7n11 - Revision history

OCA at 16:22, 18 October 2023

OCA — Wed, 18 Oct 2023 16:22:47 GMT

←Older revision		Revision as of 16:22, 18 October 2023
Line 3:		Line 3:
	<StructureSection load='7n11' size='340' side='right'caption='[[7n11]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='7n11' size='340' side='right'caption='[[7n11]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7n11]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7N11 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7N11 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7n11]] is a 1 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=7N11 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7N11 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.1Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[https://en.wikipedia.org/wiki/Leucine--tRNA_ligase Leucine--tRNA ligase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.4 6.1.1.4]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=7n11 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7n11 OCA], [https://pdbe.org/7n11 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7n11 RCSB], [https://www.ebi.ac.uk/pdbsum/7n11 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7n11 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=7n11 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7n11 OCA], [https://pdbe.org/7n11 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7n11 RCSB], [https://www.ebi.ac.uk/pdbsum/7n11 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7n11 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A0U0XQP3_9MYCO A0A0U0XQP3_9MYCO]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 17:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 7n11" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7n11" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Aminoacyl tRNA synthetase 3D structures\|Aminoacyl tRNA synthetase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 22:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Leucine--tRNA ligase~~]]	+	[[Category: Mycobacteroides abscessus]]
-	[[Category: Kalthoff, E]]	+	[[Category: Kalthoff E]]
-	[[Category: Schmeing, M]]	+	[[Category: Schmeing M]]
-	~~[[Category: Antibiotic]]~~	+
-	~~[[Category: Complex]]~~	+
-	~~[[Category: Inhibitor]]~~	+
-	~~[[Category: Ligase-ligase inhibitor complex]]~~	+
-	~~[[Category: Oxaborole~~]]	+

OCA at 15:52, 27 October 2021

OCA — Wed, 27 Oct 2021 15:52:39 GMT

←Older revision		Revision as of 15:52, 27 October 2021
Line 1:		Line 1:

	==Crystal structure of the M. abscessus LeuRS editing domain in complex with epetraborole-AMP adduct==		==Crystal structure of the M. abscessus LeuRS editing domain in complex with epetraborole-AMP adduct==
-	<StructureSection load='7n11' size='340' side='right'caption='[[7n11]]' scene=''>	+	<StructureSection load='7n11' size='340' side='right'caption='[[7n11]], [[Resolution\|resolution]] 2.10Å' 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=7N11 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7N11 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7n11]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7N11 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7N11 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=7n11 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7n11 OCA], [https://pdbe.org/7n11 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7n11 RCSB], [https://www.ebi.ac.uk/pdbsum/7n11 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7n11 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=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Leucine--tRNA_ligase Leucine--tRNA ligase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.4 6.1.1.4] </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=7n11 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7n11 OCA], [https://pdbe.org/7n11 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7n11 RCSB], [https://www.ebi.ac.uk/pdbsum/7n11 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7n11 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Mycobacterium abscessus is the most common rapidly growing non-tuberculous mycobacteria to cause pulmonary disease in patients with impaired lung function such as cystic fibrosis. M. abscessus displays high intrinsic resistance to common antibiotics and inducible resistance to macrolides like clarithromycin. As such, M. abscessus is clinically resistant to the entire regimen of front-line M. tuberculosis drugs, and treatment with antibiotics that do inhibit M. abscessus in the lab results in cure rates of 50% or less. Here, we identified epetraborole (EPT) from the MMV pandemic response box as an inhibitor against the essential protein leucyl-tRNA synthetase (LeuRS) in M. abscessus. EPT protected zebrafish from lethal M. abscessus infection and did not induce self-resistance nor against clarithromycin. Contrary to most antimycobacterials, the whole-cell activity of EPT was greater against M. abscessus than M. tuberculosis, but crystallographic and equilibrium binding data showed that EPT binds LeuRSMabs and LeuRSMtb with similar residues and dissociation constants. Since EPT-resistant M. abscessus mutants lost LeuRS editing activity, these mutants became susceptible to misaminoacylation with leucine mimics like the non-proteinogenic amino acid norvaline. Proteomic analysis revealed that when M. abscessus LeuRS mutants were fed norvaline, leucine residues in proteins were replaced by norvaline, inducing the unfolded protein response with temporal changes in expression of GroEL chaperonins and Clp proteases. This supports our in vitro data that supplementation of media with norvaline reduced the emergence of EPT mutants in both M. abscessus and M. tuberculosis. Furthermore, the combination of EPT and norvaline had improved in vivo efficacy compared to EPT in a murine model of M. abscessus infection. Our results emphasize the effectiveness of EPT against the clinically relevant cystic fibrosis pathogen M. abscessus, and these findings also suggest norvaline adjunct therapy with EPT could be beneficial for M. abscessus and other mycobacterial infections like tuberculosis.
		+
		+	Efficacy of epetraborole against Mycobacterium abscessus is increased with norvaline.,Sullivan JR, Lupien A, Kalthoff E, Hamela C, Taylor L, Munro KA, Schmeing TM, Kremer L, Behr MA PLoS Pathog. 2021 Oct 12;17(10):e1009965. doi: 10.1371/journal.ppat.1009965., eCollection 2021 Oct. PMID:34637487<ref>PMID:34637487</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7n11" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Kalthoff E]]	+	[[Category: Leucine--tRNA ligase]]
-	[[Category: Schmeing M]]	+	[[Category: Kalthoff, E]]
		+	[[Category: Schmeing, M]]
		+	[[Category: Antibiotic]]
		+	[[Category: Complex]]
		+	[[Category: Inhibitor]]
		+	[[Category: Ligase-ligase inhibitor complex]]
		+	[[Category: Oxaborole]]

