5h2o - Revision history

OCA at 07:22, 9 August 2023

2023-08-09T07:22:02Z

←Older revision		Revision as of 07:22, 9 August 2023
Line 3:		Line 3:
	<StructureSection load='5h2o' size='340' side='right'caption='[[5h2o]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='5h2o' size='340' side='right'caption='[[5h2o]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5h2o]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Halobacterium_salinarum_nrc~~-1 Halobacterium salinarum ~~nrc~~-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H2O OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5H2O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5h2o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Halobacterium_salinarum_NRC-1 Halobacterium salinarum NRC-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5H2O FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=C14:TETRADECANE'>C14</scene>, <scene name='pdbligand=D10:DECANE'>D10</scene>, <scene name='pdbligand=DD9:NONANE'>DD9</scene>, <scene name='pdbligand=HP6:HEPTANE'>HP6</scene>, <scene name='pdbligand=L2P:2,3-DI-PHYTANYL-GLYCEROL'>L2P</scene>, <scene name='pdbligand=MYS:PENTADECANE'>MYS</scene>, <scene name='pdbligand=OCT:N-OCTANE'>OCT</scene>, <scene name='pdbligand=RET:RETINAL'>RET</scene>, <scene name='pdbligand=TRD:TRIDECANE'>TRD</scene>, <scene name='pdbligand=UND:UNDECANE'>UND</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]] 2.1Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5b6v\|5b6v]], [[5b6w\|5b6w]], [[5b6x\|5b6x]], [[5b6y\|5b6y]], [[5b6z\|5b6z]], [[5h2h\|5h2h]], [[5h2i\|5h2i]], [[5h2j\|5h2j]], [[5h2k\|5h2k]], [[5h2l\|5h2l]], [[5h2m\|5h2m]], [[5h2n\|5h2n]], [[5h2p\|5h2p]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=C14:TETRADECANE'>C14</scene>, <scene name='pdbligand=D10:DECANE'>D10</scene>, <scene name='pdbligand=DD9:NONANE'>DD9</scene>, <scene name='pdbligand=HP6:HEPTANE'>HP6</scene>, <scene name='pdbligand=L2P:2,3-DI-PHYTANYL-GLYCEROL'>L2P</scene>, <scene name='pdbligand=MYS:PENTADECANE'>MYS</scene>, <scene name='pdbligand=OCT:N-OCTANE'>OCT</scene>, <scene name='pdbligand=RET:RETINAL'>RET</scene>, <scene name='pdbligand=TRD:TRIDECANE'>TRD</scene>, <scene name='pdbligand=UND:UNDECANE'>UND</scene></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=5h2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h2o OCA], [~~http~~://pdbe.org/5h2o PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5h2o RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5h2o PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5h2o 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=5h2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h2o OCA], [https://pdbe.org/5h2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5h2o RCSB], [https://www.ebi.ac.uk/pdbsum/5h2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5h2o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/BACR_HALSA BACR_HALSA]] Light-driven proton pump.	+	[https://www.uniprot.org/uniprot/BACR_HALSA BACR_HALSA] Light-driven proton pump.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Halobacterium salinarum ~~nrc~~-1]]	+	[[Category: Halobacterium salinarum NRC-1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Arima, T]]	+	[[Category: Arima T]]
-	[[Category: Iwata, S]]	+	[[Category: Iwata S]]
-	[[Category: Nakane, T]]	+	[[Category: Nakane T]]
-	[[Category: Nango, E]]	+	[[Category: Nango E]]
-	[[Category: Neutze, R]]	+	[[Category: Neutze R]]
-	[[Category: Royant, A]]	+	[[Category: Royant A]]
-	[[Category: Tanaka, T]]	+	[[Category: Tanaka T]]
-	~~[[Category: Bacteriorhodopsin]]~~	+
-	~~[[Category: Proton transport]]~~	+
-	~~[[Category: Sacla]]~~	+
-	~~[[Category: Time-resolved serial femtosecond crystallography]]~~	+
-	~~[[Category: Xfel~~]]	+

OCA at 06:50, 20 May 2020

2020-05-20T06:50:41Z

←Older revision		Revision as of 06:50, 20 May 2020
Line 1:		Line 1:

