5GPN image
Deposition Date 2016-08-03
Release Date 2017-04-05
Last Version Date 2026-08-12
Entry Detail
PDB ID:
5GPN
Keywords:
ELECTRON TRANSPORT, OXIDOREDUCTASE
Title:
Architecture of mammalian respirasome
Biological Source:
Source Organism(s):
Bos taurus (Taxon ID: 9913)
Sus scrofa (Taxon ID: 9823)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
5.40 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
5GPN validation report missing
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase subunit
Chain IDs:WA (auth: 0)
Chain Length:0
Number of Molecules:1
Biological Source:Bos taurus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase subunit
Gene (Uniprot):COX4I1
Chain IDs:XA (auth: 1)
Chain Length:0
Number of Molecules:1
Biological Source:Bos taurus
UniProt ID:P00423 Pfam ID:PF02936 EC:7.1.1.9
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase subunit
Gene (Uniprot):COX5A
Chain IDs:YA (auth: 2)
Chain Length:0
Number of Molecules:1
Biological Source:Bos taurus
UniProt ID:P00426 Pfam ID:PF02284 EC:7.1.1.9
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase subunit
Gene (Uniprot):COX5B
Chain IDs:ZA (auth: 3)
Chain Length:0
Number of Molecules:1
Biological Source:Bos taurus
UniProt ID:P00428 Pfam ID:PF01215 EC:7.1.1.9
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase subunit
Gene (Uniprot):COX6A2
Chain IDs:AB (auth: 4)
Chain Length:0
Number of Molecules:1
Biological Source:Bos taurus
UniProt ID:P07471 Pfam ID:PF02046 EC:7.1.1.9
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase subunit
Gene (Uniprot):COX6B1
Chain IDs:BB (auth: 5)
Chain Length:0
Number of Molecules:1
Biological Source:Bos taurus
UniProt ID:P00429 Pfam ID:PF02297 EC:7.1.1.9
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase subunit
Gene (Uniprot):COX6C
Chain IDs:CB (auth: 6)
Chain Length:0
Number of Molecules:1
Biological Source:Bos taurus
UniProt ID:P04038 Pfam ID:PF02937 EC:7.1.1.9
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase subunit
Gene (Uniprot):COX7A1
Chain IDs:DB (auth: 7)
Chain Length:0
Number of Molecules:1
Biological Source:Bos taurus
UniProt ID:P07470 Pfam ID:PF02238 EC:7.1.1.9
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase subunit
Gene (Uniprot):COX7B
Chain IDs:EB (auth: 8)
Chain Length:0
Number of Molecules:1
Biological Source:Bos taurus
UniProt ID:P13183 Pfam ID:PF05392 EC:7.1.1.9
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase subunit
Gene (Uniprot):COX7C
Chain IDs:FB (auth: 9)
Chain Length:0
Number of Molecules:1
Biological Source:Bos taurus
UniProt ID:P00430 Pfam ID:PF02935 EC:7.1.1.9
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):UQCRC1
Chain IDs:A, M
Chain Length:0
Number of Molecules:2
Biological Source:Bos taurus
UniProt ID:P31800 Pfam ID:PF00675, PF05193 EC:7.1.1.8
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:KB (auth: Ab), QB (auth: Ah)
Chain Length:0
Number of Molecules:2
Biological Source:Sus scrofa
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):NDUFA1
Chain IDs:LB (auth: Ac)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:K7GR43 Pfam ID:PF15879
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:MB (auth: Ad), XB (auth: Ao), YB (auth: Ap), EC (auth: Av)
Chain Length:0
Number of Molecules:4
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:NB (auth: Ae)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:OB (auth: Af)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):NDUFA11
Chain IDs:PB (auth: Ag)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:I3LGM4 Pfam ID:PF02466
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):NDUFB10
Chain IDs:SB (auth: Aj)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:I3LDC3 Pfam ID:PF10249
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):NDUFB9
Chain IDs:TB (auth: Ak)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:K7GSE5 Pfam ID:PF05347
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:UB (auth: Al)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):MGARP
Chain IDs:VB (auth: Am)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:F1RRC9 Pfam ID:PF14962
