1rmp - Revision history

OCA at 06:06, 23 August 2023

2023-08-23T06:06:23Z

←Older revision		Revision as of 06:06, 23 August 2023
Line 3:		Line 3:
	<StructureSection load='1rmp' size='340' side='right'caption='[[1rmp]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='1rmp' size='340' side='right'caption='[[1rmp]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1rmp]] 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=1RMP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RMP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1rmp]] 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=1RMP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RMP FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non~~-~~Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=23S:(S)-2-AMINO-3-(6H-SELENOLO[2,3-B]-PYRROL-4-YL)-PROPIONIC+ACID'>23S</scene>, <scene name='pdbligand=CRO:{2-[(1R,2R)-1-AMINO-2-HYDROXYPROPYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CRO</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]] 3Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1emg\|1emg]], [[1rm9\|1rm9]], [[1rmm\|1rmm]], [[1rmo\|1rmo]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=23S:(S)-2-AMINO-3-(6H-SELENOLO[2,3-B]-PYRROL-4-YL)-PROPIONIC+ACID'>23S</scene>, <scene name='pdbligand=CRO:{2-[(1R,2R)-1-AMINO-2-HYDROXYPROPYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CRO</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=1rmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rmp OCA], [https://pdbe.org/1rmp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1rmp RCSB], [https://www.ebi.ac.uk/pdbsum/1rmp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1rmp 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=1rmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rmp OCA], [https://pdbe.org/1rmp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1rmp RCSB], [https://www.ebi.ac.uk/pdbsum/1rmp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1rmp 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]]
Line 36:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aeqvi~~]]	+	[[Category: Aequorea victoria]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Alefelder, S]]	+	[[Category: Alefelder S]]
-	[[Category: Bae~~, J H~~]]	+	[[Category: Bae JH]]
-	[[Category: Birle, P]]	+	[[Category: Birle P]]
-	[[Category: Budisa, N]]	+	[[Category: Budisa N]]
-	[[Category: Krywcun, T]]	+	[[Category: Krywcun T]]
-	[[Category: Pal~~, P P~~]]	+	[[Category: Pal PP]]
-	[[Category: Rubini, M]]	+	[[Category: Rubini M]]
-	[[Category: Steiner, T]]	+	[[Category: Steiner T]]
-	[[Category: Wenger, W]]	+	[[Category: Wenger W]]
-	~~[[Category: Beta-barrel]]~~	+
-	~~[[Category: Gfp]]~~	+
-	~~[[Category: Luminescent protein]]~~	+
-	~~[[Category: Noncanonical amino acid~~]]	+

OCA at 07:18, 22 September 2021

2021-09-22T07:18:30Z

←Older revision		Revision as of 07:18, 22 September 2021
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	<StructureSection load='1rmp' size='340' side='right'caption='[[1rmp]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='1rmp' size='340' side='right'caption='[[1rmp]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1rmp]] 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=1RMP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1RMP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1rmp]] 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=1RMP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RMP FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=23S:(S)-2-AMINO-3-(6H-SELENOLO[2,3-B]-PYRROL-4-YL)-PROPIONIC+ACID'>23S</scene>, <scene name='pdbligand=CRO:{2-[(1R,2R)-1-AMINO-2-HYDROXYPROPYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CRO</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=23S:(S)-2-AMINO-3-(6H-SELENOLO[2,3-B]-PYRROL-4-YL)-PROPIONIC+ACID'>23S</scene>, <scene name='pdbligand=CRO:{2-[(1R,2R)-1-AMINO-2-HYDROXYPROPYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CRO</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1emg\|1emg]], [[1rm9\|1rm9]], [[1rmm\|1rmm]], [[1rmo\|1rmo]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1emg\|1emg]], [[1rm9\|1rm9]], [[1rmm\|1rmm]], [[1rmo\|1rmo]]</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=1rmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rmp OCA], [~~http~~://pdbe.org/1rmp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1rmp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1rmp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1rmp 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=1rmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rmp OCA], [https://pdbe.org/1rmp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1rmp RCSB], [https://www.ebi.ac.uk/pdbsum/1rmp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1rmp 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]]

