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- EMDB-4496: Ovine respiratory supercomplex I+III2 open class 3 -

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Basic information

Entry
Database: EMDB / ID: EMD-4496
TitleOvine respiratory supercomplex I+III2 open class 3
Map data
SampleOvine mitochondrial respiratory supercomplex I+III2
  • UQCRC1
  • (Ubiquinol-cytochrome c reductase ...) x 2
  • Cytochrome b
  • Cytochrome c1
  • (Cytochrome b-c1 complex subunit ...) x 2
  • UQCRB
  • UQCRFS1N
  • Ubiquinol-cytochrome c reductase, complex III subunit X
  • (NADH-ubiquinone oxidoreductase chain ...) x 7
  • NDUFA11
  • (NADH:ubiquinone oxidoreductase subunit ...) x 11
  • Acyl carrier protein
  • (NADH dehydrogenase [ubiquinone] 1 ...) x 6
  • NDUFB10
  • NDUFA13
  • NDUFB6
  • NDUFB11
  • NDUFC1
  • NDUFB1
  • NDUFA1NADH dehydrogenase (ubiquinone), alpha 1
  • NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial
  • NDUFV2
  • (NADH:ubiquinone oxidoreductase core subunit ...) x 2
  • NDUFS2
  • NDUFS7
  • NDUFS8
  • NDUFV3
  • NDUFS6
  • NDUFA5
  • NDUFA7
  • (ligand) x 9
Function / homology
Function and homology information