	==A three dimensional movie of structural changes in bacteriorhodopsin: structure obtained 250 us after photoexcitation==		==A three dimensional movie of structural changes in bacteriorhodopsin: structure obtained 250 us after photoexcitation==
-	<StructureSection load='5h2o' size='340' side='right' caption='[[5h2o]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='5h2o' size='340' side='right'caption='[[5h2o]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5h2o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Halobacterium_salinarum_nrc-1 Halobacterium salinarum nrc-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H2O OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5H2O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5h2o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Halobacterium_salinarum_nrc-1 Halobacterium salinarum nrc-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H2O OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5H2O FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=C14:TETRADECANE'>C14</scene>, <scene name='pdbligand=D10:DECANE'>D10</scene>, <scene name='pdbligand=DD9:NONANE'>DD9</scene>, <scene name='pdbligand=HP6:HEPTANE'>HP6</scene>, <scene name='pdbligand=L2P:2,3-DI-PHYTANYL-GLYCEROL'>L2P</scene>, <scene name='pdbligand=MYS:PENTADECANE'>MYS</scene>, <scene name='pdbligand=OCT:N-OCTANE'>OCT</scene>, <scene name='pdbligand=RET:RETINAL'>RET</scene>, <scene name='pdbligand=TRD:TRIDECANE'>TRD</scene>, <scene name='pdbligand=UND:UNDECANE'>UND</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=C14:TETRADECANE'>C14</scene>, <scene name='pdbligand=D10:DECANE'>D10</scene>, <scene name='pdbligand=DD9:NONANE'>DD9</scene>, <scene name='pdbligand=HP6:HEPTANE'>HP6</scene>, <scene name='pdbligand=L2P:2,3-DI-PHYTANYL-GLYCEROL'>L2P</scene>, <scene name='pdbligand=MYS:PENTADECANE'>MYS</scene>, <scene name='pdbligand=OCT:N-OCTANE'>OCT</scene>, <scene name='pdbligand=RET:RETINAL'>RET</scene>, <scene name='pdbligand=TRD:TRIDECANE'>TRD</scene>, <scene name='pdbligand=UND:UNDECANE'>UND</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5b6v\|5b6v]], [[5b6w\|5b6w]], [[5b6x\|5b6x]], [[5b6y\|5b6y]], [[5b6z\|5b6z]], [[5h2h\|5h2h]], [[5h2i\|5h2i]], [[5h2j\|5h2j]], [[5h2k\|5h2k]], [[5h2l\|5h2l]], [[5h2m\|5h2m]], [[5h2n\|5h2n]], [[5h2p\|5h2p]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5b6v\|5b6v]], [[5b6w\|5b6w]], [[5b6x\|5b6x]], [[5b6y\|5b6y]], [[5b6z\|5b6z]], [[5h2h\|5h2h]], [[5h2i\|5h2i]], [[5h2j\|5h2j]], [[5h2k\|5h2k]], [[5h2l\|5h2l]], [[5h2m\|5h2m]], [[5h2n\|5h2n]], [[5h2p\|5h2p]]</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=5h2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h2o OCA], [http://pdbe.org/5h2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h2o RCSB], [http://www.ebi.ac.uk/pdbsum/5h2o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h2o 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=5h2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h2o OCA], [http://pdbe.org/5h2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h2o RCSB], [http://www.ebi.ac.uk/pdbsum/5h2o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h2o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5h2o" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5h2o" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Bacteriorhodopsin 3D structures\|Bacteriorhodopsin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 24:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Halobacterium salinarum nrc-1]]		[[Category: Halobacterium salinarum nrc-1]]
		+	[[Category: Large Structures]]
	[[Category: Arima, T]]		[[Category: Arima, T]]
	[[Category: Iwata, S]]		[[Category: Iwata, S]]

OCA at 10:59, 1 February 2017

2017-02-01T10:59:34Z

←Older revision		Revision as of 10:59, 1 February 2017
Line 10:		Line 10:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/BACR_HALSA BACR_HALSA]] Light-driven proton pump.		[[http://www.uniprot.org/uniprot/BACR_HALSA BACR_HALSA]] Light-driven proton pump.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Bacteriorhodopsin (bR) is a light-driven proton pump and a model membrane transport protein. We used time-resolved serial femtosecond crystallography at an x-ray free electron laser to visualize conformational changes in bR from nanoseconds to milliseconds following photoactivation. An initially twisted retinal chromophore displaces a conserved tryptophan residue of transmembrane helix F on the cytoplasmic side of the protein while dislodging a key water molecule on the extracellular side. The resulting cascade of structural changes throughout the protein shows how motions are choreographed as bR transports protons uphill against a transmembrane concentration gradient.
		+
		+	A three-dimensional movie of structural changes in bacteriorhodopsin.,Nango E, Royant A, Kubo M, Nakane T, Wickstrand C, Kimura T, Tanaka T, Tono K, Song C, Tanaka R, Arima T, Yamashita A, Kobayashi J, Hosaka T, Mizohata E, Nogly P, Sugahara M, Nam D, Nomura T, Shimamura T, Im D, Fujiwara T, Yamanaka Y, Jeon B, Nishizawa T, Oda K, Fukuda M, Andersson R, Bath P, Dods R, Davidsson J, Matsuoka S, Kawatake S, Murata M, Nureki O, Owada S, Kameshima T, Hatsui T, Joti Y, Schertler G, Yabashi M, Bondar AN, Standfuss J, Neutze R, Iwata S Science. 2016 Dec 23;354(6319):1552-1557. doi: 10.1126/science.aah3497. PMID:28008064<ref>PMID:28008064</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5h2o" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 21:40, 22 December 2016

