8BQS | pdb_00008bqs

Cryo-EM structure of the I-II-III2-IV2 respiratory supercomplex from Tetrahymena thermophila


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Structural basis of mitochondrial membrane bending by the I-II-III 2 -IV 2 supercomplex.

Muhleip, A.Flygaard, R.K.Baradaran, R.Haapanen, O.Gruhl, T.Tobiasson, V.Marechal, A.Sharma, V.Amunts, A.

(2023) Nature 615: 934-938

  • DOI: https://doi.org/10.1038/s41586-023-05817-y
  • Primary Citation of Related Structures:  
    8B6F, 8B6G, 8B6H, 8B6J, 8BQS

  • PubMed Abstract: 

    Mitochondrial energy conversion requires an intricate architecture of the inner mitochondrial membrane 1 . Here we show that a supercomplex containing all four respiratory chain components contributes to membrane curvature induction in ciliates. We report cryo-electron microscopy and cryo-tomography structures of the supercomplex that comprises 150 different proteins and 311 bound lipids, forming a stable 5.8-MDa assembly. Owing to subunit acquisition and extension, complex I associates with a complex IV dimer, generating a wedge-shaped gap that serves as a binding site for complex II. Together with a tilted complex III dimer association, it results in a curved membrane region. Using molecular dynamics simulations, we demonstrate that the divergent supercomplex actively contributes to the membrane curvature induction and tubulation of cristae. Our findings highlight how the evolution of protein subunits of respiratory complexes has led to the I-II-III 2 -IV 2 supercomplex that contributes to the shaping of the bioenergetic membrane, thereby enabling its functional specialization.