subthalamus development / pons development / respiratory chain complex III / cerebellar Purkinje cell layer development / pyramidal neuron development / mitochondrial respiratory chain complex III assembly / mitochondrial respiratory chain complex III / blastocyst hatching / NADH dehydrogenase activity / thalamus development ...subthalamus development / pons development / respiratory chain complex III / cerebellar Purkinje cell layer development / pyramidal neuron development / mitochondrial respiratory chain complex III assembly / mitochondrial respiratory chain complex III / blastocyst hatching / NADH dehydrogenase activity / thalamus development / NADH:ubiquinone reductase (H+-translocating) / cellular respiration / quinol-cytochrome-c reductase / mitochondrial respiratory chain complex IV / ubiquinol-cytochrome-c reductase activity / protein lipoylation / mitochondrial respiratory chain complex I / mitochondrial ATP synthesis coupled electron transport / mitochondrial respiratory chain complex I assembly / mitochondrial electron transport, NADH to ubiquinone / ATP synthesis coupled electron transport / NADH dehydrogenase (ubiquinone) activity / mitochondrial electron transport, ubiquinol to cytochrome c / mitochondrial large ribosomal subunit / midbrain development / electron transport chain / hypothalamus development / apoptotic mitochondrial changes / reactive oxygen species metabolic process / respirasome / respiratory electron transport chain / negative regulation of intrinsic apoptotic signaling pathway / response to cAMP / regulation of mitochondrial membrane potential / regulation of protein phosphorylation / hippocampus development / 2 iron, 2 sulfur cluster binding / positive regulation of fibroblast proliferation / mitochondrial intermembrane space / negative regulation of cell growth / circadian rhythm / fatty acid biosynthetic process / NAD binding / 4 iron, 4 sulfur cluster binding / FMN binding / brain development / mitochondrial inner membrane / response to oxidative stress / nuclear body / electron transfer activity / mitochondrial matrix / oxidoreductase activity / proteolysis / protein-containing complex binding / heme binding / integral component of membrane / nucleoplasm / metal ion binding / cytosol
Similarity search - Function
MNLL subunit / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1, NDUB1 / Ubiquinol-cytochrome c reductase 8kDa, N-terminal / Ubiquinol-cytochrome c reductase 8 kDa, N-terminal / NADH:ubiquinone oxidoreductase subunit B14.5a (Complex I-B14.5a) / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7 / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, metazoa / NADH dehydrogenase 1 beta subcomplex subunit 2 / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, animal type / Globular protein, non-globular alpha/beta subunit ...MNLL subunit / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1, NDUB1 / Ubiquinol-cytochrome c reductase 8kDa, N-terminal / Ubiquinol-cytochrome c reductase 8 kDa, N-terminal / NADH:ubiquinone oxidoreductase subunit B14.5a (Complex I-B14.5a) / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7 / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, metazoa / NADH dehydrogenase 1 beta subcomplex subunit 2 / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, animal type / Globular protein, non-globular alpha/beta subunit / Cytochrome b-c1 complex, subunit 6 / NADH-ubiquinone oxidoreductase subunit b14.5b (NDUFC2) / NADH-ubiquinone oxidoreductase B15 subunit (NDUFB4) / NADH dehydrogenase [ubiquinone] 1 subunit C2, NDUC2 / ESSS subunit of NADH:ubiquinone oxidoreductase (complex I) / NADH:ubiquinone oxidoreductase, subunit NDUFB4 / NADH:ubiquinone oxidoreductase, ESSS subunit / NADH:ubiquinone oxidoreductase, NDUFB6/B17 subunit / NADH dehydrogenase 1, beta subcomplex, subunit 6 / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3 / NADH-ubiquinone oxidoreductase chain 4, amino terminus / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial / NADH:ubiquinone oxidoreductase, NDUFB5/SGDH subunit / NADH:ubiquinone oxidoreductase chain 4, N-terminal / NADH dehydrogenase subunit 2, C-terminal / NADH dehydrogenase subunit 2 C-terminus / NADH dehydrogenase 1 alpha subcomplex subunit 3 / NADH:ubiquinone oxidoreductase, chain 2 / NADH:ubiquinone oxidoreductase, NDUFB5/SGDH subunit / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8 / NADH-ubiquinone oxidoreductase ASHI subunit (CI-ASHI or NDUFB8) / NADH dehydrogenase subunit 5, C-terminal / NADH dehydrogenase subunit 5 C-terminus / Cytochrome b-c1 complex subunit 8 / UcrQ family / Cytochrome bc1 complex subunit Rieske, transmembrane domain superfamily / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11 / NADH-ubiquinone oxidoreductase B12 subunit family / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3 / Ubiquinol-cytochrome C reductase hinge domain superfamily / Ubiquinol-cytochrome C reductase hinge protein / Ubiquinol-cytochrome C reductase hinge domain / Cytochrome b-c1 complex subunit 8 superfamily / Cytochrome b-c1 complex subunit 9 superfamily / Ubiquinol-cytochrome C reductase, UQCRX/QCR9 like / Cytochrome b-c1 complex subunit 9 / Ubiquinol cytochrome reductase transmembrane region / NADH-ubiquinone oxidoreductase B18 subunit (NDUFB7) / Cytochrome b-c1 complex subunit Rieske, transmembrane domain / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7, NDUB7 / NADH dehydrogenase ubiquinone Fe-S protein 4, mitochondrial / NADH dehydrogenase ubiquinone Fe-S protein 4 / NADH dehydrogenase ubiquinone Fe-S protein 4-like superfamily / Cytochrome c1, transmembrane anchor, C-terminal / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5 / ETC complex I subunit conserved region / NADH dehydrogenase [ubiquinone] (complex I), alpha subcomplex, subunit 6 / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 / NADH ubiquinone oxidoreductase subunit NDUFA12 / NADH dehydrogenase [ubiquinone] (complex I), alpha subcomplex, subunit 