8arm - Revision history

OCA at 13:38, 1 February 2024

OCA — Thu, 01 Feb 2024 13:38:15 GMT

←Older revision		Revision as of 13:38, 1 February 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[8arm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Discosoma_sp. Discosoma sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8ARM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8ARM FirstGlance]. <br>		<table><tr><td colspan='2'>[[8arm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Discosoma_sp. Discosoma sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8ARM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8ARM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.41Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=8arm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8arm OCA], [https://pdbe.org/8arm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8arm RCSB], [https://www.ebi.ac.uk/pdbsum/8arm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8arm 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=8arm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8arm OCA], [https://pdbe.org/8arm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8arm RCSB], [https://www.ebi.ac.uk/pdbsum/8arm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8arm ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:23, 3 November 2022

OCA — Thu, 03 Nov 2022 07:23:54 GMT

←Older revision		Revision as of 07:23, 3 November 2022
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 8arm is ~~ON HOLD~~	+	==Crystal structure of LSSmScarlet2==
		+	<StructureSection load='8arm' size='340' side='right'caption='[[8arm]], [[Resolution\|resolution]] 1.41Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8arm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Discosoma_sp. Discosoma sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8ARM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8ARM FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=8arm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8arm OCA], [https://pdbe.org/8arm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8arm RCSB], [https://www.ebi.ac.uk/pdbsum/8arm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8arm ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/RFP_DISSP RFP_DISSP] Thought to play a role in photoprotection of the coral's resident symbiont microalgae's photosystems from photoinhibition caused by high light levels found near the surface of coral reefs. In deeper water, the fluorescence may be to convert blue light into longer wavelengths more suitable for use in photosynthesis by the microalgal symbionts.<ref>PMID:10504696</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Red fluorescent proteins with a large Stokes' shift (LSSRFPs) are genetically encoded and efficiently excited by 488 nm light, allowing simultaneous dual-color one- and two-photon fluorescence imaging and fluorescence correlation spectroscopy in combination with green fluorescent proteins FPs. Recently, based on the conventional bright mScarlet RFP, we developed the LSSRFP LSSmScarlet. LSSmScarlet is characterized by two pKa values at pH values of 1.9 and 5.8. In this study, we developed improved versions of LSSmScarlet, named LSSmScarlet2 and LSSmScarlet3, which are characterized by a Stokes' shift of 128 nm and extreme pH stability with a single pKa value of 2.2. LSSmScarlet2 and LSSmScarlet3 had 1.8-fold faster and 3-fold slower maturation than LSSmScarlet, respectively. In addition, both LSSRFPs were 1.5- to 1.6-fold more photostable and more chemically resistant to denaturation by guanidinium chloride and guanidinium thiocyanate. We also compared the susceptibility of the LSSmScarlet2, LSSmScarlet3, and other LSSRFPs to the reagents used for whole-mount imaging, expansion microscopy, and immunostaining techniques. Due to higher pH stability and faster maturation, the LSSmScarlet3-LAMP3 fusion was 2.2-fold brighter than LSSmScarlet-LAMP3 in lysosomes of mammalian cells. The LSSmScarlet3-hLAMP2A fusion was similar in brightness to LSSmScarlet-hLAMP2A in lysosomes. We successfully applied the monomeric LSSmScarlet2 and LSSmScarlet3 proteins for confocal imaging of structural proteins in live mammalian cells. We also solved the X-ray structure of the LSSmScarlet2 protein at a resolution of 1.41 A. Site-directed mutagenesis of the LSSmScarlet2 protein demonstrated the key role of the T74 residue in improving the pH and chemical stability of the LSSmScarlet2 protein.

-	~~Authors: Samygina~~, ~~V.R~~., Subach~~, O.M.~~, Vlaskina, A.V., ~~Subach, F~~.V.	+	LSSmScarlet2 and LSSmScarlet3, Chemically Stable Genetically Encoded Red Fluorescent Proteins with a Large Stokes' Shift.,Subach OM, Vlaskina AV, Agapova YK, Piatkevich KD, Patrushev MV, Samygina VR, Subach FV Int J Mol Sci. 2022 Sep 21;23(19). pii: ijms231911051. doi:, 10.3390/ijms231911051. PMID:36232354<ref>PMID:36232354</ref>

-	~~Description: Crystal structure~~ of ~~LSSmScarlet2~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	[[Category: ~~Subach, O.M~~]]	+	<div class="pdbe-citations 8arm" style="background-color:#fffaf0;"></div>
-	[[Category: Subach~~, F.V~~]]	+	== References ==
-	[[Category: ~~Vlaskina, A.V~~]]	+	<references/>
-	[[Category: ~~Samygina, V.R~~]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Discosoma sp]]
		+	[[Category: Large Structures]]
		+	[[Category: Samygina VR]]
		+	[[Category: Subach FV]]
		+	[[Category: Subach OM]]
		+	[[Category: Vlaskina AV]]

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

OCA — Thu, 25 Aug 2022 03:45:27 GMT

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

←Older revision

Revision as of 03:45, 25 August 2022

OCA: New page: '''Unreleased structure''' The entry 8arm is ON HOLD Authors: Samygina, V.R., Subach, O.M., Vlaskina, A.V., Subach, F.V. Description: Crystal structure of LSSmScarlet2 [[Category: Unre...

OCA — Thu, 25 Aug 2022 03:45:26 GMT

New page: '''Unreleased structure''' The entry 8arm is ON HOLD Authors: Samygina, V.R., Subach, O.M., Vlaskina, A.V., Subach, F.V. Description: Crystal structure of LSSmScarlet2 [[Category: Unre...

New page

'''Unreleased structure'''

The entry 8arm is ON HOLD

Authors: Samygina, V.R., Subach, O.M., Vlaskina, A.V., Subach, F.V.

Description: Crystal structure of LSSmScarlet2
[[Category: Unreleased Structures]]
[[Category: Subach, O.M]]
[[Category: Subach, F.V]]
[[Category: Vlaskina, A.V]]
[[Category: Samygina, V.R]]