OCA at 05:31, 6 October 2021

OCA — Wed, 06 Oct 2021 05:31:45 GMT

←Older revision		Revision as of 05:31, 6 October 2021
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 7n11 is ON HOLD until Paper Publication~~	+	==Crystal structure of the M. abscessus LeuRS editing domain in complex with epetraborole-AMP adduct==
-		+	<StructureSection load='7n11' size='340' side='right'caption='[[7n11]]' scene=''>
-	~~Authors: Kalthoff, E., Schmeing, M.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7N11 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7N11 FirstGlance]. <br>
-	~~Description:~~ Crystal structure of the M. abscessus LeuRS editing domain in complex with epetraborole-AMP adduct	+	</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=7n11 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7n11 OCA], [https://pdbe.org/7n11 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7n11 RCSB], [https://www.ebi.ac.uk/pdbsum/7n11 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7n11 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: Kalthoff, E]]	+	__TOC__
-	[[Category: Schmeing, M]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Kalthoff E]]
		+	[[Category: Schmeing M]]

OCA at 02:28, 2 July 2021

OCA — Fri, 02 Jul 2021 02:28:22 GMT

←Older revision		Revision as of 02:28, 2 July 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7n11 is ON HOLD	+	The entry 7n11 is ON HOLD until Paper Publication

	Authors: Kalthoff, E., Schmeing, M.		Authors: Kalthoff, E., Schmeing, M.
Line 7:		Line 7:
	Description: Crystal structure of the M. abscessus LeuRS editing domain in complex with epetraborole-AMP adduct		Description: Crystal structure of the M. abscessus LeuRS editing domain in complex with epetraborole-AMP adduct
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Schmeing, M]]
	[[Category: Kalthoff, E]]		[[Category: Kalthoff, E]]
		+	[[Category: Schmeing, M]]

OCA: Protected "7n11" [edit=sysop:move=sysop]

OCA — Wed, 02 Jun 2021 13:33:16 GMT

Protected "7n11" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:33, 2 June 2021

OCA: New page: '''Unreleased structure''' The entry 7n11 is ON HOLD Authors: Kalthoff, E., Schmeing, M. Description: Crystal structure of the M. abscessus LeuRS editing domain in complex with epetrab...

OCA — Wed, 02 Jun 2021 13:33:15 GMT

New page: '''Unreleased structure''' The entry 7n11 is ON HOLD Authors: Kalthoff, E., Schmeing, M. Description: Crystal structure of the M. abscessus LeuRS editing domain in complex with epetrab...

New page

'''Unreleased structure'''

The entry 7n11 is ON HOLD

Authors: Kalthoff, E., Schmeing, M.

Description: Crystal structure of the M. abscessus LeuRS editing domain in complex with epetraborole-AMP adduct
[[Category: Unreleased Structures]]
[[Category: Schmeing, M]]
[[Category: Kalthoff, E]]