OCA at 19:16, 11 December 2019

2019-12-11T19:16:19Z

←Older revision		Revision as of 19:16, 11 December 2019
Line 1:		Line 1:

	==Probing the Role of Tryptophans in Aequorea Victoria Green Fluorescent Proteins with an Expanded Genetic Code==		==Probing the Role of Tryptophans in Aequorea Victoria Green Fluorescent Proteins with an Expanded Genetic Code==
-	<StructureSection load='1rmp' size='340' side='right' caption='[[1rmp]], [[Resolution\|resolution]] 3.00Å' scene=''>	+	<StructureSection load='1rmp' size='340' side='right'caption='[[1rmp]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1rmp]] 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=1RMP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1RMP FirstGlance]. <br>		<table><tr><td colspan='2'>[[1rmp]] 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=1RMP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1RMP FirstGlance]. <br>
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[Green Fluorescent Protein\|Green Fluorescent Protein]]	+	*[[Green Fluorescent Protein 3D structures\|Green Fluorescent Protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 37:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Aeqvi]]		[[Category: Aeqvi]]
		+	[[Category: Large Structures]]
	[[Category: Alefelder, S]]		[[Category: Alefelder, S]]
	[[Category: Bae, J H]]		[[Category: Bae, J H]]

OCA at 06:47, 8 March 2018

2018-03-08T06:47:24Z

←Older revision		Revision as of 06:47, 8 March 2018
Line 1:		Line 1:
		+
	==Probing the Role of Tryptophans in Aequorea Victoria Green Fluorescent Proteins with an Expanded Genetic Code==		==Probing the Role of Tryptophans in Aequorea Victoria Green Fluorescent Proteins with an Expanded Genetic Code==
	<StructureSection load='1rmp' size='340' side='right' caption='[[1rmp]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='1rmp' size='340' side='right' caption='[[1rmp]], [[Resolution\|resolution]] 3.00Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=23S:(S)-2-AMINO-3-(6H-SELENOLO[2,3-B]-PYRROL-4-YL)-PROPIONIC+ACID'>23S</scene>, <scene name='pdbligand=CRO:{2-[(1R,2R)-1-AMINO-2-HYDROXYPROPYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CRO</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=23S:(S)-2-AMINO-3-(6H-SELENOLO[2,3-B]-PYRROL-4-YL)-PROPIONIC+ACID'>23S</scene>, <scene name='pdbligand=CRO:{2-[(1R,2R)-1-AMINO-2-HYDROXYPROPYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CRO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1emg\|1emg]], [[1rm9\|1rm9]], [[1rmm\|1rmm]], [[1rmo\|1rmo]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1emg\|1emg]], [[1rm9\|1rm9]], [[1rmm\|1rmm]], [[1rmo\|1rmo]]</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=1rmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rmp OCA], [http://pdbe.org/1rmp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1rmp RCSB], [http://www.ebi.ac.uk/pdbsum/1rmp 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=1rmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rmp OCA], [http://pdbe.org/1rmp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1rmp RCSB], [http://www.ebi.ac.uk/pdbsum/1rmp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1rmp 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/rm/1rmp_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/rm/1rmp_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=1rmp ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 23:47, 11 September 2015

