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- EMDB-4356: Mouse mitochondrial complex I in the deactive state -

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Entry
Database: EMDB / ID: 4356
TitleMouse mitochondrial complex I in the deactive state
Map dataMouse mitochondrial complex I in the deactive state
SampleMitochondrial complex I from mouse in the deactive state
  • (NADH-ubiquinone oxidoreductase chain ...) x 7
  • (NADH dehydrogenase [ubiquinone] iron-sulfur protein ...) x 7
  • (NADH dehydrogenase [ubiquinone] flavoprotein ...) x 3
  • NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial
  • (NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit ...) x 12
  • Acyl carrier protein, mitochondrial
  • (NADH dehydrogenase [ubiquinone] 1 subunit ...) x 2
  • (NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit ...) x 11
  • (ligand) x 7
Function / homologyNADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial / NADH-quinone oxidoreductase, subunit D / NADH dehydrogenase 1, beta subcomplex, subunit 6 / NADH:ubiquinone oxidoreductase, NDUFB5/SGDH subunit / NADH:ubiquinone oxidoreductase chain 4, N-terminal / NADH:ubiquinone oxidoreductase, 75kDa subunit, conserved site / NADH:ubiquinone/plastoquinone oxidoreductase, chain 3 / 2Fe-2S ferredoxin-type iron-sulfur binding domain / NADH-ubiquinone oxidoreductase chain 4L/K / NADH:ubiquinone oxidoreductase, 30kDa subunit ...NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial / NADH-quinone oxidoreductase, subunit D / NADH dehydrogenase 1, beta subcomplex, subunit 6 / NADH:ubiquinone oxidoreductase, NDUFB5/SGDH subunit / NADH:ubiquinone oxidoreductase chain 4, N-terminal / NADH:ubiquinone oxidoreductase, 75kDa subunit, conserved site / NADH:ubiquinone/plastoquinone oxidoreductase, chain 3 / 2Fe-2S ferredoxin-type iron-sulfur binding domain / NADH-ubiquinone oxidoreductase chain 4L/K / NADH:ubiquinone oxidoreductase, 30kDa subunit / NADH:ubiquinone oxidoreductase, iron-sulphur subunit 5 / NADH:ubiquinone/plastoquinone oxidoreductase, chain 6 / NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminal / NADH:ubiquinone oxidoreductase, subunit 1/F420H2 oxidoreductase subunit H / NADH:quinone oxidoreductase/Mrp antiporter, membrane subunit / NADH:ubiquinone oxidoreductase, 51kDa subunit, conserved site / NADH-quinone oxidoreductase subunit E-like / Acyl carrier protein (ACP) / NADH:ubiquinone oxidoreductase, ESSS subunit / NADH-ubiquinone oxidoreductase, subunit 10 / NADH:ubiquinone oxidoreductase / P-loop containing nucleoside triphosphate hydrolase / ACP-like superfamily / NAD(P)-binding domain superfamily / Thioredoxin-like superfamily / 2Fe-2S ferredoxin-like superfamily / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9 / Deoxynucleoside kinase domain / [NiFe]-hydrogenase, large subunit / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2 / Zinc finger, CHCC-type / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3 / NADH-ubiquinone oxidoreductase flavoprotein 3 / NADH-ubiquinone oxidoreductase 1 subunit C1 / NAD(P)H-quinone oxidoreductase subunit D/H / NADH:ubiquinone oxidoreductase, 30kDa subunit, conserved site / NADH-ubiquinone oxidoreductase 51kDa subunit, iron-sulphur binding domain / NADH:ubiquinone oxidoreductase, subunit G, iron-sulphur binding / Soluble ligand binding domain / NADH:ubiquinone oxidoreductase, chain 2 / NADH-plastoquinone oxidoreductase, chain 5 / 4Fe-4S ferredoxin, iron-sulphur