OCA at 07:18, 18 January 2023

OCA — Wed, 18 Jan 2023 07:18:53 GMT

←Older revision		Revision as of 07:18, 18 January 2023
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-	'''Unreleased structure'''

-	~~The entry~~ 7w1z is ~~ON HOLD~~	+	==Active state CI from Rotenone-NADH dataset, Subclass 2==
		+	<StructureSection load='7w1z' size='340' side='right'caption='[[7w1z]], [[Resolution\|resolution]] 2.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[7w1z]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7W1Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7W1Z FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2MR:N3,+N4-DIMETHYLARGININE'>2MR</scene>, <scene name='pdbligand=8Q1:S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl]+dodecanethioate'>8Q1</scene>, <scene name='pdbligand=970:(2R,6aS,12aS)-8,9-dimethoxy-2-(prop-1-en-2-yl)-1,2,12,12a-tetrahydrofuro[2,3 7,8][1]benzopyrano[2,3-c][1]benzopyran-6(6aH)-one'>970</scene>, <scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=CDL:CARDIOLIPIN'>CDL</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene>, <scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MYR:MYRISTIC+ACID'>MYR</scene>, <scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene>, <scene name='pdbligand=NDP:NADPH+DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NDP</scene>, <scene name='pdbligand=PEE:1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOETHANOLAMINE'>PEE</scene>, <scene name='pdbligand=PLX:(9R,11S)-9-({[(1S)-1-HYDROXYHEXADECYL]OXY}METHYL)-2,2-DIMETHYL-5,7,10-TRIOXA-2LAMBDA~5~-AZA-6LAMBDA~5~-PHOSPHAOCTACOSANE-6,6,11-TRIOL'>PLX</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=UQ:COENZYME+Q10,+(2Z,6E,10Z,14E,18E,22E,26Z)-ISOMER'>UQ</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=7w1z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7w1z OCA], [https://pdbe.org/7w1z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7w1z RCSB], [https://www.ebi.ac.uk/pdbsum/7w1z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7w1z ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A4X1T6M0_PIG A0A4X1T6M0_PIG] Accessory subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I), that is believed not to be involved in catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.[ARBA:ARBA00003195]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Mammalian respiratory complex I (CI) is a 45-subunit, redox-driven proton pump that generates an electrochemical gradient across the mitochondrial inner membrane to power ATP synthesis in mitochondria. In the present study, we report cryo-electron microscopy structures of CI from Sus scrofa in six treatment conditions at a resolution of 2.4-3.5 A, in which CI structures of each condition can be classified into two biochemical classes (active or deactive), with a notably higher proportion of active CI particles. These structures illuminate how hydrophobic ubiquinone-10 (Q10) with its long isoprenoid tail is bound and reduced in a narrow Q chamber comprising four different Q10-binding sites. Structural comparisons of active CI structures from our decylubiquinone-NADH and rotenone-NADH datasets reveal that Q10 reduction at site 1 is not coupled to proton pumping in the membrane arm, which might instead be coupled to Q10 oxidation at site 2. Our data overturn the widely accepted previous proposal about the coupling mechanism of CI.

-	~~Authors: Gu~~, J~~.K.~~, ~~Yang~~, M.J.	+	The coupling mechanism of mammalian mitochondrial complex I.,Gu J, Liu T, Guo R, Zhang L, Yang M Nat Struct Mol Biol. 2022 Feb;29(2):172-182. doi: 10.1038/s41594-022-00722-w. , Epub 2022 Feb 10. PMID:35145322<ref>PMID:35145322</ref>

-	~~Description: Active state CI from Rotenone-NADH dataset~~, ~~Subclass 2~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	[[Category: Gu~~, J.K~~]]	+	<div class="pdbe-citations 7w1z" style="background-color:#fffaf0;"></div>
-	[[Category: Yang~~, M.J~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Sus scrofa]]
		+	[[Category: Gu JK]]
		+	[[Category: Yang MJ]]

OCA: Protected "7w1z" [edit=sysop:move=sysop]

OCA — Wed, 01 Dec 2021 05:19:05 GMT

Protected "7w1z" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:19, 1 December 2021

OCA: New page: '''Unreleased structure''' The entry 7w1z is ON HOLD Authors: Gu, J.K., Yang, M.J. Description: Active state CI from Rotenone-NADH dataset, Subclass 2 [[Category: Unreleased Structures...

OCA — Wed, 01 Dec 2021 05:19:04 GMT

New page: '''Unreleased structure''' The entry 7w1z is ON HOLD Authors: Gu, J.K., Yang, M.J. Description: Active state CI from Rotenone-NADH dataset, Subclass 2 [[Category: Unreleased Structures...

New page

'''Unreleased structure'''

The entry 7w1z is ON HOLD

Authors: Gu, J.K., Yang, M.J.

Description: Active state CI from Rotenone-NADH dataset, Subclass 2
[[Category: Unreleased Structures]]
[[Category: Gu, J.K]]
[[Category: Yang, M.J]]

7w1z - Revision history

OCA at 07:18, 18 January 2023

OCA: Protected "7w1z" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 7w1z is ON HOLD Authors: Gu, J.K., Yang, M.J. Description: Active state CI from Rotenone-NADH dataset, Subclass 2 [[Category: Unreleased Structures...