6vio - Revision history

OCA at 08:13, 11 October 2023

OCA — Wed, 11 Oct 2023 08:13:25 GMT

←Older revision		Revision as of 08:13, 11 October 2023
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	<StructureSection load='6vio' size='340' side='right'caption='[[6vio]], [[Resolution\|resolution]] 3.60Å' scene=''>		<StructureSection load='6vio' size='340' side='right'caption='[[6vio]], [[Resolution\|resolution]] 3.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6vio]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Aeqvi Aeqvi~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6VIO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6VIO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6vio]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Aequorea_victoria Aequorea victoria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6VIO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6VIO FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non~~-~~Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=CR2:{(4Z)-2-(AMINOMETHYL)-4-[(4-HYDROXYPHENYL)METHYLIDENE]-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CR2</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]] 3.6Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CR2:{(4Z)-2-(AMINOMETHYL)-4-[(4-HYDROXYPHENYL)METHYLIDENE]-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CR2</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=6vio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6vio OCA], [https://pdbe.org/6vio PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6vio RCSB], [https://www.ebi.ac.uk/pdbsum/6vio PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6vio 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=6vio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6vio OCA], [https://pdbe.org/6vio PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6vio RCSB], [https://www.ebi.ac.uk/pdbsum/6vio PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6vio ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/GFP_AEQVI GFP_AEQVI] Energy-transfer acceptor. Its role is to transduce the blue chemiluminescence of the protein aequorin into green fluorescent light by energy transfer. Fluoresces in vivo upon receiving energy from the Ca(2+)-activated photoprotein aequorin.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6vio" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6vio" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Green Fluorescent Protein 3D structures\|Green Fluorescent Protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aeqvi~~]]	+	[[Category: Aequorea victoria]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hill~~, S E~~]]	+	[[Category: Hill SE]]
-	[[Category: Lieberman~~, R L~~]]	+	[[Category: Lieberman RL]]
-	[[Category: Patterson-Orazem~~, A C]]~~	+	[[Category: Patterson-Orazem AC]]
-	~~[[Category: Enhanced]]~~	+
-	~~[[Category: Fluorescent protein]]~~	+
-	~~[[Category: Modulatable]]~~	+
-	~~[[Category: Yellow~~]]	+

OCA at 10:40, 28 July 2021

OCA — Wed, 28 Jul 2021 10:40:53 GMT

←Older revision		Revision as of 10:40, 28 July 2021
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	==Crystal structure of eYFP His148Ser==		==Crystal structure of eYFP His148Ser==
-	<StructureSection load='6vio' size='340' side='right'caption='[[6vio]]' scene=''>	+	<StructureSection load='6vio' size='340' side='right'caption='[[6vio]], [[Resolution\|resolution]] 3.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6VIO OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6VIO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6vio]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Aeqvi Aeqvi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6VIO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6VIO FirstGlance]. <br>
-	</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=6vio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6vio OCA], [~~http~~://pdbe.org/6vio PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6vio RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6vio PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6vio ProSAT]</span></td></tr>	+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CR2:{(4Z)-2-(AMINOMETHYL)-4-[(4-HYDROXYPHENYL)METHYLIDENE]-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CR2</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=6vio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6vio OCA], [https://pdbe.org/6vio PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6vio RCSB], [https://www.ebi.ac.uk/pdbsum/6vio PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6vio ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Modulating fluorescent protein emission holds great potential for increasing readout sensitivity for applications in biological imaging and detection. Here, we identify and engineer optically modulated yellow fluorescent proteins (EYFP, originally 10C, but renamed EYFP later, and mVenus) to yield new emitters with distinct modulation profiles and unique, optically gated, delayed fluorescence. The parent YFPs are individually modulatable through secondary illumination, depopulating a long-lived dark state to dynamically increase fluorescence. A single point mutation introduced near the chromophore in each of these YFPs provides access to a second, even longer-lived modulatable dark state, while a different double mutant renders EYFP unmodulatable. The naturally occurring dark state in the parent YFPs yields strong fluorescence modulation upon long-wavelength-induced dark state depopulation, allowing selective detection at the frequency at which the long wavelength secondary laser is intensity modulated. Distinct from photoswitches, however, this near IR secondary coexcitation repumps the emissive S1 level from the long-lived triplet state, resulting in optically activated delayed fluorescence (OADF). This OADF results from secondary laser-induced, reverse intersystem crossing (RISC), producing additional nanosecond-lived, visible fluorescence that is delayed by many microseconds after the primary excitation has turned off. Mutation of the parent chromophore environment opens an additional modulation pathway that avoids the OADF-producing triplet state, resulting in a second, much longer-lived, modulatable dark state. These Optically Modulated and Optically Activated Delayed Fluorescent Proteins (OMFPs and OADFPs) are thus excellent for background- and reference-free, high sensitivity cellular imaging, but time-gated OADF offers a second modality for true background-free detection. Our combined structural and spectroscopic data not only gives additional mechanistic details for designing optically modulated fluorescent proteins but also provides the opportunity to distinguish similarly emitting OMFPs through OADF and through their unique modulation spectra.
		+
		+	Optically Modulated and Optically Activated Delayed Fluorescent Proteins through Dark State Engineering.,Peng B, Dikdan R, Hill SE, Patterson-Orazem AC, Lieberman RL, Fahrni CJ, Dickson RM J Phys Chem B. 2021 May 27;125(20):5200-5209. doi: 10.1021/acs.jpcb.1c00649. Epub, 2021 May 12. PMID:33978414<ref>PMID:33978414</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6vio" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Aeqvi]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hill SE]]	+	[[Category: Hill, S E]]
-	[[Category: Lieberman RL]]	+	[[Category: Lieberman, R L]]
-	[[Category: Patterson-Orazem AC]]	+	[[Category: Patterson-Orazem, A C]]
		+	[[Category: Enhanced]]
		+	[[Category: Fluorescent protein]]
		+	[[Category: Modulatable]]
		+	[[Category: Yellow]]

OCA at 05:49, 20 January 2021

OCA — Wed, 20 Jan 2021 05:49:11 GMT

←Older revision		Revision as of 05:49, 20 January 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 6vio is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of eYFP His148Ser==
-		+	<StructureSection load='6vio' size='340' side='right'caption='[[6vio]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6VIO OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6VIO FirstGlance]. <br>
-	~~Description~~:	+	</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=6vio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6vio OCA], [http://pdbe.org/6vio PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6vio RCSB], [http://www.ebi.ac.uk/pdbsum/6vio PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6vio ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Hill SE]]
		+	[[Category: Lieberman RL]]
		+	[[Category: Patterson-Orazem AC]]

OCA at 08:06, 26 February 2020

OCA — Wed, 26 Feb 2020 08:06:34 GMT

←Older revision		Revision as of 08:06, 26 February 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Wed, 22 Jan 2020 14:32:14 GMT

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

←Older revision

Revision as of 14:32, 22 January 2020

OCA: New page: '''Unreleased structure''' The entry 6vio is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 22 Jan 2020 14:32:12 GMT

New page: '''Unreleased structure''' The entry 6vio is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6vio is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]