binding, conserved site / NADH-quinone oxidoreductase, chain G, C-terminal / NADH dehydrogenase subunit 2, C-terminal / NADH dehydrogenase subunit 5, C-terminal / NADH ubiquinone oxidoreductase, F subunit / NADH-ubiquinone oxidoreductase 51kDa subunit, FMN-binding domain / NADH:ubiquinone oxidoreductase, MNLL subunit / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3 / NADH:ubiquinone oxidoreductase, 49kDa subunit, conserved site / NADH:ubiquinone oxidoreductase, subunit 1, conserved site / NADH:ubiquinone oxidoreductase, subunit G / NAD(P)-binding domain / NADH dehydrogenase [ubiquinone] (complex I), alpha subcomplex, subunit 2 / NADH dehydrogenase [ubiquinone] (complex I), alpha subcomplex, subunit 6 / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, metazoa / NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial / NADH dehydrogenase [ubiquinone] (complex I), alpha subcomplex, subunit 8 / NADH dehydrogenase [ubiquinone] (complex I), alpha subcomplex subunit 1 / CHCH / NADH-quinone oxidoreductase, chain M/4 / NADH:ubiquinone oxidoreductase-like, 20kDa subunit / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 / NADH-ubiquinone oxidoreductase, 20 Kd subunit / Phosphopantetheine attachment site / Molybdopterin oxidoreductase / NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5 / NADH dehydrogenase ubiquinone Fe-S protein 4, mitochondrial / Molybdopterin oxidoreductase, 4Fe-4S domain / Ribosomal protein/NADH dehydrogenase domain / Complex 1 LYR protein / NADH-quinone oxidoreductase, chain I / NADH:ubiquinone oxidoreductase, B18 subunit / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8 / Phosphopantetheine binding ACP domain / GRIM-19 / NADH:ubiquinone oxidoreductase, subunit b14.5b / NADH:ubiquinone oxidoreductase, subunit NDUFB4 / NADH:ubiquinone oxidoreductase subunit B14.5a / NADH dehydrogenase, subunit C / NADH-ubiquinone oxidoreductase 51kDa subunit, iron-sulphur binding domain superfamily / NADH-ubiquinone oxidoreductase 51kDa subunit, FMN-binding domain superfamily / NADH:ubiquinone oxidoreductase, 30kDa subunit superfamily / NADH dehydrogenase 1 alpha subcomplex subunit 3 / Respiratory chain NADH dehydrogenase 30 Kd subunit signature. / Respiratory chain NADH dehydrogenase 49 Kd subunit signature. / 4Fe-4S ferredoxin-type iron-sulfur binding region signature. / Phosphopantetheine attachment site. / NADH dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial / NADH-ubiquinone oxidoreductase MWFE subunit / NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial / NADH dehydrogenase 1 beta subcomplex subunit 2 / Respiratory-chain NADH dehydrogenase 75 Kd subunit signature 2. / NAD(P)H-binding / 4Fe-4S dicluster domain / NADH-ubiquinone oxidoreductase-F iron-sulfur binding region / NADH-ubiquinone oxidoreductase-G iron-sulfur binding region / SLBB domain / Zinc-finger domain / NADH-ubiquinone oxidoreductase subunit 10
Function and homology information
SourceMus musculus (house mouse) / Mouse (mice)
Methodsingle particle reconstruction / cryo EM / 3.9 Å resolution
AuthorsAgip ANA / Blaza JN / Bridges HR / Viscomi C / Rawson S / Muench SP / Hirst J
CitationJournal: Nat. Struct. Mol. Biol. / Year: 2018
Title: Cryo-EM structures of complex I from mouse heart mitochondria in two biochemically defined states.
Authors: Ahmed-Noor A Agip / James N Blaza / Hannah R Bridges / Carlo Viscomi / Shaun Rawson / Stephen P Muench / Judy Hirst
Validation ReportPDB-ID: 6g72

