5dtl - Revision history

OCA at 21:58, 28 June 2023

OCA — Wed, 28 Jun 2023 21:58:38 GMT

←Older revision		Revision as of 21:58, 28 June 2023
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	<StructureSection load='5dtl' size='340' side='right'caption='[[5dtl]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='5dtl' size='340' side='right'caption='[[5dtl]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5dtl]] is a 12 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Lobhe Lobhe~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DTL OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5DTL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5dtl]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Lobophyllia_hemprichii Lobophyllia hemprichii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DTL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5DTL FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non~~-~~Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~CR8~~:2-[1-~~AMINO~~-2-(1H-IMIDAZOL-5-YL)ETHYL]~~-1-(CARBOXYMETHYL)~~-4-[(4-~~OXOCYCLOHEXA-2,5-DIEN-1-YLIDENE~~)~~METHYL~~]-1H-IMIDAZOL-5-~~OLATE~~'>~~CR8~~</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]] 2.7Å</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=5dtl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dtl OCA], [~~http~~://pdbe.org/5dtl PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5dtl RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5dtl PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5dtl ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5SQ:2-[2-[(1~{S})-1-AZANYL-2-(1~{H}-IMIDAZOL-4-YL)ETHYL]-4-[(4-HYDROXYPHENYL)METHYLIDENE]-5-OXIDANYLIDENE-IMIDAZOL-1-YL]ETHANOIC+ACID'>5SQ</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=5dtl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dtl OCA], [https://pdbe.org/5dtl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5dtl RCSB], [https://www.ebi.ac.uk/pdbsum/5dtl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5dtl ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q5S6Z9_LOBHE Q5S6Z9_LOBHE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lobhe~~]]	+	[[Category: Lobophyllia hemprichii]]
-	[[Category: Adam, V]]	+	[[Category: Adam V]]
-	[[Category: Berardozzi, R]]	+	[[Category: Berardozzi R]]
-	[[Category: Bourgeois, D]]	+	[[Category: Bourgeois D]]
-	[[Category: Martins, A]]	+	[[Category: Martins A]]
-	~~[[Category: Blinking]]~~	+
-	~~[[Category: Fluorescent protein]]~~	+
-	~~[[Category: Meos2~~]]	+

OCA at 08:05, 15 April 2020

OCA — Wed, 15 Apr 2020 08:05:18 GMT

←Older revision		Revision as of 08:05, 15 April 2020
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		+
	==Crystal structure of mEos2-A69T fluorescent protein==		==Crystal structure of mEos2-A69T fluorescent protein==
-	<StructureSection load='5dtl' size='340' side='right' caption='[[5dtl]], [[Resolution\|resolution]] 2.70Å' scene=''>	+	<StructureSection load='5dtl' size='340' side='right'caption='[[5dtl]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5dtl]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DTL OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5DTL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5dtl]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Lobhe Lobhe]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DTL OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5DTL FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CR8:2-[1-AMINO-2-(1H-IMIDAZOL-5-YL)ETHYL]-1-(CARBOXYMETHYL)-4-[(4-OXOCYCLOHEXA-2,5-DIEN-1-YLIDENE)METHYL]-1H-IMIDAZOL-5-OLATE'>CR8</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=CR8:2-[1-AMINO-2-(1H-IMIDAZOL-5-YL)ETHYL]-1-(CARBOXYMETHYL)-4-[(4-OXOCYCLOHEXA-2,5-DIEN-1-YLIDENE)METHYL]-1H-IMIDAZOL-5-OLATE'>CR8</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=5dtl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dtl OCA], [http://pdbe.org/5dtl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5dtl RCSB], [http://www.ebi.ac.uk/pdbsum/5dtl PDBsum]</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=5dtl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dtl OCA], [http://pdbe.org/5dtl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5dtl RCSB], [http://www.ebi.ac.uk/pdbsum/5dtl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5dtl ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Lobhe]]
	[[Category: Adam, V]]		[[Category: Adam, V]]
	[[Category: Berardozzi, R]]		[[Category: Berardozzi, R]]

