5y08 - Revision history

OCA at 10:32, 14 June 2023

OCA — Wed, 14 Jun 2023 10:32:21 GMT

←Older revision		Revision as of 10:32, 14 June 2023
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	==Solution structure of the apo doublet acyl carrier protein from prodigiosin biosynthesis==		==Solution structure of the apo doublet acyl carrier protein from prodigiosin biosynthesis==
-	<StructureSection load='5y08' size='340' side='right'caption='[[5y08~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='5y08' size='340' side='right'caption='[[5y08]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5y08]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Sers3 Sers3~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y08 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5Y08 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5y08]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Serratia_sp._ATCC_39006 Serratia sp. ATCC 39006]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y08 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5Y08 FirstGlance]. <br>
-	</td></tr>~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pigH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=104623 SERS3])</td></tr>~~	+	</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=5y08 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y08 OCA], [https://pdbe.org/5y08 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5y08 RCSB], [https://www.ebi.ac.uk/pdbsum/5y08 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5y08 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=5y08 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y08 OCA], [~~http~~://pdbe.org/5y08 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5y08 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5y08 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5y08 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PIGH_SERS3 PIGH_SERS3]] Involved in the biosynthesis of 4-methoxy-2,2'-bipyrrole-5-carbaldehyde (MBC), one of the terminal products involved in the biosynthesis of the red antibiotic prodigiosin (Pig). Carrier of the L-malonyl group (malonyl-S-PigH), which is decarboxylated by PigJ to yield a C2 carbanion acetyl-S-PigH. Then the pyrrolyl group of pyrrolyl-S-cysteinyl PigJ intermediate is captured by the C2 carbanion acetyl-S-PigH to yield the pyrrolyl-beta-ketoacyl-S-PigH. In the last step, PigH catalyzes the decarboxylative condensation between the pyrrolyl-beta-ketoacyl (pyrrolyl-beta-ketoacyl-S-PigH) and L-serine to yield 4-hydroxy-2,2'-bipyrrole-5-methanol (HBM).<ref>PMID:15853884</ref> <ref>PMID:17002325</ref>	+	[https://www.uniprot.org/uniprot/PIGH_SERS3 PIGH_SERS3] Involved in the biosynthesis of 4-methoxy-2,2'-bipyrrole-5-carbaldehyde (MBC), one of the terminal products involved in the biosynthesis of the red antibiotic prodigiosin (Pig). Carrier of the L-malonyl group (malonyl-S-PigH), which is decarboxylated by PigJ to yield a C2 carbanion acetyl-S-PigH. Then the pyrrolyl group of pyrrolyl-S-cysteinyl PigJ intermediate is captured by the C2 carbanion acetyl-S-PigH to yield the pyrrolyl-beta-ketoacyl-S-PigH. In the last step, PigH catalyzes the decarboxylative condensation between the pyrrolyl-beta-ketoacyl (pyrrolyl-beta-ketoacyl-S-PigH) and L-serine to yield 4-hydroxy-2,2'-bipyrrole-5-methanol (HBM).<ref>PMID:15853884</ref> <ref>PMID:17002325</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The acyl carrier protein (ACP) is an indispensable component of both fatty acid and polyketide synthases and is primarily responsible for delivering acyl intermediates to enzymatic partners. At present, increasing numbers of multidomain ACPs have been discovered with roles in molecular recognition of trans-acting enzymatic partners as well as increasing metabolic flux. Further structural information is required to provide insight into their function, yet to date, the only high-resolution structure of this class to be determined is that of the doublet ACP (two continuous ACP domains) from mupirocin synthase. Here we report the solution nuclear magnetic resonance (NMR) structure of the doublet ACP domains from PigH (PigH ACP(1)-ACP(2)), which is an enzyme that catalyzes the formation of the bipyrrolic intermediate of prodigiosin, a potent anticancer compound with a variety of biological activities. The PigH ACP(1)-ACP(2) structure shows each ACP domain consists of three conserved helices connected by a linker that is partially restricted by interactions with the ACP(1) domain. Analysis of the holo (4'-phosphopantetheine, 4'-PP) form of PigH ACP(1)-ACP(2) by NMR revealed conformational exchange found predominantly in the ACP(2) domain reflecting the inherent plasticity of this ACP. Furthermore, ensemble models obtained from SAXS data reveal two distinct conformers, bent and extended, of both apo (unmodified) and holo PigH ACP(1)-ACP(2) mediated by the central linker. The bent conformer appears to be a result of linker-ACP(1) interactions detected by NMR and might be important for intradomain communication during the biosynthesis. These results provide new insights into the behavior of the interdomain linker of multiple ACP domains that may modulate protein-protein interactions. This is likely to become an increasingly important consideration for metabolic engineering in prodigiosin and other related biosynthetic pathways.
		+
		+	Solution Structure and Conformational Dynamics of a Doublet Acyl Carrier Protein from Prodigiosin Biosynthesis.,Thongkawphueak T, Winter AJ, Williams C, Maple HJ, Soontaranon S, Kaewhan C, Campopiano DJ, Crump MP, Wattana-Amorn P Biochemistry. 2021 Jan 26;60(3):219-230. doi: 10.1021/acs.biochem.0c00830. Epub , 2021 Jan 8. PMID:33416314<ref>PMID:33416314</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5y08" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Sers3~~]]	+	[[Category: Serratia sp. ATCC 39006]]
-	[[Category: Wattana-amorn, P]]	+	[[Category: Wattana-amorn P]]
-	~~[[Category: Acyl carrier protein]]~~	+
-	~~[[Category: Biosynthetic protein~~]]	+

