8a2w - Revision history

OCA at 08:08, 7 February 2024

2024-02-07T08:08:30Z

← Older revision		Revision as of 08:08, 7 February 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[8a2w]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8A2W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8A2W FirstGlance]. <br>		<table><tr><td colspan='2'>[[8a2w]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8A2W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8A2W FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</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]] 2.04Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</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=8a2w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8a2w OCA], [https://pdbe.org/8a2w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8a2w RCSB], [https://www.ebi.ac.uk/pdbsum/8a2w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8a2w 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=8a2w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8a2w OCA], [https://pdbe.org/8a2w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8a2w RCSB], [https://www.ebi.ac.uk/pdbsum/8a2w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8a2w ProSAT]</span></td></tr>
	</table>		</table>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	The development of serial crystallography over the last decade at XFELs and synchrotrons has produced a renaissance in room-temperature macromolecular crystallography (RT-MX), and fostered many technical and methodological breakthroughs designed to study phenomena occurring in proteins on the picosecond-to-second timescale. However, there are components of protein dynamics that occur in much slower regimes, of which the study could readily benefit from state-of-the-art RT-MX. Here, the room-temperature structural study of the relaxation of a reaction intermediate at a synchrotron, exploiting a handful of single crystals, is described. The intermediate in question is formed in microseconds during the photoreaction of the LOV2 domain of phototropin 2 from Arabidopsis thaliana, which then decays in minutes. This work monitored its relaxation in the dark using a fast-readout EIGER X 4M detector to record several complete oscillation X-ray diffraction datasets, each of 1.2 s total exposure time, at different time points in the relaxation process. Coupled with in crystallo UV-Vis absorption spectroscopy, this RT-MX approach allowed the authors to follow the relaxation of the photoadduct, a thio-ether covalent bond between the chromophore and a cysteine residue. Unexpectedly, the return of the chromophore to its spectroscopic ground state is followed by medium-scale protein rearrangements that trigger a crystal phase transition and hinder the full recovery of the structural ground state of the protein. In addition to suggesting a hitherto unexpected role of a conserved tryptophan residue in the regulation of the photocycle of LOV2, this work provides a basis for performing routine time-resolved protein crystallography experiments at synchrotrons for phenomena occurring on the second-to-hour timescale.

	Slow protein dynamics probed by time-resolved oscillation crystallography at room temperature.,Aumonier S, Engilberge S, Caramello N, von Stetten D, Gotthard G, Leonard GA, Mueller-Dieckmann C, Royant A IUCrJ. 2022 Sep 28;9(Pt 6):756-767. doi: 10.1107/S2052252522009150. eCollection , 2022 Nov 1. PMID:36381146<ref>PMID:36381146</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 8a2w" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:46, 29 March 2023

2023-03-29T06:46:36Z

← Older revision		Revision as of 06:46, 29 March 2023
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	~~'''Unreleased structure'''~~

