6dz1 - Revision history

OCA at 14:37, 13 March 2024

2024-03-13T14:37:48Z

←Older revision		Revision as of 14:37, 13 March 2024
Line 3:		Line 3:
	<StructureSection load='6dz1' size='340' side='right'caption='[[6dz1]], [[Resolution\|resolution]] 2.26Å' scene=''>		<StructureSection load='6dz1' size='340' side='right'caption='[[6dz1]], [[Resolution\|resolution]] 2.26Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6dz1]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DZ1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6DZ1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6dz1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_cereus_BDRD-Cer4 Bacillus cereus BDRD-Cer4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DZ1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6DZ1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</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]] 2.26Å</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=6dz1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dz1 OCA], [~~http~~://pdbe.org/6dz1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6dz1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6dz1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6dz1 ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</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=6dz1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dz1 OCA], [https://pdbe.org/6dz1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6dz1 RCSB], [https://www.ebi.ac.uk/pdbsum/6dz1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6dz1 ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/C2SWC7_BACCE C2SWC7_BACCE]
-	Potassium ion channels utilize a highly selective filter to rapidly transport K(+) ions across cellular membranes. This selectivity filter is composed of four binding sites which display almost equal electron density in crystal structures with high potassium ion concentrations. This electron density can be interpreted to reflect a superposition of alternating potassium ion and water occupied states or as adjacent potassium ions. Here, we use single wavelength anomalous dispersion (SAD) X-ray diffraction data collected near the potassium absorption edge to show experimentally that all ion binding sites within the selectivity filter are fully occupied by K(+) ions. These data support the hypothesis that potassium ion transport occurs by direct Coulomb knock-on, and provide an example of solving the phase problem by K-SAD.	+
-		+
-	~~Anomalous X-ray diffraction studies of ion transport in K(+) channels.,Langan PS, Vandavasi VG, Weiss KL, Afonine PV, El Omari K, Duman R, Wagner A, Coates L Nat Commun. 2018 Oct 31;9(1)~~:~~4540. doi: 10.1038~~/~~s41467-018-06957-w. PMID:30382100<ref>PMID:30382100<~~/~~ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 6dz1" style="background-color:#fffaf0;"><~~/~~div>~~	+

	==See Also==		==See Also==
	*[[Potassium channel 3D structures\|Potassium channel 3D structures]]		*[[Potassium channel 3D structures\|Potassium channel 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus cereus BDRD-Cer4]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Afonine~~, P V~~]]	+	[[Category: Afonine PV]]
-	[[Category: Coates, L]]	+	[[Category: Coates L]]
-	[[Category: Duman, R]]	+	[[Category: Duman R]]
-	[[Category: ~~Langan, P S~~]]	+	[[Category: El Omari K]]
-	[[Category: ~~Omari, K El~~]]	+	[[Category: Langan PS]]
-	[[Category: Vandavasi~~, V G~~]]	+	[[Category: Vandavasi VG]]
-	[[Category: Wagner, A]]	+	[[Category: Wagner A]]
-	[[Category: Weiss~~, K L]]~~	+	[[Category: Weiss KL]]
-	~~[[Category: K ion transport channel]]~~	+
-	~~[[Category: Membrane protein~~]]	+

OCA at 09:08, 11 November 2020

2020-11-11T09:08:56Z

←Older revision		Revision as of 09:08, 11 November 2020
Line 1:		Line 1:

	==Studies of Ion Transport in K+ Channels==		==Studies of Ion Transport in K+ Channels==
-	<StructureSection load='6dz1' size='340' side='right' caption='[[6dz1]], [[Resolution\|resolution]] 2.26Å' scene=''>	+	<StructureSection load='6dz1' size='340' side='right'caption='[[6dz1]], [[Resolution\|resolution]] 2.26Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6dz1]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DZ1 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6DZ1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6dz1]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DZ1 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6DZ1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</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=6dz1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dz1 OCA], [http://pdbe.org/6dz1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dz1 RCSB], [http://www.ebi.ac.uk/pdbsum/6dz1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dz1 ProSAT]</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=6dz1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dz1 OCA], [http://pdbe.org/6dz1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dz1 RCSB], [http://www.ebi.ac.uk/pdbsum/6dz1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dz1 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</div>		</div>
	<div class="pdbe-citations 6dz1" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6dz1" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Potassium channel 3D structures\|Potassium channel 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Afonine, P V]]		[[Category: Afonine, P V]]
	[[Category: Coates, L]]		[[Category: Coates, L]]

