2vae - Revision history

OCA at 08:44, 15 November 2023

OCA — Wed, 15 Nov 2023 08:44:55 GMT

←Older revision		Revision as of 08:44, 15 November 2023
Line 3:		Line 3:
	<StructureSection load='2vae' size='340' side='right'caption='[[2vae]], [[Resolution\|resolution]] 1.64Å' scene=''>		<StructureSection load='2vae' size='340' side='right'caption='[[2vae]], [[Resolution\|resolution]] 1.64Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vae]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Dissp Dissp~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VAE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vae]] is a 8 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=2VAE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VAE FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=EDO:~~1~~,2-ETHANEDIOL'>EDO</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]] 1.64Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=CRQ:[2-(3-CARBAMOYL-1-IMINO-PROPYL)-4-(4-HYDROXY-BENZYLIDENE)-5-OXO-4,5-DIHYDRO-IMIDAZOL-1-YL]-ACETIC+ACID'>CRQ</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CRQ:[2-(3-CARBAMOYL-1-IMINO-PROPYL)-4-(4-HYDROXY-BENZYLIDENE)-5-OXO-4,5-DIHYDRO-IMIDAZOL-1-YL]-ACETIC+ACID'>CRQ</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat"><div style='overflow: auto; max~~-~~height: 3em;~~'>~~[[2vad\|2vad]]~~</~~div~~></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=2vae FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vae OCA], [https://pdbe.org/2vae PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vae RCSB], [https://www.ebi.ac.uk/pdbsum/2vae PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vae 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=2vae FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vae OCA], [https://pdbe.org/2vae PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vae RCSB], [https://www.ebi.ac.uk/pdbsum/2vae PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vae ProSAT]</span></td></tr>
	</table>		</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>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Dissp~~]]	+	[[Category: Discosoma sp]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bevis, B]]	+	[[Category: Bevis B]]
-	[[Category: Downing~~, M E~~]]	+	[[Category: Downing ME]]
-	[[Category: Glick~~, B S~~]]	+	[[Category: Glick BS]]
-	[[Category: Keenan~~, R J~~]]	+	[[Category: Keenan RJ]]
-	[[Category: Khuong, N]]	+	[[Category: Khuong N]]
-	[[Category: Strack~~, R L~~]]	+	[[Category: Strack RL]]
-	[[Category: Strongin~~, D E~~]]	+	[[Category: Strongin DE]]
-	[[Category: Sundaram, K]]	+	[[Category: Sundaram K]]
-	~~[[Category: Chromophore]]~~	+
-	~~[[Category: Dsred]]~~	+
-	~~[[Category: Fast maturing]]~~	+
-	~~[[Category: Fluorescent protein]]~~	+
-	~~[[Category: Gfp-like]]~~	+
-	~~[[Category: Luminescence]]~~	+
-	~~[[Category: Photoprotein~~]]	+

OCA at 10:43, 7 July 2021

OCA — Wed, 07 Jul 2021 10:43:32 GMT

←Older revision		Revision as of 10:43, 7 July 2021
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	<StructureSection load='2vae' size='340' side='right'caption='[[2vae]], [[Resolution\|resolution]] 1.64Å' scene=''>		<StructureSection load='2vae' size='340' side='right'caption='[[2vae]], [[Resolution\|resolution]] 1.64Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vae]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Dissp Dissp]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2VAE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vae]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Dissp Dissp]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VAE FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CRQ:[2-(3-CARBAMOYL-1-IMINO-PROPYL)-4-(4-HYDROXY-BENZYLIDENE)-5-OXO-4,5-DIHYDRO-IMIDAZOL-1-YL]-ACETIC+ACID'>CRQ</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CRQ:[2-(3-CARBAMOYL-1-IMINO-PROPYL)-4-(4-HYDROXY-BENZYLIDENE)-5-OXO-4,5-DIHYDRO-IMIDAZOL-1-YL]-ACETIC+ACID'>CRQ</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vad\|2vad]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2vad\|2vad]]</div></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=2vae FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vae OCA], [~~http~~://pdbe.org/2vae PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2vae RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2vae PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2vae 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=2vae FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vae OCA], [https://pdbe.org/2vae PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vae RCSB], [https://www.ebi.ac.uk/pdbsum/2vae PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vae ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 30:		Line 30:

	==See Also==		==See Also==
-	*[[Green Fluorescent Protein\|Green Fluorescent Protein]]	+	*[[Green Fluorescent Protein 3D structures\|Green Fluorescent Protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:10, 10 May 2019

OCA — Fri, 10 May 2019 12:10:35 GMT

←Older revision		Revision as of 12:10, 10 May 2019
Line 1:		Line 1:

	==Fast maturing red fluorescent protein, DsRed.T4==		==Fast maturing red fluorescent protein, DsRed.T4==
-	<StructureSection load='2vae' size='340' side='right' caption='[[2vae]], [[Resolution\|resolution]] 1.64Å' scene=''>	+	<StructureSection load='2vae' size='340' side='right'caption='[[2vae]], [[Resolution\|resolution]] 1.64Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2vae]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Dissp Dissp]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VAE FirstGlance]. <br>		<table><tr><td colspan='2'>[[2vae]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Dissp Dissp]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VAE FirstGlance]. <br>
Line 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Dissp]]		[[Category: Dissp]]
		+	[[Category: Large Structures]]
	[[Category: Bevis, B]]		[[Category: Bevis, B]]
	[[Category: Downing, M E]]		[[Category: Downing, M E]]

OCA at 08:57, 12 September 2018

OCA — Wed, 12 Sep 2018 08:57:19 GMT

←Older revision		Revision as of 08:57, 12 September 2018
Line 1:		Line 1:
-	==~~FAST MATURING RED FLUORESCENT PROTEIN~~, ~~DSRED~~.T4==	+
		+	==Fast maturing red fluorescent protein, DsRed.T4==
	<StructureSection load='2vae' size='340' side='right' caption='[[2vae]], [[Resolution\|resolution]] 1.64Å' scene=''>		<StructureSection load='2vae' size='340' side='right' caption='[[2vae]], [[Resolution\|resolution]] 1.64Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 6:		Line 7:
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CRQ:[2-(3-CARBAMOYL-1-IMINO-PROPYL)-4-(4-HYDROXY-BENZYLIDENE)-5-OXO-4,5-DIHYDRO-IMIDAZOL-1-YL]-ACETIC+ACID'>CRQ</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CRQ:[2-(3-CARBAMOYL-1-IMINO-PROPYL)-4-(4-HYDROXY-BENZYLIDENE)-5-OXO-4,5-DIHYDRO-IMIDAZOL-1-YL]-ACETIC+ACID'>CRQ</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vad\|2vad]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vad\|2vad]]</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=2vae FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vae OCA], [http://pdbe.org/2vae PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vae RCSB], [http://www.ebi.ac.uk/pdbsum/2vae 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=2vae FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vae OCA], [http://pdbe.org/2vae PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vae RCSB], [http://www.ebi.ac.uk/pdbsum/2vae PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vae ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 12:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/va/2vae_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/va/2vae_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>

OCA at 10:23, 9 February 2016

OCA — Tue, 09 Feb 2016 10:23:58 GMT

←Older revision		Revision as of 10:23, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='2vae' size='340' side='right' caption='[[2vae]], [[Resolution\|resolution]] 1.64Å' scene=''>		<StructureSection load='2vae' size='340' side='right' caption='[[2vae]], [[Resolution\|resolution]] 1.64Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vae]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Discosoma_sp. Discosoma sp.~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VAE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vae]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Dissp Dissp]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VAE FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CRQ:[2-(3-CARBAMOYL-1-IMINO-PROPYL)-4-(4-HYDROXY-BENZYLIDENE)-5-OXO-4,5-DIHYDRO-IMIDAZOL-1-YL]-ACETIC+ACID'>CRQ</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CRQ:[2-(3-CARBAMOYL-1-IMINO-PROPYL)-4-(4-HYDROXY-BENZYLIDENE)-5-OXO-4,5-DIHYDRO-IMIDAZOL-1-YL]-ACETIC+ACID'>CRQ</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vad\|2vad]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vad\|2vad]]</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=2vae FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vae OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vae RCSB], [http://www.ebi.ac.uk/pdbsum/2vae 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=2vae FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vae OCA], [http://pdbe.org/2vae PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vae RCSB], [http://www.ebi.ac.uk/pdbsum/2vae PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 16:		Line 16:
	<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=2vae ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 26:		Line 26:
	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 2vae" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Discosoma sp~~]]	+	[[Category: Dissp]]
	[[Category: Bevis, B]]		[[Category: Bevis, B]]
	[[Category: Downing, M E]]		[[Category: Downing, M E]]

