5ojr - Revision history

OCA at 16:52, 13 December 2023

OCA — Wed, 13 Dec 2023 16:52:22 GMT

←Older revision		Revision as of 16:52, 13 December 2023
Line 1:		Line 1:

	==YCF48 bound to D1 peptide==		==YCF48 bound to D1 peptide==
-	<StructureSection load='5ojr' size='340' side='right' caption='[[5ojr]], [[Resolution\|resolution]] 1.96Å' scene=''>	+	<StructureSection load='5ojr' size='340' side='right'caption='[[5ojr]], [[Resolution\|resolution]] 1.96Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ojr]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Thermosynechococcus_elongatus~~ Thermosynechococcus ~~elongatus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OJR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5OJR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ojr]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermosynechococcus_vestitus Thermosynechococcus vestitus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OJR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5OJR FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>tll1695 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id~~=146786 Thermosynechococcus elongatus])</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]] 1.96Å</td></tr>
-	~~<tr id='activity'><td class~~="~~sblockLbl~~">~~<b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>~~[~~http://en.wikipedia.org/wiki/Photosystem_II Photosystem II~~]~~, with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=~~1.~~10.3.9 1.10.3.9] </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=5ojr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ojr OCA], [https://pdbe.org/5ojr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ojr RCSB], [https://www.ebi.ac.uk/pdbsum/5ojr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ojr ProSAT]</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=5ojr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ojr OCA], [~~http~~://pdbe.org/5ojr PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5ojr RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5ojr PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5ojr ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~YC48L_THEEB YC48L_THEEB~~]~~] Unknown. The ortholog in~~ A~~.thaliana is involved in~~ photosystem II (PSII) ~~assembly~~, ~~but knockout~~ of ~~the corresponding gene in Synechoccus PCC 7002 has no effect on~~ PSII ~~activity~~. ~~[[http://www.uniprot.org/uniprot/PSBA3_THEEB PSBA3_THEEB]] Photosystem II (PSII) is~~ a ~~light-driven water: plastoquinone oxidoreductase that uses light energy to abstract electrons from H(2)O, generating O(2) and a proton gradient subsequently used for ATP formation. It consists~~ of ~~a core antenna complex that captures photons, and an electron transfer chain that converts photonic excitation into a charge separation. The~~ D1~~/D2~~ (~~PsbA/PsbA~~) ~~reaction center heterodimer binds P680, the primary electron donor~~ of ~~PSII as well as several subsequent electron acceptors~~.[HAMAP-Rule:~~MF_01379~~]<ref>PMID:~~19219048~~</ref>	+	[https://www.uniprot.org/uniprot/YCF48_THEVB YCF48_THEVB] A factor required for optimal assembly of photosystem II (PSII), acting in the early stages of PSII assembly. Also plays a role in replacement of photodamaged D1 (psbA). Assists YidC in synthesis of chlorophyll-binding proteins.[HAMAP-Rule:MF_01348]<ref>PMID:30061392</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Photosystem II~~]]	+	[[Category: Large Structures]]
-	[[Category: Thermosynechococcus ~~elongatus~~]]	+	[[Category: Thermosynechococcus vestitus]]
-	[[Category: Bialek, W]]	+	[[Category: Bialek W]]
-	[[Category: Michoux, F]]	+	[[Category: Michoux F]]
-	[[Category: Murray~~, J W~~]]	+	[[Category: Murray JW]]
-	[[Category: Nixon~~, P J~~]]	+	[[Category: Nixon PJ]]
-	[[Category: Thieulin-Pardo, G]]	+	[[Category: Thieulin-Pardo G]]
-	~~[[Category: Photosynthesis]]~~	+
-	~~[[Category: Photosystem ii~~]]	+

OCA at 07:48, 29 August 2018

OCA — Wed, 29 Aug 2018 07:48:29 GMT

←Older revision		Revision as of 07:48, 29 August 2018
Line 3:		Line 3:
	<StructureSection load='5ojr' size='340' side='right' caption='[[5ojr]], [[Resolution\|resolution]] 1.96Å' scene=''>		<StructureSection load='5ojr' size='340' side='right' caption='[[5ojr]], [[Resolution\|resolution]] 1.96Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ojr]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OJR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OJR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ojr]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermosynechococcus_elongatus Thermosynechococcus elongatus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OJR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OJR FirstGlance]. <br>
-	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Photosystem_II Photosystem II], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.10.3.9 1.10.3.9] </span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">tll1695 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=146786 Thermosynechococcus elongatus])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Photosystem_II Photosystem II], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.10.3.9 1.10.3.9] </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=5ojr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ojr OCA], [http://pdbe.org/5ojr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ojr RCSB], [http://www.ebi.ac.uk/pdbsum/5ojr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ojr ProSAT]</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=5ojr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ojr OCA], [http://pdbe.org/5ojr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ojr RCSB], [http://www.ebi.ac.uk/pdbsum/5ojr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ojr ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/YC48L_THEEB YC48L_THEEB]] Unknown. The ortholog in A.thaliana is involved in photosystem II (PSII) assembly, but knockout of the corresponding gene in Synechoccus PCC 7002 has no effect on PSII activity. [[http://www.uniprot.org/uniprot/PSBA3_THEEB PSBA3_THEEB]] Photosystem II (PSII) is a light-driven water: plastoquinone oxidoreductase that uses light energy to abstract electrons from H(2)O, generating O(2) and a proton gradient subsequently used for ATP formation. It consists of a core antenna complex that captures photons, and an electron transfer chain that converts photonic excitation into a charge separation. The D1/D2 (PsbA/PsbA) reaction center heterodimer binds P680, the primary electron donor of PSII as well as several subsequent electron acceptors.[HAMAP-Rule:MF_01379]<ref>PMID:19219048</ref>		[[http://www.uniprot.org/uniprot/YC48L_THEEB YC48L_THEEB]] Unknown. The ortholog in A.thaliana is involved in photosystem II (PSII) assembly, but knockout of the corresponding gene in Synechoccus PCC 7002 has no effect on PSII activity. [[http://www.uniprot.org/uniprot/PSBA3_THEEB PSBA3_THEEB]] Photosystem II (PSII) is a light-driven water: plastoquinone oxidoreductase that uses light energy to abstract electrons from H(2)O, generating O(2) and a proton gradient subsequently used for ATP formation. It consists of a core antenna complex that captures photons, and an electron transfer chain that converts photonic excitation into a charge separation. The D1/D2 (PsbA/PsbA) reaction center heterodimer binds P680, the primary electron donor of PSII as well as several subsequent electron acceptors.[HAMAP-Rule:MF_01379]<ref>PMID:19219048</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Robust photosynthesis in chloroplasts and cyanobacteria requires the participation of accessory proteins to facilitate the assembly and maintenance of the photosynthetic apparatus located within the thylakoid membranes. The highly conserved Ycf48 protein acts early in the biogenesis of the oxygen-evolving photosystem II (PSII) complex by binding to newly synthesized precursor D1 subunit and by promoting efficient association with the D2 protein to form a PSII reaction center (PSII RC) assembly intermediate. Ycf48 is also required for efficient replacement of damaged D1 during the repair of PSII. However, the structural features underpinning Ycf48 function remain unclear. Here we show that Ycf48 proteins encoded by the thermophilic cyanobacterium Thermosynechococcus elongatus and the red alga Cyanidioschyzon merolae form seven-bladed beta-propellers with the 19-aa insertion characteristic of eukaryotic Ycf48 located at the junction of blades 3 and 4. Knowledge of these structures has allowed us to identify a conserved "Arg patch" on the surface of Ycf48 that is important for binding of Ycf48 to PSII RCs but also to larger complexes, including trimeric photosystem I (PSI). Reduced accumulation of chlorophyll in the absence of Ycf48 and the association of Ycf48 with PSI provide evidence of a more wide-ranging role for Ycf48 in the biogenesis of the photosynthetic apparatus than previously thought. Copurification of Ycf48 with the cyanobacterial YidC protein insertase supports the involvement of Ycf48 during the cotranslational insertion of chlorophyll-binding apopolypeptides into the membrane.
		+
		+	Ycf48 involved in the biogenesis of the oxygen-evolving photosystem II complex is a seven-bladed beta-propeller protein.,Yu J, Knoppova J, Michoux F, Bialek W, Cota E, Shukla MK, Straskova A, Pascual Aznar G, Sobotka R, Komenda J, Murray JW, Nixon PJ Proc Natl Acad Sci U S A. 2018 Aug 14;115(33):E7824-E7833. doi:, 10.1073/pnas.1800609115. Epub 2018 Jul 30. PMID:30061392<ref>PMID:30061392</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5ojr" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 14:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Photosystem II]]		[[Category: Photosystem II]]
		+	[[Category: Thermosynechococcus elongatus]]
	[[Category: Bialek, W]]		[[Category: Bialek, W]]
	[[Category: Michoux, F]]		[[Category: Michoux, F]]

OCA at 21:15, 9 August 2018

OCA — Thu, 09 Aug 2018 21:15:36 GMT

←Older revision		Revision as of 21:15, 9 August 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5ojr is ~~ON HOLD~~	+	==YCF48 bound to D1 peptide==
-		+	<StructureSection load='5ojr' size='340' side='right' caption='[[5ojr]], [[Resolution\|resolution]] 1.96Å' scene=''>
-	~~Authors~~: ~~Michoux~~, F., ~~Nixon~~, P.J., ~~Murray~~, J.W., ~~Bialek~~, W., ~~Thieulin-Pardo~~, G.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5ojr]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OJR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OJR FirstGlance]. <br>
-	~~Description~~: ~~YCF48 bound to D1 peptide~~	+	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Photosystem_II Photosystem II], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.10.3.9 1.10.3.9] </span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=5ojr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ojr OCA], [http://pdbe.org/5ojr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ojr RCSB], [http://www.ebi.ac.uk/pdbsum/5ojr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ojr ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/YC48L_THEEB YC48L_THEEB]] Unknown. The ortholog in A.thaliana is involved in photosystem II (PSII) assembly, but knockout of the corresponding gene in Synechoccus PCC 7002 has no effect on PSII activity. [[http://www.uniprot.org/uniprot/PSBA3_THEEB PSBA3_THEEB]] Photosystem II (PSII) is a light-driven water: plastoquinone oxidoreductase that uses light energy to abstract electrons from H(2)O, generating O(2) and a proton gradient subsequently used for ATP formation. It consists of a core antenna complex that captures photons, and an electron transfer chain that converts photonic excitation into a charge separation. The D1/D2 (PsbA/PsbA) reaction center heterodimer binds P680, the primary electron donor of PSII as well as several subsequent electron acceptors.[HAMAP-Rule:MF_01379]<ref>PMID:19219048</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Photosystem II]]
		+	[[Category: Bialek, W]]
	[[Category: Michoux, F]]		[[Category: Michoux, F]]
-	[[Category: ~~Nixon~~, P.J]]	+	[[Category: Murray, J W]]
-	[[Category: ~~Bialek~~, W]]	+	[[Category: Nixon, P J]]
	[[Category: Thieulin-Pardo, G]]		[[Category: Thieulin-Pardo, G]]
-	[[Category: ~~Murray, J.W~~]]	+	[[Category: Photosynthesis]]
		+	[[Category: Photosystem ii]]

OCA: Protected "5ojr" [edit=sysop:move=sysop]

OCA — Wed, 27 Sep 2017 12:30:43 GMT

Protected "5ojr" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:30, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5ojr is ON HOLD Authors: Michoux, F., Nixon, P.J., Murray, J.W., Bialek, W., Thieulin-Pardo, G. Description: YCF48 bound to D1 peptide [[Category: ...

OCA — Wed, 27 Sep 2017 12:30:42 GMT

New page: '''Unreleased structure''' The entry 5ojr is ON HOLD Authors: Michoux, F., Nixon, P.J., Murray, J.W., Bialek, W., Thieulin-Pardo, G. Description: YCF48 bound to D1 peptide [[Category: ...

New page

'''Unreleased structure'''

The entry 5ojr is ON HOLD

Authors: Michoux, F., Nixon, P.J., Murray, J.W., Bialek, W., Thieulin-Pardo, G.

Description: YCF48 bound to D1 peptide
[[Category: Unreleased Structures]]
[[Category: Michoux, F]]
[[Category: Nixon, P.J]]
[[Category: Bialek, W]]
[[Category: Thieulin-Pardo, G]]
[[Category: Murray, J.W]]