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):NDUFA8
Chain IDs:WB (auth: An)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:F1SLR1 Pfam ID:PF06747
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:ZB (auth: Aq), BC (auth: As), FC (auth: Aw)
Chain Length:0
Number of Molecules:3
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:AC (auth: Ar)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:CC (auth: At)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:DC (auth: Au)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):UQCRC2
Chain IDs:B, N
Chain Length:0
Number of Molecules:2
Biological Source:Bos taurus
UniProt ID:P23004 Pfam ID:PF00675, PF05193
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome b
Gene (Uniprot):MT-CYB
Chain IDs:C, O
Chain Length:0
Number of Molecules:2
Biological Source:Bos taurus
UniProt ID:P00157 Pfam ID:PF00033, PF00032
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c1, heme protein,
Gene (Uniprot):CYC1
Chain IDs:D, P
Chain Length:0
Number of Molecules:2
Biological Source:Bos taurus
UniProt ID:P00125 Pfam ID:PF02167
Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Chain IDs:E, Q
Chain Length:0
Number of Molecules:2
Biological Source:Bos taurus
Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Chain IDs:F, R
Chain Length:0
Number of Molecules:2
Biological Source:Bos taurus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):UQCRQ
Chain IDs:G, S
Chain Length:0
Number of Molecules:2
Biological Source:Bos taurus
UniProt ID:P13271 Pfam ID:PF02939
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):UQCRH
Chain IDs:H, T
Chain Length:0
Number of Molecules:2
Biological Source:Bos taurus
UniProt ID:P00126 Pfam ID:PF02320
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):UQCRFS1
Chain IDs:I, U
Chain Length:0
Number of Molecules:2
Biological Source:Bos taurus
UniProt ID:P13272 Pfam ID:PF09165 EC:1.10.2.2
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):UQCR10
Chain IDs:J, L
Chain Length:0
Number of Molecules:2
Biological Source:Bos taurus
UniProt ID:P00130 Pfam ID:PF05365
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome b-c1 complex subun
Gene (Uniprot):UQCR11
Chain IDs:K, V
Chain Length:0
Number of Molecules:2
Biological Source:Bos taurus
UniProt ID:P07552 Pfam ID:PF08997
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:W
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Chain IDs:X (auth: Y)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:A0A4X1V1H9 Pfam ID:PF22151, PF13510, PF10588, PF22117, PF00384, PF09326
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):NDUFS2
Chain IDs:Y (auth: Z)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:F1S1A8 Pfam ID:PF00346
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:Z (auth: a)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:A0A8D1TL60 Pfam ID:PF01058
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:AA (auth: b)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:BA (auth: c)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:A0A4X1SZP7 Pfam ID:PF01512, PF22461, PF10589
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):NDUFV2
Chain IDs:CA (auth: d)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:F1SM98 Pfam ID:PF01257
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):MT-ND1
Chain IDs:DA (auth: e)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:O79874 Pfam ID:PF00146 EC:1.6.5.3
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):MT-ND2
Chain IDs:EA (auth: f)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:O79875 Pfam ID:PF00361, PF06444 EC:1.6.5.3
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):MT-ND3
Chain IDs:FA (auth: g)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:O79880 Pfam ID:PF00507 EC:1.6.5.3
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):MT-ND4
Chain IDs:GA (auth: h)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:O79881 Pfam ID:PF01059, PF00361 EC:1.6.5.3
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):MT-ND4L
Chain IDs:HA (auth: i)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:P56632 Pfam ID:PF00420 EC:1.6.5.3
