6oza - Revision history

OCA at 14:33, 8 July 2020

OCA — Wed, 08 Jul 2020 14:33:40 GMT

←Older revision		Revision as of 14:33, 8 July 2020
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	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6oza FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oza OCA], [http://pdbe.org/6oza PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oza RCSB], [http://www.ebi.ac.uk/pdbsum/6oza PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oza 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=6oza FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oza OCA], [http://pdbe.org/6oza PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oza RCSB], [http://www.ebi.ac.uk/pdbsum/6oza PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oza ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Phytochromes are a diverse family of bilin-binding photoreceptors that regulate a wide range of physiological processes. Their photochemical properties make them attractive for applications in optogenetics and superresolution microscopy. Phytochromes undergo reversible photoconversion triggered by the Z right arrow over left arrow E photoisomerization about the double bond in the bilin chromophore. However, it is not fully understood at the molecular level how the protein framework facilitates the complex photoisomerization dynamics. We have studied a single-domain bilin-binding photoreceptor All2699g1 (Nostoc sp. PCC 7120) that exhibits photoconversion between the red light-absorbing (Pr) and far red-absorbing (Pfr) states just like canonical phytochromes. We present the crystal structure and examine the photoisomerization mechanism of the Pr form as well as the formation of the primary photoproduct Lumi-R using time-resolved spectroscopy and hybrid quantum mechanics/molecular mechanics simulations. We show that the unusually long excited state lifetime (broad lifetime distribution centered at approximately 300 picoseconds) is due to the interactions between the isomerizing pyrrole ring D and an adjacent conserved Tyr142. The decay kinetics shows a strongly distributed character which is imposed by the nonexponential protein dynamics. Our findings offer a mechanistic insight into how the quantum efficiency of the bilin photoisomerization is tuned by the protein environment, thereby providing a structural framework for engineering bilin-based optical agents for imaging and optogenetics applications.
		+
		+	The interplay between chromophore and protein determines the extended excited state dynamics in a single-domain phytochrome.,Slavov C, Fischer T, Barnoy A, Shin H, Rao AG, Wiebeler C, Zeng X, Sun Y, Xu Q, Gutt A, Zhao KH, Gartner W, Yang X, Schapiro I, Wachtveitl J Proc Natl Acad Sci U S A. 2020 Jun 26. pii: 1921706117. doi:, 10.1073/pnas.1921706117. PMID:32591422<ref>PMID:32591422</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6oza" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 10:35, 17 June 2020

OCA — Wed, 17 Jun 2020 10:35:49 GMT

←Older revision		Revision as of 10:35, 17 June 2020
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	==Crystal structure of the phycocyanobilin-bound GAF domain from a cyanobacterial phytochrome==		==Crystal structure of the phycocyanobilin-bound GAF domain from a cyanobacterial phytochrome==
-	<StructureSection load='6oza' size='340' side='right'caption='[[6oza]]' scene=''>	+	<StructureSection load='6oza' size='340' side='right'caption='[[6oza]], [[Resolution\|resolution]] 3.00Å' 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=6OZA OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6OZA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6oza]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Anabaena_7120 Anabaena 7120]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OZA OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6OZA 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=6oza FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oza OCA], [http://pdbe.org/6oza PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oza RCSB], [http://www.ebi.ac.uk/pdbsum/6oza PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oza 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=CYC:PHYCOCYANOBILIN'>CYC</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">all2699 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=103690 Anabaena 7120])</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=6oza FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oza OCA], [http://pdbe.org/6oza PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oza RCSB], [http://www.ebi.ac.uk/pdbsum/6oza PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oza ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Anabaena 7120]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Heewhan S]]	+	[[Category: Heewhan, S]]
-	[[Category: Kai HZ]]	+	[[Category: Kai, H Z]]
-	[[Category: Wolfgang G]]	+	[[Category: Wolfgang, G]]
-	[[Category: Xiaojing Y]]	+	[[Category: Xiaojing, Y]]
-	[[Category: Xiaoli Z]]	+	[[Category: Xiaoli, Z]]
-	[[Category: Yafang S]]	+	[[Category: Yafang, S]]
-	[[Category: Zhong R]]	+	[[Category: Zhong, R]]
		+	[[Category: Cyanobacterial phytochrome]]
		+	[[Category: Photoreceptor]]
		+	[[Category: Signaling protein]]
		+	[[Category: Transferase]]