2015-09-11T23:47:01Z

←Older revision		Revision as of 23:47, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1rmp' size='340' side='right' caption='[[1rmp]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='1rmp' size='340' side='right' caption='[[1rmp]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1rmp]] 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=1RMP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1RMP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1rmp]] 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=1RMP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1RMP FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=23S:(S)-2-AMINO-3-(6H-SELENOLO[2,3-B]-PYRROL-4-YL)-PROPIONIC+ACID'>23S</scene>, <scene name='pdbligand=CRO:{2-[(1R,2R)-1-AMINO-2-HYDROXYPROPYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CRO</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=23S:(S)-2-AMINO-3-(6H-SELENOLO[2,3-B]-PYRROL-4-YL)-PROPIONIC+ACID'>23S</scene>, <scene name='pdbligand=CRO:{2-[(1R,2R)-1-AMINO-2-HYDROXYPROPYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CRO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1emg\|1emg]], [[1rm9\|1rm9]], [[1rmm\|1rmm]], [[1rmo\|1rmo]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1emg\|1emg]], [[1rm9\|1rm9]], [[1rmm\|1rmm]], [[1rmo\|1rmo]]</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=1rmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rmp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1rmp RCSB], [http://www.ebi.ac.uk/pdbsum/1rmp 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=1rmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rmp OCA], [http://pdbe.org/1rmp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1rmp RCSB], [http://www.ebi.ac.uk/pdbsum/1rmp 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 1rmp" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aequorea victoria~~]]	+	[[Category: Aeqvi]]
	[[Category: Alefelder, S]]		[[Category: Alefelder, S]]
	[[Category: Bae, J H]]		[[Category: Bae, J H]]

OCA at 21:00, 25 December 2014

2014-12-25T21:00:33Z

←Older revision		Revision as of 21:00, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1rmp]] 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=1RMP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1RMP FirstGlance]. <br>		<table><tr><td colspan='2'>[[1rmp]] 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=1RMP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1RMP FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=23S:(S)-2-AMINO-3-(6H-SELENOLO[2,3-B]-PYRROL-4-YL)-PROPIONIC+ACID'>23S</scene>, <scene name='pdbligand=CRO:{2-[(1R,2R)-1-AMINO-2-HYDROXYPROPYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CRO</scene></td></tr>	+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=23S:(S)-2-AMINO-3-(6H-SELENOLO[2,3-B]-PYRROL-4-YL)-PROPIONIC+ACID'>23S</scene>, <scene name='pdbligand=CRO:{2-[(1R,2R)-1-AMINO-2-HYDROXYPROPYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CRO</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1emg\|1emg]], [[1rm9\|1rm9]], [[1rmm\|1rmm]], [[1rmo\|1rmo]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1emg\|1emg]], [[1rm9\|1rm9]], [[1rmm\|1rmm]], [[1rmo\|1rmo]]</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=1rmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rmp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1rmp RCSB], [http://www.ebi.ac.uk/pdbsum/1rmp 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=1rmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rmp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1rmp RCSB], [http://www.ebi.ac.uk/pdbsum/1rmp 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 33:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Aequorea victoria]]		[[Category: Aequorea victoria]]
-	[[Category: Alefelder, S.]]	+	[[Category: Alefelder, S]]
-	[[Category: Bae, J H.]]	+	[[Category: Bae, J H]]
-	[[Category: Birle, P.]]	+	[[Category: Birle, P]]
-	[[Category: Budisa, N.]]	+	[[Category: Budisa, N]]
-	[[Category: Krywcun, T.]]	+	[[Category: Krywcun, T]]
-	[[Category: Pal, P P.]]	+	[[Category: Pal, P P]]
-	[[Category: Rubini, M.]]	+	[[Category: Rubini, M]]
-	[[Category: Steiner, T.]]	+	[[Category: Steiner, T]]
-	[[Category: Wenger, W.]]	+	[[Category: Wenger, W]]
	[[Category: Beta-barrel]]		[[Category: Beta-barrel]]
	[[Category: Gfp]]		[[Category: Gfp]]
	[[Category: Luminescent protein]]		[[Category: Luminescent protein]]
	[[Category: Noncanonical amino acid]]		[[Category: Noncanonical amino acid]]

