› 5j7y

Electron Microscopy
6.7Å resolution

Architecture of loose respirasome

Released:
DOI: 10.2210/pdb5j7y/pdb
PDB entry 5j7y coloured by chain, front view.
PDB entry 5j7y coloured by chain, side view.
PDB entry 5j7y coloured by chain, top view.
Source organism: Ovis aries
Primary publication:
The architecture of respiratory supercomplexes.
Letts JA, Fiedorczuk K, Sazanov LA
Nature 537 644-648 (2016)
PMID: 27654913
Related structures: EMD-8128

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:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 89-mer (preferred)
PDBe Complex ID:
PDB-CPX-105818 (preferred)
Entry contents:
74 distinct polypeptide molecules
Macromolecules (74 distinct):
COMPLEX I ND3 Chain: A
Molecule details ›
Chain: A
Length: 102 amino acids
Theoretical weight: 8.7 KDa
Source organism: Ovis aries
COMPLEX I PSST/NDUFS7 Chain: B
Molecule details ›
Chain: B
Length: 154 amino acids
Theoretical weight: 13.2 KDa
Source organism: Ovis aries
COMPLEX I 30KDA/NDUFS3 Chain: C
Molecule details ›
Chain: C
Length: 194 amino acids
Theoretical weight: 16.53 KDa
Source organism: Ovis aries
COMPLEX I 49KDA/NDUFS2 Chain: D
Molecule details ›
Chain: D
Length: 384 amino acids
Theoretical weight: 32.7 KDa
Source organism: Ovis aries
COMPLEX I 24KDA/NDUFV2 Chain: E
Molecule details ›
Chain: E
Length: 189 amino acids
Theoretical weight: 16.17 KDa
Source organism: Ovis aries
COMPLEX I 51KDA/NDUFV1 Chain: F
Molecule details ›
Chain: F
Length: 429 amino acids
Theoretical weight: 36.6 KDa
Source organism: Ovis aries
COMPLEX I 75KDA/NDUFS1 Chain: G
Molecule details ›
Chain: G
Length: 652 amino acids
Theoretical weight: 55.76 KDa
Source organism: Ovis aries
COMPLEX I ND1 Chain: H
Molecule details ›
Chain: H
Length: 297 amino acids
Theoretical weight: 25.29 KDa
Source organism: Ovis aries
COMPLEX I TYKY/NDUFS8 Chain: I
Molecule details ›
Chain: I
Length: 171 amino acids
Theoretical weight: 14.72 KDa
Source organism: Ovis aries
COMPLEX I ND6 Chain: J
Molecule details ›
Chain: J
Length: 171 amino acids
Theoretical weight: 14.57 KDa
Source organism: Ovis aries
COMPLEX I ND4L Chain: K
Molecule details ›
Chain: K
Length: 93 amino acids
Theoretical weight: 7.93 KDa
Source organism: Ovis aries
COMPLEX I ND5 Chain: L
Molecule details ›
Chain: L
Length: 575 amino acids
Theoretical weight: 48.95 KDa
Source organism: Ovis aries
COMPLEX I ND4 Chain: M
Molecule details ›
Chain: M
Length: 455 amino acids
Theoretical weight: 38.74 KDa
Source organism: Ovis aries
COMPLEX I ND2 Chain: N
Molecule details ›
Chain: N
Length: 345 amino acids
Theoretical weight: 29.38 KDa
Source organism: Ovis aries
COMPLEX I 18KDA/NDUFS6 Chain: O
Molecule details ›
Chain: O
Length: 104 amino acids
Theoretical weight: 8.87 KDa
Source organism: Ovis aries
COMPLEX I 13KDA/NDUFS6 Chain: P
Molecule details ›
Chain: P
Length: 85 amino acids
Theoretical weight: 7.25 KDa
Source organism: Ovis aries
COMPLEX I 15KDA/NDUFS5 Chain: Q
Molecule details ›
Chain: Q
Length: 66 amino acids
Theoretical weight: 5.63 KDa
Source organism: Ovis aries
COMPLEX I MWFE/NDUFA1 Chain: R
Molecule details ›
Chain: R
Length: 29 amino acids
Theoretical weight: 2.49 KDa
Source organism: Ovis aries
COMPLEX I B8/NDUFA2 Chains: S, d
Molecule details ›
Chains: S, d
Length: 80 amino acids
Theoretical weight: 6.83 KDa
Source organism: Ovis aries
COMPLEX I B9/NDUFA3 Chain: T
Molecule details ›
Chain: T
Length: 53 amino acids
Theoretical weight: 4.53 KDa
Source organism: Ovis aries
COMPLEX I B13/NDUFA5 Chain: U
Molecule details ›
Chain: U