OCA at 08:16, 14 November 2018

2018-11-14T08:16:07Z

←Older revision		Revision as of 08:16, 14 November 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6dz1 is ~~ON HOLD until Paper~~ Publication	+	==Studies of Ion Transport in K+ Channels==
		+	<StructureSection load='6dz1' size='340' side='right' caption='[[6dz1]], [[Resolution\|resolution]] 2.26Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6dz1]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DZ1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DZ1 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</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=6dz1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dz1 OCA], [http://pdbe.org/6dz1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dz1 RCSB], [http://www.ebi.ac.uk/pdbsum/6dz1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dz1 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Potassium ion channels utilize a highly selective filter to rapidly transport K(+) ions across cellular membranes. This selectivity filter is composed of four binding sites which display almost equal electron density in crystal structures with high potassium ion concentrations. This electron density can be interpreted to reflect a superposition of alternating potassium ion and water occupied states or as adjacent potassium ions. Here, we use single wavelength anomalous dispersion (SAD) X-ray diffraction data collected near the potassium absorption edge to show experimentally that all ion binding sites within the selectivity filter are fully occupied by K(+) ions. These data support the hypothesis that potassium ion transport occurs by direct Coulomb knock-on, and provide an example of solving the phase problem by K-SAD.

-	~~Authors:~~ Langan~~, P.S.~~, Vandavasi~~, V.G.~~, Weiss, ~~K.L., Wagner, A., Duman, R.~~, El Omari, K., ~~Afonine~~, ~~P.V.~~, Coates, L.	+	Anomalous X-ray diffraction studies of ion transport in K(+) channels.,Langan PS, Vandavasi VG, Weiss KL, Afonine PV, El Omari K, Duman R, Wagner A, Coates L Nat Commun. 2018 Oct 31;9(1):4540. doi: 10.1038/s41467-018-06957-w. PMID:30382100<ref>PMID:30382100</ref>

-	~~Description: Studies~~ of ~~Ion Transport in K+ Channels~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	~~[[Category: El Omari, K]]~~	+	<div class="pdbe-citations 6dz1" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Duman~~, R]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Afonine, P V]]
	[[Category: Coates, L]]		[[Category: Coates, L]]
		+	[[Category: Duman, R]]
		+	[[Category: Langan, P S]]
		+	[[Category: Omari, K El]]
		+	[[Category: Vandavasi, V G]]
	[[Category: Wagner, A]]		[[Category: Wagner, A]]
-	[[Category: ~~Langan~~, ~~P.S~~]]	+	[[Category: Weiss, K L]]
-	[[Category: ~~Vandavasi, V.G~~]]	+	[[Category: K ion transport channel]]
-	[[Category: ~~Afonine, P.V]]~~	+	[[Category: Membrane protein]]
-	~~[[Category: Weiss, K.L~~]]	+

OCA at 06:10, 3 October 2018

2018-10-03T06:10:34Z

←Older revision		Revision as of 06:10, 3 October 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6dz1 is ON HOLD	+	The entry 6dz1 is ON HOLD until Paper Publication

	Authors: Langan, P.S., Vandavasi, V.G., Weiss, K.L., Wagner, A., Duman, R., El Omari, K., Afonine, P.V., Coates, L.		Authors: Langan, P.S., Vandavasi, V.G., Weiss, K.L., Wagner, A., Duman, R., El Omari, K., Afonine, P.V., Coates, L.

