OCA at 09:08, 30 August 2023

OCA — Wed, 30 Aug 2023 09:08:52 GMT

←Older revision		Revision as of 09:08, 30 August 2023
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-	'''Unreleased structure'''

-	~~The entry~~ 8evy is ~~ON HOLD until Paper~~ Publication	+	==DdlB from Pseudomonas aeruginosa PAO1 in complex with ATP and D-ala-D-ala==
		+	<StructureSection load='8evy' size='340' side='right'caption='[[8evy]], [[Resolution\|resolution]] 2.35Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8evy]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_aeruginosa_PAO1 Pseudomonas aeruginosa PAO1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8EVY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8EVY FirstGlance]. <br>
		+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.35Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=DAL:D-ALANINE'>DAL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=8evy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8evy OCA], [https://pdbe.org/8evy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8evy RCSB], [https://www.ebi.ac.uk/pdbsum/8evy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8evy ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/DDLB_PSEAE DDLB_PSEAE] Cell wall formation.[HAMAP-Rule:MF_00047]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Pseudomonas aeruginosa is a major human pathogen in the healthcare setting. The emergence of multi-drug-resistant and extensive drug-resistant P. aeruginosa is of great concern, and clearly indicates that new alternatives to current first-line antibiotics are required in the future. Inhibition of d-alanine-d-alanine production presents as a promising avenue as it is a key component in the essential process of cell wall biosynthesis. In P. aeruginosa, d-alanine-d-alanine production is facilitated by two isoforms, d-alanine-d-alanine ligase A (PaDdlA) and d-alanine-d-alanine ligase B (PaDdlA), but neither enzyme has been individually characterised to date. Here, we present the functional and structural characterisation of PaDdlA and PaDdlB, and assess their potential as antibiotic targets. This was achieved using a combination of in vitro enzyme-activity assays and X-ray crystallography. The former revealed that both isoforms effectively catalyse d-alanine-d-alanine production with near identical efficiency, and that this is effectively disrupted by the model d-alanine-d-alanine ligase inhibitor, d-cycloserine. Next, each isoform was co-crystallised with ATP and either d-alanine-d-alanine or d-cycloserine, allowing direct comparison of the key structural features. Both isoforms possess the same structural architecture and share a high level of conservation within the active site. Although residues forming the d-alanine pocket are completely conserved, the ATP-binding pocket possesses several amino acid substitutions resulting in a differing chemical environment around the ATP adenine base. Together, these findings support that the discovery of dual PaDdlA/PaDdlB competitive inhibitors is a viable approach for developing new antibiotics against P. aeruginosa.

-	~~Authors~~:	+	Comparative functional and structural analysis of Pseudomonas aeruginosa d-alanine-d-alanine ligase isoforms as prospective antibiotic targets.,Pederick JL, Woolman JC, Bruning JB FEBS J. 2023 Aug 15. doi: 10.1111/febs.16932. PMID:37581574<ref>PMID:37581574</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 8evy" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Pseudomonas aeruginosa PAO1]]
		+	[[Category: Bruning JB]]
		+	[[Category: Pederick JL]]
		+	[[Category: Woolman JC]]

OCA at 19:36, 28 June 2023

OCA — Wed, 28 Jun 2023 19:36:46 GMT

←Older revision		Revision as of 19:36, 28 June 2023
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8evy is ON HOLD	+	The entry 8evy is ON HOLD until Paper Publication

	Authors:		Authors:

OCA at 07:58, 21 June 2023

OCA — Wed, 21 Jun 2023 07:58:24 GMT

←Older revision		Revision as of 07:58, 21 June 2023
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8evy is ON HOLD ~~until Paper Publication~~	+	The entry 8evy is ON HOLD

	Authors:		Authors:

OCA at 05:04, 9 November 2022

OCA — Wed, 09 Nov 2022 05:04:14 GMT

←Older revision		Revision as of 05:04, 9 November 2022
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8evy is ON HOLD	+	The entry 8evy is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "8evy" [edit=sysop:move=sysop]

OCA — Wed, 26 Oct 2022 04:08:03 GMT

Protected "8evy" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:08, 26 October 2022

OCA: New page: '''Unreleased structure''' The entry 8evy is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 26 Oct 2022 04:08:02 GMT

New page: '''Unreleased structure''' The entry 8evy is ON HOLD Authors: Description: Category: Unreleased Structures

New page