OCA at 13:09, 1 November 2023

OCA — Wed, 01 Nov 2023 13:09:06 GMT

←Older revision		Revision as of 13:09, 1 November 2023
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-	'''Unreleased structure'''

-	~~The entry~~ 8i4k is ~~ON HOLD until Paper~~ Publication	+	==Structure of wild-type Azami Green from Galaxea fascicularis==
		+	<StructureSection load='8i4k' size='340' side='right'caption='[[8i4k]], [[Resolution\|resolution]] 1.84Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8i4k]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Galaxea_fascicularis Galaxea fascicularis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8I4K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8I4K FirstGlance]. <br>
		+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.84Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NRQ:{(4Z)-4-(4-HYDROXYBENZYLIDENE)-2-[3-(METHYLTHIO)PROPANIMIDOYL]-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>NRQ</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=8i4k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8i4k OCA], [https://pdbe.org/8i4k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8i4k RCSB], [https://www.ebi.ac.uk/pdbsum/8i4k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8i4k ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Fluorescent proteins (FPs) form a fluorophore through autocatalysis from three consecutive amino acid residues within a polypeptide chain. The two major groups, green FPs (GFPs) and red FPs (RFPs), have distinct fluorophore structures; RFPs have an extended pi-conjugation system with an additional double bond. However, due to the low sequence homology between the two groups, amino acid residues essential for determining the different fluorophore structures were unclear. Therefore, engineering a GFP into an RFP has been challenging, and the exact mechanism of how GFPs and RFPs achieve different autocatalytic reactions remained elucidated. Here, we show the conversion of two coral GFPs, AzamiGreen (AG) and mcavGFP, into RFPs by defined mutations. Structural comparison of AG and AzamiRed1.0, an AG-derived RFP, revealed that the mutations triggered drastic rearrangements in the interaction networks between amino acid residues around the fluorophore, suggesting that coordinated multisite mutations are required for the green-to-red conversion. As a result of the structural rearrangements, a cavity suitable for the entry of an oxygen molecule, which is necessary for the double bond formation of the red fluorophores, is created in the proximity of the fluorophore. We also show that a monomeric variant of AzamiRed1.0 can be used for labeling organelles and proteins in mammalian cells. Our results provide a structural basis for understanding the red fluorophore formation mechanism and demonstrate that protein engineering of GFPs is a promising way to create RFPs suitable for fluorescent tags.

-	~~Authors~~:	+	Red fluorescent proteins engineered from green fluorescent proteins.,Imamura H, Otsubo S, Nishida M, Takekawa N, Imada K Proc Natl Acad Sci U S A. 2023 Nov 7;120(45):e2307687120. doi: , 10.1073/pnas.2307687120. Epub 2023 Oct 23. PMID:37871160<ref>PMID:37871160</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 8i4k" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Galaxea fascicularis]]
		+	[[Category: Large Structures]]
		+	[[Category: Imada K]]
		+	[[Category: Imamura H]]
		+	[[Category: Otsubo S]]
		+	[[Category: Takekawa N]]

OCA at 07:59, 15 March 2023

OCA — Wed, 15 Mar 2023 07:59:32 GMT

←Older revision		Revision as of 07:59, 15 March 2023
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8i4k is ON HOLD	+	The entry 8i4k is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "8i4k" [edit=sysop:move=sysop]

OCA — Wed, 25 Jan 2023 05:12:57 GMT

Protected "8i4k" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:12, 25 January 2023

OCA: New page: '''Unreleased structure''' The entry 8i4k is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 25 Jan 2023 05:12:56 GMT

New page: '''Unreleased structure''' The entry 8i4k is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 8i4k is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

8i4k - Revision history

OCA at 13:09, 1 November 2023

OCA at 07:59, 15 March 2023

OCA: Protected "8i4k" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 8i4k is ON HOLD Authors: Description: Category: Unreleased Structures