5oxb - Revision history

OCA at 01:27, 28 December 2023

OCA — Thu, 28 Dec 2023 01:27:28 GMT

←Older revision		Revision as of 01:27, 28 December 2023
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	==Structure of blue-light irradiated Cerulean==		==Structure of blue-light irradiated Cerulean==
-	<StructureSection load='5oxb' size='340' side='right' caption='[[5oxb]], [[Resolution\|resolution]] 1.38Å' scene=''>	+	<StructureSection load='5oxb' size='340' side='right'caption='[[5oxb]], [[Resolution\|resolution]] 1.38Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5oxb]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Aeqvi Aeqvi~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OXB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5OXB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5oxb]] is a 1 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=5OXB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5OXB FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=B2H:'>B2H</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]] 1.38Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~GFP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=6100 AEQVI]~~)</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=B2H:Chromophore+(Thr,+Trp,+Gly)'>B2H</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=5oxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oxb OCA], [~~http~~://pdbe.org/5oxb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5oxb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5oxb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5oxb 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=5oxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oxb OCA], [https://pdbe.org/5oxb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5oxb RCSB], [https://www.ebi.ac.uk/pdbsum/5oxb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5oxb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://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.	+	[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 5oxb" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5oxb" 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: Clavel, D]]	+	[[Category: Large Structures]]
-	[[Category: Gotthard, G]]	+	[[Category: Clavel D]]
-	[[Category: Noirclerc-Savoye, M]]	+	[[Category: Gotthard G]]
-	[[Category: Royant, A]]	+	[[Category: Noirclerc-Savoye M]]
-	[[Category: Stetten, D ~~von]]~~	+	[[Category: Royant A]]
-	~~[[Category: Cerulean]]~~	+	[[Category: Von Stetten D]]
-	~~[[Category: Fluorescent protein]]~~	+
-	~~[[Category: Photoisomerization]]~~	+
-	~~[[Category: Tryptophan-based chromophore~~]]	+

OCA at 07:46, 6 December 2017

OCA — Wed, 06 Dec 2017 07:46:10 GMT

←Older revision		Revision as of 07:46, 6 December 2017
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	<StructureSection load='5oxb' size='340' side='right' caption='[[5oxb]], [[Resolution\|resolution]] 1.38Å' scene=''>		<StructureSection load='5oxb' size='340' side='right' caption='[[5oxb]], [[Resolution\|resolution]] 1.38Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5oxb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OXB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OXB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5oxb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aeqvi Aeqvi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OXB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OXB FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=B2H:'>B2H</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=B2H:'>B2H</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GFP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6100 AEQVI])</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=5oxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oxb OCA], [http://pdbe.org/5oxb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5oxb RCSB], [http://www.ebi.ac.uk/pdbsum/5oxb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5oxb 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=5oxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oxb OCA], [http://pdbe.org/5oxb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5oxb RCSB], [http://www.ebi.ac.uk/pdbsum/5oxb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5oxb ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Aeqvi]]
	[[Category: Clavel, D]]		[[Category: Clavel, D]]
	[[Category: Gotthard, G]]		[[Category: Gotthard, G]]

OCA at 06:10, 29 November 2017

OCA — Wed, 29 Nov 2017 06:10:44 GMT

←Older revision		Revision as of 06:10, 29 November 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5oxb is ~~ON HOLD until Paper~~ Publication	+	==Structure of blue-light irradiated Cerulean==
		+	<StructureSection load='5oxb' size='340' side='right' caption='[[5oxb]], [[Resolution\|resolution]] 1.38Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5oxb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OXB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OXB FirstGlance]. <br>
		+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=B2H:'>B2H</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=5oxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5oxb OCA], [http://pdbe.org/5oxb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5oxb RCSB], [http://www.ebi.ac.uk/pdbsum/5oxb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5oxb ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://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;">
		+	== Publication Abstract from PubMed ==
		+	ECFP, the first usable cyan fluorescent protein (CFP), was obtained by adapting the tyrosine-based chromophore environment in green fluorescent protein to that of a tryptophan-based one. This first-generation CFP was superseded by the popular Cerulean, CyPet, and SCFP3A that were engineered by rational and random mutagenesis, yet the latter CFPs still exhibit suboptimal properties of pH sensitivity and reversible photobleaching behavior. These flaws were serendipitously corrected in the third-generation CFP mTurquoise and its successors without an obvious rationale. We show here that the evolution process had unexpectedly remodeled the chromophore environment in second-generation CFPs so they would accommodate a different isomer, whose formation is favored by acidic pH or light irradiation and which emits fluorescence much less efficiently. Our results illustrate how fluorescent protein engineering based solely on fluorescence efficiency optimization may affect other photophysical or physicochemical parameters and provide novel insights into the rational evolution of fluorescent proteins with a tryptophan-based chromophore.

-	~~Authors~~:	+	Chromophore Isomer Stabilization Is Critical to the Efficient Fluorescence of Cyan Fluorescent Proteins.,Gotthard G, von Stetten D, Clavel D, Noirclerc-Savoye M, Royant A Biochemistry. 2017 Nov 27. pii: 10.1021/acs.biochem.7b01088. doi:, 10.1021/acs.biochem.7b01088. PMID:29148725<ref>PMID:29148725</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5oxb" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Clavel, D]]
		+	[[Category: Gotthard, G]]
		+	[[Category: Noirclerc-Savoye, M]]
		+	[[Category: Royant, A]]
		+	[[Category: Stetten, D von]]
		+	[[Category: Cerulean]]
		+	[[Category: Fluorescent protein]]
		+	[[Category: Photoisomerization]]
		+	[[Category: Tryptophan-based chromophore]]

OCA at 05:19, 11 October 2017

OCA — Wed, 11 Oct 2017 05:19:15 GMT

←Older revision		Revision as of 05:19, 11 October 2017
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Wed, 27 Sep 2017 12:57:51 GMT

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

←Older revision

Revision as of 12:57, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5oxb is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 27 Sep 2017 12:57:50 GMT

New page: '''Unreleased structure''' The entry 5oxb is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5oxb is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]