	~~The entry~~ 8a2w is ~~ON HOLD until Paper~~ Publication		==Room temperature structure of the ground state of AtPhot2LOV2 in space group P212121, as recovered 1620 seconds after light irradiation==
			<StructureSection load='8a2w' size='340' side='right'caption='[[8a2w]], [[Resolution\|resolution]] 2.04Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[8a2w]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8A2W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8A2W FirstGlance]. <br>
			</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</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=8a2w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8a2w OCA], [https://pdbe.org/8a2w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8a2w RCSB], [https://www.ebi.ac.uk/pdbsum/8a2w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8a2w ProSAT]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The development of serial crystallography over the last decade at XFELs and synchrotrons has produced a renaissance in room-temperature macromolecular crystallography (RT-MX), and fostered many technical and methodological breakthroughs designed to study phenomena occurring in proteins on the picosecond-to-second timescale. However, there are components of protein dynamics that occur in much slower regimes, of which the study could readily benefit from state-of-the-art RT-MX. Here, the room-temperature structural study of the relaxation of a reaction intermediate at a synchrotron, exploiting a handful of single crystals, is described. The intermediate in question is formed in microseconds during the photoreaction of the LOV2 domain of phototropin 2 from Arabidopsis thaliana, which then decays in minutes. This work monitored its relaxation in the dark using a fast-readout EIGER X 4M detector to record several complete oscillation X-ray diffraction datasets, each of 1.2 s total exposure time, at different time points in the relaxation process. Coupled with in crystallo UV-Vis absorption spectroscopy, this RT-MX approach allowed the authors to follow the relaxation of the photoadduct, a thio-ether covalent bond between the chromophore and a cysteine residue. Unexpectedly, the return of the chromophore to its spectroscopic ground state is followed by medium-scale protein rearrangements that trigger a crystal phase transition and hinder the full recovery of the structural ground state of the protein. In addition to suggesting a hitherto unexpected role of a conserved tryptophan residue in the regulation of the photocycle of LOV2, this work provides a basis for performing routine time-resolved protein crystallography experiments at synchrotrons for phenomena occurring on the second-to-hour timescale.

	~~Authors:~~ Engilberge, S., Caramello, N., Royant, A.		Slow protein dynamics probed by time-resolved oscillation crystallography at room temperature.,Aumonier S, Engilberge S, Caramello N, von Stetten D, Gotthard G, Leonard GA, Mueller-Dieckmann C, Royant A IUCrJ. 2022 Sep 28;9(Pt 6):756-767. doi: 10.1107/S2052252522009150. eCollection , 2022 Nov 1. PMID:36381146<ref>PMID:36381146</ref>

	~~Description: Room temperature structure~~ of the ~~ground state~~ of ~~AtPhot2LOV2 in space group P212121, as recovered 1620 seconds after light irradiation~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	[[Category: ~~Unreleased~~ Structures]]		</div>
	[[Category: Caramello, N]]		<div class="pdbe-citations 8a2w" style="background-color:#fffaf0;"></div>
	[[Category: ~~Royant, A~~]]		== References ==
	[[Category: ~~Engilberge, S~~]]		<references/>
			__TOC__
			</StructureSection>
			[[Category: Arabidopsis thaliana]]
			[[Category: Large Structures]]
			[[Category: Caramello N]]
			[[Category: Engilberge S]]
			[[Category: Royant A]]

OCA at 07:16, 22 June 2022

2022-06-22T07:16:46Z

← Older revision		Revision as of 07:16, 22 June 2022
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 8a2w is ON HOLD		The entry 8a2w is ON HOLD until Paper Publication

	Authors: Engilberge, S., Caramello, N., Royant, A.		Authors: Engilberge, S., Caramello, N., Royant, A.

OCA: Protected "8a2w" [edit=sysop:move=sysop]

2022-06-15T04:06:17Z

Protected "8a2w" [edit=sysop:move=sysop]

← Older revision	Revision as of 04:06, 15 June 2022
(No difference)

OCA: New page: '''Unreleased structure''' The entry 8a2w is ON HOLD Authors: Engilberge, S., Caramello, N., Royant, A. Description: Room temperature structure of the ground state of AtPhot2LOV2 in sp...

2022-06-15T04:06:16Z

New page: '''Unreleased structure''' The entry 8a2w is ON HOLD Authors: Engilberge, S., Caramello, N., Royant, A. Description: Room temperature structure of the ground state of AtPhot2LOV2 in sp...

New page

'''Unreleased structure'''

The entry 8a2w is ON HOLD

Authors: Engilberge, S., Caramello, N., Royant, A.

Description: Room temperature structure of the ground state of AtPhot2LOV2 in space group P212121, as recovered 1620 seconds after light irradiation
[[Category: Unreleased Structures]]
[[Category: Caramello, N]]
[[Category: Royant, A]]
[[Category: Engilberge, S]]