2 / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9 / NADH:ubiquinone oxidoreductase, iron-sulphur subunit 5 / NADH:ubiquinone oxidoreductase, NDUFS5-15kDa / NADH-ubiquinone oxidoreductase subunit G, C-terminal / NADH-quinone oxidoreductase, chain G, C-terminal / NADH dehydrogenase [ubiquinone] (complex I), alpha subcomplex, subunit 8 / Cytochrome b / Cytochrome c1 / Cytochrome C1 family / Ubiquinol-cytochrome c reductase, iron-sulphur subunit / Cytochrome b(C-terminal)/b6/petD / Cytochrome b/b6 C-terminal region profile. / Cytochrome b/b6, C-terminal / Cytochrome b/b6, C-terminal domain superfamily / Cytochrome b/b6/petB / NADH:ubiquinone oxidoreductase, subunit G / NADH ubiquinone oxidoreductase, F subunit / Respiratory-chain NADH dehydrogenase 75 Kd subunit signature 3. / NADH:ubiquinone oxidoreductase, 75kDa subunit, conserved site / Respiratory-chain NADH dehydrogenase 75 Kd subunit signature 2. / Respiratory-chain NADH dehydrogenase 75 Kd subunit signature 1. / Deoxynucleoside kinase / Deoxynucleoside kinase domain / NADH-ubiquinone oxidoreductase-G iron-sulfur binding region / NADH-ubiquinone oxidoreductase-G iron-sulfur binding region / NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ / NADH-quinone oxidoreductase, chain 5-like / NuoE domain / Respiratory-chain NADH dehydrogenase 24 Kd subunit signature. / NADH-quinone oxidoreductase, chain M/4 / NADH-ubiquinone/plastoquinone oxidoreductase, chain 3 / NADH:ubiquinone oxidoreductase, subunit 3 superfamily / NADH:ubiquinone/plastoquinone oxidoreductase, chain 3 / Respiratory chain NADH dehydrogenase 30 Kd subunit signature. / NADH-ubiquinone/plastoquinone oxidoreductase chain 6 / Cytochrome b/b6 N-terminal region profile. / NADH:ubiquinone oxidoreductase, 30kDa subunit, conserved site / Cytochrome b/b6-like domain superfamily / NADH-ubiquinone oxidoreductase chain 4L/K / Cytochrome b/b6, N-terminal
Similarity search - Domain/homology
Cytochrome c1, heme protein, mitochondrial / Complex I subunit B13 / Complex III subunit 8 / NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial / Complex I-AGGG / Complex I-ESSS / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 / Complex I-B17 / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial / Cytochrome b-c1 complex subunit 2, mitochondrial ...Cytochrome c1, heme protein, mitochondrial / Complex I subunit B13 / Complex III subunit 8 / NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial / Complex I-AGGG / Complex I-ESSS / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 / Complex I-B17 / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial / Cytochrome b-c1 complex subunit 2, mitochondrial / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial / Complex I-B12 / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 / NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial / Complex I-B22 / Complex I-B14 / Complex I-B15 / Complex I-15 kDa / Complex I-MNLL / NADH:ubiquinone oxidoreductase subunit A9 / Complex I-B18 / NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial / NADH-ubiquinone oxidoreductase chain 6 / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 / Cytochrome b-c1 complex subunit 6 / NADH-ubiquinone oxidoreductase chain 1 / NADH-ubiquinone oxidoreductase chain 2 / NADH-ubiquinone oxidoreductase chain 3 / NADH-ubiquinone oxidoreductase chain 4L / NADH-ubiquinone oxidoreductase chain 4 / NADH-ubiquinone oxidoreductase chain 5 / Cytochrome b / Complex I-30kD / Acyl carrier protein / NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial / Complex I-B9 / Complex I-B14.5a / Cytochrome b-c1 complex subunit Rieske, mitochondrial / Complex III subunit 9 / NADH dehydrogenase [ubiquinone] 1 subunit C2 / Complex I-B14.7 / Complex I-SGDH
Similarity search - Component
Biological speciesOvis aries (sheep) / Sheep (sheep)
Methodsingle particle reconstruction / cryo EM / Resolution: 4.6 Å
AuthorsLetts JA / Sazanov LA
Funding support Austria, 1 items
OrganizationGrant numberCountry
European Research Council701309 Austria
CitationJournal: Mol Cell / Year: 2019
Title: Structures of Respiratory Supercomplex I+III Reveal Functional and Conformational Crosstalk.
Authors: James A Letts / Karol Fiedorczuk / Gianluca Degliesposti / Mark Skehel / Leonid A Sazanov /
Abstract: The mitochondrial electron transport chain complexes are organized into supercomplexes (SCs) of defined stoichiometry, which have been proposed to regulate electron flux via substrate channeling. We ...The mitochondrial electron transport chain complexes are organized into supercomplexes (SCs) of defined stoichiometry, which have been proposed to regulate electron flux via substrate channeling. We demonstrate that CoQ trapping in the isolated SC I+III limits complex (C)I turnover, arguing against channeling. The SC structure, resolved at up to 3.8 Å in four distinct states, suggests that CoQ oxidation may be rate limiting because of unequal access of CoQ to the active sites of CIII. CI shows a transition between "closed" and "open" conformations, accompanied by the striking rotation of a key transmembrane helix. Furthermore, the state of CI affects the conformational flexibility within CIII, demonstrating crosstalk between the enzymes. CoQ was identified at only three of the four binding sites in CIII, suggesting that interaction with CI disrupts CIII symmetry in a functionally relevant manner. Together, these observations indicate a more nuanced functional role for the SCs.
History
DepositionDec 26, 2018-
Header (metadata) releaseAug 21, 2019-
Map releaseAug 21, 2019-
UpdateNov 25, 2020-
Current statusNov 25, 2020Processing site: PDBe / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.12
  • Imaged by UCSF Chimera
  • Download
  • Surface view colored by height
  • Surface level: 0.12
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: PDB-6qc4
  • Surface level: 0.12
  • Imaged by UCSF Chimera
  • Download
Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