  • Organizational Affiliation

    Science for Life Laboratory, Department of Biochemistry and Biophysics, Stockholm University, Solna, Sweden.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Lipid-A-disaccharide synthaseA [auth A0]516Tetrahymena thermophila SB210Mutation(s): 0 
EC: 2.4.1.182
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
NAD-dependent epimerase/dehydratase family proteinB [auth A1]362Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
DnaJ domain proteinC [auth A2]317Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Acyl-CoA synthetase (AMP-forming)/AMP-acid ligase IID [auth A3]333Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
RNase III domain-containing proteinE [auth A4]311Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
37S ribosomal protein S25, mitochondrialF [auth A5]282Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeG [auth A6]251Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
CX9C domain-containing proteinH [auth A7]238Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
ND5aI [auth A8]217Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeJ [auth A9]231Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase subunit 5K [auth AA]750Tetrahymena thermophila SB210Mutation(s): 0 
EC: 1.6.5.3
Membrane Entity: Yes 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
NADH-ubiquinone oxidoreductase 75 kDa subunitL [auth AB]718Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
NADH-ubiquinone oxidoreductase chain 4M [auth AC]505Tetrahymena thermophila SB210Mutation(s): 0 
EC: 7.1.1.2
Membrane Entity: Yes 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrialN [auth AD]474Tetrahymena thermophila SB210Mutation(s): 0 
EC: 7.1.1.2
Membrane Entity: Yes 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase subunit 7O [auth AE]442Tetrahymena thermophila SB210Mutation(s): 0 
EC: 1.6.5.3
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Ymf65P [auth AF]360Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription factor apfi protein, putativeQ [auth AG]346Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
NADH-ubiquinone oxidoreductase chain 1R [auth AH]284Tetrahymena thermophila SB210Mutation(s): 0 
EC: 7.1.1.2
Membrane Entity: Yes 
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
NADH-ubiquinone oxidoreductase 24 kDa subunitS [auth AI]274Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
Ymf62T [auth AJ]255Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
Gamma-carbonic anhydraseU [auth AK]257Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
NADH-ubiquinone oxidoreductase 1, chain, putativeV [auth AL]236Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
Gamma-carbonic anhydraseW [auth AM]233Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
ETC complex I subunit motif proteinX [auth AN]206Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase subunit 9Y [auth AO]198Tetrahymena thermophila SB210Mutation(s): 0 
EC: 1.6.5.3
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12Z [auth AP]194Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrialAA [auth AQ]189Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrialBA [auth AR]185Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase, putativeCA [auth AS]172Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase subunit 10DA [auth AT]162Tetrahymena thermophila SB210Mutation(s): 0 
EC: 1.6.5.3
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
NADH-ubiquinone oxidoreductase complex I, 21 kDa subunitEA [auth AU]150Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
Acyl carrier proteinFA [auth AV]138Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
Acyl carrier proteinGA [auth AW]133Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
NADH-ubiquinone oxidoreductase chain 3HA [auth AX]121Tetrahymena thermophila SB210Mutation(s): 0 
EC: 7.1.1.2
Membrane Entity: Yes 
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
Ymf58IA [auth AY]116Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L51/S25/CI-B8 domain proteinJA [auth AZ]103Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeKA [auth B0]94Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit e, mitochondrialLA [auth B1]93Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
GRAM domain proteinMA [auth B2]94Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeNA [auth B3]83Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeOA [auth B4]73Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativePA [auth B5]71Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase subunit 1QA [auth B6]59Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane proteinRA [auth BA]212Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeSA [auth BB]214Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
NDUB8TA [auth BC]207Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeUA [auth BD]205Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
NDUPH2VA [auth BE]189Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
NDUB10WA [auth BF]188Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
NDUA13XA [auth BG]175Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase subunit 2YA [auth BH]178Tetrahymena thermophila SB210Mutation(s): 0 
EC: 1.6.5.3
Membrane Entity: Yes 
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
2 iron, 2 sulfur cluster-binding proteinZA [auth BI]172Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
ThioredoxinAB [auth BJ]166Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
COX assembly mitochondrial proteinBB [auth BK]144Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeCB [auth BL]143Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeDB [auth BM]135Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 57
MoleculeChains Sequence LengthOrganismDetailsImage
PH domain-containing proteinEB [auth BN]135Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 58
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8FB [auth BO]136Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 59
MoleculeChains Sequence LengthOrganismDetailsImage
NDUB6GB [auth BP]129Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 60
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4HB [auth BQ]127Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 61
MoleculeChains Sequence LengthOrganismDetailsImage
Zinc-finger proteinIB [auth BR]132Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 62
MoleculeChains Sequence LengthOrganismDetailsImage
NDUB4JB [auth BS]126Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 63
MoleculeChains Sequence LengthOrganismDetailsImage
NDUTT10KB [auth BT]125Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 64
MoleculeChains Sequence LengthOrganismDetailsImage
NDUTT11LB [auth BU]134Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 65
MoleculeChains Sequence LengthOrganismDetailsImage
NDUTT12MB [auth BV]125Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 66
MoleculeChains Sequence LengthOrganismDetailsImage
CHCH domain-containing proteinNB [auth BW]120Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 67
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeOB [auth BX]113Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 68
MoleculeChains Sequence LengthOrganismDetailsImage
Ymf57PB [auth BY]100Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 69
MoleculeChains Sequence LengthOrganismDetailsImage
Complex I-MNLLQB [auth BZ]102Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 70
MoleculeChains Sequence LengthOrganismDetailsImage
Diphthamide synthesis proteinRB [auth CH]195Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 71
