1qy3 - Revision history

OCA at 05:57, 23 August 2023

OCA — Wed, 23 Aug 2023 05:57:40 GMT

←Older revision		Revision as of 05:57, 23 August 2023
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	<StructureSection load='1qy3' size='340' side='right'caption='[[1qy3]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1qy3' size='340' side='right'caption='[[1qy3]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1qy3]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Aeqvi Aeqvi~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QY3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1QY3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1qy3]] is a 1 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=1QY3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1QY3 FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[1qxt\|1qxt]], [[1qyf\|1qyf]], [[1qyo\|1qyo]], [[1qyq\|1qyq]]</div></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]] 2Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">GFP ([https://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'>[https://proteopedia.org/fgij/fg.htm?mol=1qy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qy3 OCA], [https://pdbe.org/1qy3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1qy3 RCSB], [https://www.ebi.ac.uk/pdbsum/1qy3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1qy3 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=1qy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qy3 OCA], [https://pdbe.org/1qy3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1qy3 RCSB], [https://www.ebi.ac.uk/pdbsum/1qy3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1qy3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== 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.	+	[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.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aeqvi~~]]	+	[[Category: Aequorea victoria]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Barondeau~~, D P~~]]	+	[[Category: Barondeau DP]]
-	[[Category: Getzoff~~, E D~~]]	+	[[Category: Getzoff ED]]
-	[[Category: Kassmann~~, C J~~]]	+	[[Category: Kassmann CJ]]
-	[[Category: Putnam~~, C D~~]]	+	[[Category: Putnam CD]]
-	[[Category: Tainer~~, J A]]~~	+	[[Category: Tainer JA]]
-	~~[[Category: Beta barrel]]~~	+
-	~~[[Category: Chromophore]]~~	+
-	~~[[Category: Luminescent protein]]~~	+
-	~~[[Category: Trapped intermediate~~]]	+

OCA at 15:22, 27 October 2021

OCA — Wed, 27 Oct 2021 15:22:08 GMT

←Older revision		Revision as of 15:22, 27 October 2021
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	<StructureSection load='1qy3' size='340' side='right'caption='[[1qy3]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1qy3' size='340' side='right'caption='[[1qy3]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1qy3]] 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=1QY3 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1QY3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1qy3]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aeqvi Aeqvi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QY3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1QY3 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1qxt\|1qxt]], [[1qyf\|1qyf]], [[1qyo\|1qyo]], [[1qyq\|1qyq]]</div></td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1qxt\|1qxt]], [[1qyf\|1qyf]], [[1qyo\|1qyo]], [[1qyq\|1qyq]]</div></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='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GFP ([https://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~~://proteopedia.org/fgij/fg.htm?mol=1qy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qy3 OCA], [~~http~~://pdbe.org/1qy3 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1qy3 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1qy3 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1qy3 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=1qy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qy3 OCA], [https://pdbe.org/1qy3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1qy3 RCSB], [https://www.ebi.ac.uk/pdbsum/1qy3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1qy3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== 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.	+	[[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.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	==See Also==		==See Also==
	*[[Green Fluorescent Protein 3D structures\|Green Fluorescent Protein 3D structures]]		*[[Green Fluorescent Protein 3D structures\|Green Fluorescent Protein 3D structures]]
-	*[[Green Fluorescent Protein: Research Tool\|Green Fluorescent Protein: Research Tool]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:13, 16 December 2020

OCA — Wed, 16 Dec 2020 13:13:55 GMT

←Older revision		Revision as of 13:13, 16 December 2020
Line 1:		Line 1:

	==Crystal structure of precyclized intermediate for the green fluorescent protein R96A variant (B)==		==Crystal structure of precyclized intermediate for the green fluorescent protein R96A variant (B)==
-	<StructureSection load='1qy3' size='340' side='right' caption='[[1qy3]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='1qy3' size='340' side='right'caption='[[1qy3]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1qy3]] 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=1QY3 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1QY3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1qy3]] 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=1QY3 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1QY3 FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qxt\|1qxt]], [[1qyf\|1qyf]], [[1qyo\|1qyo]], [[1qyq\|1qyq]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1qxt\|1qxt]], [[1qyf\|1qyf]], [[1qyo\|1qyo]], [[1qyq\|1qyq]]</div></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='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=1qy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qy3 OCA], [http://pdbe.org/1qy3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1qy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1qy3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1qy3 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=1qy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qy3 OCA], [http://pdbe.org/1qy3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1qy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1qy3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1qy3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[Green Fluorescent Protein\|Green Fluorescent Protein]]	+	*[[Green Fluorescent Protein 3D structures\|Green Fluorescent Protein 3D structures]]
	*[[Green Fluorescent Protein: Research Tool\|Green Fluorescent Protein: Research Tool]]		*[[Green Fluorescent Protein: Research Tool\|Green Fluorescent Protein: Research Tool]]
	== References ==		== References ==
Line 38:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Aeqvi]]		[[Category: Aeqvi]]
		+	[[Category: Large Structures]]
	[[Category: Barondeau, D P]]		[[Category: Barondeau, D P]]
	[[Category: Getzoff, E D]]		[[Category: Getzoff, E D]]

OCA at 07:54, 28 February 2018

OCA — Wed, 28 Feb 2018 07:54:01 GMT

←Older revision		Revision as of 07:54, 28 February 2018
Line 1:		Line 1:
		+
	==Crystal structure of precyclized intermediate for the green fluorescent protein R96A variant (B)==		==Crystal structure of precyclized intermediate for the green fluorescent protein R96A variant (B)==
	<StructureSection load='1qy3' size='340' side='right' caption='[[1qy3]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1qy3' size='340' side='right' caption='[[1qy3]], [[Resolution\|resolution]] 2.00Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qxt\|1qxt]], [[1qyf\|1qyf]], [[1qyo\|1qyo]], [[1qyq\|1qyq]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qxt\|1qxt]], [[1qyf\|1qyf]], [[1qyo\|1qyo]], [[1qyq\|1qyq]]</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='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=1qy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qy3 OCA], [http://pdbe.org/1qy3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1qy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1qy3 PDBsum]</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=1qy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qy3 OCA], [http://pdbe.org/1qy3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1qy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1qy3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1qy3 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qy/1qy3_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qy/1qy3_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1qy3 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 22:11, 11 September 2015

OCA — Fri, 11 Sep 2015 22:11:46 GMT

←Older revision		Revision as of 22:11, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1qy3' size='340' side='right' caption='[[1qy3]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='1qy3' size='340' side='right' caption='[[1qy3]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1qy3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Aequorea_victoria Aequorea victoria~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QY3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QY3 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1qy3]] 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=1QY3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QY3 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qxt\|1qxt]], [[1qyf\|1qyf]], [[1qyo\|1qyo]], [[1qyq\|1qyq]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qxt\|1qxt]], [[1qyf\|1qyf]], [[1qyo\|1qyo]], [[1qyq\|1qyq]]</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 ~~Aequorea victoria~~])</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=1qy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qy3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1qy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1qy3 PDBsum]</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=1qy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qy3 OCA], [http://pdbe.org/1qy3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1qy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1qy3 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 27:		Line 27:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 1qy3" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aequorea victoria~~]]	+	[[Category: Aeqvi]]
	[[Category: Barondeau, D P]]		[[Category: Barondeau, D P]]
	[[Category: Getzoff, E D]]		[[Category: Getzoff, E D]]

OCA at 20:12, 25 December 2014

OCA — Thu, 25 Dec 2014 20:12:21 GMT

←Older revision		Revision as of 20:12, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1qy3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aequorea_victoria Aequorea victoria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QY3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QY3 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1qy3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aequorea_victoria Aequorea victoria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QY3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QY3 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qxt\|1qxt]], [[1qyf\|1qyf]], [[1qyo\|1qyo]], [[1qyq\|1qyq]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qxt\|1qxt]], [[1qyf\|1qyf]], [[1qyo\|1qyo]], [[1qyq\|1qyq]]</td></tr>
-	<tr><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 Aequorea victoria])</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 Aequorea victoria])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1qy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qy3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1qy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1qy3 PDBsum]</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=1qy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qy3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1qy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1qy3 PDBsum]</span></td></tr>
-	<table>	+	</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.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Aequorea victoria]]		[[Category: Aequorea victoria]]
-	[[Category: Barondeau, D P.]]	+	[[Category: Barondeau, D P]]
-	[[Category: Getzoff, E D.]]	+	[[Category: Getzoff, E D]]
-	[[Category: Kassmann, C J.]]	+	[[Category: Kassmann, C J]]
-	[[Category: Putnam, C D.]]	+	[[Category: Putnam, C D]]
-	[[Category: Tainer, J A.]]	+	[[Category: Tainer, J A]]
	[[Category: Beta barrel]]		[[Category: Beta barrel]]
	[[Category: Chromophore]]		[[Category: Chromophore]]
	[[Category: Luminescent protein]]		[[Category: Luminescent protein]]
	[[Category: Trapped intermediate]]		[[Category: Trapped intermediate]]

