5jmn - Revision history

OCA at 18:58, 20 September 2023

2023-09-20T18:58:46Z

←Older revision		Revision as of 18:58, 20 September 2023
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	<StructureSection load='5jmn' size='340' side='right'caption='[[5jmn]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='5jmn' size='340' side='right'caption='[[5jmn]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jmn]] is a 5 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Ecoli Ecoli~~] and [~~http~~://en.wikipedia.org/wiki/~~Synthetic_construct_sequences~~ Synthetic construct ~~sequences~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JMN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5JMN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jmn]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JMN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5JMN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=D10:DECANE'>D10</scene>, <scene name='pdbligand=D12:DODECANE'>D12</scene>, <scene name='pdbligand=ETE:2-{2-[2-2-(METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL'>ETE</scene>, <scene name='pdbligand=FUA:FUSIDIC+ACID'>FUA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEX:HEXANE'>HEX</scene>, <scene name='pdbligand=LMT:DODECYL-BETA-D-MALTOSIDE'>LMT</scene>, <scene name='pdbligand=OCT:N-OCTANE'>OCT</scene>, <scene name='pdbligand=P3G:3,6,9,12,15-PENTAOXAHEPTADECANE'>P3G</scene>, <scene name='pdbligand=PTY:PHOSPHATIDYLETHANOLAMINE'>PTY</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]] 2.5Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">acrB, acrE, b0462, JW0451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI]), Artificial gene ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=32630 SYNTHETIC CONSTRUCT sequences])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=D10:DECANE'>D10</scene>, <scene name='pdbligand=D12:DODECANE'>D12</scene>, <scene name='pdbligand=ETE:2-{2-[2-2-(METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL'>ETE</scene>, <scene name='pdbligand=FUA:FUSIDIC+ACID'>FUA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEX:HEXANE'>HEX</scene>, <scene name='pdbligand=LMT:DODECYL-BETA-D-MALTOSIDE'>LMT</scene>, <scene name='pdbligand=OCT:N-OCTANE'>OCT</scene>, <scene name='pdbligand=P3G:3,6,9,12,15-PENTAOXAHEPTADECANE'>P3G</scene>, <scene name='pdbligand=PTY:PHOSPHATIDYLETHANOLAMINE'>PTY</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=5jmn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jmn OCA], [~~http~~://pdbe.org/5jmn PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5jmn RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5jmn PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5jmn 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=5jmn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jmn OCA], [https://pdbe.org/5jmn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5jmn RCSB], [https://www.ebi.ac.uk/pdbsum/5jmn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5jmn ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/ACRB_ECOLI ACRB_ECOLI]] AcrAB is a drug efflux protein with a broad substrate specificity.<ref>PMID:16915237</ref> <ref>PMID:16946072</ref> <ref>PMID:17194213</ref>	+	[https://www.uniprot.org/uniprot/ACRB_ECOLI ACRB_ECOLI] AcrAB is a drug efflux protein with a broad substrate specificity.<ref>PMID:16915237</ref> <ref>PMID:16946072</ref> <ref>PMID:17194213</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Ecoli~~]]	+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Synthetic construct ~~sequences~~]]	+	[[Category: Synthetic construct]]
-	[[Category: Oswald, C]]	+	[[Category: Oswald C]]
-	[[Category: Pos~~, K M~~]]	+	[[Category: Pos KM]]
-	[[Category: Tam~~, H K]]~~	+	[[Category: Tam HK]]
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Multidrug efflux protein]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 07:55, 10 June 2020

2020-06-10T07:55:39Z

←Older revision		Revision as of 07:55, 10 June 2020
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	==Fusidic acid bound AcrB==		==Fusidic acid bound AcrB==
-	<StructureSection load='5jmn' size='340' side='right' caption='[[5jmn]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='5jmn' size='340' side='right'caption='[[5jmn]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jmn]] is a 5 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JMN OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5JMN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jmn]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli] and [http://en.wikipedia.org/wiki/Synthetic_construct_sequences Synthetic construct sequences]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JMN OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5JMN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=D10:DECANE'>D10</scene>, <scene name='pdbligand=D12:DODECANE'>D12</scene>, <scene name='pdbligand=ETE:2-{2-[2-2-(METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL'>ETE</scene>, <scene name='pdbligand=FUA:FUSIDIC+ACID'>FUA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEX:HEXANE'>HEX</scene>, <scene name='pdbligand=LMT:DODECYL-BETA-D-MALTOSIDE'>LMT</scene>, <scene name='pdbligand=OCT:N-OCTANE'>OCT</scene>, <scene name='pdbligand=P3G:3,6,9,12,15-PENTAOXAHEPTADECANE'>P3G</scene>, <scene name='pdbligand=PTY:PHOSPHATIDYLETHANOLAMINE'>PTY</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=D10:DECANE'>D10</scene>, <scene name='pdbligand=D12:DODECANE'>D12</scene>, <scene name='pdbligand=ETE:2-{2-[2-2-(METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL'>ETE</scene>, <scene name='pdbligand=FUA:FUSIDIC+ACID'>FUA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEX:HEXANE'>HEX</scene>, <scene name='pdbligand=LMT:DODECYL-BETA-D-MALTOSIDE'>LMT</scene>, <scene name='pdbligand=OCT:N-OCTANE'>OCT</scene>, <scene name='pdbligand=P3G:3,6,9,12,15-PENTAOXAHEPTADECANE'>P3G</scene>, <scene name='pdbligand=PTY:PHOSPHATIDYLETHANOLAMINE'>PTY</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=5jmn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jmn OCA], [http://pdbe.org/5jmn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jmn RCSB], [http://www.ebi.ac.uk/pdbsum/5jmn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jmn ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">acrB, acrE, b0462, JW0451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI]), Artificial gene ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=32630 SYNTHETIC CONSTRUCT sequences])</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=5jmn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jmn OCA], [http://pdbe.org/5jmn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jmn RCSB], [http://www.ebi.ac.uk/pdbsum/5jmn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jmn ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Ecoli]]
		+	[[Category: Large Structures]]
		+	[[Category: Synthetic construct sequences]]
	[[Category: Oswald, C]]		[[Category: Oswald, C]]
	[[Category: Pos, K M]]		[[Category: Pos, K M]]

