5f49 - Revision history

OCA at 12:30, 6 March 2024

2024-03-06T12:30:25Z

←Older revision		Revision as of 12:30, 6 March 2024
Line 10:		Line 10:
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/A0A059WZ16_9BACT A0A059WZ16_9BACT]		[https://www.uniprot.org/uniprot/A0A059WZ16_9BACT A0A059WZ16_9BACT]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Aminoglycoside N-acetyltransferases (AACs) confer resistance against the clinical use of aminoglycoside antibiotics. The origin of AACs can be traced to environmental microbial species representing a vast reservoir for new and emerging resistance enzymes, which are currently undercharacterized. Here, we performed detailed structural characterization and functional analyses of four metagenomic AAC (meta-AACs) enzymes recently identified in a survey of agricultural and grassland soil microbiomes ( Forsberg et al. Nature 2014 , 509 , 612 ). These enzymes are new members of the Gcn5-Related-N-Acetyltransferase superfamily and confer resistance to the aminoglycosides gentamicin C, sisomicin, and tobramycin. Moreover, the meta-AAC0020 enzyme demonstrated activity comparable with an AAC(3)-I enzyme that serves as a model AAC enzyme identified in a clinical bacterial isolate. The crystal structure of meta-AAC0020 in complex with sisomicin confirmed an unexpected AAC(6') regiospecificity of this enzyme and revealed a drug binding mechanism distinct from previously characterized AAC(6') enzymes. Together, our data highlights the presence of highly active antibiotic-modifying enzymes in the environmental microbiome and reveals unexpected diversity in substrate specificity. These observations of additional AAC enzymes must be considered in the search for novel aminoglycosides less prone to resistance.
-
-	Structural and Functional Survey of Environmental Aminoglycoside Acetyltransferases Reveals Functionality of Resistance Enzymes.,Xu Z, Stogios PJ, Quaile AT, Forsberg KJ, Patel S, Skarina T, Houliston S, Arrowsmith C, Dantas G, Savchenko A ACS Infect Dis. 2017 Sep 8;3(9):653-665. doi: 10.1021/acsinfecdis.7b00068. Epub, 2017 Aug 16. PMID:28756664<ref>PMID:28756664</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5f49" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 08:45, 12 July 2023

2023-07-12T08:45:33Z

←Older revision		Revision as of 08:45, 12 July 2023
Line 3:		Line 3:
	<StructureSection load='5f49' size='340' side='right'caption='[[5f49]], [[Resolution\|resolution]] 2.15Å' scene=''>		<StructureSection load='5f49' size='340' side='right'caption='[[5f49]], [[Resolution\|resolution]] 2.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5f49]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Uncultivated_bacterium Uncultivated~~ bacterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5F49 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5F49 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5f49]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Uncultured_bacterium Uncultured bacterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5F49 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5F49 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=COA:COENZYME+A'>COA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MLC:MALONYL-COENZYME+A'>MLC</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]] 2.15Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5f46\|5f46]], [[5f48\|5f48]], [[5f47\|5f47]], [[5u08\|5u08]]~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=COA:COENZYME+A'>COA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MLC:MALONYL-COENZYME+A'>MLC</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5f49 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5f49 OCA], [~~http~~://pdbe.org/5f49 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5f49 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5f49 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5f49 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=5f49 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5f49 OCA], [https://pdbe.org/5f49 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5f49 RCSB], [https://www.ebi.ac.uk/pdbsum/5f49 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5f49 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A059WZ16_9BACT A0A059WZ16_9BACT]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Uncultivated~~ bacterium]]	+	[[Category: Uncultured bacterium]]
-	[[Category: Anderson~~, W F]]~~	+	[[Category: Anderson WF]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Savchenko A]]
-	[[Category: Savchenko, A]]	+	[[Category: Skarina T]]
-	[[Category: Skarina, T]]	+	[[Category: Stogios PJ]]
-	[[Category: Stogios~~, P J~~]]	+	[[Category: Xu Z]]
-	[[Category: Xu, Z]]	+	[[Category: Yim V]]
-	[[Category: Yim, V]]	+
-	~~[[Category: Acetyltransferase]]~~	+
-	~~[[Category: Aminoglycoside]]~~	+
-	~~[[Category: Antibiotic resistance]]~~	+
-	~~[[Category: Coenzyme some]]~~	+
-	~~[[Category: Csgid]]~~	+
-	~~[[Category: Gcn5-n-acetyltransferase fold]]~~	+
-	~~[[Category: Gnat fold]]~~	+
-	~~[[Category: Metagenome]]~~	+
-	~~[[Category: Soil]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 07:54, 3 April 2019