OCA at 19:29, 30 December 2015

OCA — Wed, 30 Dec 2015 19:29:41 GMT

←Older revision		Revision as of 19:29, 30 December 2015
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-	'''~~Unreleased~~ structure'''	+	==Crystal structure of mEos2-A69T fluorescent protein==
		+	<StructureSection load='5dtl' size='340' side='right' caption='[[5dtl]], [[Resolution\|resolution]] 2.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5dtl]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DTL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DTL FirstGlance]. <br>
		+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CR8:2-[1-AMINO-2-(1H-IMIDAZOL-5-YL)ETHYL]-1-(CARBOXYMETHYL)-4-[(4-OXOCYCLOHEXA-2,5-DIEN-1-YLIDENE)METHYL]-1H-IMIDAZOL-5-OLATE'>CR8</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=5dtl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5dtl OCA], [http://pdbe.org/5dtl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5dtl RCSB], [http://www.ebi.ac.uk/pdbsum/5dtl PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Photoactivated localization microscopy (PALM) is a powerful technique to investigate cellular nanostructures quantitatively and dynamically. However, the use of PALM for molecular counting or single-particle tracking remains limited by the propensity of photoconvertible fluorescent protein markers (PCFPs) to repeatedly enter dark-states. By designing the single-mutants mEos2-A69T and Dendra2-T69A, we completely swapped the blinking behaviors of mEos2 and Dendra2, two popular PCFPs. We combined X-ray crystallography and single-molecule microscopy to show that blinking in mEos2 and Dendra2 is largely controlled by the orientation of arginine 66, a highly-conserved residue in Anthozoan PCFPs. The Arg66 side-chain conformation affects the bleaching and the on-to-off transition quantum yields, as well as the fraction of molecules entering long-lived dark states, resulting in widely different apparent blinking behaviors that largely modulate the efficiency of current blinking correction procedures. The present work provides mechanistic insight into the complex photophysics of Anthozoan PCFPs and will facilitate future engineering of bright and low-blinking variants suitable for PALM microscopy.

-	~~The entry 5dtl is ON HOLD until Paper Publication~~	+	Arginine 66 controls dark-state formation in green-to-red photoconvertible fluorescent proteins.,Berardozzi R, Adam V, Martins A, Bourgeois D J Am Chem Soc. 2015 Dec 17. PMID:26675944<ref>PMID:26675944</ref>

-	~~Authors: Berardozzi~~, R.~~, Adam, V~~.~~, Martins, A., Bourgeois, D~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Crystal structure of mEos2-A69T fluorescent protein~~	+	<div class="pdbe-citations 5dtl" style="background-color:#fffaf0;"></div>
-	~~[[Category: Unreleased Structures]]~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Adam, V]]		[[Category: Adam, V]]
-	[[Category: Martins, A]]
	[[Category: Berardozzi, R]]		[[Category: Berardozzi, R]]
	[[Category: Bourgeois, D]]		[[Category: Bourgeois, D]]
		+	[[Category: Martins, A]]
		+	[[Category: Blinking]]
		+	[[Category: Fluorescent protein]]
		+	[[Category: Meos2]]

OCA at 12:34, 7 October 2015

OCA — Wed, 07 Oct 2015 12:34:50 GMT

←Older revision		Revision as of 12:34, 7 October 2015
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Berardozzi, R., Adam, V., Martins, A., Bourgeois, D.		Authors: Berardozzi, R., Adam, V., Martins, A., Bourgeois, D.

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

OCA — Wed, 30 Sep 2015 13:30:34 GMT

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

←Older revision

Revision as of 13:30, 30 September 2015

OCA: New page: '''Unreleased structure''' The entry 5dtl is ON HOLD Authors: Berardozzi, R., Adam, V., Martins, A., Bourgeois, D. Description: Crystal structure of mEos2-A69T fluorescent protein [[Ca...

OCA — Wed, 30 Sep 2015 13:30:33 GMT

New page: '''Unreleased structure''' The entry 5dtl is ON HOLD Authors: Berardozzi, R., Adam, V., Martins, A., Bourgeois, D. Description: Crystal structure of mEos2-A69T fluorescent protein [[Ca...

New page

'''Unreleased structure'''

The entry 5dtl is ON HOLD

Authors: Berardozzi, R., Adam, V., Martins, A., Bourgeois, D.

Description: Crystal structure of mEos2-A69T fluorescent protein
[[Category: Unreleased Structures]]
[[Category: Adam, V]]
[[Category: Martins, A]]
[[Category: Berardozzi, R]]
[[Category: Bourgeois, D]]