1s1y - Revision history

OCA at 08:28, 1 May 2024

OCA — Wed, 01 May 2024 08:28:18 GMT

←Older revision		Revision as of 08:28, 1 May 2024
Line 3:		Line 3:
	<StructureSection load='1s1y' size='340' side='right'caption='[[1s1y]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1s1y' size='340' side='right'caption='[[1s1y]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1s1y]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Dsm_244 Dsm 244~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S1Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S1Y FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1s1y]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Halorhodospira_halophila Halorhodospira halophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S1Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S1Y FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=HC4:4~~-~~HYDROXYCINNAMIC+ACID'>HC4</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.6Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[1s1z\|1s1z]]~~</~~div~~>~~</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYP ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1053 DSM 244])~~</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=1s1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s1y OCA], [https://pdbe.org/1s1y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s1y RCSB], [https://www.ebi.ac.uk/pdbsum/1s1y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s1y 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=1s1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s1y OCA], [https://pdbe.org/1s1y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s1y RCSB], [https://www.ebi.ac.uk/pdbsum/1s1y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s1y ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PYP_HALHA PYP_HALHA]] Photoactive blue light protein. Probably functions as a photoreceptor for a negative phototaxis response.	+	[https://www.uniprot.org/uniprot/PYP_HALHA PYP_HALHA] Photoactive blue light protein. Probably functions as a photoreceptor for a negative phototaxis response.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 21:		Line 20:
	</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=1s1y 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=1s1y ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	We use time-resolved crystallography to observe the structural progression of a bacterial blue light photoreceptor throughout its photocycle. Data were collected from 10 ns to 100 ms after photoactivation of the E46Q mutant of photoactive yellow protein. Refinement of transient chromophore conformations shows that the spectroscopically distinct intermediates are formed via progressive disruption of the hydrogen bond network to the chromophore. Although structural change occurs within a few nanoseconds on and around the chromophore, it takes milliseconds for a distinct pattern of tertiary structural change to fully progress through the entire molecule, thus generating the putative signaling state. Remarkably, the coupling between the chromophore conformation and the tertiary structure of this small protein is not tight: there are leads and lags between changes in the conformation of the chromophore and the protein tertiary structure.
-
-	Chromophore conformation and the evolution of tertiary structural changes in photoactive yellow protein.,Anderson S, Srajer V, Pahl R, Rajagopal S, Schotte F, Anfinrud P, Wulff M, Moffat K Structure. 2004 Jun;12(6):1039-45. PMID:15274923<ref>PMID:15274923</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1s1y" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Dsm 244~~]]	+	[[Category: Halorhodospira halophila]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Anderson, S]]	+	[[Category: Anderson S]]
-	[[Category: Anfinrud, P]]	+	[[Category: Anfinrud P]]
-	[[Category: Moffat, K]]	+	[[Category: Moffat K]]
-	[[Category: Pahl, R]]	+	[[Category: Pahl R]]
-	[[Category: Rajagopal, S]]	+	[[Category: Rajagopal S]]
-	[[Category: Schotte, F]]	+	[[Category: Schotte F]]
-	[[Category: Srajer, V]]	+	[[Category: Srajer V]]
-	[[Category: Wulff, M]]	+	[[Category: Wulff M]]
-	~~[[Category: Photoreceptor]]~~	+
-	~~[[Category: Room temperature]]~~	+
-	~~[[Category: Time-resolved~~]]	+

OCA at 15:29, 27 October 2021

OCA — Wed, 27 Oct 2021 15:29:44 GMT

←Older revision		Revision as of 15:29, 27 October 2021
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	<StructureSection load='1s1y' size='340' side='right'caption='[[1s1y]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1s1y' size='340' side='right'caption='[[1s1y]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1s1y]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Dsm_244 Dsm 244]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S1Y OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1S1Y FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1s1y]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dsm_244 Dsm 244]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S1Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S1Y FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</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;'>[[1s1z\|1s1z]]</div></td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1s1z\|1s1z]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYP ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1053 DSM 244])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYP ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1053 DSM 244])</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=1s1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s1y OCA], [~~http~~://pdbe.org/1s1y PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1s1y RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1s1y PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1s1y 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=1s1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s1y OCA], [https://pdbe.org/1s1y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s1y RCSB], [https://www.ebi.ac.uk/pdbsum/1s1y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s1y ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PYP_HALHA PYP_HALHA]] Photoactive blue light protein. Probably functions as a photoreceptor for a negative phototaxis response.	+	[[https://www.uniprot.org/uniprot/PYP_HALHA PYP_HALHA]] Photoactive blue light protein. Probably functions as a photoreceptor for a negative phototaxis response.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 13:38, 16 December 2020

OCA — Wed, 16 Dec 2020 13:38:34 GMT

←Older revision		Revision as of 13:38, 16 December 2020
Line 1:		Line 1:

	==Photoactivated chromophore conformation in Photoactive Yellow Protein (E46Q mutant) from 10 microseconds to 3 milliseconds==		==Photoactivated chromophore conformation in Photoactive Yellow Protein (E46Q mutant) from 10 microseconds to 3 milliseconds==
-	<StructureSection load='1s1y' size='340' side='right' caption='[[1s1y]], [[Resolution\|resolution]] 1.60Å' scene=''>	+	<StructureSection load='1s1y' size='340' side='right'caption='[[1s1y]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1s1y]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dsm_244 Dsm 244]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S1Y OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1S1Y FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1s1y]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dsm_244 Dsm 244]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S1Y OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1S1Y FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s1z\|1s1z]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1s1z\|1s1z]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1053 DSM 244])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1053 DSM 244])</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=1s1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s1y OCA], [http://pdbe.org/1s1y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1s1y RCSB], [http://www.ebi.ac.uk/pdbsum/1s1y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1s1y 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=1s1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s1y OCA], [http://pdbe.org/1s1y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1s1y RCSB], [http://www.ebi.ac.uk/pdbsum/1s1y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1s1y ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/s1/1s1y_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/s1/1s1y_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>
Line 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Dsm 244]]		[[Category: Dsm 244]]
		+	[[Category: Large Structures]]
	[[Category: Anderson, S]]		[[Category: Anderson, S]]
	[[Category: Anfinrud, P]]		[[Category: Anfinrud, P]]

OCA at 08:29, 12 October 2017

OCA — Thu, 12 Oct 2017 08:29:13 GMT

←Older revision		Revision as of 08:29, 12 October 2017
Line 1:		Line 1:
		+
	==Photoactivated chromophore conformation in Photoactive Yellow Protein (E46Q mutant) from 10 microseconds to 3 milliseconds==		==Photoactivated chromophore conformation in Photoactive Yellow Protein (E46Q mutant) from 10 microseconds to 3 milliseconds==
	<StructureSection load='1s1y' size='340' side='right' caption='[[1s1y]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1s1y' size='340' side='right' caption='[[1s1y]], [[Resolution\|resolution]] 1.60Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s1z\|1s1z]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s1z\|1s1z]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1053 DSM 244])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1053 DSM 244])</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=1s1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s1y OCA], [http://pdbe.org/1s1y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1s1y RCSB], [http://www.ebi.ac.uk/pdbsum/1s1y 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=1s1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s1y OCA], [http://pdbe.org/1s1y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1s1y RCSB], [http://www.ebi.ac.uk/pdbsum/1s1y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1s1y ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 09:17, 8 February 2016

OCA — Mon, 08 Feb 2016 09:17:43 GMT

←Older revision		Revision as of 09:17, 8 February 2016
Line 18:		Line 18:
	<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=1s1y ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 10:07, 10 September 2015

OCA — Thu, 10 Sep 2015 10:07:18 GMT

←Older revision		Revision as of 10:07, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1s1y' size='340' side='right' caption='[[1s1y]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1s1y' size='340' side='right' caption='[[1s1y]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1s1y]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Halorhodospira_halophila Halorhodospira halophila~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S1Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S1Y FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1s1y]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dsm_244 Dsm 244]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S1Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S1Y FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s1z\|1s1z]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s1z\|1s1z]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1053 ~~Halorhodospira halophila~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1053 DSM 244])</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=1s1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s1y OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1s1y RCSB], [http://www.ebi.ac.uk/pdbsum/1s1y 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=1s1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s1y OCA], [http://pdbe.org/1s1y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1s1y RCSB], [http://www.ebi.ac.uk/pdbsum/1s1y PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PYP_HALHA PYP_HALHA]] Photoactive blue light protein. Probably functions as a photoreceptor for a negative phototaxis response.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 26:		Line 28:
	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 1s1y" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Halorhodospira halophila~~]]	+	[[Category: Dsm 244]]
	[[Category: Anderson, S]]		[[Category: Anderson, S]]
	[[Category: Anfinrud, P]]		[[Category: Anfinrud, P]]

OCA at 06:55, 6 January 2015

OCA — Tue, 06 Jan 2015 06:55:46 GMT

←Older revision		Revision as of 06:55, 6 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1s1y]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Halorhodospira_halophila Halorhodospira halophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S1Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S1Y FirstGlance]. <br>		<table><tr><td colspan='2'>[[1s1y]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Halorhodospira_halophila Halorhodospira halophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S1Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S1Y FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s1z\|1s1z]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s1z\|1s1z]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1053 Halorhodospira halophila])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1053 Halorhodospira halophila])</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=1s1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s1y OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1s1y RCSB], [http://www.ebi.ac.uk/pdbsum/1s1y 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=1s1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s1y OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1s1y RCSB], [http://www.ebi.ac.uk/pdbsum/1s1y 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 31:		Line 31:
	</StructureSection>		</StructureSection>
	[[Category: Halorhodospira halophila]]		[[Category: Halorhodospira halophila]]
-	[[Category: Anderson, S.]]	+	[[Category: Anderson, S]]
-	[[Category: Anfinrud, P.]]	+	[[Category: Anfinrud, P]]
-	[[Category: Moffat, K.]]	+	[[Category: Moffat, K]]
-	[[Category: Pahl, R.]]	+	[[Category: Pahl, R]]
-	[[Category: Rajagopal, S.]]	+	[[Category: Rajagopal, S]]
-	[[Category: Schotte, F.]]	+	[[Category: Schotte, F]]
-	[[Category: Srajer, V.]]	+	[[Category: Srajer, V]]
-	[[Category: Wulff, M.]]	+	[[Category: Wulff, M]]
	[[Category: Photoreceptor]]		[[Category: Photoreceptor]]
	[[Category: Room temperature]]		[[Category: Room temperature]]
	[[Category: Time-resolved]]		[[Category: Time-resolved]]