SummaryFull reportAbout validation report
DateDeposition: Apr 4, 2018 / Header (metadata) release: Apr 18, 2018 / Map release: Jun 6, 2018 / Last update: Oct 3, 2018

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.075
  • Imaged by UCSF Chimera
  • Download
  • Surface view colored by height
  • Surface level: 0.075
  • Imaged by UCSF Chimera
  • Download
  • Surface view with fitted model
  • Atomic models: : PDB-6g72
  • Surface level: 0.075
  • Imaged by UCSF Chimera
  • Download
Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

Downloads & links

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Map

Fileemd_4356.map.gz (map file in CCP4 format, 192915 KB)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
364 pix
1.33 Å/pix.
= 484.12 Å
364 pix
1.33 Å/pix.
= 484.12 Å
364 pix
1.33 Å/pix.
= 484.12 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.33 Å
Density
Contour Level:0.075 (by author), 0.075 (movie #1):
Minimum - Maximum-0.12566118 - 0.51410264
Average (Standard dev.)-0.000022790258 (0.01230301)
Details

EMDB XML:

Space Group Number1
Map Geometry
Axis orderXYZ
Dimensions364364364
Origin0.00.00.0
Limit363.0363.0363.0
Spacing364364364
CellA=B=C: 484.12003 Å
α=β=γ: 90.0 deg.

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.331.331.33
M x/y/z364364364
origin x/y/z0.0000.0000.000
length x/y/z484.120484.120484.120
α/β/γ90.00090.00090.000
start NX/NY/NZ
NX/NY/NZ
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS364364364
D min/max/mean-0.1260.514-0.000

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Supplemental data

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Sample components

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Entire Mitochondrial complex I from mouse in the deactive state

EntireName: Mitochondrial complex I from mouse in the deactive state
Details: Placed in the deactive state by heating to 37degC for 30 mins before isolation
Number of components: 52

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Component #1: protein, Mitochondrial complex I from mouse in the deactive state

ProteinName: Mitochondrial complex I from mouse in the deactive state
Details: Placed in the deactive state by heating to 37degC for 30 mins before isolation
Recombinant expression: No
MassTheoretical: 1000 kDa
SourceSpecies: Mus musculus (house mouse) / Strain: C57BL/6

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Component #2: protein, NADH-ubiquinone oxidoreductase chain 3

ProteinName: NADH-ubiquinone oxidoreductase chain 3 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 13.251785 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #3: protein, NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, m...

ProteinName: NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 24.715912 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #4: protein, NADH dehydrogenase [ubiquinone] iron-sulfur protein 3, m...

ProteinName: NADH dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 30.191307 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #5: protein, NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, m...

ProteinName: NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 52.720602 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #6: protein, NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial

ProteinName: NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 27.318336 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #7: protein, NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial

ProteinName: NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 50.904152 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #8: protein, NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial

ProteinName: NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 79.866688 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #9: protein, NADH-ubiquinone oxidoreductase chain 1

ProteinName: NADH-ubiquinone oxidoreductase chain 1 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 36.105027 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #10: protein, NADH dehydrogenase [ubiquinone] iron-sulfur protein 8, m...

ProteinName: NADH dehydrogenase [ubiquinone] iron-sulfur protein 8, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 24.068355 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #11: protein, NADH-ubiquinone oxidoreductase chain 6

ProteinName: NADH-ubiquinone oxidoreductase chain 6 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 18.6561 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #12: protein, NADH-ubiquinone oxidoreductase chain 4L

ProteinName: NADH-ubiquinone oxidoreductase chain 4L / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 10.637629 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #13: protein, NADH-ubiquinone oxidoreductase chain 5

ProteinName: NADH-ubiquinone oxidoreductase chain 5 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 68.547297 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #14: protein, NADH-ubiquinone oxidoreductase chain 4

ProteinName: NADH-ubiquinone oxidoreductase chain 4 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 51.943547 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #15: protein, NADH-ubiquinone oxidoreductase chain 2

ProteinName: NADH-ubiquinone oxidoreductase chain 2 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 38.80023 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #16: 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: 40.657375 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #17: protein, NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subun...

ProteinName: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 42.588129 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #18: protein, NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, m...

ProteinName: NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 19.814725 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #19: protein, NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, m...