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeSB [auth CM]76Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 72
MoleculeChains Sequence LengthOrganismDetailsImage
TransposaseTB [auth CL]89Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 73
MoleculeChains Sequence LengthOrganismDetailsImage
Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrialUB [auth CA]636Tetrahymena thermophila SB210Mutation(s): 0 
EC: 1.3.5.1
Membrane Entity: Yes 
UniProt
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Entity ID: 74
MoleculeChains Sequence LengthOrganismDetailsImage
DUF4885 domain-containing proteinVB [auth CI]114Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 75
MoleculeChains Sequence LengthOrganismDetailsImage
succinate dehydrogenaseWB [auth CB]312Tetrahymena thermophila SB210Mutation(s): 0 
EC: 1.3.5.1
UniProt
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Entity ID: 76
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeXB [auth CF]296Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 77
MoleculeChains Sequence LengthOrganismDetailsImage
chain 77YB [auth CG]198Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 78
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeZB [auth CK]93Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 79
MoleculeChains Sequence LengthOrganismDetailsImage
NmrA domain-containing proteinAC [auth CE]322Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 80
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeBC [auth CJ]103Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 81
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeCC [auth CN]62Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 82
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane proteinDC [auth CC]60Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 83
MoleculeChains Sequence LengthOrganismDetailsImage
SDHTT11EC [auth CO]46Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 84
MoleculeChains Sequence LengthOrganismDetailsImage
succinate dehydrogenase complex iron-sulfur subunit DFC [auth CD]44Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 85
MoleculeChains Sequence LengthOrganismDetailsImage
Peptidase M16 inactive domain proteinGC [auth A],
SC [auth a]
513Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 86
MoleculeChains Sequence LengthOrganismDetailsImage
M16 family peptidase, putativeHC [auth B],
TC [auth b]
482Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 87
MoleculeChains Sequence LengthOrganismDetailsImage
Apocytochrome bIC [auth C],
UC [auth c]
426Tetrahymena thermophila SB210Mutation(s): 0 
EC: 1.10.2.2
Membrane Entity: Yes 
UniProt
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Entity ID: 88
MoleculeChains Sequence LengthOrganismDetailsImage
Cytochrome protein c1JC [auth D],
VC [auth d]
319Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 89
MoleculeChains Sequence LengthOrganismDetailsImage
Rieske iron-sulfur protein, ubiquinol-cytochrome C reductase iron-sulfur subunitKC [auth E],
WC [auth e]
269Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
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Entity ID: 90
MoleculeChains Sequence LengthOrganismDetailsImage
Ubiquinol-cytochrome C reductase hinge proteinLC [auth F],
XC [auth f]
86Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 91
MoleculeChains Sequence LengthOrganismDetailsImage
UQCRTT1MC [auth G],
YC [auth g]
328Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 92
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeNC [auth H],
ZC [auth h]
130Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 93
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeAD [auth i],
OC [auth I]
119Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 94
MoleculeChains Sequence LengthOrganismDetailsImage
UQCRTT3DD [auth j],
PC [auth J]
66Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 95
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeBD [auth k],
QC [auth K]
62Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 96
MoleculeChains Sequence LengthOrganismDetailsImage
UQCRTT2CD [auth l],
RC [auth L]
41Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 97
MoleculeChains Sequence LengthOrganismDetailsImage
Cytochrome c oxidase subunit 1ED [auth DA],
EF [auth Da]
688Tetrahymena thermophila SB210Mutation(s): 1 
EC: 7.1.1.9
Membrane Entity: Yes 
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Entity ID: 98
MoleculeChains Sequence LengthOrganismDetailsImage
Cytochrome c oxidase subunit 2FD [auth DB],
FF [auth Db]
604Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 99
MoleculeChains Sequence LengthOrganismDetailsImage
Ymf68GD [auth DC],
GF [auth Dc]
594Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 100
MoleculeChains Sequence LengthOrganismDetailsImage
Cytochrome C oxidase subunit Vb proteinHD [auth DD],
HF [auth Dd]
637Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 101
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeID [auth DE],
IF [auth De]
130Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 102
MoleculeChains Sequence LengthOrganismDetailsImage
Structural proteinJD [auth DF],
JF [auth Df]
230Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 103
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeKD [auth DG],
KF [auth Dg]
103Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 104
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeLD [auth DH],
LF [auth Dh]
134Tetrahymena thermophila SB210Mutation(s): 1 
Membrane Entity: Yes 
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Entity ID: 105
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrialMD [auth DI],
MF [auth Di]
236Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 106
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeND [auth DJ],
NF [auth Dj]
220Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 107
MoleculeChains Sequence LengthOrganismDetailsImage
CTF/NF-I domain-containing proteinOD [auth DK],
OF [auth Dk]
990Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 108
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativePD [auth DM],
PF [auth Dm]
490Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 109
MoleculeChains Sequence LengthOrganismDetailsImage
Ymf67QD [auth DN],
QF [auth Dn]
453Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 110
MoleculeChains Sequence LengthOrganismDetailsImage
Protein phosphatase 2C, putativeRD [auth DO],
RF [auth Do]
473Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 111
MoleculeChains Sequence LengthOrganismDetailsImage
SURF1-like proteinSD [auth DP],
SF [auth Dp]
402Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 112
MoleculeChains Sequence LengthOrganismDetailsImage
TraB family proteinTD [auth DQ],
TF [auth Dq]
386Tetrahymena thermophila SB210Mutation(s): 1 
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Entity ID: 113
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeUD [auth DR],
UF [auth Dr]
348Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 114
MoleculeChains Sequence LengthOrganismDetailsImage
Oxoglutarate/malate translocator protein, putativeVD [auth DS],
VF [auth Ds]
347Tetrahymena thermophila SB210Mutation(s): 1 
Membrane Entity: Yes 
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Entity ID: 115
MoleculeChains Sequence LengthOrganismDetailsImage
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8, mitochondrialWD [auth DT],
WF [auth Dt]
318Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 116
MoleculeChains Sequence LengthOrganismDetailsImage
Carrier proteinXD [auth DU],
XF [auth Du]
330Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 117
MoleculeChains Sequence LengthOrganismDetailsImage
