6fk8 - Revision history

OCA at 14:26, 11 April 2018

2018-04-11T14:26:26Z

←Older revision		Revision as of 14:26, 11 April 2018
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	<StructureSection load='6fk8' size='340' side='right' caption='[[6fk8]], [[Resolution\|resolution]] 2.87Å' scene=''>		<StructureSection load='6fk8' size='340' side='right' caption='[[6fk8]], [[Resolution\|resolution]] 2.87Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6fk8]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6FK8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6FK8 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6fk8]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bovin Bovin]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6FK8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6FK8 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=DNZ:(2~{R},3~{S})-3-azanyl-2-(4-chlorophenyl)-1-spiro[1,3-benzodioxole-2,4-piperidine]-1-yl-butan-1-one'>DNZ</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=DNZ:(2~{R},3~{S})-3-azanyl-2-(4-chlorophenyl)-1-spiro[1,3-benzodioxole-2,4-piperidine]-1-yl-butan-1-one'>DNZ</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RHO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9913 BOVIN])</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=6fk8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6fk8 OCA], [http://pdbe.org/6fk8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6fk8 RCSB], [http://www.ebi.ac.uk/pdbsum/6fk8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6fk8 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=6fk8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6fk8 OCA], [http://pdbe.org/6fk8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6fk8 RCSB], [http://www.ebi.ac.uk/pdbsum/6fk8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6fk8 ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bovin]]
	[[Category: Dawson, R]]		[[Category: Dawson, R]]
	[[Category: Mattle, D]]		[[Category: Mattle, D]]

OCA at 06:03, 4 April 2018

2018-04-04T06:03:46Z

←Older revision		Revision as of 06:03, 4 April 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 6fk8 is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Crystal structure of N2C/D282C stabilized opsin bound to RS08==
		+	<StructureSection load='6fk8' size='340' side='right' caption='[[6fk8]], [[Resolution\|resolution]] 2.87Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6fk8]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6FK8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6FK8 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=DNZ:(2~{R},3~{S})-3-azanyl-2-(4-chlorophenyl)-1-spiro[1,3-benzodioxole-2,4-piperidine]-1-yl-butan-1-one'>DNZ</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</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=6fk8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6fk8 OCA], [http://pdbe.org/6fk8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6fk8 RCSB], [http://www.ebi.ac.uk/pdbsum/6fk8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6fk8 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/OPSD_BOVIN OPSD_BOVIN]] Photoreceptor required for image-forming vision at low light intensity. Required for photoreceptor cell viability after birth. Light-induced isomerization of 11-cis to all-trans retinal triggers a conformational change leading to G-protein activation and release of all-trans retinal (By similarity).<ref>PMID:16908857</ref> <ref>PMID:17060607</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In the degenerative eye disease retinitis pigmentosa (RP), protein misfolding leads to fatal consequences for cell metabolism and rod and cone cell survival. To stop disease progression, a therapeutic approach focuses on stabilizing inherited protein mutants of the G protein-coupled receptor (GPCR) rhodopsin using pharmacological chaperones (PC) that improve receptor folding and trafficking. In this study, we discovered stabilizing nonretinal small molecules by virtual and thermofluor screening and determined the crystal structure of pharmacologically stabilized opsin at 2.4 A resolution using one of the stabilizing hits (S-RS1). Chemical modification of S-RS1 and further structural analysis revealed the core binding motif of this class of rhodopsin stabilizers bound at the orthosteric binding site. Furthermore, previously unobserved conformational changes are visible at the intradiscal side of the seven-transmembrane helix bundle. A hallmark of this conformation is an open channel connecting the ligand binding site with the membrane and the intradiscal lumen of rod outer segments. Sufficient in size, the passage permits the exchange of hydrophobic ligands such as retinal. The results broaden our understanding of rhodopsin's conformational flexibility and enable therapeutic drug intervention against rhodopsin-related retinitis pigmentosa.

-	~~Authors:~~ Mattle, D., ~~Standfuss~~, J., Dawson, R.	+	Ligand channel in pharmacologically stabilized rhodopsin.,Mattle D, Kuhn B, Aebi J, Bedoucha M, Kekilli D, Grozinger N, Alker A, Rudolph MG, Schmid G, Schertler GFX, Hennig M, Standfuss J, Dawson RJP Proc Natl Acad Sci U S A. 2018 Mar 19. pii: 1718084115. doi:, 10.1073/pnas.1718084115. PMID:29555765<ref>PMID:29555765</ref>

-	~~Description: Crystal structure~~ of ~~N2C~~/~~D282C stabilized opsin bound to RS08~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	~~[[Category: Standfuss, J]]~~	+	<div class="pdbe-citations 6fk8" style="background-color:#fffaf0;"></div>
-	~~[[Category: Mattle, D]]~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Dawson, R]]		[[Category: Dawson, R]]
		+	[[Category: Mattle, D]]
		+	[[Category: Standfuss, J]]
		+	[[Category: G protein-coupled receptor]]
		+	[[Category: Kintegral membrane protein]]
		+	[[Category: Membrane]]
		+	[[Category: Membrane protein]]
		+	[[Category: Photoreceptor protein]]
		+	[[Category: Receptor]]
		+	[[Category: Retinitis pigmentosa]]
		+	[[Category: Rhodopsin]]
		+	[[Category: Sensory transduction]]
		+	[[Category: Signaling protein]]
		+	[[Category: Small molecule complex]]
		+	[[Category: Transducer photoreceptor]]
		+	[[Category: Vision]]

OCA at 06:16, 21 March 2018

2018-03-21T06:16:15Z

←Older revision		Revision as of 06:16, 21 March 2018
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6fk8 is ON HOLD	+	The entry 6fk8 is ON HOLD until Paper Publication

	Authors: Mattle, D., Standfuss, J., Dawson, R.		Authors: Mattle, D., Standfuss, J., Dawson, R.

-	Description: Crystal ~~Structure~~ of ~~Rhodopsin~~	+	Description: Crystal structure of N2C/D282C stabilized opsin bound to RS08
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Standfuss, J]]		[[Category: Standfuss, J]]
	[[Category: Mattle, D]]		[[Category: Mattle, D]]
	[[Category: Dawson, R]]		[[Category: Dawson, R]]

OCA: Protected "6fk8" [edit=sysop:move=sysop]

2018-01-31T04:57:33Z

Protected "6fk8" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:57, 31 January 2018

OCA: New page: '''Unreleased structure''' The entry 6fk8 is ON HOLD Authors: Mattle, D., Standfuss, J., Dawson, R. Description: Crystal Structure of Rhodopsin Category: Unreleased Structures [[Ca...

2018-01-31T04:57:32Z

New page: '''Unreleased structure''' The entry 6fk8 is ON HOLD Authors: Mattle, D., Standfuss, J., Dawson, R. Description: Crystal Structure of Rhodopsin Category: Unreleased Structures [[Ca...

New page

'''Unreleased structure'''

The entry 6fk8 is ON HOLD

Authors: Mattle, D., Standfuss, J., Dawson, R.

Description: Crystal Structure of Rhodopsin
[[Category: Unreleased Structures]]
[[Category: Standfuss, J]]
[[Category: Mattle, D]]
[[Category: Dawson, R]]