7ZKQ

Early Pp module assembly intermediate of complex I


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.15 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Insights into complex I assembly: Function of NDUFAF1 and a link with cardiolipin remodeling.

Schiller, J.Laube, E.Wittig, I.Kuhlbrandt, W.Vonck, J.Zickermann, V.

(2022) Sci Adv 8: eadd3855-eadd3855

  • DOI: https://doi.org/10.1126/sciadv.add3855
  • Primary Citation of Related Structures:  
    7ZKP, 7ZKQ

  • PubMed Abstract: 

    Respiratory complex I is a ~1-MDa proton pump in mitochondria. Its structure has been revealed in great detail, but the structural basis of its assembly, in humans involving at least 15 assembly factors, is essentially unknown. We determined cryo-electron microscopy structures of assembly intermediates associated with assembly factor NDUFAF1 in a yeast model system. Subunits ND2 and NDUFC2 together with assembly factors NDUFAF1 and CIA84 form the nucleation point of the NDUFAF1-dependent assembly pathway. Unexpectedly, the cardiolipin remodeling enzyme tafazzin is an integral component of this core complex. In a later intermediate, all 12 subunits of the proximal proton pump module have assembled. NDUFAF1 locks the central ND3 subunit in an assembly-competent conformation, and major rearrangements of central subunits are required for complex I maturation.


  • Organizational Affiliation

    Institute of Biochemistry II, University Hospital, Goethe University, 60590 Frankfurt am Main, Germany.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase subunit 2A [auth 2]469Yarrowia lipolyticaMutation(s): 0 
EC: 1.6.5.3
Membrane Entity: Yes 
UniProt
Find proteins for Q9B6C8 (Yarrowia lipolytica (strain CLIB 122 / E 150))
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Go to UniProtKB:  Q9B6C8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9B6C8
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Subunit NEBM of NADH:Ubiquinone Oxidoreductase (Complex I)B [auth b]74Yarrowia lipolyticaMutation(s): 0 
UniProt
Find proteins for A0A1D8NGI5 (Yarrowia lipolytica)
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Go to UniProtKB:  A0A1D8NGI5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1D8NGI5
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Complex I intermediate-associated protein 30-domain-containing proteinC [auth A]284Yarrowia lipolyticaMutation(s): 0 
Gene Names: B0I71DRAFT_38716
UniProt
Find proteins for Q6C935 (Yarrowia lipolytica (strain CLIB 122 / E 150))
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Go to UniProtKB:  Q6C935
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UniProt GroupQ6C935
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
complex I assembly factor CIA84D [auth C]852Yarrowia lipolyticaMutation(s): 0 
UniProt
Find proteins for Q6CG31 (Yarrowia lipolytica (strain CLIB 122 / E 150))
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Go to UniProtKB:  Q6CG31
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UniProt GroupQ6CG31
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  • Reference Sequence
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Tafazzin family proteinE [auth T]372Yarrowia lipolyticaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q6CBZ7 (Yarrowia lipolytica (strain CLIB 122 / E 150))
Explore Q6CBZ7 
Go to UniProtKB:  Q6CBZ7
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UniProt GroupQ6CBZ7
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  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
FME
Query on FME
A [auth 2]L-PEPTIDE LINKINGC6 H11 N O3 SMET
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.15 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX
RECONSTRUCTIONcryoSPARC3.3.1

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research Foundation (DFG)GermanyZI 552/4-2

Revision History  (Full details and data files)

  • Version 1.0: 2022-11-23
    Type: Initial release
  • Version 1.1: 2022-11-30
    Changes: Data collection, Database references, Structure summary