2-oxoglutarate/malate carrier proteinYD [auth DV],
YF [auth Dv]
319Tetrahymena thermophila SB210Mutation(s): 1 
Membrane Entity: Yes 
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Entity ID: 118
MoleculeChains Sequence LengthOrganismDetailsImage
SURF1-like proteinZD [auth DW],
ZF [auth Dw]
318Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 119
MoleculeChains Sequence LengthOrganismDetailsImage
COXTT9AE [auth DX],
AG [auth Dx]
252Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 120
MoleculeChains Sequence LengthOrganismDetailsImage
COXTT10BE [auth DY],
BG [auth Dy]
234Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 121
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L9, mitochondrialCE [auth DZ],
CG [auth Dz]
231Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 122
MoleculeChains Sequence LengthOrganismDetailsImage
COXTT12,Transmembrane protein,Transmembrane protein,Transmembrane proteinDE [auth EA],
DG [auth Ea]
215Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 123
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeEE [auth EB],
EG [auth Eb]
210Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 124
MoleculeChains Sequence LengthOrganismDetailsImage
COXTT27FE [auth EC],
FG [auth Ec]
212Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 125
MoleculeChains Sequence LengthOrganismDetailsImage
Ymf75GE [auth ED],
GG [auth Ed]
190Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 126
MoleculeChains Sequence LengthOrganismDetailsImage
Mobilization proteinHE [auth EE],
HG [auth Ee]
193Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 127
MoleculeChains Sequence LengthOrganismDetailsImage
Iron-binding zinc finger CDGSH type proteinIE [auth EF],
IG [auth Ef]
188Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 128
MoleculeChains Sequence LengthOrganismDetailsImage
COXTT28JE [auth EG],
JG [auth Eg]
100Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 129
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeKE [auth EH],
KG [auth Eh]
174Tetrahymena thermophila SB210Mutation(s): 1 
Membrane Entity: Yes 
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Entity ID: 130
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane proteinLE [auth EI],
LG [auth Ei]
173Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 131
MoleculeChains Sequence LengthOrganismDetailsImage
Decapping nucleaseME [auth EV],
MG [auth Ev]
89Tetrahymena thermophila SB210Mutation(s): 1 
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Entity ID: 132
MoleculeChains Sequence LengthOrganismDetailsImage
Complex III subunit VIINE [auth EK],
NG [auth Ek]
170Tetrahymena thermophila SB210Mutation(s): 0 
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Entity ID: 133
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeOE [auth EL],
OG [auth El]
158Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 134
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativePE [auth EM],
PG [auth Em]
154Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 135
MoleculeChains Sequence LengthOrganismDetailsImage
COXTT22QE [auth EN],
QG [auth En]
149Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
Find proteins for I7MFV5 (Tetrahymena thermophila (strain SB210))
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UniProt GroupI7MFV5
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Entity ID: 136
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeRE [auth EO],
RG [auth Eo]
124Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q23TE5 (Tetrahymena thermophila (strain SB210))
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Entity ID: 137
MoleculeChains Sequence LengthOrganismDetailsImage
Phage proteinSE [auth EP],
SG [auth Ep]
127Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
Find proteins for Q24C97 (Tetrahymena thermophila (strain SB210))
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Entity ID: 138
MoleculeChains Sequence LengthOrganismDetailsImage
Transmembrane protein, putativeTE [auth EQ],
TG [auth Eq]
123Tetrahymena thermophila SB210Mutation(s): 1 
Membrane Entity: Yes 
UniProt
Find proteins for Q22W32 (Tetrahymena thermophila (strain SB210))
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Entity ID: 139
MoleculeChains Sequence LengthOrganismDetailsImage
LysozymeUE [auth ER],
UG [auth Er]
105Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
Find proteins for I7M9E7 (Tetrahymena thermophila (strain SB210))
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Entity ID: 140
MoleculeChains Sequence LengthOrganismDetailsImage
Ymf70VE [auth ES],
VG [auth Es]
89Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q950Y0 (Tetrahymena thermophila)
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Entity ID: 141
MoleculeChains Sequence LengthOrganismDetailsImage
Zf-Tim10_DDP domain-containing proteinWE [auth ET],
WG [auth Et]
93Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
Find proteins for Q231A8 (Tetrahymena thermophila (strain SB210))
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Entity ID: 142
MoleculeChains Sequence LengthOrganismDetailsImage
ABC transporterXE [auth EU],
XG [auth Eu]
90Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
Find proteins for I7LTF1 (Tetrahymena thermophila (strain SB210))
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Entity ID: 143
MoleculeChains Sequence LengthOrganismDetailsImage
YflT domain-containing proteinYE [auth EJ],
YG [auth Ej]
175Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
Find proteins for I7M8Y9 (Tetrahymena thermophila (strain SB210))
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Entity ID: 144
MoleculeChains Sequence LengthOrganismDetailsImage
Cullin domain-containing proteinZE [auth EW],
ZG [auth Ew]
81Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
Find proteins for Q22N23 (Tetrahymena thermophila (strain SB210))
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Entity ID: 145
MoleculeChains Sequence LengthOrganismDetailsImage
Zf-Tim10_DDP domain-containing proteinAF [auth EX],
AH [auth Ex]
72Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
Find proteins for W7XDM6 (Tetrahymena thermophila (strain SB210))
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Entity ID: 146
MoleculeChains Sequence LengthOrganismDetailsImage
AnnexinBF [auth EY],
BH [auth Ey]
72Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
Find proteins for Q233U0 (Tetrahymena thermophila (strain SB210))
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Entity ID: 147
MoleculeChains Sequence LengthOrganismDetailsImage
TransposaseCF [auth EZ],
CH [auth Ez]
68Tetrahymena thermophila SB210Mutation(s): 0 
UniProt
Find proteins for Q22A35 (Tetrahymena thermophila (strain SB210))
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Entity ID: 148
MoleculeChains Sequence LengthOrganismDetailsImage
Tim10/DDP family zinc finger proteinDF [auth FA],
DH [auth Fa]
72Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for W7X3D6 (Tetrahymena thermophila (strain SB210))
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Entity ID: 149
MoleculeChains Sequence LengthOrganismDetailsImage
Chromosome condensation regulator RCC1 repeat protein,Chromosome condensation regulator RCC1 repeat protein,Chromosome condensation regulator RCC1 repeat protein,Chromosome condensation regulator RCC1 repeat protein,chain 150EH [auth Dl],
FH [auth DL]
462Tetrahymena thermophila SB210Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q22RF2 (Tetrahymena thermophila (strain SB210))
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Small Molecules
Ligands 24 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
CDL (Subject of Investigation/LOI)
Query on CDL