OCA at 14:00, 29 September 2014

OCA — Mon, 29 Sep 2014 14:00:08 GMT

←Older revision		Revision as of 14:00, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1s1y.~~png~~\|~~left~~\|200px]]	+	==Photoactivated chromophore conformation in Photoactive Yellow Protein (E46Q mutant) from 10 microseconds to 3 milliseconds==
		+	<StructureSection load='1s1y' size='340' side='right' caption='[[1s1y]], [[Resolution\|resolution]] 1.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1s1y]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Halorhodospira_halophila Halorhodospira halophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S1Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S1Y FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s1z\|1s1z]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PYP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1053 Halorhodospira halophila])</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=1s1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s1y OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1s1y RCSB], [http://www.ebi.ac.uk/pdbsum/1s1y 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/s1/1s1y_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 ==
		+	We use time-resolved crystallography to observe the structural progression of a bacterial blue light photoreceptor throughout its photocycle. Data were collected from 10 ns to 100 ms after photoactivation of the E46Q mutant of photoactive yellow protein. Refinement of transient chromophore conformations shows that the spectroscopically distinct intermediates are formed via progressive disruption of the hydrogen bond network to the chromophore. Although structural change occurs within a few nanoseconds on and around the chromophore, it takes milliseconds for a distinct pattern of tertiary structural change to fully progress through the entire molecule, thus generating the putative signaling state. Remarkably, the coupling between the chromophore conformation and the tertiary structure of this small protein is not tight: there are leads and lags between changes in the conformation of the chromophore and the protein tertiary structure.

-	~~{{STRUCTURE_1s1y\| PDB=1s1y \| SCENE= }}~~	+	Chromophore conformation and the evolution of tertiary structural changes in photoactive yellow protein.,Anderson S, Srajer V, Pahl R, Rajagopal S, Schotte F, Anfinrud P, Wulff M, Moffat K Structure. 2004 Jun;12(6):1039-45. PMID:15274923<ref>PMID:15274923</ref>

-	~~===Photoactivated chromophore conformation in Photoactive Yellow Protein (E46Q mutant) from 10 microseconds to 3 milliseconds===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15274923}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1s1y]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Halorhodospira_halophila Halorhodospira halophila]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1S1Y OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:015274923<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Halorhodospira halophila]]		[[Category: Halorhodospira halophila]]
	[[Category: Anderson, S.]]		[[Category: Anderson, S.]]

OCA: Protected "1s1y" [edit=sysop:move=sysop]

OCA — Fri, 04 Jan 2013 10:15:32 GMT

Protected "1s1y" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:15, 4 January 2013

OCA at 10:15, 4 January 2013

OCA — Fri, 04 Jan 2013 10:15:30 GMT

←Older revision		Revision as of 10:15, 4 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1s1y.png\|left\|200px]]		[[Image:1s1y.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1s1y", 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_1s1y\| PDB=1s1y \| SCENE= }}		{{STRUCTURE_1s1y\| PDB=1s1y \| SCENE= }}

	===Photoactivated chromophore conformation in Photoactive Yellow Protein (E46Q mutant) from 10 microseconds to 3 milliseconds===		===Photoactivated chromophore conformation in Photoactive Yellow Protein (E46Q mutant) from 10 microseconds to 3 milliseconds===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_15274923}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 15274923 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_15274923}}		{{ABSTRACT_PUBMED_15274923}}

	==About this Structure==		==About this Structure==
-	~~1S1Y~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Halorhodospira_halophila Halorhodospira halophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S1Y OCA].	+	[[1s1y]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Halorhodospira_halophila Halorhodospira halophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S1Y OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~15274923~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015274923</ref><references group="xtra"/>
	[[Category: Halorhodospira halophila]]		[[Category: Halorhodospira halophila]]
	[[Category: Anderson, S.]]		[[Category: Anderson, S.]]
Line 33:		Line 21:
	[[Category: Srajer, V.]]		[[Category: Srajer, V.]]
	[[Category: Wulff, M.]]		[[Category: Wulff, M.]]
		+	[[Category: Photoreceptor]]
	[[Category: Room temperature]]		[[Category: Room temperature]]
	[[Category: Time-resolved]]		[[Category: Time-resolved]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 20:54:36 2009''