ProteinName: NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 13.041828 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #20: 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: 10.932675 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #21: protein, Acyl carrier protein, mitochondrial

ProteinName: Acyl carrier protein, mitochondrial / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 17.390289 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #22: protein, NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5

ProteinName: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 13.380719 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #23: protein, NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6

ProteinName: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.311858 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #24: 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: 20.025127 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #25: protein, NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11

ProteinName: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.130416 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #26: protein, NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13

ProteinName: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 16.881588 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #27: protein, NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1

ProteinName: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 8.149524 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #28: protein, NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3

ProteinName: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 9.380904 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #29: protein, NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial

ProteinName: NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 8.636023 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #30: protein, NADH dehydrogenase [ubiquinone] 1 subunit C2

ProteinName: NADH dehydrogenase [ubiquinone] 1 subunit C2 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 14.185692 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #31: protein, NADH dehydrogenase [ubiquinone] iron-sulfur protein 5

ProteinName: NADH dehydrogenase [ubiquinone] iron-sulfur protein 5 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 12.675772 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #32: protein, NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1

ProteinName: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 6.965109 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #33: protein, NADH dehydrogenase [ubiquinone] 1 beta subcomplex subuni...

ProteinName: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 17.463727 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #34: protein, NADH dehydrogenase [ubiquinone] 1 beta subcomplex subuni...

ProteinName: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 21.742197 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #35: protein, NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6

ProteinName: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.582122 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #36: protein, NADH dehydrogenase [ubiquinone] 1 beta subcomplex subuni...

ProteinName: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 11.982437 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #37: protein, NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3

ProteinName: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 11.71424 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #38: 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: 21.903828 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #39: protein, NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4

ProteinName: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.105287 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #40: protein, NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9

ProteinName: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 22.020123 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #41: protein, NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7

ProteinName: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 16.360804 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #42: protein, NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10

ProteinName: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 21.054832 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #43: 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: 17.154453 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #44: protein, NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7

ProteinName: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 12.637629 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #45: protein, NADH dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial

ProteinName: NADH dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 11.833504 kDa
SourceSpecies: Mouse (mice)
Source (natural)Organ or tissue: Heart

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Component #46: ligand, IRON/SULFUR CLUSTER

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

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Component #47: ligand, FE2/S2 (INORGANIC) CLUSTER

LigandName: FE2/S2 (INORGANIC) CLUSTER / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 0.17582 kDa

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Component #48: ligand, FLAVIN MONONUCLEOTIDE

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

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Component #49: ligand, ADENOSINE-5'-DIPHOSPHATE

LigandName: ADENOSINE-5'-DIPHOSPHATE / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 0.427201 kDa

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Component #50: 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

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Component #51: ligand, ZINC ION

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

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Component #52: ligand, ~{S}-[2-[3-[[(2~{R})-3,3-dimethyl-2-oxidanyl-4-phosphonoo...

LigandName: ~{S}-[2-[3-[[(2~{R})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] (3~{S})-3-oxidanyltetradecanethioate
Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 0.584703 kDa

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Experimental details

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Sample preparation

SpecimenSpecimen state: particle / Method: cryo EM
Sample solutionSpecimen conc.: 3 mg/ml / pH: 7.14
Support filmGold was PEGylated prior to use in anaerobic ethanol in 5mM SPT-11P6 (Sensopath Technologies) for two days 0.6/1 holes
VitrificationInstrument: FEI VITROBOT MARK IV / Cryogen name: ETHANE / Temperature: 277 K / Humidity: 100 % / Details: 8-16s blotting..

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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: 5 e/Å2 / Illumination mode: FLOOD BEAM
LensMagnification: 37600.0 X (calibrated) / Cs: 2.7 mm / Imaging mode: BRIGHT FIELD / Defocus: 2200.0 - 3400.0 nm / Energy filter: GIF Quantum LS / Energy window: 0-20 eV
Specimen HolderModel: FEI TITAN KRIOS AUTOGRID HOLDER
CameraDetector: GATAN K2 QUANTUM (4k x 4k)

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Image processing

ProcessingMethod: single particle reconstruction / Applied symmetry: C1 (asymmetric) / Number of projections: 17066
3D reconstructionAlgorithm: FOURIER SPACE / Software: RELION / Resolution: 3.9 Å / Resolution method: FSC 0.143 CUT-OFF
FSC plot
(resolution estimation)

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Atomic model buiding

Modeling #1Refinement protocol: flexible / Refinement space: REAL
Details: Used default paramteres in phenix.real_space_refine
Output model

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