5ero PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ero ProSAT]</span></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/Geranylgeranyl_diphosphate_synthase Geranylgeranyl diphosphate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.29 2.5.1.29]~~ </~~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=5ero FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ero OCA], [~~http~~://pdbe.org/5ero PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5ero RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5ero PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5ero ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/FC1_PHOAM FC1_PHOAM] Multifunctional diterpene synthase; part of the 2 gene clusters that mediate the biosynthesis of fusicoccins, diterpene glucosides that display phytohormone-like activity and function as potent activators of plasma membrane H(+)-ATPases in plants by modifying 14-3-3 proteins and cause the plant disease constriction canker (PubMed:17360612, PubMed:26734760). The first step in the pathway is performed by the fusicoccadiene synthase PaFS that possesses both prenyl transferase and terpene cyclase activity, converting isopentenyl diphosphate and dimethylallyl diphosphate into geranylgeranyl diphosphate (GGDP) and successively converting GGDP into fusicocca-2,10(14)-diene, a precursor for fusicoccin H (PubMed:17360612, PubMed:26734760). Fusicoccadiene synthase is an allosteric enzyme for GGPP cyclization that generates 64% fusicoccadiene, 9% delta-araneosene, and one additional unidentified diterpene product, when incubated with GGPP (PubMed:26734760). In the absence of isopentenyl diphosphate (IPP), PaFS can also solvolyze the shorter chain geranyl diphosphate (GPP) and farnesyl diphosphate (FPP) as alternative substrates to yield predominantly acyclic products. FPP is converted to farnesol (60.5%), nerolidol (14.0%), and farnesene (14.0%), while GPP is converted to a mixture of geraniol (59.5%) and linalool (35.0%) (PubMed:26734760). The second step is the oxidation at the C-8 position by the cytochrome P450 monooxygenase PaP450-2 to yield fusicocca-2,10(14)-diene-8-beta-ol (PubMed:22870285). The cytochrome P450 monooxygenase PaP450-1 then catalyzes the hydroxylation at the C-16 position to produce fusicocca-2,10(14)-diene-8-beta,16-diol (PubMed:22870285). The dioxygenase fc-dox then catalyzes the 16-oxydation of fusicocca-2,10(14)-diene-8-beta,16-diol to yield an aldehyde (8-beta-hydroxyfusicocca-1,10(14)-dien-16-al) (PubMed:21299202, PubMed:22870285). The short-chain dehydrogenase/reductase fc-sdr catalyzes the reduction of the aldehyde to yield fusicocca-1,10(14)-diene-8-beta,16-diol (PubMed:21299202, PubMed:22870285). The next step is the hydroxylation at C-9 performed by the cytochrome P450 monooxagenase PaP450-3 that leads to fusicoccin H aglycon which is glycosylated to fusicoccin H by the O-glycosyltransferase PAGT (PubMed:22870285). Hydroxylation at C-12 by the cytochrome P450 monooxygenase PaP450-4 leads then to the production of fusicoccin Q and is followed by methylation by the O-methyltransferase PAMT to yield fusicoccin P (PubMed:22870285). Fusicoccin P is further converted to fusicoccin J via prenylation by the O-glucose prenyltransferase PaPT (PubMed:22287087). Cytochrome P450 monooxygenase PaP450-5 then performs hydroxylation at C-19 to yield dideacetyl-fusicoccin A which is acetylated to 3'-O-deacetyl-fusicoccin A by the O-acetyltransferase PaAT-2 (PubMed:22870285). Finally, a another acetylation by the O-acetyltransferase PaAT-1 yields fusicoccin A (PubMed:22870285).<ref>PMID:17360612</ref> <ref>PMID:21299202</ref> <ref>PMID:22287087</ref> <ref>PMID:22870285</ref> <ref>PMID:26734760</ref>
	<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: ~~Geranylgeranyl diphosphate synthase~~]]	+	[[Category: Diaporthe amygdali]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chen, M]]	+	[[Category: Chen M]]
-	[[Category: Christianson~~, D W]]~~	+	[[Category: Christianson DW]]
-	~~[[Category: Diterpene synthase]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 11:35, 25 December 2019