OCA at 05:45, 20 May 2020

OCA — Wed, 20 May 2020 05:45:44 GMT

←Older revision		Revision as of 05:45, 20 May 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6oza ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of the phycocyanobilin-bound GAF domain from a cyanobacterial phytochrome==
-		+	<StructureSection load='6oza' size='340' side='right'caption='[[6oza]]' scene=''>
-	~~Authors~~: ~~Heewhan, S~~.~~, Xiaoli, Z~~., ~~Yafang, S~~., ~~Zhong, R~~., ~~Wolfgang, G~~., ~~Kai, H~~.Z., ~~Xiaojing, Y~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OZA OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6OZA FirstGlance]. <br>
-	~~Description: Crystal structure of the phycocyanobilin-bound GAF domain from a cyanobacterial phytochrome~~	+	</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=6oza FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oza OCA], [http://pdbe.org/6oza PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oza RCSB], [http://www.ebi.ac.uk/pdbsum/6oza PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oza ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Wolfgang, G~~]]	+	__TOC__
-	[[Category: ~~Xiaojing, Y~~]]	+	</StructureSection>
-	[[Category: ~~Yafang, S~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Zhong, R~~]]	+	[[Category: Heewhan S]]
-	[[Category: ~~Heewhan, S~~]]	+	[[Category: Kai HZ]]
-	[[Category: ~~Xiaoli, Z~~]]	+	[[Category: Wolfgang G]]
-	[[Category: ~~Kai, H.Z~~]]	+	[[Category: Xiaojing Y]]
		+	[[Category: Xiaoli Z]]
		+	[[Category: Yafang S]]
		+	[[Category: Zhong R]]

OCA at 04:05, 10 July 2019

OCA — Wed, 10 Jul 2019 04:05:09 GMT

←Older revision		Revision as of 04:05, 10 July 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Heewhan, S., Xiaoli, Z., Yafang, S., Zhong, R., Wolfgang, G., Kai, H.Z., Xiaojing, Y.		Authors: Heewhan, S., Xiaoli, Z., Yafang, S., Zhong, R., Wolfgang, G., Kai, H.Z., Xiaojing, Y.

OCA at 04:10, 3 July 2019

OCA — Wed, 03 Jul 2019 04:10:32 GMT

←Older revision		Revision as of 04:10, 3 July 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6oza is ON HOLD ~~until Paper Publication~~	+	The entry 6oza is ON HOLD

	Authors: Heewhan, S., Xiaoli, Z., Yafang, S., Zhong, R., Wolfgang, G., Kai, H.Z., Xiaojing, Y.		Authors: Heewhan, S., Xiaoli, Z., Yafang, S., Zhong, R., Wolfgang, G., Kai, H.Z., Xiaojing, Y.

OCA at 05:10, 26 June 2019

OCA — Wed, 26 Jun 2019 05:10:37 GMT

←Older revision		Revision as of 05:10, 26 June 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Heewhan, S., Xiaoli, Z., Yafang, S., Zhong, R., Wolfgang, G., Kai, H.Z., Xiaojing, Y.		Authors: Heewhan, S., Xiaoli, Z., Yafang, S., Zhong, R., Wolfgang, G., Kai, H.Z., Xiaojing, Y.

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

OCA — Wed, 22 May 2019 04:08:47 GMT

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

←Older revision

Revision as of 04:08, 22 May 2019

OCA: New page: '''Unreleased structure''' The entry 6oza is ON HOLD Authors: Heewhan, S., Xiaoli, Z., Yafang, S., Zhong, R., Wolfgang, G., Kai, H.Z., Xiaojing, Y. Description: Crystal structure of th...

OCA — Wed, 22 May 2019 04:08:45 GMT

New page: '''Unreleased structure''' The entry 6oza is ON HOLD Authors: Heewhan, S., Xiaoli, Z., Yafang, S., Zhong, R., Wolfgang, G., Kai, H.Z., Xiaojing, Y. Description: Crystal structure of th...

New page

'''Unreleased structure'''

The entry 6oza is ON HOLD

Authors: Heewhan, S., Xiaoli, Z., Yafang, S., Zhong, R., Wolfgang, G., Kai, H.Z., Xiaojing, Y.

Description: Crystal structure of the phycocyanobilin-bound GAF domain from a cyanobacterial phytochrome
[[Category: Unreleased Structures]]
[[Category: Wolfgang, G]]
[[Category: Xiaojing, Y]]
[[Category: Yafang, S]]
[[Category: Zhong, R]]
[[Category: Heewhan, S]]
[[Category: Xiaoli, Z]]
[[Category: Kai, H.Z]]