Downloads & links

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Map

FileDownload / File: emd_4496.map.gz / Format: CCP4 / Size: 512 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.4 Å/pix.
x 512 pix.
= 716.8 Å
1.4 Å/pix.
x 512 pix.
= 716.8 Å
1.4 Å/pix.
x 512 pix.
= 716.8 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.4 Å
Density
Contour LevelBy AUTHOR: 0.12 / Movie #1: 0.12
Minimum - Maximum-0.16229534 - 0.7760351
Average (Standard dev.)0.00001550801 (±0.017845659)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions512512512
Spacing512512512
CellA=B=C: 716.8 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.41.41.4
M x/y/z512512512
origin x/y/z0.0000.0000.000
length x/y/z716.800716.800716.800
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS512512512
D min/max/mean-0.1620.7760.000

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Supplemental data

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Segmentation: #1

Fileemd_4496_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

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Half map: Ovine mitochondrial respiratory supercomplex I III2 open class...

Fileemd_4496_half_map_1.map
AnnotationOvine mitochondrial respiratory supercomplex I III2 open class 3. Half map 1.
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

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Half map: Ovine mitochondrial respiratory supercomplex I III2 open class...

Fileemd_4496_half_map_2.map
AnnotationOvine mitochondrial respiratory supercomplex I III2 open class 3. Half map 2.
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

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Sample components

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Entire Ovine mitochondrial respiratory supercomplex I+III2

EntireName: Ovine mitochondrial respiratory supercomplex I+III2
Details: Open class 3 from ovine mitochondrial respiratory SC I+III2
Number of Components: 64

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Component #1: protein, Ovine mitochondrial respiratory supercomplex I+III2

ProteinName: Ovine mitochondrial respiratory supercomplex I+III2
Details: Open class 3 from ovine mitochondrial respiratory SC I+III2
Recombinant expression: No
MassTheoretical: 1.4 MDa
SourceSpecies: Ovis aries (sheep)
Source (natural)Organelle: Mitochondria / Location in cell: Mitochondrial inner membrane / Organ Or Tissue: Heart

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Component #2: protein, UQCRC1

ProteinName: UQCRC1 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 49.385414 kDa
SourceSpecies: Ovis aries (sheep)
Source (natural)Organ Or Tissue: heart

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Component #3: protein, Ubiquinol-cytochrome c reductase core protein 2

ProteinName: Ubiquinol-cytochrome c reductase core protein 2 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 46.655531 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #4: protein, Cytochrome b

ProteinName: Cytochrome b / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 42.87784 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #5: protein, Cytochrome c1

ProteinName: Cytochrome c1 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 27.322316 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #6: protein, Cytochrome b-c1 complex subunit Rieske, mitochondrial

ProteinName: Cytochrome b-c1 complex subunit Rieske, mitochondrial / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 21.654607 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #7: protein, UQCRB

ProteinName: UQCRB / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 13.432314 kDa
SourceSpecies: Ovis aries (sheep)
Source (natural)Organ Or Tissue: heart

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Component #8: protein, Ubiquinol-cytochrome c reductase complex III subunit VII

ProteinName: Ubiquinol-cytochrome c reductase complex III subunit VII
Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 9.606067 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #9: protein, Cytochrome b-c1 complex subunit 6

ProteinName: Cytochrome b-c1 complex subunit 6 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 9.223133 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #10: protein, UQCRFS1N

ProteinName: UQCRFS1N / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 6.656196 kDa
SourceSpecies: Ovis aries (sheep)
Source (natural)Organ Or Tissue: heart

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Component #11: protein, Ubiquinol-cytochrome c reductase, complex III subunit X

ProteinName: Ubiquinol-cytochrome c reductase, complex III subunit X
Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 7.310372 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #12: protein, NADH-ubiquinone oxidoreductase chain 3

ProteinName: NADH-ubiquinone oxidoreductase chain 3 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 13.10652 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #13: protein, NADH-ubiquinone oxidoreductase chain 1

ProteinName: NADH-ubiquinone oxidoreductase chain 1 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 35.884902 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #14: protein, NADH-ubiquinone oxidoreductase chain 6

ProteinName: NADH-ubiquinone oxidoreductase chain 6 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 19.126619 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #15: protein, NADH-ubiquinone oxidoreductase chain 4L

ProteinName: NADH-ubiquinone oxidoreductase chain 4L / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 10.840228 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #16: protein, NADH-ubiquinone oxidoreductase chain 5