2016-12-22T21:40:03Z

←Older revision		Revision as of 21:40, 22 December 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5h2o is ~~ON HOLD~~	+	==A three dimensional movie of structural changes in bacteriorhodopsin: structure obtained 250 us after photoexcitation==
-		+	<StructureSection load='5h2o' size='340' side='right' caption='[[5h2o]], [[Resolution\|resolution]] 2.10Å' scene=''>
-	~~Authors~~: ~~Royant~~, A., ~~Nango~~, E., ~~Nakane~~, T., ~~Tanaka~~, T., ~~Arima~~, T., ~~Neutze~~, R., ~~Iwata~~, S.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5h2o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Halobacterium_salinarum_nrc-1 Halobacterium salinarum nrc-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5H2O FirstGlance]. <br>
-	~~Description~~: ~~A three dimensional movie of structural changes in bacteriorhodopsin: structure obtained 250 us after photoexcitation~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=C14:TETRADECANE'>C14</scene>, <scene name='pdbligand=D10:DECANE'>D10</scene>, <scene name='pdbligand=DD9:NONANE'>DD9</scene>, <scene name='pdbligand=HP6:HEPTANE'>HP6</scene>, <scene name='pdbligand=L2P:2,3-DI-PHYTANYL-GLYCEROL'>L2P</scene>, <scene name='pdbligand=MYS:PENTADECANE'>MYS</scene>, <scene name='pdbligand=OCT:N-OCTANE'>OCT</scene>, <scene name='pdbligand=RET:RETINAL'>RET</scene>, <scene name='pdbligand=TRD:TRIDECANE'>TRD</scene>, <scene name='pdbligand=UND:UNDECANE'>UND</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5b6v\|5b6v]], [[5b6w\|5b6w]], [[5b6x\|5b6x]], [[5b6y\|5b6y]], [[5b6z\|5b6z]], [[5h2h\|5h2h]], [[5h2i\|5h2i]], [[5h2j\|5h2j]], [[5h2k\|5h2k]], [[5h2l\|5h2l]], [[5h2m\|5h2m]], [[5h2n\|5h2n]], [[5h2p\|5h2p]]</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=5h2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h2o OCA], [http://pdbe.org/5h2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h2o RCSB], [http://www.ebi.ac.uk/pdbsum/5h2o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h2o ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/BACR_HALSA BACR_HALSA]] Light-driven proton pump.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Halobacterium salinarum nrc-1]]
	[[Category: Arima, T]]		[[Category: Arima, T]]
	[[Category: Iwata, S]]		[[Category: Iwata, S]]
		+	[[Category: Nakane, T]]
	[[Category: Nango, E]]		[[Category: Nango, E]]
		+	[[Category: Neutze, R]]
	[[Category: Royant, A]]		[[Category: Royant, A]]
	[[Category: Tanaka, T]]		[[Category: Tanaka, T]]
-	[[Category: ~~Neutze, R~~]]	+	[[Category: Bacteriorhodopsin]]
-	[[Category: ~~Nakane, T~~]]	+	[[Category: Proton transport]]
		+	[[Category: Sacla]]
		+	[[Category: Time-resolved serial femtosecond crystallography]]
		+	[[Category: Xfel]]

OCA: Protected "5h2o" [edit=sysop:move=sysop]

2016-10-26T13:15:50Z

Protected "5h2o" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:15, 26 October 2016

OCA: New page: '''Unreleased structure''' The entry 5h2o is ON HOLD Authors: Royant, A., Nango, E., Nakane, T., Tanaka, T., Arima, T., Neutze, R., Iwata, S. Description: A three dimensional movie of ...

2016-10-26T13:15:49Z

New page: '''Unreleased structure''' The entry 5h2o is ON HOLD Authors: Royant, A., Nango, E., Nakane, T., Tanaka, T., Arima, T., Neutze, R., Iwata, S. Description: A three dimensional movie of ...

New page

'''Unreleased structure'''

The entry 5h2o is ON HOLD

Authors: Royant, A., Nango, E., Nakane, T., Tanaka, T., Arima, T., Neutze, R., Iwata, S.

Description: A three dimensional movie of structural changes in bacteriorhodopsin: structure obtained 250 us after photoexcitation
[[Category: Unreleased Structures]]
[[Category: Arima, T]]
[[Category: Iwata, S]]
[[Category: Nango, E]]
[[Category: Royant, A]]
[[Category: Tanaka, T]]
[[Category: Neutze, R]]
[[Category: Nakane, T]]