› 8ugl

Electron Microscopy
3Å resolution

High resolution in-situ structure of complex IV in respiratory supercomplex

Released:
DOI: 10.2210/pdb8ugl/pdb
PDB entry 8ugl coloured by chain, front view.
PDB entry 8ugl coloured by chain, side view.
PDB entry 8ugl coloured by chain, top view.
Source organism: Sus scrofa
Primary publication:
High-resolution in situ structures of mammalian respiratory supercomplexes.
Zheng W, Chai P, Zhu J, Zhang K
OpenAccess logo Nature (2024)
PMID: 38811722
Related structures: EMD-42229

Function and Biology Details

Reaction catalysed: 
4 ferrocytochrome c + O(2) + 8 H(+)(Side 1) = 4 ferricytochrome c + 4 H(2)O(Side 2)
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero tetradecamer (preferred)
PDBe Complex ID:
PDB-CPX-245952 (preferred)
Entry contents:
14 distinct polypeptide molecules
Macromolecules (14 distinct):
Cytochrome c oxidase subunit 1 Chain: 4A
Molecule details ›
Chain: 4A
Length: 514 amino acids
Theoretical weight: 56.99 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: O79876 (Residues: 1-514; Coverage: 100%)
Gene names: COI, COXI, MT-CO1, MTCO1
Sequence domains: Cytochrome C and Quinol oxidase polypeptide I
Cytochrome c oxidase subunit 2 Chain: 4B
Molecule details ›
Chain: 4B
Length: 229 amino acids
Theoretical weight: 26.29 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q69GF7 (Residues: 1-229; Coverage: 100%)
Gene names: COII, COX2, MT-CO2
Sequence domains:
Cytochrome c oxidase subunit 3 Chain: 4C
Molecule details ›
Chain: 4C
Length: 261 amino acids
Theoretical weight: 29.75 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q35916 (Residues: 1-261; Coverage: 100%)
Gene names: COIII, COXIII, MT-CO3, MTCO3
Sequence domains: Cytochrome c oxidase subunit III
Cytochrome c oxidase subunit 4 Chain: 4D
Molecule details ›
Chain: 4D
Length: 169 amino acids
Theoretical weight: 19.67 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: A0A4X1T8J9 (Residues: 1-169; Coverage: 100%)
Gene name: LOC100624067
Sequence domains: Cytochrome c oxidase subunit IV
Cytochrome c oxidase subunit 5A, mitochondrial Chain: 4E
Molecule details ›
Chain: 4E
Length: 152 amino acids
Theoretical weight: 16.77 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F1SJ34 (Residues: 1-152; Coverage: 100%)
Gene name: COX5A
Sequence domains: Cytochrome c oxidase subunit Va
Cytochrome c oxidase subunit 5B, mitochondrial Chain: 4F
Molecule details ›
Chain: 4F
Length: 129 amino acids
Theoretical weight: 13.8 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q5S3G4 (Residues: 1-129; Coverage: 100%)
Gene name: COX5B
Sequence domains: Cytochrome c oxidase subunit Vb
Cytochrome c oxidase subunit Chain: 4G
Molecule details ›
Chain: 4G
Length: 97 amino acids
Theoretical weight: 10.88 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: A0A287AEB7 (Residues: 1-97; Coverage: 100%)
Gene names: COX6A2, LOC100626250
Sequence domains: Cytochrome c oxidase subunit VIa
Cytochrome c oxidase subunit Chain: 4H
Molecule details ›
Chain: 4H
Length: 86 amino acids
Theoretical weight: 10.2 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: A1XQT1 (Residues: 1-86; Coverage: 100%)
Gene name: COX6B
Sequence domains: Cytochrome oxidase c subunit VIb
Cytochrome c oxidase subunit 6C Chain: 4I
Molecule details ›
Chain: 4I
Length: 75 amino acids
Theoretical weight: 8.62 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: A0A4X1TXH1 (Residues: 1-75; Coverage: 100%)
Gene name: COX6C
Sequence domains: Cytochrome c oxidase subunit VIc
Cytochrome c oxidase subunit 7A1, mitochondrial Chain: 4J
Molecule details ›
Chain: 4J
Length: 80 amino acids
Theoretical weight: 9.03 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q8SPJ9 (Residues: 1-80; Coverage: 100%)
Gene name: COX7A1
Sequence domains: Cytochrome c oxidase subunit VII
Cytochrome c oxidase subunit 7B, mitochondrial Chain: 4K
Molecule details ›
Chain: 4K
Length: 80 amino acids
Theoretical weight: 9.17 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: A0A287BJ57 (Residues: 1-80; Coverage: 100%)
Gene name: COX7B
Sequence domains: Cytochrome C oxidase chain VIIB
Cytochrome c oxidase subunit 7C, mitochondrial Chain: 4L
Molecule details ›
Chain: 4L
Length: 63 amino acids
Theoretical weight: 7.36 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q1W0Y2 (Residues: 1-63; Coverage: 100%)
Gene names: COX7C, COX7C1
Sequence domains: Cytochrome c oxidase subunit VIIc
Cytochrome c oxidase subunit 8 Chain: 4M
Molecule details ›
Chain: 4M
Length: 70 amino acids
Theoretical weight: 7.62 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: A1XQT4 (Residues: 1-70; Coverage: 100%)
Gene name: COX8H
Sequence domains: Cytochrome oxidase c subunit VIII
Mitochondrial NDUFA4 Chain: 4N
Molecule details ›
Chain: 4N
Length: 82 amino acids
Theoretical weight: 9.32 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: A1XQS3 (Residues: 1-82; Coverage: 100%)
Gene name: NDUFA4
Sequence domains: NADH-ubiquinone reductase complex 1 MLRQ subunit

Ligands and Environments

11 bound ligands:
Ligand PGV 15 x PGV
Ligand HEA 2 x HEA
Ligand CU 1 x CU
Ligand MG 1 x MG
Ligand NA 1 x NA
Ligand CDL 3 x CDL
Ligand CUA 1 x CUA
Ligand PSC 1 x PSC
Ligand ZN 1 x ZN
Ligand PEK 2 x PEK
Ligand PO4 1 x PO4
1 modified residue:
Ligand FME 1 x FME

Experiments and Validation Details

Entry percentile scores
Resolution: 3Å
Relevant EMDB volumes: EMD-42229

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