OCA at 17:07, 19 January 2015

OCA — Mon, 19 Jan 2015 17:07:58 GMT

←Older revision		Revision as of 17:07, 19 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2vae]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Discosoma_sp. Discosoma sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VAE FirstGlance]. <br>		<table><tr><td colspan='2'>[[2vae]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Discosoma_sp. Discosoma sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VAE FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CRQ:[2-(3-CARBAMOYL-1-IMINO-PROPYL)-4-(4-HYDROXY-BENZYLIDENE)-5-OXO-4,5-DIHYDRO-IMIDAZOL-1-YL]-ACETIC+ACID'>CRQ</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CRQ:[2-(3-CARBAMOYL-1-IMINO-PROPYL)-4-(4-HYDROXY-BENZYLIDENE)-5-OXO-4,5-DIHYDRO-IMIDAZOL-1-YL]-ACETIC+ACID'>CRQ</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vad\|2vad]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vad\|2vad]]</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=2vae FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vae OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vae RCSB], [http://www.ebi.ac.uk/pdbsum/2vae 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=2vae FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vae OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vae RCSB], [http://www.ebi.ac.uk/pdbsum/2vae PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Discosoma sp.]]	+	[[Category: Discosoma sp]]
-	[[Category: Bevis, B.]]	+	[[Category: Bevis, B]]
-	[[Category: Downing, M E.]]	+	[[Category: Downing, M E]]
-	[[Category: Glick, B S.]]	+	[[Category: Glick, B S]]
-	[[Category: Keenan, R J.]]	+	[[Category: Keenan, R J]]
-	[[Category: Khuong, N.]]	+	[[Category: Khuong, N]]
-	[[Category: Strack, R L.]]	+	[[Category: Strack, R L]]
-	[[Category: Strongin, D E.]]	+	[[Category: Strongin, D E]]
-	[[Category: Sundaram, K.]]	+	[[Category: Sundaram, K]]
	[[Category: Chromophore]]		[[Category: Chromophore]]
	[[Category: Dsred]]		[[Category: Dsred]]

OCA at 05:37, 3 October 2014

OCA — Fri, 03 Oct 2014 05:37:26 GMT

←Older revision		Revision as of 05:37, 3 October 2014
Line 1:		Line 1:
-	[[~~Image:~~2vae.~~png~~\|~~left~~\|200px]]	+	==FAST MATURING RED FLUORESCENT PROTEIN, DSRED.T4==
		+	<StructureSection load='2vae' size='340' side='right' caption='[[2vae]], [[Resolution\|resolution]] 1.64Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2vae]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Discosoma_sp. Discosoma sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VAE FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CRQ:[2-(3-CARBAMOYL-1-IMINO-PROPYL)-4-(4-HYDROXY-BENZYLIDENE)-5-OXO-4,5-DIHYDRO-IMIDAZOL-1-YL]-ACETIC+ACID'>CRQ</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2vad\|2vad]]</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=2vae FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vae OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vae RCSB], [http://www.ebi.ac.uk/pdbsum/2vae 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/va/2vae_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 ==
		+	The red fluorescent protein DsRed has been extensively engineered for use as an in vivo research tool. In fast maturing DsRed variants, the chromophore maturation half-time is approximately 40 min, compared to approximately 12 h for wild-type DsRed. Further, DsRed has been converted from a tetramer into a monomer, a task that entailed mutating approximately 20% of the amino acids. These engineered variants of DsRed have proven extremely valuable for biomedical research, but the structural basis for the improved characteristics has not been thoroughly investigated. Here we present a 1.7 A crystal structure of the fast maturing tetrameric variant DsRed.T4. We also present a biochemical characterization and 1.6 A crystal structure of the monomeric variant DsRed.M1, also known as DsRed-Monomer. Analysis of the crystal structures suggests that rearrangements of Ser69 and Glu215 contribute to fast maturation, and that positioning of the Lys70 side chain modulates fluorescence quantum yield. Despite the 45 mutations in DsRed.M1 relative to wild-type DsRed, there is a root-mean-square deviation of only 0.3 A between the two structures. We propose that novel intramolecular interactions in DsRed.M1 partially compensate for the loss of intermolecular interactions found in the tetramer.

