5tz5 - Revision history

OCA at 13:16, 4 October 2023

OCA — Wed, 04 Oct 2023 13:16:52 GMT

←Older revision		Revision as of 13:16, 4 October 2023
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	==Crystal Structure of CurK Dehydratase H996F Inactive Mutant==		==Crystal Structure of CurK Dehydratase H996F Inactive Mutant==
-	<StructureSection load='5tz5' size='340' side='right' caption='[[5tz5]], [[Resolution\|resolution]] 1.43Å' scene=''>	+	<StructureSection load='5tz5' size='340' side='right'caption='[[5tz5]], [[Resolution\|resolution]] 1.43Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5tz5]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Lyngbya_majuscula_3l Lyngbya majuscula 3l~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TZ5 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5TZ5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5tz5]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Moorena_producens_3L Moorena producens 3L]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TZ5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5TZ5 FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5tz7\|5tz7]], [[5tz6\|5tz6]]</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]] 1.428Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">LYNGBM3L_74450 ([http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=489825 Lyngbya majuscula 3L])~~</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=5tz5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tz5 OCA], [https://pdbe.org/5tz5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5tz5 RCSB], [https://www.ebi.ac.uk/pdbsum/5tz5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5tz5 ProSAT]</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=5tz5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tz5 OCA], [~~http~~://pdbe.org/5tz5 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5tz5 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5tz5 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5tz5 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/F4Y425_9CYAN F4Y425_9CYAN]
	<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: ~~Lyngbya majuscula 3l~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Dodge, G J~~]]	+	[[Category: Moorena producens 3L]]
-	[[Category: ~~Smith, J L~~]]	+	[[Category: Dodge GJ]]
-	[[Category: ~~Curacin]]~~	+	[[Category: Smith JL]]
-	~~[[Category: Dehydratase]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Polyketide synthase~~]]	+

OCA at 10:19, 22 November 2017

OCA — Wed, 22 Nov 2017 10:19:24 GMT

←Older revision		Revision as of 10:19, 22 November 2017
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	<StructureSection load='5tz5' size='340' side='right' caption='[[5tz5]], [[Resolution\|resolution]] 1.43Å' scene=''>		<StructureSection load='5tz5' size='340' side='right' caption='[[5tz5]], [[Resolution\|resolution]] 1.43Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5tz5]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TZ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TZ5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5tz5]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lyngbya_majuscula_3l Lyngbya majuscula 3l]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TZ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TZ5 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5tz7\|5tz7]], [[5tz6\|5tz6]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5tz7\|5tz7]], [[5tz6\|5tz6]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LYNGBM3L_74450 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=489825 Lyngbya majuscula 3L])</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=5tz5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tz5 OCA], [http://pdbe.org/5tz5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tz5 RCSB], [http://www.ebi.ac.uk/pdbsum/5tz5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tz5 ProSAT]</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=5tz5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tz5 OCA], [http://pdbe.org/5tz5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tz5 RCSB], [http://www.ebi.ac.uk/pdbsum/5tz5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tz5 ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Lyngbya majuscula 3l]]
	[[Category: Dodge, G J]]		[[Category: Dodge, G J]]
	[[Category: Smith, J L]]		[[Category: Smith, J L]]