ProteinName: NADH-ubiquinone oxidoreductase chain 5 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 68.410898 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #17: protein, NADH-ubiquinone oxidoreductase chain 4

ProteinName: NADH-ubiquinone oxidoreductase chain 4 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 52.058734 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #18: protein, NADH-ubiquinone oxidoreductase chain 2

ProteinName: NADH-ubiquinone oxidoreductase chain 2 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 39.149805 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #19: protein, NDUFA11

ProteinName: NDUFA11 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 14.610776 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #20: protein, NADH:ubiquinone oxidoreductase subunit B5

ProteinName: NADH:ubiquinone oxidoreductase subunit B5 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 16.714369 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #21: protein, Acyl carrier protein

ProteinName: Acyl carrier protein / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 10.119541 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #22: protein, NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8

ProteinName: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.008014 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #23: protein, NDUFB10

ProteinName: NDUFB10 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.880752 kDa
SourceSpecies: Ovis aries (sheep)
Source (natural)Organ Or Tissue: heart

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Component #24: protein, NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subun...

ProteinName: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 36.803762 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #25: protein, NADH:ubiquinone oxidoreductase subunit S5

ProteinName: NADH:ubiquinone oxidoreductase subunit S5 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 12.474397 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #26: protein, NADH:ubiquinone oxidoreductase subunit A3

ProteinName: NADH:ubiquinone oxidoreductase subunit A3 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 9.194655 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #27: protein, NADH:ubiquinone oxidoreductase subunit B3

ProteinName: NADH:ubiquinone oxidoreductase subunit B3 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 11.015482 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #28: protein, NADH dehydrogenase [ubiquinone] 1 subunit C2

ProteinName: NADH dehydrogenase [ubiquinone] 1 subunit C2 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 14.23142 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #29: protein, NADH:ubiquinone oxidoreductase subunit B4

ProteinName: NADH:ubiquinone oxidoreductase subunit B4 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 14.975999 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #30: protein, NDUFA13

ProteinName: NDUFA13 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 16.635264 kDa
SourceSpecies: Ovis aries (sheep)
Source (natural)Organ Or Tissue: heart

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Component #31: protein, NDUFB6

ProteinName: NDUFB6 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.433929 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #32: protein, NADH:ubiquinone oxidoreductase subunit B7

ProteinName: NADH:ubiquinone oxidoreductase subunit B7 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 14.645718 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #33: protein, NADH:ubiquinone oxidoreductase subunit B9

ProteinName: NADH:ubiquinone oxidoreductase subunit B9 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 21.648715 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #34: protein, NADH:ubiquinone oxidoreductase subunit B2

ProteinName: NADH:ubiquinone oxidoreductase subunit B2 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 8.500289 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #35: protein, NADH dehydrogenase [ubiquinone] 1 beta subcomplex subuni...

ProteinName: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 18.81807 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #36: protein, NDUFB11

ProteinName: NDUFB11 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 14.455033 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #37: protein, NDUFC1

ProteinName: NDUFC1 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 5.808645 kDa
SourceSpecies: Ovis aries (sheep)
Source (natural)Organ Or Tissue: heart

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Component #38: protein, NDUFB1

ProteinName: NDUFB1 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 6.930083 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #39: protein, NDUFA1

ProteinName: NDUFA1NADH dehydrogenase (ubiquinone), alpha 1 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 8.211519 kDa
SourceSpecies: Ovis aries (sheep)
Source (natural)Organ Or Tissue: heart

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Component #40: protein, NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial

ProteinName: NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 48.678281 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #41: protein, NDUFV2

ProteinName: NDUFV2 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 23.840428 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #42: protein, NADH:ubiquinone oxidoreductase core subunit S1

ProteinName: NADH:ubiquinone oxidoreductase core subunit S1 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 77.031156 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

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Component #43: protein, NDUFS2

ProteinName: NDUFS2 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 49.193273 kDa
SourceSpecies: Ovis aries (sheep)
Source (natural)Organ Or Tissue: heart

+
Component #44: protein, NADH:ubiquinone oxidoreductase core subunit S3

ProteinName: NADH:ubiquinone oxidoreductase core subunit S3 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 26.441793 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

+
Component #45: protein, NDUFS7

ProteinName: NDUFS7 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.104531 kDa
SourceSpecies: Ovis aries (sheep)
Source (natural)Organ Or Tissue: heart

