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Receptor Information

>6ymx Chain N (length=385) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

MAFRKSNVYLSLVNSYIIDSPQPSSINYWWNMGSLLGLCLVIQIVTGIFM
AMHYSSNIELAFSSVEHIMRDVHNGYILRYLHANGASFFFMVMFMHMAKG
LYYGSYRSPRVTLWNVGVIIFILTIATAFLGYCCVYGQMSHWGATVITNL
FSAIPFVGNDIVSWLWGGFSVSNPTIQRFFALHYLVPFIIAAMVIMHLMA
LHIHGSSNPLGITGNLDRIPMHSYFIFKDLVTVFLFMLILALFVFYSPNT
LGHPDNYIPGNPLVTPASIVPEWYLLPFYAILRSIPDKLLGVITMFAAIL
VLLVLPFTDRSVVRGNTFKVLSKFFFFIFVFNFVLLGQIGACHVEVPYVL
MGQIATFIYFAYFLIIVPVISTIENVLFYIGRVNK

Ligand ID

CN5

InChI

InChI=1S/C26H52O13P2/c1-3-4-5-6-7-8-9-10-11-12-13-14-17-26(29)35-19-16-21-37-41(32,33)39-23-25(28)22-38-40(30,31)36-20-15-18-34-24(2)27/h25,28H,3-23H2,1-2H3,(H,30,31)(H,32,33)/t25-/m0/s1

InChIKey

UKWPDXFRXMWSMQ-VWLOTQADSA-N

SMILES

Software	SMILES
OpenEye OEToolkits 1.5.0	CCCCCCCCCCCCCCC(=O)OCCCOP(=O)(O)OCC(COP(=O)(O)OCCCOC(=O)C)O
ACDLabs 10.04	O=C(OCCCOP(=O)(OCC(O)COP(=O)(O)OCCCOC(=O)C)O)CCCCCCCCCCCCCC
CACTVS 3.341	CCCCCCCCCCCCCCC(=O)OCCCO[P](O)(=O)OC[CH](O)CO[P](O)(=O)OCCCOC(C)=O
OpenEye OEToolkits 1.5.0	CCCCCCCCCCCCCCC(=O)OCCCO[P@](=O)(O)OC[C@H](CO[P@](=O)(O)OCCCOC(=O)C)O
CACTVS 3.341	CCCCCCCCCCCCCCC(=O)OCCCO[P@@](O)(=O)OC[C@@H](O)CO[P@@](O)(=O)OCCCOC(C)=O

Formula

C26 H52 O13 P2

Name

(5S,11R)-5,8,11-trihydroxy-5,11-dioxido-17-oxo-4,6,10,12,16-pentaoxa-5,11-diphosphaoctadec-1-yl pentadecanoate;
CARDIOLIPIN

PDB chain

6ymx Chain C Residue 405 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]

Receptor-Ligand Complex Structure

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Structure summary

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PDB	6ymx Respiratory supercomplexes enhance electron transport by decreasing cytochrome c diffusion distance.
Resolution	3.17 Å
Binding residue (original residue number in PDB)	L12 I17 I195 M199
Binding residue (residue number reindexed from 1)	L12 I17 I195 M199
Annotation score	1

Catalytic site (original residue number in PDB)	H202 S206 K228 D229 E272
Catalytic site (residue number reindexed from 1)	H202 S206 K228 D229 E272
Enzyme Commision number	7.1.1.8: quinol--cytochrome-c reductase.

	Molecular Function
GO:0008121	ubiquinol-cytochrome-c reductase activity
GO:0009055	electron transfer activity
GO:0016491	oxidoreductase activity
GO:0046872	metal ion binding

	Biological Process
GO:0006122	mitochondrial electron transport, ubiquinol to cytochrome c
GO:0009060	aerobic respiration
GO:0022904	respiratory electron transport chain
GO:0045333	cellular respiration
GO:1902600	proton transmembrane transport

	Cellular Component
GO:0005739	mitochondrion
GO:0005743	mitochondrial inner membrane
GO:0016020	membrane
GO:0045275	respiratory chain complex III

PDB	RCSB:6ymx, PDBe:6ymx, PDBj:6ymx
PDBsum	6ymx
PubMed	33016568
UniProt	P00163\|CYB_YEAST Cytochrome b (Gene Name=COB)

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Structure of PDB 6ymx Chain N Binding Site BS01