6gqg - Revision history

OCA at 07:55, 24 April 2019

OCA — Wed, 24 Apr 2019 07:55:47 GMT

←Older revision		Revision as of 07:55, 24 April 2019
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	==Structure of GFPmut2 crystallized at pH 8.5==		==Structure of GFPmut2 crystallized at pH 8.5==
-	<StructureSection load='6gqg' size='340' side='right' caption='[[6gqg]], [[Resolution\|resolution]] 1.79Å' scene=''>	+	<StructureSection load='6gqg' size='340' side='right'caption='[[6gqg]], [[Resolution\|resolution]] 1.79Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6gqg]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6GQG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6GQG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6gqg]] 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=6GQG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6GQG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=PIA:[(4Z)-2-[(1S)-1-AMINOETHYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL]ACETIC+ACID'>PIA</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=PIA:[(4Z)-2-[(1S)-1-AMINOETHYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL]ACETIC+ACID'>PIA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6go8\|6go8]], [[6go9\|6go9]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6go8\|6go8]], [[6go9\|6go9]]</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=6gqg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6gqg OCA], [http://pdbe.org/6gqg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6gqg RCSB], [http://www.ebi.ac.uk/pdbsum/6gqg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6gqg 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=6gqg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6gqg OCA], [http://pdbe.org/6gqg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6gqg RCSB], [http://www.ebi.ac.uk/pdbsum/6gqg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6gqg ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Aeqvi]]
		+	[[Category: Large Structures]]
	[[Category: Battistutta, R]]		[[Category: Battistutta, R]]
	[[Category: Lolli, G]]		[[Category: Lolli, G]]

OCA at 08:27, 19 December 2018

OCA — Wed, 19 Dec 2018 08:27:27 GMT

←Older revision		Revision as of 08:27, 19 December 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6gqg is ~~ON HOLD~~	+	==Structure of GFPmut2 crystallized at pH 8.5==
		+	<StructureSection load='6gqg' size='340' side='right' caption='[[6gqg]], [[Resolution\|resolution]] 1.79Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6gqg]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6GQG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6GQG FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=PIA:[(4Z)-2-[(1S)-1-AMINOETHYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL]ACETIC+ACID'>PIA</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6go8\|6go8]], [[6go9\|6go9]]</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=6gqg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6gqg OCA], [http://pdbe.org/6gqg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6gqg RCSB], [http://www.ebi.ac.uk/pdbsum/6gqg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6gqg 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 ==
		+	The fluorescence of Green Fluorescent Protein (wtGFP) and variants has been exploited in distinct applications in cellular and analytical biology. GFPs emission depends on the population of the protonated (A-state) and deprotonated (B-state) forms of the chromophore. Whereas wtGFP is pH-independent, mutants in which Ser65 is replaced by either threonine or alanine (as in GFPmut2) are pH-dependent, with a p Ka around 6. Given the wtGFP pH-independence, only the structure of the protonated form was determined. The deprotonated form was deduced on the basis of the crystal structure of the Ser65Thr mutant at basic pH, assuming that it corresponds to the conformation populated in solution. Here, we present an investigation where structures of the protonated and deprotonated forms of GFPmut2 were determined from crystals grown in either MPD at pH 6 or PEG at pH 8.5, and moved to either higher or lower pH. Both crystal forms of GFPmut2 were titrated monitoring the process via polarized absorption microspectrophotometry in order to precisely correlate the protonation process with the structures. We found that (i) in solution, chromophore titration is not thermodynamically coupled with any residue and Glu222 is always protonated independent of the protonation state of the chromophore; (ii) the lack of coupling is reflected in the structural behavior of the chromophore and Glu222 environments, with only the former showing variations with pH; (iii) titrations of low-pH and high-pH grown crystals exhibit a Hill coefficient of about 0.75, indicating an anticooperative behavior not observed in solution; (iv) structures where pH was changed in the crystal point to Glu222 as the ionizable group responsible for the outset of the anticooperative behavior; and (v) in GFPmut2 the canonical GFP proton wire involving the chromophore is not interrupted at the level of Ser205 and Glu222 at basic pH as in the Ser65Thr mutant. This allows proposing the structure of the deprotonated state of GFPmut2 as an alternative model for the analogous state of wtGFP.

-	~~Authors: Pasqualetto, E~~., Lolli, G., ~~Battistutta~~, R.	+	Insight into GFPmut2 pH Dependence by Single Crystal Microspectrophotometry and X-ray Crystallography.,Lolli G, Raboni S, Pasqualetto E, Benoni R, Campanini B, Ronda L, Mozzarelli A, Bettati S, Battistutta R J Phys Chem B. 2018 Sep 17. doi: 10.1021/acs.jpcb.8b07260. PMID:30179482<ref>PMID:30179482</ref>

-	~~Description: Structure~~ of ~~GFPmut2 crystallized at pH 8~~.5	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Lolli, G]]~~	+	<div class="pdbe-citations 6gqg" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Battistutta, R]]		[[Category: Battistutta, R]]
		+	[[Category: Lolli, G]]
	[[Category: Pasqualetto, E]]		[[Category: Pasqualetto, E]]
		+	[[Category: Beta barrel]]
		+	[[Category: Bioluminescence]]
		+	[[Category: Fluorescent protein]]

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

OCA — Thu, 14 Jun 2018 06:01:21 GMT

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

←Older revision

Revision as of 06:01, 14 June 2018

OCA: New page: '''Unreleased structure''' The entry 6gqg is ON HOLD Authors: Pasqualetto, E., Lolli, G., Battistutta, R. Description: Structure of GFPmut2 crystallized at pH 8.5 [[Category: Unrelease...

OCA — Thu, 14 Jun 2018 06:01:20 GMT

New page: '''Unreleased structure''' The entry 6gqg is ON HOLD Authors: Pasqualetto, E., Lolli, G., Battistutta, R. Description: Structure of GFPmut2 crystallized at pH 8.5 [[Category: Unrelease...

New page

'''Unreleased structure'''

The entry 6gqg is ON HOLD

Authors: Pasqualetto, E., Lolli, G., Battistutta, R.

Description: Structure of GFPmut2 crystallized at pH 8.5
[[Category: Unreleased Structures]]
[[Category: Lolli, G]]
[[Category: Battistutta, R]]
[[Category: Pasqualetto, E]]