OCA at 16:40, 18 January 2017

OCA — Wed, 18 Jan 2017 16:40:07 GMT

←Older revision		Revision as of 16:40, 18 January 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5tz5 is ~~ON HOLD until Paper~~ Publication	+	==Crystal Structure of CurK Dehydratase H996F Inactive Mutant==
		+	<StructureSection load='5tz5' size='340' side='right' caption='[[5tz5]], [[Resolution\|resolution]] 1.43Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5tz5]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TZ5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TZ5 FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5tz7\|5tz7]], [[5tz6\|5tz6]]</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=5tz5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tz5 OCA], [http://pdbe.org/5tz5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tz5 RCSB], [http://www.ebi.ac.uk/pdbsum/5tz5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tz5 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Polyketide synthase (PKS) enzymes continue to hold great promise as synthetic biology platforms for the production of novel therapeutic agents, biofuels, and commodity chemicals. Dehydratase (DH) catalytic domains play an important role during polyketide biosynthesis through the dehydration of the nascent polyketide intermediate to provide olefins. Our understanding of the detailed mechanistic and structural underpinning of DH domains that control substrate specificity and selectivity remains limited, thus hindering our efforts to rationally re-engineer PKSs. The curacin pathway houses a rare plurality of possible double bond permutations containing conjugated olefins as well as both cis- and trans-olefins, providing an unrivaled model system for polyketide dehydration. All four DH domains implicated in curacin biosynthesis were characterized in vitro using synthetic substrates, and activity was measured by LC-MS/MS analysis. These studies resulted in complete kinetic characterization of the all-trans-trienoate-forming CurK-DH, whose kcat of 72 s-1 is more than 3 orders of magnitude greater than that of any previously reported PKS DH domain. A novel stereospecific mechanism for diene formation involving a vinylogous enolate intermediate is proposed for the CurJ and CurH DHs on the basis of incubation studies with truncated substrates. A synthetic substrate was co-crystallized with a catalytically inactive Phe substitution in the His-Asp catalytic dyad of CurJ-DH to elucidate substrate-enzyme interactions. The resulting complex suggested the structural basis for dienoate formation and provided the first glimpse into the enzyme-substrate interactions essential for the formation of olefins in polyketide natural products. This examination of both canonical and non-canonical dehydration mechanisms reveals hidden catalytic activity inherent in some DH domains that may be leveraged for future applications in synthetic biology.

-	~~Authors:~~ Dodge, ~~G.J.~~, Smith, J.L.	+	Vinylogous Dehydration by a Polyketide Dehydratase Domain in Curacin Biosynthesis.,Fiers WD, Dodge GJ, Sherman DH, Smith JL, Aldrich CC J Am Chem Soc. 2016 Dec 14;138(49):16024-16036. Epub 2016 Nov 30. PMID:27960309<ref>PMID:27960309</ref>

-	~~Description: Crystal Structure~~ of ~~CurK Dehydratase H996F Inactive Mutant~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: Dodge, G.J]]	+	<div class="pdbe-citations 5tz5" style="background-color:#fffaf0;"></div>
-	[[Category: Smith, J.L]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Dodge, G J]]
		+	[[Category: Smith, J L]]
		+	[[Category: Curacin]]
		+	[[Category: Dehydratase]]
		+	[[Category: Lyase]]
		+	[[Category: Polyketide synthase]]

OCA at 17:29, 15 December 2016

OCA — Thu, 15 Dec 2016 17:29:00 GMT

←Older revision		Revision as of 17:29, 15 December 2016
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5tz5 is ON HOLD	+	The entry 5tz5 is ON HOLD until Paper Publication

	Authors: Dodge, G.J., Smith, J.L.		Authors: Dodge, G.J., Smith, J.L.

OCA: Protected "5tz5" [edit=sysop:move=sysop]

OCA — Fri, 09 Dec 2016 18:05:44 GMT

Protected "5tz5" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:05, 9 December 2016

OCA: New page: '''Unreleased structure''' The entry 5tz5 is ON HOLD Authors: Dodge, G.J., Smith, J.L. Description: Crystal Structure of CurK Dehydratase H996F Inactive Mutant [[Category: Unreleased S...

OCA — Fri, 09 Dec 2016 18:05:43 GMT

New page: '''Unreleased structure''' The entry 5tz5 is ON HOLD Authors: Dodge, G.J., Smith, J.L. Description: Crystal Structure of CurK Dehydratase H996F Inactive Mutant [[Category: Unreleased S...

New page

'''Unreleased structure'''

The entry 5tz5 is ON HOLD

Authors: Dodge, G.J., Smith, J.L.

Description: Crystal Structure of CurK Dehydratase H996F Inactive Mutant
[[Category: Unreleased Structures]]
[[Category: Dodge, G.J]]
[[Category: Smith, J.L]]