4k0j - Revision history

OCA at 15:52, 20 September 2023

OCA — Wed, 20 Sep 2023 15:52:12 GMT

←Older revision		Revision as of 15:52, 20 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4k0j]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Cupriavidus_metallidurans_CH34 Cupriavidus metallidurans CH34]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K0J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4K0J FirstGlance]. <br>		<table><tr><td colspan='2'>[[4k0j]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Cupriavidus_metallidurans_CH34 Cupriavidus metallidurans CH34]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K0J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4K0J FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 3Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</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=4k0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k0j OCA], [https://pdbe.org/4k0j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4k0j RCSB], [https://www.ebi.ac.uk/pdbsum/4k0j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4k0j 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=4k0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k0j OCA], [https://pdbe.org/4k0j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4k0j RCSB], [https://www.ebi.ac.uk/pdbsum/4k0j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4k0j ProSAT]</span></td></tr>
	</table>		</table>

OCA at 11:34, 30 November 2022

OCA — Wed, 30 Nov 2022 11:34:42 GMT

←Older revision		Revision as of 11:34, 30 November 2022
Line 1:		Line 1:
-	~~{{Large structure}}~~	+
	==X-ray crystal structure of a heavy metal efflux pump, crystal form I==		==X-ray crystal structure of a heavy metal efflux pump, crystal form I==
-	<StructureSection load='4k0j' size='340' side='right' caption='[[4k0j]], [[Resolution\|resolution]] 3.00Å' scene=''>	+	<StructureSection load='4k0j' size='340' side='right'caption='[[4k0j]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4k0j]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Cupriavidus_metallidurans_ch34~~ Cupriavidus metallidurans ~~ch34~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K0J OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4K0J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4k0j]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Cupriavidus_metallidurans_CH34 Cupriavidus metallidurans CH34]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K0J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4K0J FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4k0e\|4k0e]]</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=4k0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k0j OCA], [https://pdbe.org/4k0j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4k0j RCSB], [https://www.ebi.ac.uk/pdbsum/4k0j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4k0j ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">zneA, Rmet_5329 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=266264 Cupriavidus metallidurans CH34])</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=4k0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k0j OCA], [~~http~~://pdbe.org/4k0j PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4k0j RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4k0j PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4k0j ProSAT]</span></td></tr>	+
	</table>		</table>
-	~~{{Large structure}}~~	+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q1LCD8_CUPMC Q1LCD8_CUPMC]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Cupriavidus metallidurans ~~ch34~~]]	+	[[Category: Cupriavidus metallidurans CH34]]
-	[[Category: ~~CSMP, Center for~~ Structures ~~of Membrane Proteins~~]]	+	[[Category: Large Structures]]
-	[[Category: Ekende, E ~~Ngonlong~~]]	+	[[Category: Ngonlong Ekende E]]
-	[[Category: Pak~~, J E~~]]	+	[[Category: Pak JE]]
-	[[Category: Stroud~~, R M~~]]	+	[[Category: Stroud RM]]
-	[[Category: Vandenbussche, G]]	+	[[Category: Vandenbussche G]]
-	~~[[Category: Center for structures of membrane protein]]~~	+
-	~~[[Category: Csmp]]~~	+
-	~~[[Category: Heavy metal efflux pump]]~~	+
-	~~[[Category: Inner membrane]]~~	+
-	~~[[Category: Psi-biology]]~~	+
-	~~[[Category: Structural genomic]]~~	+
-	~~[[Category: Transport protein]]~~	+
-	~~[[Category: Zneb]]~~	+
-	~~[[Category: Znec~~]]	+