Length: 96 amino acids
Theoretical weight: 8.19 KDa
Source organism: Ovis aries
COMPLEX I B14/NDUFA6 Chain: V
Molecule details ›
Chain: V
Length: 112 amino acids
Theoretical weight: 9.55 KDa
Source organism: Ovis aries
COMPLEX I PGIV/NDUFA8 Chain: W
Molecule details ›
Chain: W
Length: 103 amino acids
Theoretical weight: 8.78 KDa
Source organism: Ovis aries
COMPLEX I 39KDA/NDUFA9 Chain: X
Molecule details ›
Chain: X
Length: 309 amino acids
Theoretical weight: 26.32 KDa
Source organism: Ovis aries
COMPLEX I 42KDA/NDUFA10 Chain: Y
Molecule details ›
Chain: Y
Length: 322 amino acids
Theoretical weight: 27.42 KDa
Source organism: Ovis aries
COMPLEX I B14.7/NDUFA11 Chain: Z
Molecule details ›
Chain: Z
Length: 119 amino acids
Theoretical weight: 10.15 KDa
Source organism: Ovis aries
COMPLEX I B17.2/NDUFA12 Chain: a
Molecule details ›
Chain: a
Length: 111 amino acids
Theoretical weight: 9.46 KDa
Source organism: Ovis aries
COMPLEX I B16.6/NDUFA13 Chain: b
Molecule details ›
Chain: b
Length: 92 amino acids
Theoretical weight: 7.85 KDa
Source organism: Ovis aries
COMPLEX I SDAP/NDUFAB1 Chain: c
Molecule details ›
Chain: c
Length: 79 amino acids
Theoretical weight: 6.74 KDa
Source organism: Ovis aries
COMPLEX I SDAP/NDUFAB1 Chain: e
Molecule details ›
Chain: e
Length: 55 amino acids
Theoretical weight: 4.7 KDa
Source organism: Ovis aries
COMPLEX I SDAP/NDUFAB1 Chain: f
Molecule details ›
Chain: f
Length: 59 amino acids
Theoretical weight: 5.04 KDa
Source organism: Ovis aries
COMPLEX I B15/NDUFB4 Chain: g
Molecule details ›
Chain: g
Length: 130 amino acids
Theoretical weight: 11.08 KDa
Source organism: Ovis aries
COMPLEX I B18/NDUFB7 Chains: 9, h, z
Molecule details ›
Chains: 9, h, z
Length: 63 amino acids
Theoretical weight: 5.38 KDa
Source organism: Ovis aries
COMPLEX I B22/NDUFB9 Chain: i
Molecule details ›
Chain: i
Length: 70 amino acids
Theoretical weight: 5.98 KDa
Source organism: Ovis aries
COMPLEX I PDSW/NDUFB10 Chain: j
Molecule details ›
Chain: j
Length: 44 amino acids
Theoretical weight: 3.76 KDa
Source organism: Ovis aries
COMPLEX I ESSS/NDUFB11 Chain: k
Molecule details ›
Chain: k
Length: 83 amino acids
Theoretical weight: 7.08 KDa
Source organism: Ovis aries
COMPLEX I KFYI/NDUFC1 Chain: 0
Molecule details ›
Chain: 0
Length: 36 amino acids
Theoretical weight: 3.08 KDa
Source organism: Ovis aries
COMPLEX I B14.5B/NDUFC2 Chain: 1
Molecule details ›
Chain: 1
Length: 30 amino acids
Theoretical weight: 2.57 KDa
Source organism: Ovis aries
COMPLEX I UNKNOWN SUBUNIT FRAGMENT 1 Chain: 2
Molecule details ›
Chain: 2
Length: 38 amino acids
Theoretical weight: 3.25 KDa
Source organism: Ovis aries
COMPLEX I UNKNOWN SUBUNIT FRAGMENT 2 Chains: 3, 4
Molecule details ›
Chains: 3, 4
Length: 28 amino acids
Theoretical weight: 2.4 KDa
Source organism: Ovis aries
COMPLEX I UNKNOWN SUBUNIT FRAGMENT 3 Chain: 5
Molecule details ›
Chain: 5
Length: 34 amino acids
Theoretical weight: 2.91 KDa
Source organism: Ovis aries
COMPLEX I UNKNOWN SUBUNIT FRAGMENT 4 Chain: 6
Molecule details ›
Chain: 6
Length: 21 amino acids
Theoretical weight: 1.81 KDa
Source organism: Ovis aries
COMPLEX I UNKNOWN SUBUNIT FRAGMENT 5 Chain: 7
Molecule details ›
Chain: 7
Length: 39 amino acids
Theoretical weight: 3.34 KDa
Source organism: Ovis aries
COMPLEX I UNKNOWN SUBUNIT FRAGMENT 6 Chain: 8
Molecule details ›
Chain: 8
Length: 27 amino acids
Theoretical weight: 2.32 KDa
Source organism: Ovis aries
COMPLEX I UNKNOWN SUBUNIT FRAGMENT 11 Chain: y
Molecule details ›
Chain: y
Length: 46 amino acids
Theoretical weight: 3.93 KDa
