OCA at 11:55, 1 February 2024

OCA — Thu, 01 Feb 2024 11:55:24 GMT

←Older revision		Revision as of 11:55, 1 February 2024
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-	====	+	==Minocycline binding to the deep binding pocket of AcrB-G619P==
-	<StructureSection load='6zo6' size='340' side='right'caption='[[6zo6]]' scene=''>	+	<StructureSection load='6zo6' size='340' side='right'caption='[[6zo6]], [[Resolution\|resolution]] 2.35Å' 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= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6zo6]] 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=6ZO6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6ZO6 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=6zo6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zo6 OCA], [https://pdbe.org/6zo6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6zo6 RCSB], [https://www.ebi.ac.uk/pdbsum/6zo6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6zo6 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]] 2.35Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=8K6:OCTADECANE'>8K6</scene>, <scene name='pdbligand=C14:TETRADECANE'>C14</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=D10:DECANE'>D10</scene>, <scene name='pdbligand=D12:DODECANE'>D12</scene>, <scene name='pdbligand=DDQ:DECYLAMINE-N,N-DIMETHYL-N-OXIDE'>DDQ</scene>, <scene name='pdbligand=DDR:(2S)-3-HYDROXYPROPANE-1,2-DIYL+DIDECANOATE'>DDR</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</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=LPX:(2S)-3-{[(R)-(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-2-HYDROXYPROPYL+HEXADECANOATE'>LPX</scene>, <scene name='pdbligand=MIY:(4S,4AS,5AR,12AS)-4,7-BIS(DIMETHYLAMINO)-3,10,12,12A-TETRAHYDROXY-1,11-DIOXO-1,4,4A,5,5A,6,11,12A-OCTAHYDROTETRACENE-2-CARBOXAMIDE'>MIY</scene>, <scene name='pdbligand=MYS:PENTADECANE'>MYS</scene>, <scene name='pdbligand=OCT:N-OCTANE'>OCT</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene>, <scene name='pdbligand=PTY:PHOSPHATIDYLETHANOLAMINE'>PTY</scene>, <scene name='pdbligand=R16:HEXADECANE'>R16</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=6zo6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zo6 OCA], [https://pdbe.org/6zo6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6zo6 RCSB], [https://www.ebi.ac.uk/pdbsum/6zo6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6zo6 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[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;">
		+	== Publication Abstract from PubMed ==
		+	Gram-negative bacteria maintain an intrinsic resistance mechanism against entry of noxious compounds by utilizing highly efficient efflux pumps. The E. coli AcrAB-TolC drug efflux pump contains the inner membrane H(+)/drug antiporter AcrB comprising three functionally interdependent protomers, cycling consecutively through the loose (L), tight (T) and open (O) state during cooperative catalysis. Here, we present 13 X-ray structures of AcrB in intermediate states of the transport cycle. Structure-based mutational analysis combined with drug susceptibility assays indicate that drugs are guided through dedicated transport channels toward the drug binding pockets. A co-structure obtained in the combined presence of erythromycin, linezolid, oxacillin and fusidic acid shows binding of fusidic acid deeply inside the T protomer transmembrane domain. Thiol cross-link substrate protection assays indicate that this transmembrane domain-binding site can also accommodate oxacillin or novobiocin but not erythromycin or linezolid. AcrB-mediated drug transport is suggested to be allosterically modulated in presence of multiple drugs.
		+
		+	Allosteric drug transport mechanism of multidrug transporter AcrB.,Tam HK, Foong WE, Oswald C, Herrmann A, Zeng H, Pos KM Nat Commun. 2021 Jun 29;12(1):3889. doi: 10.1038/s41467-021-24151-3. PMID:34188038<ref>PMID:34188038</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6zo6" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Synthetic construct]]
		+	[[Category: Foong WE]]
		+	[[Category: Pos KM]]
		+	[[Category: Tam HK]]

OCA at 10:07, 19 May 2021

OCA — Wed, 19 May 2021 10:07:20 GMT

←Older revision		Revision as of 10:07, 19 May 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 6zo6 ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='6zo6' size='340' side='right'caption='[[6zo6]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~:	+	</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=6zo6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zo6 OCA], [https://pdbe.org/6zo6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6zo6 RCSB], [https://www.ebi.ac.uk/pdbsum/6zo6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6zo6 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA: Protected "6zo6" [edit=sysop:move=sysop]

OCA — Wed, 22 Jul 2020 08:06:17 GMT

Protected "6zo6" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:06, 22 July 2020

OCA: New page: '''Unreleased structure''' The entry 6zo6 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 22 Jul 2020 08:06:16 GMT

New page: '''Unreleased structure''' The entry 6zo6 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6zo6 is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]

6zo6 - Revision history

OCA at 11:55, 1 February 2024

OCA at 10:07, 19 May 2021

OCA: Protected "6zo6" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 6zo6 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures