7yy1 - Revision history

OCA at 13:27, 1 February 2024

OCA — Thu, 01 Feb 2024 13:27:20 GMT

←Older revision		Revision as of 13:27, 1 February 2024
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	==Mycobacterium abscessus Phosphopantetheine adenylyltransferase ternary complex with 4'-phosphopantetheine & non-hydrolyzable ATP analogue (AMPCPP)==		==Mycobacterium abscessus Phosphopantetheine adenylyltransferase ternary complex with 4'-phosphopantetheine & non-hydrolyzable ATP analogue (AMPCPP)==
-	<StructureSection load='7yy1' size='340' side='right'caption='[[7yy1]]' scene=''>	+	<StructureSection load='7yy1' size='340' side='right'caption='[[7yy1]], [[Resolution\|resolution]] 1.70Å' 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=7YY1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YY1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7yy1]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacteroides_abscessus Mycobacteroides abscessus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YY1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YY1 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=7yy1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yy1 OCA], [https://pdbe.org/7yy1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yy1 RCSB], [https://www.ebi.ac.uk/pdbsum/7yy1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yy1 ProSAT]</span></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]] 1.697Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=APC:DIPHOSPHOMETHYLPHOSPHONIC+ACID+ADENOSYL+ESTER'>APC</scene>, <scene name='pdbligand=PNS:4-PHOSPHOPANTETHEINE'>PNS</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=7yy1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yy1 OCA], [https://pdbe.org/7yy1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yy1 RCSB], [https://www.ebi.ac.uk/pdbsum/7yy1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yy1 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/COAD_MYCA9 COAD_MYCA9] Reversibly transfers an adenylyl group from ATP to 4'-phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Anti-microbial resistance is a rising global healthcare concern that needs urgent attention as growing number of infections become difficult to treat with the currently available antibiotics. This is particularly true for mycobacterial infections like tuberculosis and leprosy and those with emerging opportunistic pathogens such as Mycobacterium abscessus, where multi-drug resistance leads to increased healthcare cost and mortality. M. abscessus is a highly drug-resistant non-tuberculous mycobacterium which causes life-threatening infections in people with chronic lung conditions such as cystic fibrosis. In this study, we explore M. abscessus phosphopantetheine adenylyl transferase (PPAT), an enzyme involved in the biosynthesis of Coenzyme A, as a target for the development of new antibiotics. We provide structural insights into substrate and feedback inhibitor binding modes of M. abscessus PPAT, thereby setting the basis for further chemical exploration of the enzyme. We then utilize a multi-dimensional fragment screening approach involving biophysical and structural analysis, followed by evaluation of compounds from a previous fragment-based drug discovery campaign against M. tuberculosis PPAT ortholog. This allowed the identification of an early-stage lead molecule exhibiting low micro molar affinity against M. abscessus PPAT (Kd 3.2 +/- 0.8 microM) and potential new ways to design inhibitors against this enzyme. The resulting crystal structures reveal striking conformational changes and closure of solvent channel of M. abscessus PPAT hexamer providing novel strategies of inhibition. The study thus validates the ligandability of M. abscessus PPAT as an antibiotic target and identifies crucial starting points for structure-guided drug discovery against this bacterium.
		+
		+	Structural Characterization of Mycobacterium abscessus Phosphopantetheine Adenylyl Transferase Ligand Interactions: Implications for Fragment-Based Drug Design.,Thomas SE, McCarthy WJ, El Bakali J, Brown KP, Kim SY, Blaszczyk M, Mendes V, Abell C, Floto RA, Coyne AG, Blundell TL Front Mol Biosci. 2022 May 30;9:880432. doi: 10.3389/fmolb.2022.880432., eCollection 2022. PMID:35712348<ref>PMID:35712348</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7yy1" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Thomas, SE, Coyne, AG,~~ Blundell, TL]]	+	[[Category: Mycobacteroides abscessus]]
		+	[[Category: Blundell TL]]
		+	[[Category: Coyne AG]]
		+	[[Category: Thomas SE]]