+
Component #46: protein, NDUFS8

ProteinName: NDUFS8 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.219947 kDa
SourceSpecies: Ovis aries (sheep)
Source (natural)Organ Or Tissue: heart

+
Component #47: protein, NDUFV3

ProteinName: NDUFV3 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 8.423314 kDa
SourceSpecies: Ovis aries (sheep)
Source (natural)Organ Or Tissue: heart

+
Component #48: protein, NDUFS6

ProteinName: NDUFS6 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 10.651796 kDa
SourceSpecies: Ovis aries (sheep)
Source (natural)Organ Or Tissue: heart

+
Component #49: protein, NADH:ubiquinone oxidoreductase subunit S4

ProteinName: NADH:ubiquinone oxidoreductase subunit S4 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.3753 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

+
Component #50: protein, NADH:ubiquinone oxidoreductase subunit A9

ProteinName: NADH:ubiquinone oxidoreductase subunit A9 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 38.660488 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

+
Component #51: protein, NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2

ProteinName: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 10.966627 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

+
Component #52: protein, NDUFA5

ProteinName: NDUFA5 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 13.156311 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

+
Component #53: protein, NADH:ubiquinone oxidoreductase subunit A6

ProteinName: NADH:ubiquinone oxidoreductase subunit A6 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 14.923245 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

+
Component #54: protein, NDUFA7

ProteinName: NDUFA7 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 12.399201 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

+
Component #55: protein, NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12

ProteinName: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 17.115508 kDa
SourceSpecies: Sheep (sheep)
Source (natural)Organ Or Tissue: heart

+
Component #56: ligand, PROTOPORPHYRIN IX CONTAINING FE

LigandName: PROTOPORPHYRIN IX CONTAINING FE / Number of Copies: 4 / Recombinant expression: No
MassTheoretical: 0.616487 kDa

+
Component #57: ligand, HEME C

LigandName: HEME C / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 0.618503 kDa

+
Component #58: ligand, FE2/S2 (INORGANIC) CLUSTER

LigandName: FE2/S2 (INORGANIC) CLUSTER / Number of Copies: 4 / Recombinant expression: No
MassTheoretical: 0.17582 kDa

+
Component #59: ligand, 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE

LigandName: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 0.790145 kDa

+
Component #60: ligand, S-[2-({N-[(2S)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)but...

LigandName: S-[2-({N-[(2S)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] tetradecanethioate
Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 0.568704 kDa

+
Component #61: ligand, IRON/SULFUR CLUSTER

LigandName: IRON/SULFUR CLUSTERIron–sulfur cluster / Number of Copies: 6 / Recombinant expression: No
MassTheoretical: 0.35164 kDa

+
Component #62: ligand, FLAVIN MONONUCLEOTIDE

LigandName: FLAVIN MONONUCLEOTIDE / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 0.456344 kDa

+
Component #63: ligand, ZINC ION

LigandName: ZINC ION / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 6.540905 MDa

+
Component #64: ligand, NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

LigandName: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 0.745421 kDa

-
Experimental details

-
Sample preparation

SpecimenSpecimen State: Particle / Method: cryo EM
Sample solutionSpecimen conc.: 2 mg/mL
Buffer solution: 250 mM NaCl, 20 mM HEPES, pH 7.7, 0.02% Brij-35
pH: 7.4
VitrificationInstrument: FEI VITROBOT MARK IV / Cryogen Name: PROPANE / Temperature: 277 K / Humidity: 95 %
Details: blotting for 30 seconds at 4 degrees Celsius, 95% humidity and flash freezing.

-
Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
ImagingMicroscope: FEI TITAN KRIOS
Electron gunElectron Source: FIELD EMISSION GUN / Accelerating Voltage: 300 kV / Electron Dose: 51 e/Å2 / Illumination Mode: OTHER
LensMagnification: 100000 X (calibrated) / Imaging Mode: BRIGHT FIELD
Specimen HolderModel: FEI TITAN KRIOS AUTOGRID HOLDER
CameraDetector: FEI FALCON II (4k x 4k)

-
Image acquisition

Image acquisitionNumber of Digital Images: 1854

-
Image processing

ProcessingMethod: single particle reconstruction / Applied Symmetry: C1 (asymmetric) / Number of Projections: 14230
3D reconstructionSoftware: RELION / Resolution: 4.6 Å / Resolution Method: FSC 0.143 CUT-OFF
FSC plot (resolution estimation)

-
Atomic model buiding

Modeling #1Refinement space: REAL
Input PDB model: 1PPJ, 5LNK
Overall BValue: 90
Output model

+
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