2019-04-03T07:54:49Z

←Older revision		Revision as of 07:54, 3 April 2019
Line 1:		Line 1:

-	==Crystal structure of an aminoglycoside acetyltransferase ~~HMB0020~~ from an uncultured soil metagenomic sample in complex with malonyl-coenzyme A==	+	==Crystal structure of an aminoglycoside acetyltransferase meta-AAC0020 from an uncultured soil metagenomic sample in complex with malonyl-coenzyme A==
-	<StructureSection load='5f49' size='340' side='right' caption='[[5f49]], [[Resolution\|resolution]] 2.15Å' scene=''>	+	<StructureSection load='5f49' size='340' side='right'caption='[[5f49]], [[Resolution\|resolution]] 2.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5f49]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5F49 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5F49 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5f49]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Uncultivated_bacterium Uncultivated bacterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5F49 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5F49 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=COA:COENZYME+A'>COA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MLC:MALONYL-COENZYME+A'>MLC</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=COA:COENZYME+A'>COA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MLC:MALONYL-COENZYME+A'>MLC</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5f46\|5f46]], [[5f48\|5f48]], [[5f47\|5f47]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5f46\|5f46]], [[5f48\|5f48]], [[5f47\|5f47]], [[5u08\|5u08]]</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5f49 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5f49 OCA], [http://pdbe.org/5f49 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5f49 RCSB], [http://www.ebi.ac.uk/pdbsum/5f49 PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5f49 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5f49 OCA], [http://pdbe.org/5f49 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5f49 RCSB], [http://www.ebi.ac.uk/pdbsum/5f49 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5f49 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Aminoglycoside N-acetyltransferases (AACs) confer resistance against the clinical use of aminoglycoside antibiotics. The origin of AACs can be traced to environmental microbial species representing a vast reservoir for new and emerging resistance enzymes, which are currently undercharacterized. Here, we performed detailed structural characterization and functional analyses of four metagenomic AAC (meta-AACs) enzymes recently identified in a survey of agricultural and grassland soil microbiomes ( Forsberg et al. Nature 2014 , 509 , 612 ). These enzymes are new members of the Gcn5-Related-N-Acetyltransferase superfamily and confer resistance to the aminoglycosides gentamicin C, sisomicin, and tobramycin. Moreover, the meta-AAC0020 enzyme demonstrated activity comparable with an AAC(3)-I enzyme that serves as a model AAC enzyme identified in a clinical bacterial isolate. The crystal structure of meta-AAC0020 in complex with sisomicin confirmed an unexpected AAC(6') regiospecificity of this enzyme and revealed a drug binding mechanism distinct from previously characterized AAC(6') enzymes. Together, our data highlights the presence of highly active antibiotic-modifying enzymes in the environmental microbiome and reveals unexpected diversity in substrate specificity. These observations of additional AAC enzymes must be considered in the search for novel aminoglycosides less prone to resistance.
		+
		+	Structural and Functional Survey of Environmental Aminoglycoside Acetyltransferases Reveals Functionality of Resistance Enzymes.,Xu Z, Stogios PJ, Quaile AT, Forsberg KJ, Patel S, Skarina T, Houliston S, Arrowsmith C, Dantas G, Savchenko A ACS Infect Dis. 2017 Sep 8;3(9):653-665. doi: 10.1021/acsinfecdis.7b00068. Epub, 2017 Aug 16. PMID:28756664<ref>PMID:28756664</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5f49" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Uncultivated bacterium]]
	[[Category: Anderson, W F]]		[[Category: Anderson, W F]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

