6ga9 - Revision history

OCA at 06:49, 31 July 2019

OCA — Wed, 31 Jul 2019 06:49:11 GMT

←Older revision		Revision as of 06:49, 31 July 2019
Line 3:		Line 3:
	<StructureSection load='6ga9' size='340' side='right'caption='[[6ga9]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='6ga9' size='340' side='right'caption='[[6ga9]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ga9]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6GA9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6GA9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ga9]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Halsa Halsa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6GA9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6GA9 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"><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='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">bop, VNG_1467G ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=64091 HALSA])</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=6ga9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ga9 OCA], [http://pdbe.org/6ga9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ga9 RCSB], [http://www.ebi.ac.uk/pdbsum/6ga9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ga9 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=6ga9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ga9 OCA], [http://pdbe.org/6ga9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ga9 RCSB], [http://www.ebi.ac.uk/pdbsum/6ga9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ga9 ProSAT]</span></td></tr>
	</table>		</table>
	== 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. The primary photochemical event upon light absorption is isomerization of the retinal chromophore. Here we used time-resolved crystallography at an X-ray free-electron laser to follow the structural changes in multiphoton-excited bR from 250 femtoseconds to 10 picoseconds. Quantum chemistry and ultrafast spectroscopy were used to identify a sequential two-photon absorption process, leading to excitation of a tryptophan residue flanking the retinal chromophore, as a first manifestation of multiphoton effects. We resolve distinct stages in the structural dynamics of the all-trans retinal in photoexcited bR to a highly twisted 13-cis conformation. Other active site sub-picosecond rearrangements include correlated vibrational motions of the electronically excited retinal chromophore, the surrounding amino acids and water molecules as well as their hydrogen bonding network. These results show that this extended photo-active network forms an electronically and vibrationally coupled system in bR, and most likely in all retinal proteins.
		+
		+	Three-dimensional view of ultrafast dynamics in photoexcited bacteriorhodopsin.,Nass Kovacs G, Colletier JP, Grunbein ML, Yang Y, Stensitzki T, Batyuk A, Carbajo S, Doak RB, Ehrenberg D, Foucar L, Gasper R, Gorel A, Hilpert M, Kloos M, Koglin JE, Reinstein J, Roome CM, Schlesinger R, Seaberg M, Shoeman RL, Stricker M, Boutet S, Haacke S, Heberle J, Heyne K, Domratcheva T, Barends TRM, Schlichting I Nat Commun. 2019 Jul 18;10(1):3177. doi: 10.1038/s41467-019-10758-0. PMID:31320619<ref>PMID:31320619</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6ga9" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Halsa]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Batyuk, A]]		[[Category: Batyuk, A]]

