5nsw - Revision history

OCA at 12:07, 22 November 2023

2023-11-22T12:07:10Z

←Older revision		Revision as of 12:07, 22 November 2023
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	<StructureSection load='5nsw' size='340' side='right'caption='[[5nsw]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='5nsw' size='340' side='right'caption='[[5nsw]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5nsw]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Pseae Pseae~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NSW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5NSW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5nsw]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_aeruginosa_PAO1 Pseudomonas aeruginosa PAO1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NSW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NSW FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene>, <scene name='pdbligand=XE:XENON'>XE</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">oprN, PA2495 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=208964 PSEAE])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene>, <scene name='pdbligand=XE:XENON'>XE</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=5nsw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nsw OCA], [~~http~~://pdbe.org/5nsw PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5nsw RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5nsw PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5nsw 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=5nsw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nsw OCA], [https://pdbe.org/5nsw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5nsw RCSB], [https://www.ebi.ac.uk/pdbsum/5nsw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5nsw ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9I0Y7_PSEAE Q9I0Y7_PSEAE]
	<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: ~~Pseae~~]]	+	[[Category: Pseudomonas aeruginosa PAO1]]
-	[[Category: Broutin, I]]	+	[[Category: Broutin I]]
-	[[Category: Ducruix, A]]	+	[[Category: Ducruix A]]
-	[[Category: ~~Garnier, C~~]]	+	[[Category: Enguene Ntsogo YV]]
-	[[Category: ~~Ntsogo, Y V.Enguene~~]]	+	[[Category: Garnier C]]
-	[[Category: Phan, G]]	+	[[Category: Phan G]]
-	[[Category: Prange, T]]	+	[[Category: Prange T]]
-	~~[[Category: Cavity]]~~	+
-	~~[[Category: Efflux]]~~	+
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Rnd pump]]~~	+
-	~~[[Category: Xenon~~]]	+

OCA at 06:47, 16 October 2019

2019-10-16T06:47:36Z

←Older revision		Revision as of 06:47, 16 October 2019
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	==Xenon for tunnelling analysis of the efflux pump component OprN.==		==Xenon for tunnelling analysis of the efflux pump component OprN.==
-	<StructureSection load='5nsw' size='340' side='right' caption='[[5nsw]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='5nsw' size='340' side='right'caption='[[5nsw]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5nsw]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseae Pseae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NSW FirstGlance]. <br>		<table><tr><td colspan='2'>[[5nsw]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseae Pseae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NSW FirstGlance]. <br>
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Pseae]]		[[Category: Pseae]]
	[[Category: Broutin, I]]		[[Category: Broutin, I]]

OCA at 13:07, 6 November 2017

2017-11-06T13:07:36Z

←Older revision		Revision as of 13:07, 6 November 2017
Line 3:		Line 3:
	<StructureSection load='5nsw' size='340' side='right' caption='[[5nsw]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='5nsw' size='340' side='right' caption='[[5nsw]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5nsw]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NSW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5nsw]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseae Pseae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NSW FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene>, <scene name='pdbligand=XE:XENON'>XE</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene>, <scene name='pdbligand=XE:XENON'>XE</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">oprN, PA2495 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=208964 PSEAE])</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=5nsw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nsw OCA], [http://pdbe.org/5nsw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nsw RCSB], [http://www.ebi.ac.uk/pdbsum/5nsw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nsw ProSAT]</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=5nsw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nsw OCA], [http://pdbe.org/5nsw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nsw RCSB], [http://www.ebi.ac.uk/pdbsum/5nsw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nsw ProSAT]</span></td></tr>
	</table>		</table>
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Pseae]]
	[[Category: Broutin, I]]		[[Category: Broutin, I]]
	[[Category: Ducruix, A]]		[[Category: Ducruix, A]]

