6omp - Revision history

OCA at 14:52, 13 March 2024

2024-03-13T14:52:26Z

← Older revision		Revision as of 14:52, 13 March 2024
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	<StructureSection load='6omp' size='340' side='right'caption='[[6omp]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='6omp' size='340' side='right'caption='[[6omp]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6omp]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_13865 Atcc 13865~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OMP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6OMP FirstGlance]. <br>		<table><tr><td colspan='2'>[[6omp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_platensis Streptomyces platensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OMP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6OMP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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]] 1.7Å</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=6omp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6omp OCA], [~~http~~://pdbe.org/6omp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6omp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6omp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6omp ProSAT]</span></td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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=6omp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6omp OCA], [https://pdbe.org/6omp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6omp RCSB], [https://www.ebi.ac.uk/pdbsum/6omp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6omp ProSAT]</span></td></tr>
	</table>		</table>
	~~<div style~~=~~"background-color:#fffaf0;">~~		== Function ==
	=~~= Publication Abstract from PubMed~~ ==		[https://www.uniprot.org/uniprot/A0A0A0UVH9_STRPT A0A0A0UVH9_STRPT]
	Nonheme diiron monooxygenases make up a rapidly growing family of oxygenases that are rarely identified in secondary metabolism. Herein, we report the in vivo, in vitro, and structural characterizations of a nonheme diiron monooxygenase, PtmU3, that installs a C-5 beta-hydroxyl group in the unified biosynthesis of platensimycin and platencin, two highly functionalized diterpenoids that act as potent and selective inhibitors of bacterial and mammalian fatty acid synthases. This hydroxylation sets the stage for the subsequent A-ring cleavage step key to the unique diterpene-derived scaffolds of platensimycin and platencin. PtmU3 adopts an unprecedented triosephosphate isomerase (TIM) barrel structural fold for this class of enzymes and possesses a noncanonical diiron active site architecture with a saturated six-coordinate iron center lacking a mu-oxo bridge. This study reveals the first member of a previously unidentified superfamily of TIM-barrel-fold enzymes for metal-dependent dioxygen activation, with the majority predicted to act on CoA-linked substrates, thus expanding our knowledge of nature's repertoire of nonheme diiron monooxygenases and TIM-barrel-fold enzymes.

	Characterization and Crystal Structure of a Nonheme Diiron Monooxygenase Involved in Platensimycin and Platencin Biosynthesis.,Dong LB, Liu YC, Cepeda AJ, Kalkreuter E, Deng MR, Rudolf JD, Chang C, Joachimiak A, Phillips GN Jr, Shen B J Am Chem Soc. 2019 Jul 23. doi: 10.1021/jacs.9b06183. PMID:~~31291107<ref>PMID:31291107<~~/~~ref>~~

	~~From MEDLINE®~~/~~PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~
	</~~div>~~
	~~<div class="pdbe-citations 6omp" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references~~/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: Atcc 13865]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Dong, L B~~]]		[[Category: Streptomyces platensis]]
	[[Category: ~~Liu, Y C~~]]		[[Category: Dong LB]]
	[[Category: ~~Shen, B~~]]		[[Category: Liu YC]]
	[[Category: ~~Oxidoreductase]]~~		[[Category: Shen B]]
	~~[[Category: Tim-barrel~~]]