OCA — Wed, 25 Dec 2019 11:35:26 GMT

←Older revision		Revision as of 11:35, 25 December 2019
Line 1:		Line 1:

	==Crystal structure of elongation domain of Phomopsis amygdali fusicoccadiene synthase complexed with cobalt ions and pamidronate==		==Crystal structure of elongation domain of Phomopsis amygdali fusicoccadiene synthase complexed with cobalt ions and pamidronate==
-	<StructureSection load='5ero' size='340' side='right' caption='[[5ero]], [[Resolution\|resolution]] 2.55Å' scene=''>	+	<StructureSection load='5ero' size='340' side='right'caption='[[5ero]], [[Resolution\|resolution]] 2.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5ero]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/3b 3b]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ERO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ERO FirstGlance]. <br>		<table><tr><td colspan='2'>[[5ero]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/3b 3b]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ERO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ERO FirstGlance]. <br>
Line 24:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Geranylgeranyl diphosphate synthase]]		[[Category: Geranylgeranyl diphosphate synthase]]
		+	[[Category: Large Structures]]
	[[Category: Chen, M]]		[[Category: Chen, M]]
	[[Category: Christianson, D W]]		[[Category: Christianson, D W]]

OCA at 17:09, 15 November 2017

OCA — Wed, 15 Nov 2017 17:09:04 GMT

←Older revision		Revision as of 17:09, 15 November 2017
Line 3:		Line 3:
	<StructureSection load='5ero' size='340' side='right' caption='[[5ero]], [[Resolution\|resolution]] 2.55Å' scene=''>		<StructureSection load='5ero' size='340' side='right' caption='[[5ero]], [[Resolution\|resolution]] 2.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ero]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ERO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ERO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ero]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/3b 3b]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ERO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ERO FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=210:PAMIDRONATE'>210</scene>, <scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=210:PAMIDRONATE'>210</scene>, <scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5er8\|5er8]], [[5erm\|5erm]], [[5ern\|5ern]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5er8\|5er8]], [[5erm\|5erm]], [[5ern\|5ern]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PaFS ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1214568 3B])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Geranylgeranyl_diphosphate_synthase Geranylgeranyl diphosphate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.29 2.5.1.29] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Geranylgeranyl_diphosphate_synthase Geranylgeranyl diphosphate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.29 2.5.1.29] </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=5ero FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ero OCA], [http://pdbe.org/5ero PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ero RCSB], [http://www.ebi.ac.uk/pdbsum/5ero 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=5ero FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ero OCA], [http://pdbe.org/5ero PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ero RCSB], [http://www.ebi.ac.uk/pdbsum/5ero PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ero ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 17:54, 10 May 2016

OCA — Tue, 10 May 2016 17:54:40 GMT

←Older revision		Revision as of 17:54, 10 May 2016
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		+
	==Crystal structure of elongation domain of Phomopsis amygdali fusicoccadiene synthase complexed with cobalt ions and pamidronate==		==Crystal structure of elongation domain of Phomopsis amygdali fusicoccadiene synthase complexed with cobalt ions and pamidronate==
	<StructureSection load='5ero' size='340' side='right' caption='[[5ero]], [[Resolution\|resolution]] 2.55Å' scene=''>		<StructureSection load='5ero' size='340' side='right' caption='[[5ero]], [[Resolution\|resolution]] 2.55Å' scene=''>

