6oga - Revision history

OCA at 07:10, 11 October 2023

OCA — Wed, 11 Oct 2023 07:10:21 GMT

←Older revision		Revision as of 07:10, 11 October 2023
Line 3:		Line 3:
	<StructureSection load='6oga' size='340' side='right'caption='[[6oga]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='6oga' size='340' side='right'caption='[[6oga]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6oga]] is a 2 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=6OGA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6OGA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6oga]] is a 2 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=6OGA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6OGA FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>~~, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 1.6Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=B2C:'>B2C</scene></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=B2C:{(4Z)-2-[(1R,2R)-1-amino-2-hydroxypropyl]-4-[(3-bromo-4-hydroxyphenyl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic+acid'>B2C</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></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=6oga FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oga OCA], [~~http~~://pdbe.org/6oga PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6oga RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6oga PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6oga 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=6oga FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oga OCA], [https://pdbe.org/6oga PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6oga RCSB], [https://www.ebi.ac.uk/pdbsum/6oga PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6oga ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[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 ==
Line 24:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aeqvi~~]]	+	[[Category: Aequorea victoria]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Boxer~~, S G~~]]	+	[[Category: Boxer SG]]
-	[[Category: Lin, C Y]]	+	[[Category: Lin C-Y]]
-	~~[[Category: Fluorescent protein]]~~	+
-	~~[[Category: Gfp~~]]	+

OCA at 20:43, 28 October 2020

OCA — Wed, 28 Oct 2020 20:43:49 GMT

←Older revision		Revision as of 20:43, 28 October 2020
Line 3:		Line 3:
	<StructureSection load='6oga' size='340' side='right'caption='[[6oga]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='6oga' size='340' side='right'caption='[[6oga]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6oga]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OGA OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6OGA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6oga]] is a 2 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=6OGA OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6OGA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=B2C:'>B2C</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=B2C:'>B2C</scene></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=6oga FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oga OCA], [http://pdbe.org/6oga PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oga RCSB], [http://www.ebi.ac.uk/pdbsum/6oga PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oga ProSAT]</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=6oga FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oga OCA], [http://pdbe.org/6oga PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oga RCSB], [http://www.ebi.ac.uk/pdbsum/6oga PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oga ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Short hydrogen bonds, with heavy-atom distances less than 2.7 A, are believed to exhibit proton delocalization, and their possible role in catalysis has been widely debated. While spectroscopic and/or structural methods are usually employed to study the degree of proton delocalization, ambiguities still arise, and no direct information on the corresponding potential energy surface is obtained. Here, we apply an external electric field to perturb the short hydrogen bond(s) within a collection of green fluorescent protein S65T/H148D variants and photoactive yellow protein mutants, where the chromophore participates in the short hydrogen bond(s) and serves as an optical probe of the proton position. As the proton is charged, its position may shift in response to the external electric field, and the chromophore's electronic absorption can thus reflect the ease of proton transfer. The results suggest that low-barrier hydrogen bonds (LBHBs) are not present within these proteins even when proton affinities between donor and acceptor are closely matched. Exploiting the chromophores as precalibrated electrostatic probes, the covalency of short hydrogen bonds as a nonelectrostatic component is also revealed. A theoretical framework is developed to address a possible contribution of unusually large polarizabilities of short hydrogen bonds due to proton delocalization, but no clear evidence for this phenomenon is found in accordance with the absence of LBHBs.
		+
		+	Unusual Spectroscopic and Electric Field Sensitivity of Chromophores with Short Hydrogen Bonds: GFP and PYP as Model Systems.,Lin CY, Boxer SG J Phys Chem B. 2020 Oct 19. doi: 10.1021/acs.jpcb.0c07730. PMID:33073990<ref>PMID:33073990</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6oga" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Green Fluorescent Protein 3D structures\|Green Fluorescent Protein 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Aeqvi]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Boxer, S G]]		[[Category: Boxer, S G]]

OCA at 06:50, 8 April 2020

OCA — Wed, 08 Apr 2020 06:50:00 GMT

←Older revision		Revision as of 06:50, 8 April 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6oga ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of Green Fluorescent Protein (GFP); S65T, Y66(3-Br1Y), H148D; circular permutant (50-51)==
-		+	<StructureSection load='6oga' size='340' side='right'caption='[[6oga]], [[Resolution\|resolution]] 1.60Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6oga]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OGA OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6OGA FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=B2C:'>B2C</scene></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=6oga FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oga OCA], [http://pdbe.org/6oga PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oga RCSB], [http://www.ebi.ac.uk/pdbsum/6oga PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oga ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Boxer, S G]]
		+	[[Category: Lin, C Y]]
		+	[[Category: Fluorescent protein]]
		+	[[Category: Gfp]]

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

OCA — Wed, 10 Apr 2019 05:34:03 GMT

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

←Older revision

Revision as of 05:34, 10 April 2019

OCA: New page: '''Unreleased structure''' The entry 6oga is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 10 Apr 2019 05:34:01 GMT

New page: '''Unreleased structure''' The entry 6oga is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6oga is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]