OCA at 10:09, 26 February 2016

2016-02-26T10:09:30Z

←Older revision		Revision as of 10:09, 26 February 2016
Line 1:		Line 1:
		+
	==Crystal structure of an aminoglycoside acetyltransferase HMB0020 from an uncultured soil metagenomic sample in complex with malonyl-coenzyme A==		==Crystal structure of an aminoglycoside acetyltransferase HMB0020 from an uncultured soil metagenomic sample in complex with malonyl-coenzyme A==
	<StructureSection load='5f49' size='340' side='right' caption='[[5f49]], [[Resolution\|resolution]] 2.15Å' scene=''>		<StructureSection load='5f49' size='340' side='right' caption='[[5f49]], [[Resolution\|resolution]] 2.15Å' scene=''>
Line 12:		Line 13:
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Savchenko, A]]		[[Category: Savchenko, A]]
		+	[[Category: Skarina, T]]
	[[Category: Stogios, P J]]		[[Category: Stogios, P J]]
	[[Category: Xu, Z]]		[[Category: Xu, Z]]

OCA at 13:59, 16 December 2015

2015-12-16T13:59:22Z

←Older revision		Revision as of 13:59, 16 December 2015
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Crystal structure of an aminoglycoside acetyltransferase HMB0020 from an uncultured soil metagenomic sample in complex with malonyl-coenzyme A==
-		+	<StructureSection load='5f49' size='340' side='right' caption='[[5f49]], [[Resolution\|resolution]] 2.15Å' scene=''>
-	~~The entry~~ 5f49 is ~~ON HOLD~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5f49]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5F49 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5F49 FirstGlance]. <br>
-	~~Authors~~: Xu, Z., ~~Stogios~~, P.J.~~, Yim, V~~., ~~Savchenko~~, A., ~~Anderson, W~~.F., ~~Center for Structural Genomics of Infectious Diseases (CSGID)~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=COA:COENZYME+A'>COA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MLC:MALONYL-COENZYME+A'>MLC</scene></td></tr>
-		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5f46\|5f46]], [[5f48\|5f48]], [[5f47\|5f47]]</td></tr>
-	~~Description~~: ~~Crystal structure of an aminoglycoside acetyltransferase HMB0020 from an uncultured soil metagenomic sample in complex with malonyl-coenzyme A~~	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5f49 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5f49 OCA], [http://pdbe.org/5f49 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5f49 RCSB], [http://www.ebi.ac.uk/pdbsum/5f49 PDBsum]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Anderson, W F]]
		+	[[Category: Structural genomic]]
	[[Category: Savchenko, A]]		[[Category: Savchenko, A]]
-	~~[[Category: Yim, V]]~~	+	[[Category: Stogios, P J]]
-	[[Category: Stogios, P.J]]	+
-	~~[[Category: Anderson, W.F~~]]	+
	[[Category: Xu, Z]]		[[Category: Xu, Z]]
-	[[Category: ~~Center For Structural Genomics Of Infectious Diseases (~~Csgid)]]	+	[[Category: Yim, V]]
		+	[[Category: Acetyltransferase]]
		+	[[Category: Aminoglycoside]]
		+	[[Category: Antibiotic resistance]]
		+	[[Category: Coenzyme some]]
		+	[[Category: Csgid]]
		+	[[Category: Gcn5-n-acetyltransferase fold]]
		+	[[Category: Gnat fold]]
		+	[[Category: Metagenome]]
		+	[[Category: Soil]]
		+	[[Category: Transferase]]

OCA: Protected "5f49" [edit=sysop:move=sysop]

2015-12-09T12:36:10Z

Protected "5f49" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:36, 9 December 2015

OCA: New page: '''Unreleased structure''' The entry 5f49 is ON HOLD Authors: Xu, Z., Stogios, P.J., Yim, V., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID...

2015-12-09T12:36:08Z

New page: '''Unreleased structure''' The entry 5f49 is ON HOLD Authors: Xu, Z., Stogios, P.J., Yim, V., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID...

New page

'''Unreleased structure'''

The entry 5f49 is ON HOLD

Authors: Xu, Z., Stogios, P.J., Yim, V., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Description: Crystal structure of an aminoglycoside acetyltransferase HMB0020 from an uncultured soil metagenomic sample in complex with malonyl-coenzyme A
[[Category: Unreleased Structures]]
[[Category: Savchenko, A]]
[[Category: Yim, V]]
[[Category: Stogios, P.J]]
[[Category: Anderson, W.F]]
[[Category: Xu, Z]]
[[Category: Center For Structural Genomics Of Infectious Diseases (Csgid)]]