Source organism: Ovis aries
COMPLEX I UNKNOWN SUBUNIT FRAGMENT 12 Chain: x
Molecule details ›
Chain: x
Length: 13 amino acids
Theoretical weight: 1.12 KDa
Source organism: Ovis aries
COMPLEX I UNKNOWN SUBUNIT FRAGMENT 13 Chain: w
Molecule details ›
Chain: w
Length: 24 amino acids
Theoretical weight: 2.06 KDa
Source organism: Ovis aries
COMPLEX I UNKNOWN SUBUNIT FRAGMENT 14 Chain: v
Molecule details ›
Chain: v
Length: 18 amino acids
Theoretical weight: 1.55 KDa
Source organism: Ovis aries
COMPLEX I UNKNOWN SUBUNIT FRAGMENT 15 Chain: u
Molecule details ›
Chain: u
Length: 16 amino acids
Theoretical weight: 1.38 KDa
Source organism: Ovis aries
COMPLEX I UNKNOWN SUBUNIT FRAGMENT 16 Chain: t
Molecule details ›
Chain: t
Length: 12 amino acids
Theoretical weight: 1.04 KDa
Source organism: Ovis aries
Cytochrome b-c1 complex subunit 1, mitochondrial Chains: AA, AL
Molecule details ›
Chains: AA, AL
Length: 446 amino acids
Theoretical weight: 49.39 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: W5Q5G6 (Residues: 35-483; Coverage: 92%)
Gene name: LOC101110095
Sequence domains:
COMPLEX III SUBUNIT 2 / CORE 2 Chains: AB, AM
Molecule details ›
Chains: AB, AM
Length: 423 amino acids
Theoretical weight: 45.19 KDa
Source organism: Ovis aries
Cytochrome b Chains: AC, AN
Molecule details ›
Chains: AC, AN
Length: 378 amino acids
Theoretical weight: 42.68 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: P24959 (Residues: 2-379; Coverage: 100%)
Gene names: COB, CYTB, MT-CYB, MTCYB
Sequence domains:
COMPLEX III SUBUNIT 4 / CYTOCHROME C1 Chains: AD, AO
Molecule details ›
Chains: AD, AO
Length: 241 amino acids
Theoretical weight: 27.32 KDa
Source organism: Ovis aries
Cytochrome b-c1 complex subunit Rieske, mitochondrial Chains: AE, AP
Molecule details ›
Chains: AE, AP
Length: 196 amino acids
Theoretical weight: 21.65 KDa
Source organism: Ovis aries
Cytochrome b-c1 complex subunit 7 Chains: AF, AQ
Molecule details ›
Chains: AF, AQ
Length: 105 amino acids
Theoretical weight: 12.95 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: W5P642 (Residues: 5-109; Coverage: 96%)
Sequence domains: Ubiquinol-cytochrome C reductase complex 14kD subunit
Cytochrome b-c1 complex subunit 8 Chains: AG, AR
Molecule details ›
Chains: AG, AR
Length: 75 amino acids
Theoretical weight: 8.88 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: W5PUP9 (Residues: 2-76; Coverage: 92%)
Gene name: LOC101121420
Sequence domains: UcrQ family
Cytochrome b-c1 complex subunit 6 Chains: AH, AS
Molecule details ›
Chains: AH, AS
Length: 67 amino acids
Theoretical weight: 7.92 KDa
Source organism: Ovis aries
Cytochrome b-c1 complex subunit Rieske, mitochondrial Chains: AI, AT
Molecule details ›
Chains: AI, AT
Length: 57 amino acids
Theoretical weight: 5.82 KDa
Source organism: Ovis aries
COMPLEX III SUBUNIT 9 / 7.2KDA Chains: AJ, AU
Molecule details ›
Chains: AJ, AU
Length: 60 amino acids
Theoretical weight: 6.94 KDa
Source organism: Ovis aries
COMPLEX III SUBUNIT 10 / 6.4KDA Chains: AK, AV
Molecule details ›
Chains: AK, AV
Length: 51 amino acids
Theoretical weight: 5.93 KDa
Source organism: Ovis aries
Cytochrome c oxidase subunit 1 Chain: BN
Molecule details ›
Chain: BN
Length: 514 amino acids
Theoretical weight: 57.08 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: O78749 (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: BO
Molecule details ›
Chain: BO
Length: 227 amino acids
Theoretical weight: 26.02 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: O78750 (Residues: 1-227; Coverage: 100%)