Download Ideal Coordinates CCD File 
AO [auth DJ]
AP [auth DS]
AQ [auth EB]
AT [auth Dn]
AU [auth Dv]
CARDIOLIPIN
C81 H156 O17 P2
XVTUQDWPJJBEHJ-KZCWQMDCSA-L
HEA (Subject of Investigation/LOI)
Query on HEA

Download Ideal Coordinates CCD File 
HR [auth Da],
IR [auth Da],
QM [auth DA],
RM [auth DA]
HEME-A
C49 H56 Fe N4 O6
ZGGYGTCPXNDTRV-PRYGPKJJSA-L
PC1 (Subject of Investigation/LOI)
Query on PC1

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AI [auth AA]
AJ [auth AM]
AN [auth DB]
BI [auth AA]
BQ [auth EB]
1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE
C44 H88 N O8 P
NRJAVPSFFCBXDT-HUESYALOSA-N
FAD (Subject of Investigation/LOI)
Query on FAD

Download Ideal Coordinates CCD File 
HK [auth CA]FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
3PE (Subject of Investigation/LOI)
Query on 3PE

Download Ideal Coordinates CCD File 
AK [auth BT]
AR [auth EO]
CS [auth Dd]
GN [auth DC]
HN [auth DC]
1,2-Distearoyl-sn-glycerophosphoethanolamine
C41 H82 N O8 P
LVNGJLRDBYCPGB-LDLOPFEMSA-N
NDP
Query on NDP

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LH [auth A1]NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
C21 H30 N7 O17 P3
ACFIXJIJDZMPPO-NNYOXOHSSA-N
UQ8 (Subject of Investigation/LOI)
Query on UQ8