OCA at 04:27, 21 September 2017

2017-09-21T04:27:19Z

←Older revision		Revision as of 04:27, 21 September 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5nsw is ~~ON HOLD~~	+	==Xenon for tunnelling analysis of the efflux pump component OprN.==
		+	<StructureSection load='5nsw' size='340' side='right' caption='[[5nsw]], [[Resolution\|resolution]] 2.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5nsw]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NSW FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene>, <scene name='pdbligand=XE:XENON'>XE</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=5nsw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nsw OCA], [http://pdbe.org/5nsw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nsw RCSB], [http://www.ebi.ac.uk/pdbsum/5nsw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nsw ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Tripartite efflux pumps are among the main actors responsible for antibiotics resistance in Gram-negative bacteria. In the last two decades, structural studies gave crucial information about the assembly interfaces and the mechanistic motions. Thus rigidifying the assembly seems to be an interesting way to hamper the drug efflux. In this context, xenon is a suitable probe for checking whether small ligands could act as conformational lockers by targeting hydrophobic cavities. Here we focus on OprN, the outer membrane channel of the MexEF efflux pump from Pseudomonas aeruginosa. After exposing OprN crystals to xenon gas pressure, 14 binding sites were observed using X-ray crystallography. These binding sites were unambiguously characterized in hydrophobic cavities of OprN. The major site is observed in the sensitive iris-like region gating the channel at the periplasmic side, built by the three key-residues Leu 405, Asp 109, and Arg 412. This arrangement defines along the tunnel axis a strong hydrophobic/polar gradient able to enhance the passive efflux mechanism of OprN. The other xenon atoms reveal strategic hydrophobic regions of the channel scaffold to target, with the aim to freeze the dynamic movements responsible of the open/close conformational equilibrium in OprN.

-	~~Authors: Phan, G~~., ~~Prange, T., Enguene~~ Ntsogo, ~~Y.V.~~, Garnier, C., Ducruix, A., ~~Broutin~~, I.	+	Xenon for tunnelling analysis of the efflux pump component OprN.,Ntsogo Enguene YV, Phan G, Garnier C, Ducruix A, Prange T, Broutin I PLoS One. 2017 Sep 8;12(9):e0184045. doi: 10.1371/journal.pone.0184045., eCollection 2017. PMID:28886086<ref>PMID:28886086</ref>

-	~~Description: Xenon for tunnelling analysis~~ of the ~~efflux pump component OprN~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Enguene Ntsogo, Y.V]]~~	+	<div class="pdbe-citations 5nsw" style="background-color:#fffaf0;"></div>
-	~~[[Category: Prange, T]]~~	+	== References ==
-	~~[[Category: Phan, G]]~~	+	<references/>
-	~~[[Category: Garnier, C]]~~	+	__TOC__
-	~~[[Category: Ducruix, A]]~~	+	</StructureSection>
	[[Category: Broutin, I]]		[[Category: Broutin, I]]
		+	[[Category: Ducruix, A]]
		+	[[Category: Garnier, C]]
		+	[[Category: Ntsogo, Y V.Enguene]]
		+	[[Category: Phan, G]]
		+	[[Category: Prange, T]]
		+	[[Category: Cavity]]
		+	[[Category: Efflux]]
		+	[[Category: Membrane protein]]
		+	[[Category: Rnd pump]]
		+	[[Category: Xenon]]

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

2017-05-04T09:41:14Z

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

←Older revision

Revision as of 09:41, 4 May 2017

OCA: New page: '''Unreleased structure''' The entry 5nsw is ON HOLD Authors: Phan, G., Prange, T., Enguene Ntsogo, Y.V., Garnier, C., Ducruix, A., Broutin, I. Description: Xenon for tunnelling analys...

2017-05-04T09:41:13Z

New page: '''Unreleased structure''' The entry 5nsw is ON HOLD Authors: Phan, G., Prange, T., Enguene Ntsogo, Y.V., Garnier, C., Ducruix, A., Broutin, I. Description: Xenon for tunnelling analys...

New page

'''Unreleased structure'''

The entry 5nsw is ON HOLD

Authors: Phan, G., Prange, T., Enguene Ntsogo, Y.V., Garnier, C., Ducruix, A., Broutin, I.

Description: Xenon for tunnelling analysis of the efflux pump component OprN.
[[Category: Unreleased Structures]]
[[Category: Enguene Ntsogo, Y.V]]
[[Category: Prange, T]]
[[Category: Phan, G]]
[[Category: Garnier, C]]
[[Category: Ducruix, A]]
[[Category: Broutin, I]]