Structure of PDB 6ymx Chain a Binding Site BS01

Receptor Information
>6ymx Chain a (length=530) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
WLYSTNAKDIAVLYFMLAIFSGMAGTAMSLIIRLELAAPGSQYLHGNSQL
FNVLVVGHAVLMIFFLVMPALIGGFGNYLLPLMIGATDTAFPRINNIAFW
VLPMGLVCLVTSTLVESGAGTGWTVYPPLSSIQAHSGPSVDLAIFALHLT
SISSLLGAINFIVTTLNMRTNGMTMHKLPLFVWSIFITAFLLLLSLPVLS
AGITMLLLDRNFNTSFFEVSGGGDPILYEHLFWFFGHPEVYILIIPGFGI
ISHVVSTYSKKPVFGEISMVYAMASIGLLGFLVWSHHMYIVGLDADTRAY
FTSATMIIAIPTGIKIFSWLATIHGGSIRLATPMLYAIAFLFLFTMGGLT
GVALANASLDVAFHDTYYVVGHFHYVLSMGAIFSLFAGYYYWSPQILGLN
YNEKLAQIQFWLIFIGANVIFFPMHFLGINGMPRRIPDYPDAFAGWNYVA
SIGSFIATLSLFLFIYILYDQLVNGLNNKVNNKSVIYNKAPDFVESNTIF
NLNTVKSSSIEFLLTSPPAVHSFNTPAVQS
Ligand information
Ligand IDCU
InChIInChI=1S/Cu/q+2
InChIKeyJPVYNHNXODAKFH-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Cu+2]
CACTVS 3.341[Cu++]
FormulaCu
NameCOPPER (II) ION
ChEMBL
DrugBankDB14552
ZINC
PDB chain6ymx Chain a Residue 601 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6ymx Respiratory supercomplexes enhance electron transport by decreasing cytochrome c diffusion distance.
Resolution3.17 Å
Binding residue
(original residue number in PDB)		H241 H290 H291
Binding residue
(residue number reindexed from 1)		H237 H286 H287
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) H62 D92 W127 S157 S158 H241 E243 Y245 S256 H290 H291 T316 K319 R438
Catalytic site (residue number reindexed from 1) H58 D88 W123 S153 S154 H237 E239 Y241 S252 H286 H287 T312 K315 R434
Enzyme Commision number 7.1.1.9: cytochrome-c oxidase.
Gene Ontology
Molecular Function
GO:0004129 cytochrome-c oxidase activity
GO:0005515 protein binding
GO:0020037 heme binding
GO:0046872 metal ion binding
Biological Process
GO:0006119 oxidative phosphorylation
GO:0006123 mitochondrial electron transport, cytochrome c to oxygen
GO:0009060 aerobic respiration
GO:0015990 electron transport coupled proton transport
GO:0045333 cellular respiration
Cellular Component
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0016020 membrane
GO:0031966 mitochondrial membrane
GO:0045277 respiratory chain complex IV

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6ymx, PDBe:6ymx, PDBj:6ymx
PDBsum6ymx
PubMed33016568
UniProtP00401|COX1_YEAST Cytochrome c oxidase subunit 1 (Gene Name=COX1)

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