OCA at 06:55, 27 March 2019

OCA — Wed, 27 Mar 2019 06:55:38 GMT

←Older revision		Revision as of 06:55, 27 March 2019
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	==Solution structure of the apo doublet acyl carrier protein from prodigiosin biosynthesis==		==Solution structure of the apo doublet acyl carrier protein from prodigiosin biosynthesis==
-	<StructureSection load='5y08' size='340' side='right' caption='[[5y08]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='5y08' size='340' side='right'caption='[[5y08]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5y08]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y08 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Y08 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5y08]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Sers3 Sers3]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y08 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Y08 FirstGlance]. <br>
-	</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=5y08 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y08 OCA], [http://pdbe.org/5y08 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5y08 RCSB], [http://www.ebi.ac.uk/pdbsum/5y08 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5y08 ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pigH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=104623 SERS3])</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=5y08 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y08 OCA], [http://pdbe.org/5y08 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5y08 RCSB], [http://www.ebi.ac.uk/pdbsum/5y08 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5y08 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 12:		Line 13:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Sers3]]
	[[Category: Wattana-amorn, P]]		[[Category: Wattana-amorn, P]]
	[[Category: Acyl carrier protein]]		[[Category: Acyl carrier protein]]
	[[Category: Biosynthetic protein]]		[[Category: Biosynthetic protein]]

OCA at 06:38, 12 December 2018

OCA — Wed, 12 Dec 2018 06:38:28 GMT

←Older revision		Revision as of 06:38, 12 December 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 5y08 is ~~ON HOLD until Dec 10 2019~~	+	==Solution structure of the apo doublet acyl carrier protein from prodigiosin biosynthesis==
-		+	<StructureSection load='5y08' size='340' side='right' caption='[[5y08]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5y08]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y08 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Y08 FirstGlance]. <br>
-	~~Description~~:	+	</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=5y08 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y08 OCA], [http://pdbe.org/5y08 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5y08 RCSB], [http://www.ebi.ac.uk/pdbsum/5y08 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5y08 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PIGH_SERS3 PIGH_SERS3]] Involved in the biosynthesis of 4-methoxy-2,2'-bipyrrole-5-carbaldehyde (MBC), one of the terminal products involved in the biosynthesis of the red antibiotic prodigiosin (Pig). Carrier of the L-malonyl group (malonyl-S-PigH), which is decarboxylated by PigJ to yield a C2 carbanion acetyl-S-PigH. Then the pyrrolyl group of pyrrolyl-S-cysteinyl PigJ intermediate is captured by the C2 carbanion acetyl-S-PigH to yield the pyrrolyl-beta-ketoacyl-S-PigH. In the last step, PigH catalyzes the decarboxylative condensation between the pyrrolyl-beta-ketoacyl (pyrrolyl-beta-ketoacyl-S-PigH) and L-serine to yield 4-hydroxy-2,2'-bipyrrole-5-methanol (HBM).<ref>PMID:15853884</ref> <ref>PMID:17002325</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Wattana-amorn, P]]
		+	[[Category: Acyl carrier protein]]
		+	[[Category: Biosynthetic protein]]

OCA at 08:32, 5 September 2018

OCA — Wed, 05 Sep 2018 08:32:05 GMT

←Older revision		Revision as of 08:32, 5 September 2018
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5y08 is ON HOLD until ~~Sep~~ 10 2019	+	The entry 5y08 is ON HOLD until Dec 10 2019

	Authors:		Authors:

OCA at 05:38, 25 July 2018

OCA — Wed, 25 Jul 2018 05:38:51 GMT

←Older revision		Revision as of 05:38, 25 July 2018
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5y08 is ON HOLD until ~~Paper Publication~~	+	The entry 5y08 is ON HOLD until Sep 10 2019

	Authors:		Authors:

OCA at 04:02, 6 June 2018

OCA — Wed, 06 Jun 2018 04:02:30 GMT

←Older revision		Revision as of 04:02, 6 June 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5y08 is ON HOLD	+	The entry 5y08 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "5y08" [edit=sysop:move=sysop]

OCA — Wed, 27 Sep 2017 15:59:28 GMT

Protected "5y08" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:59, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5y08 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 27 Sep 2017 15:59:27 GMT

New page: '''Unreleased structure''' The entry 5y08 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5y08 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]