4UQ8

Electron cryo-microscopy of bovine Complex I


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.95 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Architecture of Mammalian Respiratory Complex I.

Vinothkumar, K.R.Zhu, J.Hirst, J.

(2014) Nature 515: 80

  • DOI: 10.1038/nature13686
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Complex I (NADH:ubiquinone oxidoreductase) is essential for oxidative phosphorylation in mammalian mitochondria. It couples electron transfer from NADH to ubiquinone with proton translocation across the energy-transducing inner membrane, providing el ...

    Complex I (NADH:ubiquinone oxidoreductase) is essential for oxidative phosphorylation in mammalian mitochondria. It couples electron transfer from NADH to ubiquinone with proton translocation across the energy-transducing inner membrane, providing electrons for respiration and driving ATP synthesis. Mammalian complex I contains 44 different nuclear- and mitochondrial-encoded subunits, with a combined mass of 1 MDa. The 14 conserved 'core' subunits have been structurally defined in the minimal, bacterial complex, but the structures and arrangement of the 30 'supernumerary' subunits are unknown. Here we describe a 5 Å resolution structure of complex I from Bos taurus heart mitochondria, a close relative of the human enzyme, determined by single-particle electron cryo-microscopy. We present the structures of the mammalian core subunits that contain eight iron-sulphur clusters and 60 transmembrane helices, identify 18 supernumerary transmembrane helices, and assign and model 14 supernumerary subunits. Thus, we considerably advance knowledge of the structure of mammalian complex I and the architecture of its supernumerary ensemble around the core domains. Our structure provides insights into the roles of the supernumerary subunits in regulation, assembly and homeostasis, and a basis for understanding the effects of mutations that cause a diverse range of human diseases.


    Organizational Affiliation

    MRC Mitochondrial Biology Unit, Wellcome Trust / MRC Building, Hills Road, Cambridge, CB2 0XY, UK.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASE CHAIN 3A111Bos taurusMutation(s): 0 
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASE CHAIN 6J171Bos taurusMutation(s): 0 
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASE CHAIN 4LK84Bos taurusMutation(s): 0 
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASE CHAIN 5L601Bos taurusMutation(s): 0 
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASE CHAIN 4M453Bos taurusMutation(s): 0 
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASE CHAIN 2N345Bos taurusMutation(s): 0 
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] 1 ALPHA SUBCOMPLEX SUBUNIT 10O220Bos taurusMutation(s): 0 
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] 1 ALPHA SUBCOMPLEX SUBUNIT 9, MITOCHONDRIALP303Bos taurusMutation(s): 0 
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] SUBUNIT 4Q85Bos taurusMutation(s): 0 
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] SUBUNIT 6R47Bos taurusMutation(s): 0 
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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] 1 ALPHA SUBCOMPLEX SUBUNIT 2S80Bos taurusMutation(s): 0 
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] IRON-SULFUR PROTEIN 7, MITOCHONDRIALB143Bos taurusMutation(s): 0 
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Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
ACYL CARRIER PROTEIN, MITOCHONDRIALT75Bos taurusMutation(s): 0 
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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE DEHYDROGENASEU79Bos taurusMutation(s): 0 
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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] 1 ALPHA SUBCOMPLEX SUBUNIT; 5V71Bos taurusMutation(s): 0 
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Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] 1 ALPHA SUBCOMPLEX SUBUNIT; 6W72Bos taurusMutation(s): 0 
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Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] 1 ALPHA SUBCOMPLEX SUBUNIT 8X79Bos taurusMutation(s): 0 
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Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] 1 ALPHA SUBCOMPLEX SUBUNIT; 11Y106Bos taurusMutation(s): 0 
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Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] 1 ALPHA SUBCOMPLEX SUBUNIT 13Z65Bos taurusMutation(s): 0 
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Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEa29Bos taurusMutation(s): 0 
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Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEb42Bos taurusMutation(s): 0 
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Entity ID: 29
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEc, w27Bos taurusMutation(s): 0 
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] IRON-SULFUR PROTEIN 3, MITOCHONDRIALC154Bos taurusMutation(s): 0 
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Entity ID: 30
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEd39Bos taurusMutation(s): 0 
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Entity ID: 31
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEe20Bos taurusMutation(s): 0 
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Entity ID: 32
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEf, h, i30Bos taurusMutation(s): 0 
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Entity ID: 33
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEg22Bos taurusMutation(s): 0 
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Entity ID: 34
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEj, l24Bos taurusMutation(s): 0 
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Entity ID: 35
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEk, p, s28Bos taurusMutation(s): 0 
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Entity ID: 36
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEm34Bos taurusMutation(s): 0 
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Entity ID: 37
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEn59Bos taurusMutation(s): 0 
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Entity ID: 38
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEo21Bos taurusMutation(s): 0 
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Entity ID: 39
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEq25Bos taurusMutation(s): 0 
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] IRON-SULFUR PROTEIN 2, MITOCHONDRIALD384Bos taurusMutation(s): 0 
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Entity ID: 40
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEr26Bos taurusMutation(s): 0 
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Entity ID: 41
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEt57Bos taurusMutation(s): 0 
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Entity ID: 42
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEu43Bos taurusMutation(s): 0 
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Entity ID: 43
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASEv32Bos taurusMutation(s): 0 
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] FLAVOPROTEIN 2, MITOCHONDRIALE159Bos taurusMutation(s): 0 
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] FLAVOPROTEIN 1, MITOCHONDRIALF411Bos taurusMutation(s): 0 
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
NADH-UBIQUINONE OXIDOREDUCTASE 75 KDA SUBUNIT, MITOCHONDRIALG538Bos taurusMutation(s): 0 
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
NADH UBIQUINONE OXIDOREDUCTASE CHAIN 1H313Bos taurusMutation(s): 0 
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
NADH DEHYDROGENASE [UBIQUINONE] IRON-SULFUR PROTEIN 8, MITOCHONDRIALI162Bos taurusMutation(s): 0 
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Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SF4
Query on SF4

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B, F, G, I
IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
 Ligand Interaction
FES
Query on FES

Download CCD File 
E, G
FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.95 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-10-01
    Type: Initial release
  • Version 1.1: 2014-11-12
    Changes: Database references
  • Version 1.2: 2017-08-02
    Changes: Data collection