OCA at 05:26, 3 October 2014

OCA — Fri, 03 Oct 2014 05:26:28 GMT

←Older revision		Revision as of 05:26, 3 October 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_1qy3\| PDB=1qy3 \| SCENE= }}~~	+	==Crystal structure of precyclized intermediate for the green fluorescent protein R96A variant (B)==
-	===Crystal structure of precyclized intermediate for the green fluorescent protein R96A variant (B)===	+	<StructureSection load='1qy3' size='340' side='right' caption='[[1qy3]], [[Resolution\|resolution]] 2.00Å' scene=''>
-	~~{{ABSTRACT_PUBMED_14523232}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1qy3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aequorea_victoria Aequorea victoria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QY3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1QY3 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1qxt\|1qxt]], [[1qyf\|1qyf]], [[1qyo\|1qyo]], [[1qyq\|1qyq]]</td></tr>
		+	<tr><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 Aequorea victoria])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1qy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qy3 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1qy3 RCSB], [http://www.ebi.ac.uk/pdbsum/1qy3 PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/qy/1qy3_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Green fluorescent protein has revolutionized cell labeling and molecular tagging, yet the driving force and mechanism for its spontaneous fluorophore synthesis are not established. Here we discover mutations that substantially slow the rate but not the yield of this posttranslational modification, determine structures of the trapped precyclization intermediate and oxidized postcyclization states, and identify unanticipated features critical to chromophore maturation. The protein architecture contains a dramatic approximately 80 degrees bend in the central helix, which focuses distortions at G67 to promote ring formation from amino acids S65, Y66, and G67. Significantly, these distortions eliminate potential helical hydrogen bonds that would otherwise have to be broken at an energetic cost during peptide cyclization and force the G67 nitrogen and S65 carbonyl oxygen atoms within van der Waals contact in preparation for covalent bond formation. Further, we determine that under aerobic, but not anaerobic, conditions the Gly-Gly-Gly chromophore sequence cyclizes and incorporates an oxygen atom. These results lead directly to a conjugation-trapping mechanism, in which a thermodynamically unfavorable cyclization reaction is coupled to an electronic conjugation trapping step, to drive chromophore maturation. Moreover, we propose primarily electrostatic roles for the R96 and E222 side chains in chromophore formation and suggest that the T62 carbonyl oxygen is the base that initiates the dehydration reaction. Our molecular mechanism provides the basis for understanding and eventually controlling chromophore creation.

-	~~==About this Structure==~~	+	Mechanism and energetics of green fluorescent protein chromophore synthesis revealed by trapped intermediate structures.,Barondeau DP, Putnam CD, Kassmann CJ, Tainer JA, Getzoff ED Proc Natl Acad Sci U S A. 2003 Oct 14;100(21):12111-6. Epub 2003 Oct 1. PMID:14523232<ref>PMID:14523232</ref>
-	~~[[1qy3]] is a 1 chain structure with sequence from [http~~:~~//en~~.~~wikipedia.org/wiki/Aequorea_victoria Aequorea victoria]~~. ~~Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=1QY3 OCA].~~	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

	==See Also==		==See Also==
-	*[[Alyssa Marsico/Sandbox 1\|Alyssa Marsico/Sandbox 1]]
-	*[[Devon McCarthy/Sandbox 1\|Devon McCarthy/Sandbox 1]]
	*[[Green Fluorescent Protein\|Green Fluorescent Protein]]		*[[Green Fluorescent Protein\|Green Fluorescent Protein]]
	*[[Green Fluorescent Protein: Research Tool\|Green Fluorescent Protein: Research Tool]]		*[[Green Fluorescent Protein: Research Tool\|Green Fluorescent Protein: Research Tool]]
-	*[[Sandbox104\|Sandbox104]]	+	== References ==
-	*[[User:Joanne Lau/Sandbox 5\|User:Joanne Lau/Sandbox 5]]	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:014523232<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Aequorea victoria]]		[[Category: Aequorea victoria]]
	[[Category: Barondeau, D P.]]		[[Category: Barondeau, D P.]]

