6umz - Revision history

OCA at 07:54, 11 October 2023

OCA — Wed, 11 Oct 2023 07:54:40 GMT

←Older revision		Revision as of 07:54, 11 October 2023
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	<StructureSection load='6umz' size='340' side='right'caption='[[6umz]], [[Resolution\|resolution]] 0.90Å' scene=''>		<StructureSection load='6umz' size='340' side='right'caption='[[6umz]], [[Resolution\|resolution]] 0.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6umz]] 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=6UMZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6UMZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6umz]] 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=6UMZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6UMZ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=QBV:(2E)~~-~~3-(3-bromo-4-hydroxyphenyl)prop-2-enoic+acid'>QBV</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]] 0.9Å</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='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=QBV:(2E)-3-(3-bromo-4-hydroxyphenyl)prop-2-enoic+acid'>QBV</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6umz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6umz OCA], [~~http~~://pdbe.org/6umz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6umz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6umz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6umz 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=6umz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6umz OCA], [https://pdbe.org/6umz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6umz RCSB], [https://www.ebi.ac.uk/pdbsum/6umz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6umz 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.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Dsm 244~~]]	+	[[Category: Halorhodospira halophila]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Boxer~~, S G~~]]	+	[[Category: Boxer SG]]
-	[[Category: Lin, C Y]]	+	[[Category: Lin C-Y]]
-	[[Category: Romei~~, M G]]~~	+	[[Category: Romei MG]]
-	~~[[Category: Photoactive yellow protein]]~~	+
-	~~[[Category: Signaling protein~~]]	+

OCA at 07:34, 4 November 2020

OCA — Wed, 04 Nov 2020 07:34:41 GMT

←Older revision		Revision as of 07:34, 4 November 2020
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	==Crystal structure of photoactive yellow protein (PYP); 3-Br-p-coumaric acid chromophore==		==Crystal structure of photoactive yellow protein (PYP); 3-Br-p-coumaric acid chromophore==
-	<StructureSection load='6umz' size='340' side='right'caption='[[6umz]]' scene=''>	+	<StructureSection load='6umz' size='340' side='right'caption='[[6umz]], [[Resolution\|resolution]] 0.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UMZ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6UMZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6umz]] 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=6UMZ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6UMZ FirstGlance]. <br>
-	</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=6umz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6umz OCA], [http://pdbe.org/6umz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6umz RCSB], [http://www.ebi.ac.uk/pdbsum/6umz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6umz ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=QBV:(2E)-3-(3-bromo-4-hydroxyphenyl)prop-2-enoic+acid'>QBV</scene></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://proteopedia.org/fgij/fg.htm?mol=6umz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6umz OCA], [http://pdbe.org/6umz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6umz RCSB], [http://www.ebi.ac.uk/pdbsum/6umz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6umz ProSAT]</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.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Photo-induced structural rearrangements of chromophore-containing proteins are essential for various light-dependent signaling pathways and optogenetic applications. Ultrafast structural and spectroscopic methods have offered insights into these structural rearrangements across many timescales. However, questions still remain about exact mechanistic details, especially regarding photoisomerization of the chromophore within these proteins femtoseconds to picoseconds after photoexcitation. Instrumentation advancements for time-resolved crystallography and ultrafast electron diffraction provide a promising opportunity to study these reactions, but achieving enough signal-to-noise is a constant challenge. Here we present four new photoactive yellow protein constructs and one new fluorescent protein construct that contain heavy atoms either within or around the chromophore and can be expressed with high yields. Structural characterization of these constructs, most at atomic resolution, show minimal perturbation caused by the heavy atoms compared to wild-type structures. Spectroscopic studies report the effects of the heavy atom identity and location on the chromophore's photophysical properties. None of the substitutions prevent photoisomerization, although certain rates within the photocycle may be affected. Overall, these new proteins containing heavy atoms are ideal samples for state-of-theart time-resolved crystallography and electron diffraction experiments to elucidate crucial mechanistic information of photoisomerization.
		+
		+	Structural and spectroscopic characterization of photoactive yellow protein and photoswitchable fluorescent protein constructs containing heavy atoms.,Romei MG, Lin CY, Boxer SG J Photochem Photobiol A Chem. 2020 Oct 1;401. doi:, 10.1016/j.jphotochem.2020.112738. Epub 2020 Jun 30. PMID:32753830<ref>PMID:32753830</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6umz" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Dsm 244]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Boxer SG]]	+	[[Category: Boxer, S G]]
-	[[Category: Lin C-Y]]	+	[[Category: Lin, C Y]]
-	[[Category: Romei MG]]	+	[[Category: Romei, M G]]
		+	[[Category: Photoactive yellow protein]]
		+	[[Category: Signaling protein]]

OCA at 06:34, 19 August 2020

OCA — Wed, 19 Aug 2020 06:34:49 GMT

←Older revision		Revision as of 06:34, 19 August 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6umz is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of photoactive yellow protein (PYP); 3-Br-p-coumaric acid chromophore==
-		+	<StructureSection load='6umz' size='340' side='right'caption='[[6umz]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UMZ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6UMZ FirstGlance]. <br>
-	~~Description~~:	+	</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=6umz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6umz OCA], [http://pdbe.org/6umz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6umz RCSB], [http://www.ebi.ac.uk/pdbsum/6umz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6umz ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Boxer SG]]
		+	[[Category: Lin C-Y]]
		+	[[Category: Romei MG]]

OCA at 07:37, 30 October 2019

OCA — Wed, 30 Oct 2019 07:37:05 GMT

←Older revision		Revision as of 07:37, 30 October 2019
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6umz is ON HOLD	+	The entry 6umz is ON HOLD until Paper Publication

	Authors:		Authors:

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

OCA — Wed, 16 Oct 2019 04:42:59 GMT

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

←Older revision

Revision as of 04:42, 16 October 2019

OCA: New page: '''Unreleased structure''' The entry 6umz is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 16 Oct 2019 04:42:57 GMT

New page: '''Unreleased structure''' The entry 6umz is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6umz is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]