OCA at 07:32, 18 January 2017

2017-01-18T07:32:31Z

←Older revision		Revision as of 07:32, 18 January 2017
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	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/ACRB_ECOLI ACRB_ECOLI]] AcrAB is a drug efflux protein with a broad substrate specificity.<ref>PMID:16915237</ref> <ref>PMID:16946072</ref> <ref>PMID:17194213</ref>		[[http://www.uniprot.org/uniprot/ACRB_ECOLI ACRB_ECOLI]] AcrAB is a drug efflux protein with a broad substrate specificity.<ref>PMID:16915237</ref> <ref>PMID:16946072</ref> <ref>PMID:17194213</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The deployment of multidrug efflux pumps is a powerful defence mechanism for Gram-negative bacterial cells when exposed to antimicrobial agents. The major multidrug efflux transport system in Escherichia coli, AcrAB-TolC, is a tripartite system using the proton-motive force as an energy source. The polyspecific substrate-binding module AcrB uses various pathways to sequester drugs from the periplasm and outer leaflet of the inner membrane. Here we report the asymmetric AcrB structure in complex with fusidic acid at a resolution of 2.5 A and mutational analysis of the putative fusidic acid binding site at the transmembrane domain. A groove shaped by the interface between transmembrane helix 1 (TM1) and TM2 specifically binds fusidic acid and other lipophilic carboxylated drugs. We propose that these bound drugs are actively displaced by an upward movement of TM2 towards the AcrB periplasmic porter domain in response to protonation events in the transmembrane domain.
		+
		+	Transport of lipophilic carboxylates is mediated by transmembrane helix 2 in multidrug transporter AcrB.,Oswald C, Tam HK, Pos KM Nat Commun. 2016 Dec 16;7:13819. doi: 10.1038/ncomms13819. PMID:27982032<ref>PMID:27982032</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5jmn" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 21:41, 22 December 2016

2016-12-22T21:41:27Z

←Older revision		Revision as of 21:41, 22 December 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5jmn is ~~ON HOLD~~ ~~until Paper Publication~~	+	==Fusidic acid bound AcrB==
-		+	<StructureSection load='5jmn' size='340' side='right' caption='[[5jmn]], [[Resolution\|resolution]] 2.50Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5jmn]] is a 5 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JMN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JMN FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=D10:DECANE'>D10</scene>, <scene name='pdbligand=D12:DODECANE'>D12</scene>, <scene name='pdbligand=ETE:2-{2-[2-2-(METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL'>ETE</scene>, <scene name='pdbligand=FUA:FUSIDIC+ACID'>FUA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEX:HEXANE'>HEX</scene>, <scene name='pdbligand=LMT:DODECYL-BETA-D-MALTOSIDE'>LMT</scene>, <scene name='pdbligand=OCT:N-OCTANE'>OCT</scene>, <scene name='pdbligand=P3G:3,6,9,12,15-PENTAOXAHEPTADECANE'>P3G</scene>, <scene name='pdbligand=PTY:PHOSPHATIDYLETHANOLAMINE'>PTY</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=5jmn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jmn OCA], [http://pdbe.org/5jmn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jmn RCSB], [http://www.ebi.ac.uk/pdbsum/5jmn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jmn ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ACRB_ECOLI ACRB_ECOLI]] AcrAB is a drug efflux protein with a broad substrate specificity.<ref>PMID:16915237</ref> <ref>PMID:16946072</ref> <ref>PMID:17194213</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Oswald, C]]
		+	[[Category: Pos, K M]]
		+	[[Category: Tam, H K]]
		+	[[Category: Membrane protein]]
		+	[[Category: Multidrug efflux protein]]
		+	[[Category: Transport protein]]

OCA at 15:35, 15 May 2016

2016-05-15T15:35:42Z

←Older revision		Revision as of 15:35, 15 May 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5jmn is ON HOLD	+	The entry 5jmn is ON HOLD until Paper Publication

-	Authors: ~~Oswald, C., Tam, H.K., Pos, K.M.~~	+	Authors:

	Description:		Description:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Tam, H.K]]
-	[[Category: Pos, K.M]]
-	[[Category: Oswald, C]]

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

2016-05-11T02:19:20Z

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

←Older revision

Revision as of 02:19, 11 May 2016

OCA: New page: '''Unreleased structure''' The entry 5jmn is ON HOLD Authors: Oswald, C., Tam, H.K., Pos, K.M. Description: Category: Unreleased Structures Category: Tam, H.K [[Category: Pos,...

2016-05-11T02:19:19Z

New page: '''Unreleased structure''' The entry 5jmn is ON HOLD Authors: Oswald, C., Tam, H.K., Pos, K.M. Description: Category: Unreleased Structures Category: Tam, H.K [[Category: Pos,...

New page

'''Unreleased structure'''

The entry 5jmn is ON HOLD

Authors: Oswald, C., Tam, H.K., Pos, K.M.

Description:
[[Category: Unreleased Structures]]
[[Category: Tam, H.K]]
[[Category: Pos, K.M]]
[[Category: Oswald, C]]