› 6ymx

Electron Microscopy
3.17Å resolution

CIII2/CIV respiratory supercomplex from Saccharomyces cerevisiae

Released:
DOI: 10.2210/pdb6ymx/pdb
PDB entry 6ymx coloured by chain, front view.
PDB entry 6ymx coloured by chain, side view.
PDB entry 6ymx coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Primary publication:
Respiratory supercomplexes enhance electron transport by decreasing cytochrome c diffusion distance.
Berndtsson J, Aufschnaiter A, Rathore S, Marin-Buera L, Dawitz H, Diessl J, Kohler V, Barrientos A, Büttner S, Fontanesi F, Ott M
OpenAccess logo EMBO Rep 21 e51015 (2020)
PMID: 33016568
Related structures: EMD-10847

Function and Biology Details

Reactions catalysed: 
4 ferrocytochrome c + O(2) + 8 H(+)(Side 1) = 4 ferricytochrome c + 4 H(2)O(Side 2)
Quinol + 2 ferricytochrome c(Side 2) = quinone + 2 ferrocytochrome c(Side 2) + 2 H(+)(Side 2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 32-mer (preferred)
PDBe Complex ID:
PDB-CPX-132269 (preferred)
Entry contents:
25 distinct polypeptide molecules
Macromolecules (25 distinct):
Cytochrome c oxidase subunit 1 Chain: a
Molecule details ›
Chain: a
Length: 530 amino acids
Theoretical weight: 58.32 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P00401 (Residues: 5-534; Coverage: 99%)
Gene names: COX1, OXI3, Q0045
Sequence domains: Cytochrome C and Quinol oxidase polypeptide I
Cytochrome c oxidase subunit 2 Chain: b
Molecule details ›
Chain: b
Length: 236 amino acids
Theoretical weight: 26.78 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P00410 (Residues: 16-251; Coverage: 94%)
Gene names: COX2, OXI1, Q0250
Sequence domains:
Cytochrome c oxidase subunit 3 Chain: c
Cytochrome c oxidase subunit 4, mitochondrial Chain: d
Cytochrome c oxidase subunit 5A, mitochondrial Chain: e
Cytochrome c oxidase subunit 6, mitochondrial Chain: f
Cytochrome c oxidase subunit 7, mitochondrial Chain: g
Cytochrome c oxidase subunit 8, mitochondrial Chain: h
Cytochrome c oxidase subunit 9, mitochondrial Chain: i
Cytochrome c oxidase subunit 12, mitochondrial Chain: j
Cytochrome c oxidase subunit 13, mitochondrial Chain: k
Cytochrome c oxidase subunit 26, mitochondrial Chain: m
Cytochrome b-c1 complex subunit 1, mitochondrial Chains: A, L
Cytochrome b-c1 complex subunit 2, mitochondrial Chains: B, M
Cytochrome b Chains: C, N
Cytochrome c1, heme protein, mitochondrial Chains: D, O
Cytochrome b-c1 complex subunit Rieske, mitochondrial Chains: E, P
Cytochrome b-c1 complex subunit 6, mitochondrial Chain: F
Cytochrome b-c1 complex subunit 7, mitochondrial Chains: G, R
Cytochrome b-c1 complex subunit 8, mitochondrial Chains: H, S
Cytochrome b-c1 complex subunit 9, mitochondrial Chain: I
Cytochrome b-c1 complex subunit 6, mitochondrial Chain: Q
Cytochrome b-c1 complex subunit 9, mitochondrial Chain: T
Cytochrome b-c1 complex subunit 10, mitochondrial Chain: U
Cytochrome b-c1 complex subunit 10, mitochondrial Chain: V

Ligands and Environments

15 bound ligands:
Ligand CU 1 x CU
Ligand HEA 2 x HEA
Ligand PTY 7 x PTY
Ligand CN3 2 x CN3
Ligand CUA 1 x CUA
Ligand PCF 5 x PCF
Ligand ZN 1 x ZN
Ligand 6PH 2 x 6PH
Ligand HEM 6 x HEM
Ligand 8PE 2 x 8PE
Ligand CN5 1 x CN5
Ligand UQ6 2 x UQ6
Ligand 9PE 2 x 9PE
Ligand 7PH 2 x 7PH
Ligand FES 2 x FES
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this EM entry.
Resolution: 3.17Å
Relevant EMDB volumes: EMD-10847

Quick links

Citations

18 review citations

The assembly, regulation and function of the mitochondrial respiratory chain.
Vercellino et al. (2022)
17 more

3 mentions without citation

Structure and Mechanism of Respiratory III-IV Supercomplexes in Bioenergetic Membranes.
Brzezinski et al. (2021)
2 more