OCA at 17:02, 20 January 2016

OCA — Wed, 20 Jan 2016 17:02:12 GMT

←Older revision		Revision as of 17:02, 20 January 2016
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-	'''~~Unreleased~~ structure'''	+	==Crystal structure of elongation domain of Phomopsis amygdali fusicoccadiene synthase complexed with cobalt ions and pamidronate==
		+	<StructureSection load='5ero' size='340' side='right' caption='[[5ero]], [[Resolution\|resolution]] 2.55Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5ero]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ERO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ERO FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=210:PAMIDRONATE'>210</scene>, <scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5er8\|5er8]], [[5erm\|5erm]], [[5ern\|5ern]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Geranylgeranyl_diphosphate_synthase Geranylgeranyl diphosphate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.29 2.5.1.29] </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=5ero FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ero OCA], [http://pdbe.org/5ero PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ero RCSB], [http://www.ebi.ac.uk/pdbsum/5ero PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Fusicoccin A is a diterpene glucoside phytotoxin generated by the fungal pathogen Phomopsis amygdali that causes the plant disease constriction canker, first discovered in New Jersey peach orchards in the 1930s. Fusicoccin A is also an emerging new lead in cancer chemotherapy. The hydrocarbon precursor of fusicoccin A is the tricyclic diterpene fusicoccadiene, which is generated by a bifunctional terpenoid synthase. Here, we report X-ray crystal structures of the individual catalytic domains of fusicoccadiene synthase: the C-terminal domain is a chain elongation enzyme that generates geranylgeranyl diphosphate, and the N-terminal domain catalyzes the cyclization of geranylgeranyl diphosphate to form fusicoccadiene. Crystal structures of each domain complexed with bisphosphonate substrate analogues suggest that three metal ions and three positively charged amino acid side chains trigger substrate ionization in each active site. While in vitro incubations reveal that the cyclase domain can utilize farnesyl diphosphate and geranyl diphosphate as surrogate substrates, these shorter isoprenoid diphosphates are mainly converted into acyclic alcohol or hydrocarbon products. Gel filtration chromatography and analytical ultracentrifugation experiments indicate that full-length fusicoccadiene synthase adopts hexameric quaternary structure, and small-angle X-ray scattering data yield a well-defined molecular envelope illustrating a plausible model for hexamer assembly.

-	~~The entry 5ero is ON HOLD until Paper Publication~~	+	Structure and Function of Fusicoccadiene Synthase, a Hexameric Bifunctional Diterpene Synthase.,Chen M, Chou WK, Toyomasu T, Cane DE, Christianson DW ACS Chem Biol. 2016 Jan 6. PMID:26734760<ref>PMID:26734760</ref>

-	~~Authors: Chen~~, M.~~, Christianson, D~~.W.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Crystal structure of elongation domain of Phomopsis amygdali fusicoccadiene synthase complexed with cobalt ions and pamidronate~~	+	<div class="pdbe-citations 5ero" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Geranylgeranyl diphosphate synthase]]
	[[Category: Chen, M]]		[[Category: Chen, M]]
-	[[Category: Christianson, D.W]]	+	[[Category: Christianson, D W]]
		+	[[Category: Diterpene synthase]]
		+	[[Category: Lyase]]
		+	[[Category: Transferase]]

OCA at 12:11, 16 December 2015

OCA — Wed, 16 Dec 2015 12:11:58 GMT

←Older revision		Revision as of 12:11, 16 December 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Chen, M., Christianson, D.W.		Authors: Chen, M., Christianson, D.W.

-	Description: Crystal structure of elongation domain of Phomopsis amygdali fusicoccadiene synthase	+	Description: Crystal structure of elongation domain of Phomopsis amygdali fusicoccadiene synthase complexed with cobalt ions and pamidronate
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Chen, M]]		[[Category: Chen, M]]
	[[Category: Christianson, D.W]]		[[Category: Christianson, D.W]]

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

OCA — Tue, 01 Dec 2015 03:16:57 GMT

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

←Older revision

Revision as of 03:16, 1 December 2015

OCA: New page: '''Unreleased structure''' The entry 5ero is ON HOLD Authors: Chen, M., Christianson, D.W. Description: Crystal structure of elongation domain of Phomopsis amygdali fusicoccadiene synt...

OCA — Tue, 01 Dec 2015 03:16:56 GMT

New page: '''Unreleased structure''' The entry 5ero is ON HOLD Authors: Chen, M., Christianson, D.W. Description: Crystal structure of elongation domain of Phomopsis amygdali fusicoccadiene synt...

New page

'''Unreleased structure'''

The entry 5ero is ON HOLD

Authors: Chen, M., Christianson, D.W.

Description: Crystal structure of elongation domain of Phomopsis amygdali fusicoccadiene synthase
[[Category: Unreleased Structures]]
[[Category: Chen, M]]
[[Category: Christianson, D.W]]