5ht0 - Revision history

OCA at 09:25, 27 September 2023

OCA — Wed, 27 Sep 2023 09:25:22 GMT

←Older revision		Revision as of 09:25, 27 September 2023
Line 3:		Line 3:
	<StructureSection load='5ht0' size='340' side='right'caption='[[5ht0]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='5ht0' size='340' side='right'caption='[[5ht0]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ht0]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Uncultivated_bacterium Uncultivated~~ bacterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HT0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5HT0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ht0]] is a 6 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=5HT0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5HT0 FirstGlance]. <br>
-	</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=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]] 2.752Å</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=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=5ht0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ht0 OCA], [https://pdbe.org/5ht0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ht0 RCSB], [https://www.ebi.ac.uk/pdbsum/5ht0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ht0 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=5ht0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ht0 OCA], [https://pdbe.org/5ht0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ht0 RCSB], [https://www.ebi.ac.uk/pdbsum/5ht0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ht0 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A059X981_9BACT A0A059X981_9BACT]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 24:
	</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: Wawrzak Z]]
-	[[Category: Wawrzak, Z]]	+	[[Category: Xu Z]]
-	[[Category: Xu, Z]]	+	[[Category: Yim V]]
-	[[Category: Yim, V]]	+
-	~~[[Category: Acetyltransferase]]~~	+
-	~~[[Category: Aminoglycoside]]~~	+
-	~~[[Category: Antibiotic resistance]]~~	+
-	~~[[Category: Antibiotic_nat family]]~~	+
-	~~[[Category: Coenzyme some]]~~	+
-	~~[[Category: Csgid]]~~	+
-	~~[[Category: Metagenome]]~~	+
-	~~[[Category: Soil]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 10:29, 6 April 2022

OCA — Wed, 06 Apr 2022 10:29:03 GMT

←Older revision		Revision as of 10:29, 6 April 2022
Line 3:		Line 3:
	<StructureSection load='5ht0' size='340' side='right'caption='[[5ht0]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='5ht0' size='340' side='right'caption='[[5ht0]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ht0]] is a 6 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=5HT0 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5HT0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ht0]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Uncultivated_bacterium Uncultivated bacterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HT0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5HT0 FirstGlance]. <br>
	</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=SO4:SULFATE+ION'>SO4</scene></td></tr>		</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=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5ht0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ht0 OCA], [~~http~~://pdbe.org/5ht0 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5ht0 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5ht0 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5ht0 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=5ht0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ht0 OCA], [https://pdbe.org/5ht0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ht0 RCSB], [https://www.ebi.ac.uk/pdbsum/5ht0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ht0 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The environmental microbiome harbors a vast repertoire of antibiotic resistance genes (ARGs) which can serve as evolutionary predecessors for ARGs found in pathogenic bacteria, or can be directly mobilized to pathogens in the presence of selection pressures. Thus, ARGs from benign environmental bacteria are an important resource for understanding clinically relevant resistance. Here, we conduct a comprehensive functional analysis of the Antibiotic_NAT family of aminoglycoside acetyltransferases. We determined a pan-family antibiogram of 21 Antibiotic_NAT enzymes, including 8 derived from clinical isolates and 13 from environmental metagenomic samples. We find that environment-derived representatives confer high-level, broad-spectrum resistance, including against the atypical aminoglycoside apramycin, and that a metagenome-derived gene likely is ancestral to an aac(3) gene found in clinical isolates. Through crystallographic analysis, we rationalize the molecular basis for diversification of substrate specificity across the family. This work provides critical data on the molecular mechanism underpinning resistance to established and emergent aminoglycoside antibiotics and broadens our understanding of ARGs in the environment.
		+
		+	Structural and molecular rationale for the diversification of resistance mediated by the Antibiotic_NAT family.,Stogios PJ, Bordeleau E, Xu Z, Skarina T, Evdokimova E, Chou S, Diorio-Toth L, D'Souza AW, Patel S, Dantas G, Wright GD, Savchenko A Commun Biol. 2022 Mar 25;5(1):263. doi: 10.1038/s42003-022-03219-w. PMID:35338238<ref>PMID:35338238</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5ht0" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 08:31, 27 May 2020

OCA — Wed, 27 May 2020 08:31:07 GMT

←Older revision		Revision as of 08:31, 27 May 2020
Line 1:		Line 1:

	==Crystal structure of an Antibiotic_NAT family aminoglycoside acetyltransferase HMB0038 from an uncultured soil metagenomic sample in complex with coenzyme A==		==Crystal structure of an Antibiotic_NAT family aminoglycoside acetyltransferase HMB0038 from an uncultured soil metagenomic sample in complex with coenzyme A==
-	<StructureSection load='5ht0' size='340' side='right' caption='[[5ht0]], [[Resolution\|resolution]] 2.75Å' scene=''>	+	<StructureSection load='5ht0' size='340' side='right'caption='[[5ht0]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ht0]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HT0 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5HT0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ht0]] is a 6 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=5HT0 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5HT0 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=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</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=SO4:SULFATE+ION'>SO4</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=5ht0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ht0 OCA], [http://pdbe.org/5ht0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ht0 RCSB], [http://www.ebi.ac.uk/pdbsum/5ht0 PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5ht0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ht0 OCA], [http://pdbe.org/5ht0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ht0 RCSB], [http://www.ebi.ac.uk/pdbsum/5ht0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ht0 ProSAT]</span></td></tr>
	</table>		</table>
	__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 17:19, 10 May 2016

OCA — Tue, 10 May 2016 17:19:22 GMT

←Older revision		Revision as of 17:19, 10 May 2016
Line 14:		Line 14:
	[[Category: Skarina, T]]		[[Category: Skarina, T]]
	[[Category: Stogios, P J]]		[[Category: Stogios, P J]]
		+	[[Category: Wawrzak, Z]]
	[[Category: Xu, Z]]		[[Category: Xu, Z]]
	[[Category: Yim, V]]		[[Category: Yim, V]]

OCA at 15:29, 2 March 2016

OCA — Wed, 02 Mar 2016 15:29:55 GMT

←Older revision		Revision as of 15:29, 2 March 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 5ht0 is ON HOLD~~	+	==Crystal structure of an Antibiotic_NAT family aminoglycoside acetyltransferase HMB0038 from an uncultured soil metagenomic sample in complex with coenzyme A==
-		+	<StructureSection load='5ht0' size='340' side='right' caption='[[5ht0]], [[Resolution\|resolution]] 2.75Å' scene=''>
-	~~Authors: Xu, Z., Stogios, P.J., Skarina, T., Yim, V., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5ht0]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HT0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5HT0 FirstGlance]. <br>
-	~~Description:~~ Crystal structure of an Antibiotic_NAT family aminoglycoside acetyltransferase HMB0038 from an uncultured soil metagenomic sample in complex with coenzyme A	+	</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=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=5ht0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ht0 OCA], [http://pdbe.org/5ht0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ht0 RCSB], [http://www.ebi.ac.uk/pdbsum/5ht0 PDBsum]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Anderson, W F]]
		+	[[Category: Structural genomic]]
	[[Category: Savchenko, A]]		[[Category: Savchenko, A]]
-	[[Category: Yim, V]]
-	[[Category: Stogios, P.J]]
	[[Category: Skarina, T]]		[[Category: Skarina, T]]
-	[[Category: ~~Anderson~~, ~~W.F~~]]	+	[[Category: Stogios, P J]]
	[[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: Antibiotic_nat family]]
		+	[[Category: Coenzyme some]]
		+	[[Category: Csgid]]
		+	[[Category: Metagenome]]
		+	[[Category: Soil]]
		+	[[Category: Transferase]]

OCA: Protected "5ht0" [edit=sysop:move=sysop]

OCA — Wed, 03 Feb 2016 14:17:53 GMT

Protected "5ht0" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:17, 3 February 2016

OCA: New page: '''Unreleased structure''' The entry 5ht0 is ON HOLD Authors: Xu, Z., Stogios, P.J., Skarina, T., Yim, V., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Di...

OCA — Wed, 03 Feb 2016 14:17:51 GMT

New page: '''Unreleased structure''' The entry 5ht0 is ON HOLD Authors: Xu, Z., Stogios, P.J., Skarina, T., Yim, V., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Di...

New page

'''Unreleased structure'''

The entry 5ht0 is ON HOLD

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

Description: Crystal structure of an Antibiotic_NAT family aminoglycoside acetyltransferase HMB0038 from an uncultured soil metagenomic sample in complex with coenzyme A
[[Category: Unreleased Structures]]
[[Category: Savchenko, A]]
[[Category: Yim, V]]
[[Category: Stogios, P.J]]
[[Category: Skarina, T]]
[[Category: Anderson, W.F]]
[[Category: Xu, Z]]
[[Category: Center For Structural Genomics Of Infectious Diseases (Csgid)]]