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):MT-ND5
Chain IDs:IA (auth: j)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:Q9TDR1 Pfam ID:PF00662, PF00361, PF06455 EC:1.6.5.3
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductas
Gene (Uniprot):MT-ND6
Chain IDs:JA (auth: k), KA (auth: l)
Chain Length:0
Number of Molecules:2
Biological Source:Sus scrofa
UniProt ID:O79882 Pfam ID:PF00499 EC:1.6.5.3
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:LA (auth: m)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:A0A4X1VPG4 Pfam ID:PF14987
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:MA (auth: n)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):NDUFS5
Chain IDs:NA (auth: o)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:F1SV23 Pfam ID:PF10200
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):NDUFA9
Chain IDs:OA (auth: p)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:F1SL07 Pfam ID:PF01370
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):NDUFA10
Chain IDs:PA (auth: q), TA (auth: v)
Chain Length:0
Number of Molecules:2
Biological Source:Sus scrofa
UniProt ID:F1SIS9 Pfam ID:PF01712
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Chain IDs:QA (auth: r)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:A0A8D1NRT6 Pfam ID:PF06212
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase subunit
Gene (Uniprot):COX8B
Chain IDs:GB (auth: s)
Chain Length:0
Number of Molecules:1
Biological Source:Bos taurus
UniProt ID:P10175 Pfam ID:PF02285 EC:7.1.1.9
Polymer Type:polypeptide(L)
Molecule:Acyl carrier protein
Chain IDs:RA (auth: t), JB (auth: Aa)
Chain Length:0
Number of Molecules:2
Biological Source:Sus scrofa
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):NDUFB5
Chain IDs:SA (auth: u), RB (auth: Ai)
Chain Length:0
Number of Molecules:2
Biological Source:Sus scrofa
UniProt ID:F1SGC6 Pfam ID:PF09781
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mitochondrial NADH dehydrogen
Chain IDs:UA (auth: w)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:G8IFA6 Pfam ID:PF04800
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinon
Gene (Uniprot):NDUFS6
Chain IDs:VA (auth: x)
Chain Length:0
Number of Molecules:1
Biological Source:Sus scrofa
UniProt ID:F1S031 Pfam ID:PF10276
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase subunit
Gene (Uniprot):MT-CO1
Chain IDs:HB (auth: y)
Chain Length:0
Number of Molecules:1
Biological Source:Bos taurus
UniProt ID:P00396 Pfam ID:PF00115 EC:7.1.1.9
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytochrome c oxidase subunit
Gene (Uniprot):MT-CO2
Chain IDs:IB (auth: z)
Chain Length:0
Number of Molecules:1
Biological Source:Bos taurus
UniProt ID:P68530 Pfam ID:PF02790, PF00116
Ligand Molecules
CU
FES
FMN
HEA
HEC
HEM
MG
NDP
SF4
ZN
Primary Citation
The architecture of the mammalian respirasome.
Nature 537 639 643 (2016)
PMID: 27654917 DOI: 10.1038/nature19359

Abstact

The respiratory chain complexes I, III and IV (CI, CIII and CIV) are present in the bacterial membrane or the inner mitochondrial membrane and have a role of transferring electrons and establishing the proton gradient for ATP synthesis by complex V. The respiratory chain complexes can assemble into supercomplexes (SCs), but their precise arrangement is unknown. Here we report a 5.4 Å cryo-electron microscopy structure of the major 1.7 megadalton SCI1III2IV1 respirasome purified from porcine heart. The CIII dimer and CIV bind at the same side of the L-shaped CI, with their transmembrane domains essentially aligned to form a transmembrane disk. Compared to free CI, the CI in the respirasome is more compact because of interactions with CIII and CIV. The NDUFA11 and NDUFB9 supernumerary subunits of CI contribute to the oligomerization of CI and CIII. The structure of the respirasome provides information on the precise arrangements of the respiratory chain complexes in mitochondria.

Legend

Protein

Chemical

Disease

Primary Citation of related structures
5GPN
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