OCA at 10:27, 11 March 2013

OCA — Mon, 11 Mar 2013 10:27:24 GMT

←Older revision		Revision as of 10:27, 11 March 2013
Line 1:		Line 1:
-	[[Image:1qy3.png\|left\|200px]]
-
	{{STRUCTURE_1qy3\| PDB=1qy3 \| SCENE= }}		{{STRUCTURE_1qy3\| PDB=1qy3 \| SCENE= }}
-
	===Crystal structure of precyclized intermediate for the green fluorescent protein R96A variant (B)===		===Crystal structure of precyclized intermediate for the green fluorescent protein R96A variant (B)===
-
	{{ABSTRACT_PUBMED_14523232}}		{{ABSTRACT_PUBMED_14523232}}

OCA at 20:58, 20 October 2012

OCA — Sat, 20 Oct 2012 20:58:20 GMT

←Older revision		Revision as of 20:58, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1qy3]] is a 1 chain structure ~~of [[Alyssa Marsico/Sandbox 1]], [[Devon McCarthy/Sandbox 1]], [[Green Fluorescent Protein]], [[Sandbox104]] and [[User:Joanne Lau/Sandbox 5]]~~ with sequence from [http://en.wikipedia.org/wiki/Aequorea_victoria Aequorea victoria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QY3 OCA].	+	[[1qy3]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aequorea_victoria Aequorea victoria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QY3 OCA].

	==See Also==		==See Also==

OCA at 12:11, 27 July 2012

OCA — Fri, 27 Jul 2012 12:11:35 GMT

←Older revision		Revision as of 12:11, 27 July 2012
Line 1:		Line 1:
	[[Image:1qy3.png\|left\|200px]]		[[Image:1qy3.png\|left\|200px]]

-	<!--
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-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
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	{{STRUCTURE_1qy3\| PDB=1qy3 \| SCENE= }}		{{STRUCTURE_1qy3\| PDB=1qy3 \| SCENE= }}

	===Crystal structure of precyclized intermediate for the green fluorescent protein R96A variant (B)===		===Crystal structure of precyclized intermediate for the green fluorescent protein R96A variant (B)===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_14523232}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 14523232 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_14523232}}		{{ABSTRACT_PUBMED_14523232}}

	==About this Structure==		==About this Structure==
-	[[1qy3]] is a 1 chain structure of [[Green Fluorescent Protein]] with sequence from [http://en.wikipedia.org/wiki/Aequorea_victoria Aequorea victoria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QY3 OCA].	+	[[1qy3]] is a 1 chain structure of [[Alyssa Marsico/Sandbox 1]], [[Devon McCarthy/Sandbox 1]], [[Green Fluorescent Protein]], [[Sandbox104]] and [[User:Joanne Lau/Sandbox 5]] with sequence from [http://en.wikipedia.org/wiki/Aequorea_victoria Aequorea victoria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QY3 OCA].

	==See Also==		==See Also==
-	*[[Green Fluorescent Protein]]	+	*[[Alyssa Marsico/Sandbox 1\|Alyssa Marsico/Sandbox 1]]
		+	*[[Devon McCarthy/Sandbox 1\|Devon McCarthy/Sandbox 1]]
		+	*[[Green Fluorescent Protein\|Green Fluorescent Protein]]
		+	*[[Green Fluorescent Protein: Research Tool\|Green Fluorescent Protein: Research Tool]]
		+	*[[Sandbox104\|Sandbox104]]
		+	*[[User:Joanne Lau/Sandbox 5\|User:Joanne Lau/Sandbox 5]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~14523232~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:014523232</ref><references group="xtra"/>
	[[Category: Aequorea victoria]]		[[Category: Aequorea victoria]]
	[[Category: Barondeau, D P.]]		[[Category: Barondeau, D P.]]