7ly7 - Revision history

OCA at 16:01, 18 October 2023

2023-10-18T16:01:14Z

←Older revision		Revision as of 16:01, 18 October 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7ly7]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoactinomyces_vulgaris Thermoactinomyces vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7LY7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7LY7 FirstGlance]. <br>		<table><tr><td colspan='2'>[[7ly7]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoactinomyces_vulgaris Thermoactinomyces vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7LY7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7LY7 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=YOA:5-{[(2R,3S)-3-amino-2-({2-[(N-{(2R)-4-[(dihydroxyphosphanyl)oxy]-2-hydroxy-3,3-dimethylbutanoyl}-beta-alanyl)amino]ethyl}sulfanyl)-4-sulfanylbutane-1-sulfonyl]amino}-5-deoxyadenosine'>YOA</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]] 3.8Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=YOA:5-{[(2R,3S)-3-amino-2-({2-[(N-{(2R)-4-[(dihydroxyphosphanyl)oxy]-2-hydroxy-3,3-dimethylbutanoyl}-beta-alanyl)amino]ethyl}sulfanyl)-4-sulfanylbutane-1-sulfonyl]amino}-5-deoxyadenosine'>YOA</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=7ly7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ly7 OCA], [https://pdbe.org/7ly7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ly7 RCSB], [https://www.ebi.ac.uk/pdbsum/7ly7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ly7 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=7ly7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ly7 OCA], [https://pdbe.org/7ly7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ly7 RCSB], [https://www.ebi.ac.uk/pdbsum/7ly7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ly7 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 03:48, 8 September 2022

2022-09-08T03:48:26Z

←Older revision		Revision as of 03:48, 8 September 2022
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-	====	+	==Crystal structure of the elongation module of the bacillamide NRPS, BmdB, in complex with the oxidase BmdC==
-	<StructureSection load='7ly7' size='340' side='right'caption='[[7ly7]]' scene=''>	+	<StructureSection load='7ly7' size='340' side='right'caption='[[7ly7]], [[Resolution\|resolution]] 3.80Å' 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= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7ly7]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoactinomyces_vulgaris Thermoactinomyces vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7LY7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7LY7 FirstGlance]. <br>
-	</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=7ly7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ly7 OCA], [https://pdbe.org/7ly7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ly7 RCSB], [https://www.ebi.ac.uk/pdbsum/7ly7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ly7 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=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=YOA:5-{[(2R,3S)-3-amino-2-({2-[(N-{(2R)-4-[(dihydroxyphosphanyl)oxy]-2-hydroxy-3,3-dimethylbutanoyl}-beta-alanyl)amino]ethyl}sulfanyl)-4-sulfanylbutane-1-sulfonyl]amino}-5-deoxyadenosine'>YOA</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=7ly7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ly7 OCA], [https://pdbe.org/7ly7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ly7 RCSB], [https://www.ebi.ac.uk/pdbsum/7ly7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ly7 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Nonribosomal peptide synthetases (NRPSs) are large modular enzymes that synthesize secondary metabolites and natural product therapeutics. Most NRPS biosynthetic pathways include an NRPS and additional proteins that introduce chemical modifications before, during or after assembly-line synthesis. The bacillamide biosynthetic pathway is a common, three-protein system, with a decarboxylase that prepares an NRPS substrate, an NRPS, and an oxidase. Here, the pathway is reconstituted in vitro. The oxidase is shown to perform dehydrogenation of the thiazoline in the peptide intermediate while it is covalently attached to the NRPS, as the penultimate step in bacillamide D synthesis. Structural analysis of the oxidase reveals a dimeric, two-lobed architecture with a remnant RiPP recognition element and a dramatic wrapping loop. The oxidase forms a stable complex with the NRPS and dimerizes it. We visualized co-complexes of the oxidase bound to the elongation module of the NRPS using X-ray crystallography and cryo-EM. The three active sites (for adenylation, condensation/cyclization, and oxidation) form an elegant arc to facilitate substrate delivery. The structures enabled a proof-of-principle bioengineering experiment in which the BmdC oxidase domain is embedded into the NRPS.
		+
		+	Structures and function of a tailoring oxidase in complex with a nonribosomal peptide synthetase module.,Fortinez CM, Bloudoff K, Harrigan C, Sharon I, Strauss M, Schmeing TM Nat Commun. 2022 Jan 27;13(1):548. doi: 10.1038/s41467-022-28221-y. PMID:35087027<ref>PMID:35087027</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7ly7" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Thermoactinomyces vulgaris]]
		+	[[Category: Fortinez CM]]
		+	[[Category: Schmeing TM]]
		+	[[Category: Sharon I]]

OCA at 06:59, 2 February 2022

2022-02-02T06:59:27Z

←Older revision		Revision as of 06:59, 2 February 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7ly7 ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='7ly7' size='340' side='right'caption='[[7ly7]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~:	+	</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=7ly7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ly7 OCA], [https://pdbe.org/7ly7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ly7 RCSB], [https://www.ebi.ac.uk/pdbsum/7ly7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ly7 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 05:06, 10 November 2021

2021-11-10T05:06:48Z

←Older revision		Revision as of 05:06, 10 November 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7ly7 is ON HOLD	+	The entry 7ly7 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA at 07:35, 29 September 2021

2021-09-29T07:35:26Z

←Older revision		Revision as of 07:35, 29 September 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7ly7 is ON HOLD ~~until Paper Publication~~	+	The entry 7ly7 is ON HOLD

	Authors:		Authors:

OCA at 08:44, 7 July 2021

2021-07-07T08:44:20Z

←Older revision		Revision as of 08:44, 7 July 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7ly7 is ON HOLD	+	The entry 7ly7 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7ly7" [edit=sysop:move=sysop]

2021-03-17T05:24:17Z

Protected "7ly7" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:24, 17 March 2021

OCA: New page: '''Unreleased structure''' The entry 7ly7 is ON HOLD Authors: Description: Category: Unreleased Structures

2021-03-17T05:24:16Z

New page: '''Unreleased structure''' The entry 7ly7 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7ly7 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]