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EQ [auth ED]
GM [auth c]
KL [auth C]
LL [auth C]
NV [auth El]
Ubiquinone-8
C49 H74 O4
ICFIZJQGJAJRSU-SGHXUWJISA-N
LPP (Subject of Investigation/LOI)
Query on LPP

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CT [auth Dn]
DT [auth Dn]
LI [auth AC]
LO [auth DN]
LQ [auth EI]
2-(HEXADECANOYLOXY)-1-[(PHOSPHONOOXY)METHYL]ETHYL HEXADECANOATE
C35 H69 O8 P
PORPENFLTBBHSG-MGBGTMOVSA-N
HEC (Subject of Investigation/LOI)
Query on HEC

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IM [auth d],
NL [auth D],
PK [auth CE]
HEME C
C34 H34 Fe N4 O4
HXQIYSLZKNYNMH-LJNAALQVSA-N
HEM (Subject of Investigation/LOI)
Query on HEM

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AL [auth C]
AM [auth c]
BL [auth C]
BM [auth c]
DQ [auth ED]
PROTOPORPHYRIN IX CONTAINING FE
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
8Q1
Query on 8Q1

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EJ [auth AS]S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate
C23 H45 N2 O8 P S
MVHUOSAYFQKAMT-NRFANRHFSA-N
ATP
Query on ATP

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ER,
XV [auth Er]
ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
FMN (Subject of Investigation/LOI)
Query on FMN

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OI [auth AD]FLAVIN MONONUCLEOTIDE
C17 H21 N4 O9 P
FVTCRASFADXXNN-SCRDCRAPSA-N
ADP
Query on ADP

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CJ [auth AQ],
TH [auth A8]
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
UDP
Query on UDP

Download Ideal Coordinates CCD File 
IH [auth A0]URIDINE-5'-DIPHOSPHATE
C9 H14 N2 O12 P2
XCCTYIAWTASOJW-XVFCMESISA-N
SF4 (Subject of Investigation/LOI)
Query on SF4

Download Ideal Coordinates CCD File 
FJ [auth AT]
HI [auth AB]
II [auth AB]
JK [auth CB]
NI [auth AD]
IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-UHFFFAOYSA-N
F3S (Subject of Investigation/LOI)
Query on F3S

Download Ideal Coordinates CCD File 
KK [auth CB]FE3-S4 CLUSTER
Fe3 S4
FCXHZBQOKRZXKS-UHFFFAOYSA-N
FES (Subject of Investigation/LOI)
Query on FES

Download Ideal Coordinates CCD File 
CV [auth Ef]
DV [auth Ef]
GI [auth AB]
HQ [auth EF]
IK [auth CB]
FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
CUA (Subject of Investigation/LOI)
Query on CUA

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PR [auth Db],
ZM [auth DB]
DINUCLEAR COPPER ION
Cu2
ALKZAGKDWUSJED-UHFFFAOYSA-N
ZN
Query on ZN

Download Ideal Coordinates CCD File 
AS [auth Dd],
KN [auth DD],
XJ [auth BR]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
CU (Subject of Investigation/LOI)
Query on CU

Download Ideal Coordinates CCD File 
JR [auth Da],
SM [auth DA]
COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
CA
Query on CA

Download Ideal Coordinates CCD File 
GK [auth CA],
GR [auth Da],
LK [auth CB],
PM [auth DA]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
K
Query on K

Download Ideal Coordinates CCD File 
JN [auth DD]POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
MG
Query on MG

Download Ideal Coordinates CCD File 
JH [auth A0],
KR [auth Da],
TM [auth DA],
UH [auth A8]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Modified Residues  2 Unique
IDChains TypeFormula2D DiagramParent
SEP
Query on SEP
HD [auth DD],
HF [auth Dd]
L-PEPTIDE LINKINGC3 H8 N O6 PSER
TPO
Query on TPO
HD [auth DD],
HF [auth Dd]
L-PEPTIDE LINKINGC4 H10 N O6 PTHR
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.20.1_4487

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
The Swedish Foundation for Strategic ResearchSwedenFFL15:0325
CancerfondenSweden2017/1041
European Research Council (ERC)European UnionERC-2018-StG-805230
Knut and Alice Wallenberg FoundationSweden2018.0080

Revision History  (Full details and data files)

  • Version 1.0: 2023-08-23
    Type: Initial release
  • Version 2.0: 2025-02-19
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Polymer sequence, Source and taxonomy, Structure summary