7AK5 image
Deposition Date 2020-09-29
Release Date 2021-02-03
Last Version Date 2025-04-09
Entry Detail
PDB ID:
7AK5
Keywords:
Title:
Cryo-EM structure of respiratory complex I in the deactive state from Mus musculus at 3.2 A
Biological Source:
Source Organism:
Mus musculus (Taxon ID: 10090)
Method Details:
Experimental Method:
Resolution:
3.17 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 3
Gene (Uniprot):mt-Nd3
Chain IDs:A
Chain Length:115
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial
Gene (Uniprot):Ndufs7
Chain IDs:B
Chain Length:83
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial
Gene (Uniprot):Ndufs3
Chain IDs:C
Chain Length:263
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial
Gene (Uniprot):Ndufs2
Chain IDs:D
Chain Length:120
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial
Gene (Uniprot):Ndufv2
Chain IDs:E
Chain Length:106
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial
Gene (Uniprot):Ndufv1
Chain IDs:F
Chain Length:464
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial
Gene (Uniprot):Ndufs1
Chain IDs:G
Chain Length:151
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 1
Gene (Uniprot):Mtnd1
Chain IDs:H
Chain Length:189
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] iron-sulfur protein 8, mitochondrial
Gene (Uniprot):Ndufs8
Chain IDs:I
Chain Length:127
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 6
Gene (Uniprot):Mtnd6
Chain IDs:J
Chain Length:105
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 4L
Gene (Uniprot):Mtnd4l
Chain IDs:K
Chain Length:104
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 5
Gene (Uniprot):Mtnd5
Chain IDs:L
Chain Length:607
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 4
Gene (Uniprot):Mtnd4
Chain IDs:M
Chain Length:129
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH-ubiquinone oxidoreductase chain 2
Gene (Uniprot):mt-Nd2
Chain IDs:N
Chain Length:345
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial
Gene (Uniprot):Ndufa10
Chain IDs:O
Chain Length:137
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial
Gene (Uniprot):Ndufa9
Chain IDs:P
Chain Length:176
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial
Gene (Uniprot):Ndufs4
Chain IDs:Q
Chain Length:145
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial
Gene (Uniprot):Ndufs6
Chain IDs:R
Chain Length:112
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2
Gene (Uniprot):Ndufa2
Chain IDs:S
Chain Length:99
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:Acyl carrier protein, mitochondrial
Gene (Uniprot):Ndufab1
Chain IDs:T, U
Chain Length:156
Number of Molecules:2
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5
Gene (Uniprot):Ndufa5
Chain IDs:V
Chain Length:116
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6
Gene (Uniprot):Ndufa6
Chain IDs:W
Chain Length:131
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8
Gene (Uniprot):Ndufa8
Chain IDs:X
Chain Length:172
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:MCG5603
Gene (Uniprot):Ndufa11
Chain IDs:Y
Chain Length:143
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13
Gene (Uniprot):Ndufa13
Chain IDs:Z
Chain Length:144
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1
Gene (Uniprot):Ndufa1
Chain IDs:AA (auth: a)
Chain Length:115
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3
Gene (Uniprot):Ndufa3
Chain IDs:BA (auth: b)
Chain Length:83
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial
Gene (Uniprot):Ndufc1
Chain IDs:CA (auth: c)
Chain Length:263
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 subunit C2
Gene (Uniprot):Ndufc2
Chain IDs:DA (auth: d)
Chain Length:120
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] iron-sulfur protein 5
Gene (Uniprot):Ndufs5
Chain IDs:EA (auth: e)
Chain Length:106
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1
Gene (Uniprot):Ndufb1
Chain IDs:FA (auth: f)
Chain Length:464
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial
Gene (Uniprot):Ndufb11
Chain IDs:GA (auth: g)
Chain Length:151
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial
Gene (Uniprot):Ndufb5
Chain IDs:HA (auth: h)
Chain Length:189
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6
Gene (Uniprot):Ndufb6
Chain IDs:IA (auth: i)
Chain Length:127
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, mitochondrial
Gene (Uniprot):Ndufb2
Chain IDs:JA (auth: j)
Chain Length:105
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3
Gene (Uniprot):Ndufb3
Chain IDs:KA (auth: k)
Chain Length:104
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial
Gene (Uniprot):Ndufb8
Chain IDs:LA (auth: l)
Chain Length:607
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4
Gene (Uniprot):Ndufb4
Chain IDs:MA (auth: m)
Chain Length:129
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9
Gene (Uniprot):Ndufb9
Chain IDs:NA (auth: n)
Chain Length:345
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7
Gene (Uniprot):Ndufb7
Chain IDs:OA (auth: o)
Chain Length:137
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10
Gene (Uniprot):Ndufb10
Chain IDs:PA (auth: p)
Chain Length:176
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12
Gene (Uniprot):Ndufa12
Chain IDs:QA (auth: q)
Chain Length:145
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7
Gene (Uniprot):Ndufa7
Chain IDs:RA (auth: r)
Chain Length:112
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Molecule:NADH dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial
Gene (Uniprot):Ndufv3
Chain IDs:SA (auth: s)
Chain Length:99
Number of Molecules:1
Biological Source:Mus musculus
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
2MR D ARG modified residue
AYA BA ALA modified residue
FME A MET modified residue
SAC IA SER modified residue
Primary Citation
Structural basis for a complex I mutation that blocks pathological ROS production.
Nat Commun 12 707 707 (2021)
PMID: 33514727 DOI: 10.1038/s41467-021-20942-w

Abstact

Mitochondrial complex I is central to the pathological reactive oxygen species (ROS) production that underlies cardiac ischemia-reperfusion (IR) injury. ND6-P25L mice are homoplasmic for a disease-causing mtDNA point mutation encoding the P25L substitution in the ND6 subunit of complex I. The cryo-EM structure of ND6-P25L complex I revealed subtle structural changes that facilitate rapid conversion to the "deactive" state, usually formed only after prolonged inactivity. Despite its tendency to adopt the "deactive" state, the mutant complex is fully active for NADH oxidation, but cannot generate ROS by reverse electron transfer (RET). ND6-P25L mitochondria function normally, except for their lack of RET ROS production, and ND6-P25L mice are protected against cardiac IR injury in vivo. Thus, this single point mutation in complex I, which does not affect oxidative phosphorylation but renders the complex unable to catalyse RET, demonstrates the pathological role of ROS production by RET during IR injury.

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Disease

Primary Citation of related structures