Gene names: COII, COX2, COXII, MT-CO2, MTCO2
Sequence domains:
Cytochrome c oxidase subunit 3 Chain: BC
Molecule details ›
Chain: BC
Length: 259 amino acids
Theoretical weight: 29.66 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: O21619 (Residues: 3-261; Coverage: 99%)
Gene names: COIII, COXIII, MT-CO3, MTCO3
Sequence domains: Cytochrome c oxidase subunit III
Cytochrome c oxidase subunit 4 Chain: BD
Molecule details ›
Chain: BD
Length: 144 amino acids
Theoretical weight: 16.9 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: W5PPE8 (Residues: 26-169; Coverage: 85%)
Gene name: LOC101105179
Sequence domains: Cytochrome c oxidase subunit IV
Cytochrome c oxidase subunit 5A, mitochondrial Chain: BE
Molecule details ›
Chain: BE
Length: 105 amino acids
Theoretical weight: 12.08 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: W5NXT8 (Residues: 17-121; Coverage: 87%)
Sequence domains: Cytochrome c oxidase subunit Va
Cytochrome c oxidase subunit 5B, mitochondrial Chain: BP
Molecule details ›
Chain: BP
Length: 98 amino acids
Theoretical weight: 10.67 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: W5PW27 (Residues: 46-143; Coverage: 69%)
Gene name: LOC101110664
Sequence domains: Cytochrome c oxidase subunit Vb
Cytochrome c oxidase subunit 6A, mitochondrial Chain: BG
Molecule details ›
Chain: BG
Length: 84 amino acids
Theoretical weight: 9.54 KDa
Source organism: Ovis aries
COMPLEX IV COX6B1 Chain: BH
Molecule details ›
Chain: BH
Length: 79 amino acids
Theoretical weight: 9.41 KDa
Source organism: Ovis aries
Cytochrome c oxidase subunit 6C Chain: BI
Molecule details ›
Chain: BI
Length: 73 amino acids
Theoretical weight: 8.47 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: W5PXG3 (Residues: 2-74; Coverage: 99%)
Sequence domains: Cytochrome c oxidase subunit VIc
Cytochrome c oxidase subunit 7A1, mitochondrial Chain: BJ
Molecule details ›
Chain: BJ
Length: 58 amino acids
Theoretical weight: 6.54 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: W5P5H0 (Residues: 20-77; Coverage: 74%)
Gene name: LOC101121285
Sequence domains: Cytochrome c oxidase subunit VII
Cytochrome c oxidase subunit 7B, mitochondrial Chain: BK
Molecule details ›
Chain: BK
Length: 49 amino acids
Theoretical weight: 5.46 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: W5QE72 (Residues: 35-83; Coverage: 58%)
Sequence domains: Cytochrome C oxidase chain VIIB
Cytochrome c oxidase subunit 7C, mitochondrial Chain: BL
Molecule details ›
Chain: BL
Length: 46 amino acids
Theoretical weight: 5.36 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: A0A6P7E5B2 (Residues: 18-63; Coverage: 73%)
Gene name: LOC121816305
Sequence domains: Cytochrome c oxidase subunit VIIc
Cytochrome c oxidase subunit 8 Chain: BM
Molecule details ›
Chain: BM
Length: 43 amino acids
Theoretical weight: 4.74 KDa
Source organism: Ovis aries
UniProt:
  • Canonical: W5PFK9 (Residues: 25-69; Coverage: 60%)
Sequence domains: Cytochrome oxidase c subunit VIII

Ligands and Environments

6 bound ligands:
Ligand SF4 6 x SF4
Ligand FES 4 x FES
Ligand HEM 6 x HEM
Ligand CU 1 x CU
Ligand HEA 2 x HEA
Ligand CUA 1 x CUA
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 6.7Å
Relevant EMDB volumes: EMD-8128

Quick links

Citations

83 review citations

A cell is more than the sum of its (dilute) parts: A brief history of quinary structure.
Cohen et al. (2017)
82 more

6 mentions without citation

Structure and mechanism of mitochondrial electron transport chain.
Guo et al. (2018)
5 more