OCA at 07:02, 31 July 2019

2019-07-31T07:02:07Z

← Older revision		Revision as of 07:02, 31 July 2019
Line 3:		Line 3:
	<StructureSection load='6omp' size='340' side='right'caption='[[6omp]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='6omp' size='340' side='right'caption='[[6omp]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6omp]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OMP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OMP FirstGlance]. <br>		<table><tr><td colspan='2'>[[6omp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_13865 Atcc 13865]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OMP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OMP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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=6omp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6omp OCA], [http://pdbe.org/6omp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6omp RCSB], [http://www.ebi.ac.uk/pdbsum/6omp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6omp 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=6omp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6omp OCA], [http://pdbe.org/6omp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6omp RCSB], [http://www.ebi.ac.uk/pdbsum/6omp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6omp ProSAT]</span></td></tr>
	</table>		</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Nonheme diiron monooxygenases make up a rapidly growing family of oxygenases that are rarely identified in secondary metabolism. Herein, we report the in vivo, in vitro, and structural characterizations of a nonheme diiron monooxygenase, PtmU3, that installs a C-5 beta-hydroxyl group in the unified biosynthesis of platensimycin and platencin, two highly functionalized diterpenoids that act as potent and selective inhibitors of bacterial and mammalian fatty acid synthases. This hydroxylation sets the stage for the subsequent A-ring cleavage step key to the unique diterpene-derived scaffolds of platensimycin and platencin. PtmU3 adopts an unprecedented triosephosphate isomerase (TIM) barrel structural fold for this class of enzymes and possesses a noncanonical diiron active site architecture with a saturated six-coordinate iron center lacking a mu-oxo bridge. This study reveals the first member of a previously unidentified superfamily of TIM-barrel-fold enzymes for metal-dependent dioxygen activation, with the majority predicted to act on CoA-linked substrates, thus expanding our knowledge of nature's repertoire of nonheme diiron monooxygenases and TIM-barrel-fold enzymes.

			Characterization and Crystal Structure of a Nonheme Diiron Monooxygenase Involved in Platensimycin and Platencin Biosynthesis.,Dong LB, Liu YC, Cepeda AJ, Kalkreuter E, Deng MR, Rudolf JD, Chang C, Joachimiak A, Phillips GN Jr, Shen B J Am Chem Soc. 2019 Jul 23. doi: 10.1021/jacs.9b06183. PMID:31291107<ref>PMID:31291107</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 6omp" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Atcc 13865]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Dong, L B]]		[[Category: Dong, L B]]

OCA at 06:21, 24 July 2019

2019-07-24T06:21:29Z

← Older revision		Revision as of 06:21, 24 July 2019
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	~~'''Unreleased structure'''~~

	~~The entry~~ 6omp is ~~ON HOLD until Paper Publication~~		==Crystal structure of apo PtmU3==
			<StructureSection load='6omp' size='340' side='right'caption='[[6omp]], [[Resolution\|resolution]] 1.70Å' scene=''>
	~~Authors~~: ~~Liu~~, Y.C., ~~Dong~~, L.B., ~~Shen~~, B.		== Structural highlights ==
			<table><tr><td colspan='2'>[[6omp]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OMP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OMP FirstGlance]. <br>
	~~Description: Crystal structure of apo PtmU3~~		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
	[[Category: ~~Unreleased~~ Structures]]		<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=6omp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6omp OCA], [http://pdbe.org/6omp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6omp RCSB], [http://www.ebi.ac.uk/pdbsum/6omp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6omp ProSAT]</span></td></tr>
	[[Category: ~~Liu~~, ~~Y.C~~]]		</table>
	[[Category: ~~Dong~~, ~~L.B~~]]		__TOC__
			</StructureSection>
			[[Category: Large Structures]]
			[[Category: Dong, L B]]
			[[Category: Liu, Y C]]
	[[Category: Shen, B]]		[[Category: Shen, B]]
			[[Category: Oxidoreductase]]
			[[Category: Tim-barrel]]

OCA: Protected "6omp" [edit=sysop:move=sysop]

2019-05-01T07:08:54Z

Protected "6omp" [edit=sysop:move=sysop]

← Older revision	Revision as of 07:08, 1 May 2019
(No difference)

OCA: New page: '''Unreleased structure''' The entry 6omp is ON HOLD until Paper Publication Authors: Liu, Y.C., Dong, L.B., Shen, B. Description: Crystal structure of apo PtmU3 [[Category: Unreleased...

2019-05-01T07:08:53Z

New page: '''Unreleased structure''' The entry 6omp is ON HOLD until Paper Publication Authors: Liu, Y.C., Dong, L.B., Shen, B. Description: Crystal structure of apo PtmU3 [[Category: Unreleased...

New page

'''Unreleased structure'''

The entry 6omp is ON HOLD until Paper Publication

Authors: Liu, Y.C., Dong, L.B., Shen, B.

Description: Crystal structure of apo PtmU3
[[Category: Unreleased Structures]]
[[Category: Liu, Y.C]]
[[Category: Dong, L.B]]
[[Category: Shen, B]]