OCA at 18:04, 19 September 2018

2018-09-19T18:04:19Z

←Older revision		Revision as of 18:04, 19 September 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6dz1 is ON HOLD ~~until Paper Publication~~	+	The entry 6dz1 is ON HOLD

	Authors: Langan, P.S., Vandavasi, V.G., Weiss, K.L., Wagner, A., Duman, R., El Omari, K., Afonine, P.V., Coates, L.		Authors: Langan, P.S., Vandavasi, V.G., Weiss, K.L., Wagner, A., Duman, R., El Omari, K., Afonine, P.V., Coates, L.
Line 9:		Line 9:
	[[Category: El Omari, K]]		[[Category: El Omari, K]]
	[[Category: Duman, R]]		[[Category: Duman, R]]
-	[[Category: Vandavasi, V.G]]
-	[[Category: Afonine, P.V]]
-	[[Category: Weiss, K.L]]
	[[Category: Coates, L]]		[[Category: Coates, L]]
	[[Category: Wagner, A]]		[[Category: Wagner, A]]
	[[Category: Langan, P.S]]		[[Category: Langan, P.S]]
		+	[[Category: Vandavasi, V.G]]
		+	[[Category: Afonine, P.V]]
		+	[[Category: Weiss, K.L]]

OCA at 19:47, 9 August 2018

2018-08-09T19:47:13Z

←Older revision		Revision as of 19:47, 9 August 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6dz1 is ON HOLD	+	The entry 6dz1 is ON HOLD until Paper Publication

	Authors: Langan, P.S., Vandavasi, V.G., Weiss, K.L., Wagner, A., Duman, R., El Omari, K., Afonine, P.V., Coates, L.		Authors: Langan, P.S., Vandavasi, V.G., Weiss, K.L., Wagner, A., Duman, R., El Omari, K., Afonine, P.V., Coates, L.
Line 7:		Line 7:
	Description: Studies of Ion Transport in K+ Channels		Description: Studies of Ion Transport in K+ Channels
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Wagner, A]]
-	[[Category: Coates, L]]
	[[Category: El Omari, K]]		[[Category: El Omari, K]]
	[[Category: Duman, R]]		[[Category: Duman, R]]
-	[[Category: Langan, P.S]]
	[[Category: Vandavasi, V.G]]		[[Category: Vandavasi, V.G]]
-	[[Category: Weiss, K.L]]
	[[Category: Afonine, P.V]]		[[Category: Afonine, P.V]]
		+	[[Category: Weiss, K.L]]
		+	[[Category: Coates, L]]
		+	[[Category: Wagner, A]]
		+	[[Category: Langan, P.S]]

OCA: Protected "6dz1" [edit=sysop:move=sysop]

2018-07-11T04:08:30Z

Protected "6dz1" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:08, 11 July 2018

OCA: New page: '''Unreleased structure''' The entry 6dz1 is ON HOLD Authors: Langan, P.S., Vandavasi, V.G., Weiss, K.L., Wagner, A., Duman, R., El Omari, K., Afonine, P.V., Coates, L. Description: St...

2018-07-11T04:08:29Z

New page: '''Unreleased structure''' The entry 6dz1 is ON HOLD Authors: Langan, P.S., Vandavasi, V.G., Weiss, K.L., Wagner, A., Duman, R., El Omari, K., Afonine, P.V., Coates, L. Description: St...

New page

'''Unreleased structure'''

The entry 6dz1 is ON HOLD

Authors: Langan, P.S., Vandavasi, V.G., Weiss, K.L., Wagner, A., Duman, R., El Omari, K., Afonine, P.V., Coates, L.

Description: Studies of Ion Transport in K+ Channels
[[Category: Unreleased Structures]]
[[Category: Wagner, A]]
[[Category: Coates, L]]
[[Category: El Omari, K]]
[[Category: Duman, R]]
[[Category: Langan, P.S]]
[[Category: Vandavasi, V.G]]
[[Category: Weiss, K.L]]
[[Category: Afonine, P.V]]