OCA at 00:08, 5 August 2016

OCA — Fri, 05 Aug 2016 00:08:48 GMT

←Older revision		Revision as of 00:08, 5 August 2016
Line 1:		Line 1:
	{{Large structure}}		{{Large structure}}
-	~~{{STRUCTURE_4k0j\| PDB=4k0j \| SCENE= }}~~	+	==X-ray crystal structure of a heavy metal efflux pump, crystal form I==
-	===X-ray crystal structure of a heavy metal efflux pump, crystal form I===	+	<StructureSection load='4k0j' size='340' side='right' caption='[[4k0j]], [[Resolution\|resolution]] 3.00Å' scene=''>
-	{{~~ABSTRACT_PUBMED_24173033~~}}	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4k0j]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Cupriavidus_metallidurans_ch34 Cupriavidus metallidurans ch34]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K0J OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4K0J FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4k0e\|4k0e]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">zneA, Rmet_5329 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=266264 Cupriavidus metallidurans CH34])</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=4k0j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4k0j OCA], [http://pdbe.org/4k0j PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4k0j RCSB], [http://www.ebi.ac.uk/pdbsum/4k0j PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4k0j ProSAT]</span></td></tr>
		+	</table>
		+	{{Large structure}}
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Efflux pumps belonging to the ubiquitous resistance-nodulation-cell division (RND) superfamily transport substrates out of cells by coupling proton conduction across the membrane to a conformationally driven pumping cycle. The heavy metal-resistant bacteria Cupriavidus metallidurans CH34 relies notably on as many as 12 heavy metal efflux pumps of the RND superfamily. Here we show that C. metallidurans CH34 ZneA is a proton driven efflux pump specific for Zn(II), and that transport of substrates through the transmembrane domain may be electrogenic. We report two X-ray crystal structures of ZneA in intermediate transport conformations, at 3.0 and 3.7 A resolution. The trimeric ZneA structures capture protomer conformations that differ in the spatial arrangement and Zn(II) occupancies at a proximal and a distal substrate binding site. Structural comparison shows that transport of substrates through a tunnel that links the two binding sites, toward an exit portal, is mediated by the conformation of a short 14-aa loop. Taken together, the ZneA structures presented here provide mechanistic insights into the conformational changes required for substrate efflux by RND superfamily transporters.

-	~~==About this Structure==~~	+	Structures of intermediate transport states of ZneA, a Zn(II)/proton antiporter.,Pak JE, Ekende EN, Kifle EG, O'Connell JD 3rd, De Angelis F, Tessema MB, Derfoufi KM, Robles-Colmenares Y, Robbins RA, Goormaghtigh E, Vandenbussche G, Stroud RM Proc Natl Acad Sci U S A. 2013 Nov 12;110(46):18484-9. doi:, 10.1073/pnas.1318705110. Epub 2013 Oct 30. PMID:24173033<ref>PMID:24173033</ref>
-	~~[[4k0j]] is~~ a ~~6 chain structure with sequence from [http:/~~/en.~~wikipedia~~.~~org/wiki/Cupriavidus_metallidurans_ch34 Cupriavidus metallidurans ch34]~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=4K0J OCA].~~	+

-	~~==Reference==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	<~~ref group~~="~~xtra~~"~~>PMID~~:~~024173033~~</~~ref~~><references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	<div class="pdbe-citations 4k0j" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Cupriavidus metallidurans ch34]]		[[Category: Cupriavidus metallidurans ch34]]
-	[[Category: CSMP, Center for Structures of Membrane Proteins.]]	+	[[Category: CSMP, Center for Structures of Membrane Proteins]]
-	[[Category: Ekende, E Ngonlong.]]	+	[[Category: Ekende, E Ngonlong]]
-	[[Category: Pak, J E.]]	+	[[Category: Pak, J E]]
-	[[Category: Stroud, R M.]]	+	[[Category: Stroud, R M]]
-	[[Category: Vandenbussche, G.]]	+	[[Category: Vandenbussche, G]]
	[[Category: Center for structures of membrane protein]]		[[Category: Center for structures of membrane protein]]
	[[Category: Csmp]]		[[Category: Csmp]]

OCA at 06:18, 4 December 2013

OCA — Wed, 04 Dec 2013 06:18:11 GMT

←Older revision		Revision as of 06:18, 4 December 2013
Line 2:		Line 2:
	{{STRUCTURE_4k0j\| PDB=4k0j \| SCENE= }}		{{STRUCTURE_4k0j\| PDB=4k0j \| SCENE= }}
	===X-ray crystal structure of a heavy metal efflux pump, crystal form I===		===X-ray crystal structure of a heavy metal efflux pump, crystal form I===
		+	{{ABSTRACT_PUBMED_24173033}}

	==About this Structure==		==About this Structure==
	[[4k0j]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Cupriavidus_metallidurans_ch34 Cupriavidus metallidurans ch34]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K0J OCA].		[[4k0j]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Cupriavidus_metallidurans_ch34 Cupriavidus metallidurans ch34]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K0J OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:024173033</ref><references group="xtra"/><references/>
	[[Category: Cupriavidus metallidurans ch34]]		[[Category: Cupriavidus metallidurans ch34]]
	[[Category: CSMP, Center for Structures of Membrane Proteins.]]		[[Category: CSMP, Center for Structures of Membrane Proteins.]]

