7bzc - Revision history

OCA at 15:44, 29 November 2023

OCA — Wed, 29 Nov 2023 15:44:07 GMT

←Older revision		Revision as of 15:44, 29 November 2023
Line 3:		Line 3:
	<StructureSection load='7bzc' size='340' side='right'caption='[[7bzc]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='7bzc' size='340' side='right'caption='[[7bzc]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7bzc]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Arath Arath~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BZC OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=7BZC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7bzc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BZC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BZC FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FPS:S-[(2E,6E)-3,7,11-TRIMETHYLDODECA-2,6,10-TRIENYL]+TRIHYDROGEN+THIODIPHOSPHATE'>FPS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 2.303Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TPS18, At3g14520, MIE1.2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FPS:S-[(2E,6E)-3,7,11-TRIMETHYLDODECA-2,6,10-TRIENYL]+TRIHYDROGEN+THIODIPHOSPHATE'>FPS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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=7bzc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bzc OCA], [~~http~~://pdbe.org/7bzc PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=7bzc RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/7bzc PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=7bzc 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=7bzc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bzc OCA], [https://pdbe.org/7bzc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bzc RCSB], [https://www.ebi.ac.uk/pdbsum/7bzc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bzc ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/TPS18_ARATH TPS18_ARATH]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Arath~~]]	+	[[Category: Arabidopsis thaliana]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Li~~, J X~~]]	+	[[Category: Li JX]]
-	[[Category: Wang~~, G D~~]]	+	[[Category: Wang GD]]
-	[[Category: Zhang, P]]	+	[[Category: Zhang P]]
-	~~[[Category: Cyclization mechanism]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Plant protein]]~~	+
-	~~[[Category: Sesterterpene]]~~	+
-	~~[[Category: Terpene synthase]]~~	+
-	~~[[Category: Terpenoid~~]]	+

OCA at 06:04, 20 January 2021

OCA — Wed, 20 Jan 2021 06:04:27 GMT

←Older revision		Revision as of 06:04, 20 January 2021
Line 1:		Line 1:

	==Crystal structure of plant sesterterpene synthase AtTPS18 complexed with farnesyl thiolodiphosphate (FSPP)==		==Crystal structure of plant sesterterpene synthase AtTPS18 complexed with farnesyl thiolodiphosphate (FSPP)==
-	<StructureSection load='7bzc' size='340' side='right'caption='[[7bzc]]' scene=''>	+	<StructureSection load='7bzc' size='340' side='right'caption='[[7bzc]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BZC OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=7BZC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7bzc]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BZC OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=7BZC FirstGlance]. <br>
-	</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=7bzc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bzc OCA], [http://pdbe.org/7bzc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7bzc RCSB], [http://www.ebi.ac.uk/pdbsum/7bzc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7bzc ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FPS:S-[(2E,6E)-3,7,11-TRIMETHYLDODECA-2,6,10-TRIENYL]+TRIHYDROGEN+THIODIPHOSPHATE'>FPS</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TPS18, At3g14520, MIE1.2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</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=7bzc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bzc OCA], [http://pdbe.org/7bzc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7bzc RCSB], [http://www.ebi.ac.uk/pdbsum/7bzc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7bzc ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Class I terpene synthase (TPS) generates bioactive terpenoids with diverse backbones. Sesterterpene synthase (sester-TPS, C25), a branch of class I TPSs, was recently identified in Brassicaceae. However, the catalytic mechanisms of sester-TPSs are not fully understood. Here, we first identified three nonclustered functional sester-TPSs (AtTPS06, AtTPS22, and AtTPS29) in Arabidopsis thaliana. AtTPS06 utilizes a type-B cyclization mechanism, whereas most other sester-TPSs produce various sesterterpene backbones via a type-A cyclization mechanism. We then determined the crystal structure of the AtTPS18-FSPP complex to explore the cyclization mechanism of plant sester-TPSs. We used structural comparisons and site-directed mutagenesis to further elucidate the mechanism: (1) mainly due to the outward shift of helix G, plant sester-TPSs have a larger catalytic pocket than do mono-, sesqui-, and di-TPSs to accommodate GFPP; (2) type-A sester-TPSs have more aromatic residues (five or six) in their catalytic pocket than classic TPSs (two or three), which also determines whether the type-A or type-B cyclization mechanism is active; and (3) the other residues responsible for product fidelity are determined by interconversion of AtTPS18 and its close homologs. Altogether, this study improves our understanding of the catalytic mechanism of plant sester-TPS, which ultimately enables the rational engineering of sesterterpenoids for future applications.
		+
		+	Molecular Basis for Sesterterpene Diversity Produced by Plant Terpene Synthases.,Chen Q, Li J, Liu Z, Mitsuhashi T, Zhang Y, Liu H, Ma Y, He J, Shinada T, Sato T, Wang Y, Liu H, Abe I, Zhang P, Wang G Plant Commun. 2020 Apr 29;1(5):100051. doi: 10.1016/j.xplc.2020.100051., eCollection 2020 Sep 14. PMID:33367256<ref>PMID:33367256</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7bzc" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Arath]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Li JX]]	+	[[Category: Li, J X]]
-	[[Category: Wang GD]]	+	[[Category: Wang, G D]]
-	[[Category: Zhang P]]	+	[[Category: Zhang, P]]
		+	[[Category: Cyclization mechanism]]
		+	[[Category: Lyase]]
		+	[[Category: Plant protein]]
		+	[[Category: Sesterterpene]]
		+	[[Category: Terpene synthase]]
		+	[[Category: Terpenoid]]