-	~~{{STRUCTURE_2vae\| PDB=2vae \| SCENE= }}~~	+	Structural rearrangements near the chromophore influence the maturation speed and brightness of DsRed variants.,Strongin DE, Bevis B, Khuong N, Downing ME, Strack RL, Sundaram K, Glick BS, Keenan RJ Protein Eng Des Sel. 2007 Nov;20(11):525-34. Epub 2007 Oct 25. PMID:17962222<ref>PMID:17962222</ref>

-	~~===FAST MATURING RED FLUORESCENT PROTEIN~~, ~~DSRED.T4===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17962222}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2vae]] is~~ a ~~8 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Discosoma_sp~~. ~~Discosoma sp.]. Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA].~~	+

	==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]]
-	*[[Sandbox104\|Sandbox104]]	+	== References ==
-	*[[User:Joanne Lau/Sandbox 5\|User:Joanne Lau/Sandbox 5]]	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:017962222<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Discosoma sp.]]		[[Category: Discosoma sp.]]
	[[Category: Bevis, B.]]		[[Category: Bevis, B.]]

OCA at 13:33, 20 October 2012

OCA — Sat, 20 Oct 2012 13:33:55 GMT

←Older revision		Revision as of 13:33, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2vae]] is a 8 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/Discosoma_sp. Discosoma sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA].	+	[[2vae]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Discosoma_sp. Discosoma sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA].

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

OCA: Protected "2vae" [edit=sysop:move=sysop]

OCA — Thu, 26 Jul 2012 12:23:06 GMT

Protected "2vae" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:23, 26 July 2012

OCA at 12:23, 26 July 2012

OCA — Thu, 26 Jul 2012 12:23:04 GMT

←Older revision		Revision as of 12:23, 26 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2vae.png\|left\|200px]]		[[Image:2vae.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2vae", creates the "Structure Box" on the page.
-	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.
-	-->
	{{STRUCTURE_2vae\| PDB=2vae \| SCENE= }}		{{STRUCTURE_2vae\| PDB=2vae \| SCENE= }}

	===FAST MATURING RED FLUORESCENT PROTEIN, DSRED.T4===		===FAST MATURING RED FLUORESCENT PROTEIN, DSRED.T4===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17962222}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17962222 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17962222}}		{{ABSTRACT_PUBMED_17962222}}

	==About this Structure==		==About this Structure==
-	~~2VAE~~ is a 8 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Discosoma_sp. Discosoma sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA].	+	[[2vae]] is a 8 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/Discosoma_sp. Discosoma sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAE OCA].
		+
		+	==See Also==
		+	*[[Alyssa Marsico/Sandbox 1\|Alyssa Marsico/Sandbox 1]]
		+	*[[Devon McCarthy/Sandbox 1\|Devon McCarthy/Sandbox 1]]
		+	*[[Green Fluorescent Protein\|Green Fluorescent Protein]]
		+	*[[Sandbox104\|Sandbox104]]
		+	*[[User:Joanne Lau/Sandbox 5\|User:Joanne Lau/Sandbox 5]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17962222~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017962222</ref><references group="xtra"/>
	[[Category: Discosoma sp.]]		[[Category: Discosoma sp.]]
	[[Category: Bevis, B.]]		[[Category: Bevis, B.]]
Line 40:		Line 35:
	[[Category: Luminescence]]		[[Category: Luminescence]]
	[[Category: Photoprotein]]		[[Category: Photoprotein]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 09:06:59 2009''