OCA at 06:29, 6 November 2013

OCA — Wed, 06 Nov 2013 06:29:00 GMT

←Older revision		Revision as of 06:29, 6 November 2013
Line 10:		Line 10:
	[[Category: Pak, J E.]]		[[Category: Pak, J E.]]
	[[Category: Stroud, R M.]]		[[Category: Stroud, R M.]]
-	[[Category: ~~Vandenbuschee~~, G.]]	+	[[Category: Vandenbussche, G.]]
	[[Category: Center for structures of membrane protein]]		[[Category: Center for structures of membrane protein]]
	[[Category: Csmp]]		[[Category: Csmp]]

OCA at 08:26, 30 October 2013

OCA — Wed, 30 Oct 2013 08:26:02 GMT

←Older revision		Revision as of 08:26, 30 October 2013
Line 7:		Line 7:
	[[Category: Cupriavidus metallidurans ch34]]		[[Category: Cupriavidus metallidurans ch34]]
	[[Category: CSMP, Center for Structures of Membrane Proteins.]]		[[Category: CSMP, Center for Structures of Membrane Proteins.]]
		+	[[Category: Ekende, E Ngonlong.]]
	[[Category: Pak, J E.]]		[[Category: Pak, J E.]]
	[[Category: Stroud, R M.]]		[[Category: Stroud, R M.]]
		+	[[Category: Vandenbuschee, G.]]
	[[Category: Center for structures of membrane protein]]		[[Category: Center for structures of membrane protein]]
	[[Category: Csmp]]		[[Category: Csmp]]

OCA at 08:08, 16 October 2013

OCA — Wed, 16 Oct 2013 08:08:23 GMT

←Older revision		Revision as of 08:08, 16 October 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{Large structure}}
		+	{{STRUCTURE_4k0j\| PDB=4k0j \| SCENE= }}
		+	===X-ray crystal structure of a heavy metal efflux pump, crystal form I===

-	~~The entry~~ 4k0j is ~~ON HOLD~~	+	==About this Structure==
-		+	[[4k0j]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Cupriavidus_metallidurans_ch34 Cupriavidus metallidurans ch34]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4K0J OCA].
-	~~Authors~~: Pak, J.E., Stroud, R.M., Center for ~~Structures~~ of ~~Membrane Proteins (CSMP)~~	+	[[Category: Cupriavidus metallidurans ch34]]
-		+	[[Category: CSMP, Center for Structures of Membrane Proteins.]]
-	~~Description~~: ~~X-ray crystal structure of a heavy~~ metal efflux pump~~, crystal form I~~	+	[[Category: Pak, J E.]]
		+	[[Category: Stroud, R M.]]
		+	[[Category: Center for structures of membrane protein]]
		+	[[Category: Csmp]]
		+	[[Category: Heavy metal efflux pump]]
		+	[[Category: Inner membrane]]
		+	[[Category: Psi-biology]]
		+	[[Category: Structural genomic]]
		+	[[Category: Transport protein]]
		+	[[Category: Zneb]]
		+	[[Category: Znec]]

OCA: Protected "4k0j" [edit=sysop:move=sysop]

OCA — Wed, 17 Apr 2013 20:04:44 GMT

Protected "4k0j" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:04, 17 April 2013

OCA: New page: '''Unreleased structure''' The entry 4k0j is ON HOLD Authors: Pak, J.E., Stroud, R.M., Center for Structures of Membrane Proteins (CSMP) Description: X-ray crystal structure of a heavy...

OCA — Wed, 17 Apr 2013 20:04:43 GMT

New page: '''Unreleased structure''' The entry 4k0j is ON HOLD Authors: Pak, J.E., Stroud, R.M., Center for Structures of Membrane Proteins (CSMP) Description: X-ray crystal structure of a heavy...

New page

'''Unreleased structure'''

The entry 4k0j is ON HOLD

Authors: Pak, J.E., Stroud, R.M., Center for Structures of Membrane Proteins (CSMP)

Description: X-ray crystal structure of a heavy metal efflux pump, crystal form I