OCA at 07:15, 3 November 2022

OCA — Thu, 03 Nov 2022 07:15:48 GMT

←Older revision		Revision as of 07:15, 3 November 2022
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7u58 is ~~ON HOLD until Paper~~ Publication	+	==YcaO-mediated ATP-dependent peptidase activity in ribosomal peptide biosynthesis==
		+	<StructureSection load='7u58' size='340' side='right'caption='[[7u58]], [[Resolution\|resolution]] 3.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[7u58]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Desmonostoc_sp._PCC_7906 Desmonostoc sp. PCC 7906]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7U58 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7U58 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=7u58 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7u58 OCA], [https://pdbe.org/7u58 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7u58 RCSB], [https://www.ebi.ac.uk/pdbsum/7u58 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7u58 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A5Q0TWV7_DESSP A0A5Q0TWV7_DESSP]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	YcaO enzymes catalyze ATP-dependent post-translation modifications on peptides, including the installation of (ox/thi)azoline, thioamide and/or amidine moieties. Here we demonstrate that, in the biosynthesis of the bis-methyloxazolic alkaloid muscoride A, the YcaO enzyme MusD carries out both ATP-dependent cyclodehydration and peptide bond cleavage, which is a mechanism unprecedented for such a reaction. YcaO-catalyzed modifications are proposed to occur through a backbone O-phosphorylated intermediate, but this mechanism remains speculative. We report, to our knowedge, the first characterization of an acyl-phosphate species consistent with the proposed mechanism for backbone amide activation. The 3.1-A-resolution cryogenic electron microscopy structure of MusD along with biochemical analysis allow identification of residues that enable peptide cleavage reaction. Bioinformatics analysis identifies other cyanobactin pathways that may deploy bifunctional YcaO enzymes. Our structural, mutational and mechanistic studies expand the scope of modifications catalyzed by YcaO proteins to include peptide hydrolysis and provide evidence for a unifying mechanism for the catalytically diverse outcomes.

-	~~Authors: Zheng~~, Y., Nair, S.K.	+	YcaO-mediated ATP-dependent peptidase activity in ribosomal peptide biosynthesis.,Zheng Y, Nair SK Nat Chem Biol. 2022 Oct 24. pii: 10.1038/s41589-022-01141-0. doi:, 10.1038/s41589-022-01141-0. PMID:36280794<ref>PMID:36280794</ref>

-	~~Description: YcaO Domain Mediated ATP-Dependent Peptide Bond Cleavage in~~ the ~~Biosynthesis~~ of ~~a Bis~~-~~Oxazolic Ribosomal Peptide~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	[[Category: Nair~~, S.K~~]]	+	<div class="pdbe-citations 7u58" style="background-color:#fffaf0;"></div>
-	[[Category: Zheng, Y]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Desmonostoc sp. PCC 7906]]
		+	[[Category: Large Structures]]
		+	[[Category: Nair SK]]
		+	[[Category: Zheng Y]]

OCA at 08:32, 13 April 2022

OCA — Wed, 13 Apr 2022 08:32:18 GMT

←Older revision		Revision as of 08:32, 13 April 2022
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7u58 is ON HOLD	+	The entry 7u58 is ON HOLD until Paper Publication

	Authors: Zheng, Y., Nair, S.K.		Authors: Zheng, Y., Nair, S.K.
Line 7:		Line 7:
	Description: YcaO Domain Mediated ATP-Dependent Peptide Bond Cleavage in the Biosynthesis of a Bis-Oxazolic Ribosomal Peptide		Description: YcaO Domain Mediated ATP-Dependent Peptide Bond Cleavage in the Biosynthesis of a Bis-Oxazolic Ribosomal Peptide
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Zheng, Y]]
	[[Category: Nair, S.K]]		[[Category: Nair, S.K]]
		+	[[Category: Zheng, Y]]

OCA: Protected "7u58" [edit=sysop:move=sysop]

OCA — Wed, 09 Mar 2022 04:58:07 GMT

Protected "7u58" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:58, 9 March 2022

OCA: New page: '''Unreleased structure''' The entry 7u58 is ON HOLD Authors: Zheng, Y., Nair, S.K. Description: YcaO Domain Mediated ATP-Dependent Peptide Bond Cleavage in the Biosynthesis of a Bis-O...

OCA — Wed, 09 Mar 2022 04:58:06 GMT

New page: '''Unreleased structure''' The entry 7u58 is ON HOLD Authors: Zheng, Y., Nair, S.K. Description: YcaO Domain Mediated ATP-Dependent Peptide Bond Cleavage in the Biosynthesis of a Bis-O...

New page

'''Unreleased structure'''

The entry 7u58 is ON HOLD

Authors: Zheng, Y., Nair, S.K.

Description: YcaO Domain Mediated ATP-Dependent Peptide Bond Cleavage in the Biosynthesis of a Bis-Oxazolic Ribosomal Peptide
[[Category: Unreleased Structures]]
[[Category: Zheng, Y]]
[[Category: Nair, S.K]]

7u58 - Revision history

OCA at 07:15, 3 November 2022

OCA at 08:32, 13 April 2022

OCA: Protected "7u58" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 7u58 is ON HOLD Authors: Zheng, Y., Nair, S.K. Description: YcaO Domain Mediated ATP-Dependent Peptide Bond Cleavage in the Biosynthesis of a Bis-O...