OCA at 07:29, 29 June 2022

OCA — Wed, 29 Jun 2022 07:29:12 GMT

←Older revision		Revision as of 07:29, 29 June 2022
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-	'''Unreleased structure'''

-	~~The entry 7yy1 is ON HOLD until Paper Publication~~	+	==Mycobacterium abscessus Phosphopantetheine adenylyltransferase ternary complex with 4'-phosphopantetheine & non-hydrolyzable ATP analogue (AMPCPP)==
-		+	<StructureSection load='7yy1' size='340' side='right'caption='[[7yy1]]' scene=''>
-	~~Authors: Thomas, S.E., Coyne, A.G., Blundell, T.L.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YY1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YY1 FirstGlance]. <br>
-	~~Description:~~ Mycobacterium abscessus Phosphopantetheine adenylyltransferase ternary complex with 4''-phosphopantetheine & non-hydrolyzable ATP analogue (AMPCPP)	+	</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=7yy1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yy1 OCA], [https://pdbe.org/7yy1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yy1 RCSB], [https://www.ebi.ac.uk/pdbsum/7yy1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yy1 ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Blundell~~, T.L]]	+	__TOC__
-	[[Category: ~~Thomas, S.E~~]]	+	</StructureSection>
-	[[Category: Coyne, ~~A.G~~]]	+	[[Category: Large Structures]]
		+	[[Category: Thomas, SE, Coyne, AG, Blundell, TL]]

OCA at 07:08, 22 June 2022

OCA — Wed, 22 Jun 2022 07:08:42 GMT

←Older revision		Revision as of 07:08, 22 June 2022
Line 5:		Line 5:
	Authors: Thomas, S.E., Coyne, A.G., Blundell, T.L.		Authors: Thomas, S.E., Coyne, A.G., Blundell, T.L.

-	Description: Mycobacterium abscessus Phosphopantetheine adenylyltransferase ternary complex with 4'-phosphopantetheine & non-hydrolyzable ATP analogue (AMPCPP)	+	Description: Mycobacterium abscessus Phosphopantetheine adenylyltransferase ternary complex with 4''-phosphopantetheine & non-hydrolyzable ATP analogue (AMPCPP)
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Blundell, T.L]]		[[Category: Blundell, T.L]]
	[[Category: Thomas, S.E]]		[[Category: Thomas, S.E]]
	[[Category: Coyne, A.G]]		[[Category: Coyne, A.G]]

OCA at 10:05, 23 March 2022

OCA — Wed, 23 Mar 2022 10:05:25 GMT

←Older revision		Revision as of 10:05, 23 March 2022
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7yy1 is ON HOLD	+	The entry 7yy1 is ON HOLD until Paper Publication

	Authors: Thomas, S.E., Coyne, A.G., Blundell, T.L.		Authors: Thomas, S.E., Coyne, A.G., Blundell, T.L.

OCA: Protected "7yy1" [edit=sysop:move=sysop]

OCA — Wed, 23 Feb 2022 06:48:07 GMT

Protected "7yy1" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:48, 23 February 2022

OCA: New page: '''Unreleased structure''' The entry 7yy1 is ON HOLD Authors: Thomas, S.E., Coyne, A.G., Blundell, T.L. Description: Mycobacterium abscessus Phosphopantetheine adenylyltransferase tern...

OCA — Wed, 23 Feb 2022 06:48:05 GMT

New page: '''Unreleased structure''' The entry 7yy1 is ON HOLD Authors: Thomas, S.E., Coyne, A.G., Blundell, T.L. Description: Mycobacterium abscessus Phosphopantetheine adenylyltransferase tern...

New page

'''Unreleased structure'''

The entry 7yy1 is ON HOLD

Authors: Thomas, S.E., Coyne, A.G., Blundell, T.L.

Description: Mycobacterium abscessus Phosphopantetheine adenylyltransferase ternary complex with 4'-phosphopantetheine & non-hydrolyzable ATP analogue (AMPCPP)
[[Category: Unreleased Structures]]
[[Category: Blundell, T.L]]
[[Category: Thomas, S.E]]
[[Category: Coyne, A.G]]