OCA at 06:44, 24 April 2019

OCA — Wed, 24 Apr 2019 06:44:31 GMT

←Older revision		Revision as of 06:44, 24 April 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6ga9 ~~is ON HOLD~~	+	==BACTERIORHODOPSIN, 390 FS STATE, REAL-SPACE REFINED AGAINST 15% EXTRAPOLATED STRUCTURE FACTORS==
-		+	<StructureSection load='6ga9' size='340' side='right'caption='[[6ga9]], [[Resolution\|resolution]] 1.80Å' scene=''>
-	~~Authors~~: ~~Nass Kovacs, G~~.~~, Colletier, J~~.-P.~~, Gruenbein, M~~.L.~~, Stensitzki, T~~.~~, Batyuk, A~~.~~, Carbajo, S~~., ~~Doak~~, ~~R.B.~~, ~~Ehrenberg~~, D., ~~Foucar~~, L., ~~Gasper~~, R., ~~Gorel~~, A.~~, Hilpert, M~~.~~, Kloos, M~~.~~, Koglin, J~~., ~~Reinstein, J~~.~~, Roome, C~~.M., ~~Schlesinger, R~~., ~~Seaberg, M~~.~~, Shoeman, R~~.L., ~~Stricker, M~~.~~, Boutet, S~~.~~, Haacke, S~~., ~~Heberle, J~~.~~, Domratcheva, T~~.~~, Schlichting, I~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6ga9]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6GA9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6GA9 FirstGlance]. <br>
-	~~Description~~: ~~BACTERIORHODOPSIN~~, ~~390 FS STATE~~, ~~REAL-SPACE REFINED AGAINST 15% EXTRAPOLATED STRUCTURE FACTORS~~	+	</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='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=6ga9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ga9 OCA], [http://pdbe.org/6ga9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ga9 RCSB], [http://www.ebi.ac.uk/pdbsum/6ga9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ga9 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/BACR_HALSA BACR_HALSA]] Light-driven proton pump.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Batyuk, A]]
		+	[[Category: Boutet, S]]
		+	[[Category: Carbajo, S]]
		+	[[Category: Colletier, J P]]
		+	[[Category: Doak, R B]]
	[[Category: Domratcheva, T]]		[[Category: Domratcheva, T]]
-	[[Category: ~~Stricker~~, M]]	+	[[Category: Ehrenberg, D]]
		+	[[Category: Foucar, L]]
		+	[[Category: Gasper, R]]
		+	[[Category: Gorel, A]]
		+	[[Category: Gruenbein, M L]]
		+	[[Category: Haacke, S]]
	[[Category: Heberle, J]]		[[Category: Heberle, J]]
-	[[Category: Boutet, S]]
-	[[Category: Shoeman, R.L]]
	[[Category: Hilpert, M]]		[[Category: Hilpert, M]]
-	[[Category: Ehrenberg, D]]
-	[[Category: Seaberg, M]]
-	[[Category: Gorel, A]]
-	[[Category: Gasper, R]]
-	[[Category: Nass Kovacs, G]]
-	[[Category: Carbajo, S]]
	[[Category: Kloos, M]]		[[Category: Kloos, M]]
-	[[Category: ~~Foucar~~, L]]	+	[[Category: Koglin, J]]
		+	[[Category: Kovacs, G Nass]]
		+	[[Category: Reinstein, J]]
		+	[[Category: Roome, C M]]
	[[Category: Schlesinger, R]]		[[Category: Schlesinger, R]]
-	[[Category: Colletier, J.-P]]
-	[[Category: Doak, R.B]]
-	[[Category: Haacke, S]]
	[[Category: Schlichting, I]]		[[Category: Schlichting, I]]
-	[[Category: ~~Koglin~~, ~~J]]~~	+	[[Category: Seaberg, M]]
-	~~[[Category: Roome, C.~~M]]	+	[[Category: Shoeman, R L]]
-	[[Category: ~~Reinstein~~, ~~J]]~~	+
-	~~[[Category: Gruenbein, M.~~L]]	+
-	~~[[Category: Batyuk, A~~]]	+
	[[Category: Stensitzki, T]]		[[Category: Stensitzki, T]]
		+	[[Category: Stricker, M]]
		+	[[Category: Free-electron laser]]
		+	[[Category: Membrane protein]]
		+	[[Category: Proton pump]]
		+	[[Category: Time-resolved crystallography]]

OCA: Protected "6ga9" [edit=sysop:move=sysop]

OCA — Wed, 18 Apr 2018 04:33:08 GMT

Protected "6ga9" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:33, 18 April 2018

OCA: New page: '''Unreleased structure''' The entry 6ga9 is ON HOLD Authors: Nass Kovacs, G., Colletier, J.-P., Gruenbein, M.L., Stensitzki, T., Batyuk, A., Carbajo, S., Doak, R.B., Ehrenberg, D., Fou...

OCA — Wed, 18 Apr 2018 04:33:06 GMT

New page: '''Unreleased structure''' The entry 6ga9 is ON HOLD Authors: Nass Kovacs, G., Colletier, J.-P., Gruenbein, M.L., Stensitzki, T., Batyuk, A., Carbajo, S., Doak, R.B., Ehrenberg, D., Fou...

New page

'''Unreleased structure'''

The entry 6ga9 is ON HOLD

Authors: Nass Kovacs, G., Colletier, J.-P., Gruenbein, M.L., Stensitzki, T., Batyuk, A., Carbajo, S., Doak, R.B., Ehrenberg, D., Foucar, L., Gasper, R., Gorel, A., Hilpert, M., Kloos, M., Koglin, J., Reinstein, J., Roome, C.M., Schlesinger, R., Seaberg, M., Shoeman, R.L., Stricker, M., Boutet, S., Haacke, S., Heberle, J., Domratcheva, T., Schlichting, I.

Description: BACTERIORHODOPSIN, 390 FS STATE, REAL-SPACE REFINED AGAINST 15% EXTRAPOLATED STRUCTURE FACTORS
[[Category: Unreleased Structures]]
[[Category: Domratcheva, T]]
[[Category: Stricker, M]]
[[Category: Heberle, J]]
[[Category: Boutet, S]]
[[Category: Shoeman, R.L]]
[[Category: Hilpert, M]]
[[Category: Ehrenberg, D]]
[[Category: Seaberg, M]]
[[Category: Gorel, A]]
[[Category: Gasper, R]]
[[Category: Nass Kovacs, G]]
[[Category: Carbajo, S]]
[[Category: Kloos, M]]
[[Category: Foucar, L]]
[[Category: Schlesinger, R]]
[[Category: Colletier, J.-P]]
[[Category: Doak, R.B]]
[[Category: Haacke, S]]
[[Category: Schlichting, I]]
[[Category: Koglin, J]]
[[Category: Roome, C.M]]
[[Category: Reinstein, J]]
[[Category: Gruenbein, M.L]]
[[Category: Batyuk, A]]
[[Category: Stensitzki, T]]