OCA at 11:17, 1 February 2023

OCA — Wed, 01 Feb 2023 11:17:09 GMT

←Older revision		Revision as of 11:17, 1 February 2023
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7w4d is ~~ON HOLD~~	+	==Active state CI from Q1-NADH dataset, Subclass 2==
		+	<StructureSection load='7w4d' size='340' side='right'caption='[[7w4d]], [[Resolution\|resolution]] 3.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[7w4d]] 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=7W4D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7W4D 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=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=UQ1:UBIQUINONE-1'>UQ1</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=7w4d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7w4d OCA], [https://pdbe.org/7w4d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7w4d RCSB], [https://www.ebi.ac.uk/pdbsum/7w4d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7w4d ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/F1RVN1_PIG F1RVN1_PIG]
		+	<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 Q1-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 7w4d" 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 "7w4d" [edit=sysop:move=sysop]

OCA — Wed, 08 Dec 2021 08:43:47 GMT

Protected "7w4d" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:43, 8 December 2021

OCA: New page: '''Unreleased structure''' The entry 7w4d is ON HOLD Authors: Gu, J.K., Yang, M.J. Description: Active state CI from Q1-NADH dataset, Subclass 2 Category: Unreleased Structures [[C...

OCA — Wed, 08 Dec 2021 08:43:46 GMT

New page: '''Unreleased structure''' The entry 7w4d is ON HOLD Authors: Gu, J.K., Yang, M.J. Description: Active state CI from Q1-NADH dataset, Subclass 2 Category: Unreleased Structures [[C...

New page

'''Unreleased structure'''

The entry 7w4d is ON HOLD

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

Description: Active state CI from Q1-NADH dataset, Subclass 2
[[Category: Unreleased Structures]]
[[Category: Gu, J.K]]
[[Category: Yang, M.J]]

7w4d - Revision history

OCA at 11:17, 1 February 2023

OCA: Protected "7w4d" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 7w4d is ON HOLD Authors: Gu, J.K., Yang, M.J. Description: Active state CI from Q1-NADH dataset, Subclass 2 Category: Unreleased Structures [[C...