OCA at 05:20, 3 October 2014

2014-10-03T05:20:58Z

←Older revision		Revision as of 05:20, 3 October 2014
Line 1:		Line 1:
-	[[~~Image:~~1rmp.~~png~~\|~~left~~\|200px]]	+	==Probing the Role of Tryptophans in Aequorea Victoria Green Fluorescent Proteins with an Expanded Genetic Code==
		+	<StructureSection load='1rmp' size='340' side='right' caption='[[1rmp]], [[Resolution\|resolution]] 3.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1rmp]] 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=1RMP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1RMP FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=23S:(S)-2-AMINO-3-(6H-SELENOLO[2,3-B]-PYRROL-4-YL)-PROPIONIC+ACID'>23S</scene>, <scene name='pdbligand=CRO:{2-[(1R,2R)-1-AMINO-2-HYDROXYPROPYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CRO</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1emg\|1emg]], [[1rm9\|1rm9]], [[1rmm\|1rmm]], [[1rmo\|1rmo]]</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=1rmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rmp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1rmp RCSB], [http://www.ebi.ac.uk/pdbsum/1rmp 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/rm/1rmp_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 expanded genetic code in combination with site-directed mutagenesis was used to probe spectroscopic and structural roles of tryptophan (Trp) residues in Aequorea victoria green fluorescent proteins (avGFPs). Nine different halogen-, chalcogen-, and methyl-containing Trp isosteric analogues and surrogates were incorporated into avGFPs containing indole moieties in, and outside of, the chromophore, by the use of the selective pressure incorporation method. Such isosteric replacements introduced minimal local geometry changes in indole moieties, often to the level of single atomic exchange ('atomic mutation') and do not affect three-dimensional structures of avGFPs but induce changes in spectral properties. Our approach offers a new platform to re-evaluate issues like resonance transfer, mechanisms of chromophore formation and maturation, as well as the importance of local geometry and weak sulphur-aromatic interactions for avGFP spectral properties and structural stability. The library of novel tailor-made avGFP mutants and variants generated in this work has demonstrated not only the potentials of the expanded genetic code to study spectroscopic functions, but also a new approach to generate tailor-made proteins with interesting and useful spectral properties.

-	~~{{STRUCTURE_1rmp\| PDB=1rmp \| SCENE= }}~~	+	Probing the role of tryptophans in Aequorea victoria green fluorescent proteins with an expanded genetic code.,Budisa N, Pal PP, Alefelder S, Birle P, Krywcun T, Rubini M, Wenger W, Bae JH, Steiner T Biol Chem. 2004 Feb;385(2):191-202. PMID:15101562<ref>PMID:15101562</ref>

-	~~===Probing~~ the ~~Role of Tryptophans in Aequorea Victoria Green Fluorescent Proteins with an Expanded Genetic Code===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15101562}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1rmp]] 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=1RMP 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:015101562<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Aequorea victoria]]		[[Category: Aequorea victoria]]
	[[Category: Alefelder, S.]]		[[Category: Alefelder, S.]]

OCA at 21:35, 20 October 2012

2012-10-20T21:35:24Z

←Older revision		Revision as of 21:35, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1rmp]] 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=1RMP OCA].	+	[[1rmp]] 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=1RMP OCA].

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

OCA: Protected "1rmp" [edit=sysop:move=sysop]

2012-07-27T13:41:35Z

Protected "1rmp" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:41, 27 July 2012

OCA at 13:41, 27 July 2012

2012-07-27T13:41:34Z

←Older revision		Revision as of 13:41, 27 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1rmp.png\|left\|200px]]		[[Image:1rmp.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_1rmp\| PDB=1rmp \| SCENE= }}		{{STRUCTURE_1rmp\| PDB=1rmp \| SCENE= }}

	===Probing the Role of Tryptophans in Aequorea Victoria Green Fluorescent Proteins with an Expanded Genetic Code===		===Probing the Role of Tryptophans in Aequorea Victoria Green Fluorescent Proteins with an Expanded Genetic Code===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15101562}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15101562 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_15101562}}		{{ABSTRACT_PUBMED_15101562}}

	==About this Structure==		==About this Structure==
-	~~1RMP~~ is a 1 chain structure of 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=1RMP OCA].	+	[[1rmp]] 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=1RMP 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:~~15101562~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015101562</ref><references group="xtra"/>
	[[Category: Aequorea victoria]]		[[Category: Aequorea victoria]]
	[[Category: Alefelder, S.]]		[[Category: Alefelder, S.]]
Line 38:		Line 33:
	[[Category: Luminescent protein]]		[[Category: Luminescent protein]]
	[[Category: Noncanonical amino acid]]		[[Category: Noncanonical amino acid]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 20 15:14:57 2009''