5jrf - Revision history

OCA at 19:03, 20 September 2023

2023-09-20T19:03:21Z

←Older revision		Revision as of 19:03, 20 September 2023
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	==Crystal structure of the light-driven sodium pump KR2 bound with iodide ions==		==Crystal structure of the light-driven sodium pump KR2 bound with iodide ions==
-	<StructureSection load='5jrf' size='340' side='right' caption='[[5jrf]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='5jrf' size='340' side='right'caption='[[5jrf]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jrf]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Cip_108743 Cip 108743~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JRF OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5JRF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jrf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dokdonia_eikasta Dokdonia eikasta]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JRF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5JRF FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=IOD:IODIDE+ION'>IOD</scene~~>, ~~<scene name='pdbligand=LFA:EICOSANE'>LFA</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='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=LYR:N~6~-[(2Z,4E,6E,8E)-3,7-DIMETHYL-9-(2,6,6-TRIMETHYLCYCLOHEX-1-EN-1-YL)NONA-2,4,6,8-TETRAENYL]LYSINE'>LYR</scene>~~</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=LFA:EICOSANE'>LFA</scene>, <scene name='pdbligand=LYR:N~6~-[(2Z,4E,6E,8E)-3,7-DIMETHYL-9-(2,6,6-TRIMETHYLCYCLOHEX-1-EN-1-YL)NONA-2,4,6,8-TETRAENYL]LYSINE'>LYR</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4xtl\|4xtl]]</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=5jrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jrf OCA], [https://pdbe.org/5jrf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5jrf RCSB], [https://www.ebi.ac.uk/pdbsum/5jrf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5jrf ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NaR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=308116 CIP 108743])~~</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=5jrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jrf OCA], [~~http~~://pdbe.org/5jrf PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5jrf RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5jrf PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5jrf ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/N0DKS8_9FLAO N0DKS8_9FLAO]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5jrf" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5jrf" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Rhodopsin 3D structures\|Rhodopsin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Cip 108743~~]]	+	[[Category: Dokdonia eikasta]]
-	[[Category: Gordeliy, V]]	+	[[Category: Large Structures]]
-	[[Category: Gushchin, I]]	+	[[Category: Gordeliy V]]
-	[[Category: Kovalev, K]]	+	[[Category: Gushchin I]]
-	[[Category: Melnikov, I]]	+	[[Category: Kovalev K]]
-	[[Category: Polovinkin, V]]	+	[[Category: Melnikov I]]
-	[[Category: Popov, A]]	+	[[Category: Polovinkin V]]
-	[[Category: Shevchenko, V]]	+	[[Category: Popov A]]
-	~~[[Category: Iodide]]~~	+	[[Category: Shevchenko V]]
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Sodium pump]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 11:35, 16 November 2017

2017-11-16T11:35:15Z

←Older revision		Revision as of 11:35, 16 November 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5jrf is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of the light-driven sodium pump KR2 bound with iodide ions==
		+	<StructureSection load='5jrf' size='340' side='right' caption='[[5jrf]], [[Resolution\|resolution]] 2.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5jrf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Cip_108743 Cip 108743]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JRF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JRF FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=LFA:EICOSANE'>LFA</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LYR:N~6~-[(2Z,4E,6E,8E)-3,7-DIMETHYL-9-(2,6,6-TRIMETHYLCYCLOHEX-1-EN-1-YL)NONA-2,4,6,8-TETRAENYL]LYSINE'>LYR</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4xtl\|4xtl]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NaR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=308116 CIP 108743])</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=5jrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jrf OCA], [http://pdbe.org/5jrf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jrf RCSB], [http://www.ebi.ac.uk/pdbsum/5jrf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jrf ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	We describe a fast, easy, and potentially universal method for the de novo solution of the crystal structures of membrane proteins via iodide-single-wavelength anomalous diffraction (I-SAD). The potential universality of the method is based on a common feature of membrane proteins-the availability at the hydrophobic-hydrophilic interface of positively charged amino acid residues with which iodide strongly interacts. We demonstrate the solution using I-SAD of four crystal structures representing different classes of membrane proteins, including a human G protein-coupled receptor (GPCR), and we show that I-SAD can be applied using data collection strategies based on either standard or serial x-ray crystallography techniques.

-	~~Authors~~:	+	Fast iodide-SAD phasing for high-throughput membrane protein structure determination.,Melnikov I, Polovinkin V, Kovalev K, Gushchin I, Shevtsov M, Shevchenko V, Mishin A, Alekseev A, Rodriguez-Valera F, Borshchevskiy V, Cherezov V, Leonard GA, Gordeliy V, Popov A Sci Adv. 2017 May 12;3(5):e1602952. doi: 10.1126/sciadv.1602952. eCollection 2017, May. PMID:28508075<ref>PMID:28508075</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5jrf" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Cip 108743]]
		+	[[Category: Gordeliy, V]]
		+	[[Category: Gushchin, I]]
		+	[[Category: Kovalev, K]]
		+	[[Category: Melnikov, I]]
		+	[[Category: Polovinkin, V]]
		+	[[Category: Popov, A]]
		+	[[Category: Shevchenko, V]]
		+	[[Category: Iodide]]
		+	[[Category: Membrane protein]]
		+	[[Category: Sodium pump]]
		+	[[Category: Transport protein]]

OCA at 17:17, 22 December 2016

2016-12-22T17:17:34Z

←Older revision		Revision as of 17:17, 22 December 2016
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

OCA at 14:58, 9 December 2016

2016-12-09T14:58:24Z

←Older revision		Revision as of 14:58, 9 December 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5jrf is ON HOLD ~~until Paper Publication~~	+	The entry 5jrf is ON HOLD

	Authors:		Authors:

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

2016-06-01T13:43:58Z

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

←Older revision

Revision as of 13:43, 1 June 2016

OCA: New page: '''Unreleased structure''' The entry 5jrf is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

2016-06-01T13:43:57Z

New page: '''Unreleased structure''' The entry 5jrf is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5jrf is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]