OCA at 11:15, 23 September 2020

OCA — Wed, 23 Sep 2020 11:15:48 GMT

←Older revision		Revision as of 11:15, 23 September 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 7bzc ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of plant sesterterpene synthase AtTPS18 complexed with farnesyl thiolodiphosphate (FSPP)==
-		+	<StructureSection load='7bzc' size='340' side='right'caption='[[7bzc]]' scene=''>
-	~~Authors~~: Li, J.X., ~~Wang~~, G.D., ~~Zhang~~, P.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BZC OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=7BZC FirstGlance]. <br>
-	~~Description: Crystal structure of plant sesterterpene synthase AtTPS18 complexed with farnesyl thiolodiphosphate (FSPP)~~	+	</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=7bzc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bzc OCA], [http://pdbe.org/7bzc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7bzc RCSB], [http://www.ebi.ac.uk/pdbsum/7bzc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7bzc ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Wang, G.D~~]]	+	__TOC__
-	[[Category: ~~Zhang, P~~]]	+	</StructureSection>
-	[[Category: ~~Li, J.X~~]]	+	[[Category: Large Structures]]
		+	[[Category: Li JX]]
		+	[[Category: Wang GD]]
		+	[[Category: Zhang P]]

OCA at 05:09, 27 May 2020

OCA — Wed, 27 May 2020 05:09:57 GMT

←Older revision		Revision as of 05:09, 27 May 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7bzc is ON HOLD	+	The entry 7bzc is ON HOLD until Paper Publication

	Authors: Li, J.X., Wang, G.D., Zhang, P.		Authors: Li, J.X., Wang, G.D., Zhang, P.

-	Description: Crystal structure of plant sesterterpene synthase AtTPS18	+	Description: Crystal structure of plant sesterterpene synthase AtTPS18 complexed with farnesyl thiolodiphosphate (FSPP)
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Wang, G.D]]		[[Category: Wang, G.D]]
	[[Category: Zhang, P]]		[[Category: Zhang, P]]
	[[Category: Li, J.X]]		[[Category: Li, J.X]]

OCA: Protected "7bzc" [edit=sysop:move=sysop]

OCA — Wed, 06 May 2020 04:54:47 GMT

Protected "7bzc" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:54, 6 May 2020

OCA: New page: '''Unreleased structure''' The entry 7bzc is ON HOLD Authors: Li, J.X., Wang, G.D., Zhang, P. Description: Crystal structure of plant sesterterpene synthase AtTPS18 [[Category: Unrelea...

OCA — Wed, 06 May 2020 04:54:46 GMT

New page: '''Unreleased structure''' The entry 7bzc is ON HOLD Authors: Li, J.X., Wang, G.D., Zhang, P. Description: Crystal structure of plant sesterterpene synthase AtTPS18 [[Category: Unrelea...

New page

'''Unreleased structure'''

The entry 7bzc is ON HOLD

Authors: Li, J.X., Wang, G.D., Zhang, P.

Description: Crystal structure of plant sesterterpene synthase AtTPS18
[[Category: Unreleased Structures]]
[[Category: Wang, G.D]]
[[Category: Zhang, P]]
[[Category: Li, J.X]]