› 7aqr

Electron Microscopy
2.91Å resolution

Cryo-EM structure of Arabidopsis thaliana Complex-I (peripheral arm)

Released:
DOI: 10.2210/pdb7aqr/pdb
PDB entry 7aqr coloured by chain, front view.
PDB entry 7aqr coloured by chain, side view.
PDB entry 7aqr coloured by chain, top view.
Source organism: Arabidopsis thaliana
Primary publication:
A ferredoxin bridge connects the two arms of plant mitochondrial complex I.
Klusch N, Senkler J, Yildiz Ö, Kühlbrandt W, Braun HP
OpenAccess logo Plant Cell 33 2072-2091 (2021)
PMID: 33768254
Related structures: EMD-11873

Function and Biology Details

Reaction catalysed: 
NADH + ubiquinone + 5 H(+)(Side 1) = NAD(+) + ubiquinol + 4 H(+)(Side 2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero heptadecamer (preferred)
PDBe Complex ID:
PDB-CPX-127641 (preferred)
Entry contents:
17 distinct polypeptide molecules
Macromolecules (17 distinct):
NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial Chain: B
Molecule details ›
Chain: B
Length: 218 amino acids
Theoretical weight: 24.07 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q42577 (Residues: 1-218; Coverage: 100%)
Gene names: At5g11770, T22P22_160
Sequence domains: NADH ubiquinone oxidoreductase, 20 Kd subunit
NADH dehydrogenase [ubiquinone] iron-sulfur protein 3 Chain: C
Molecule details ›
Chain: C
Length: 190 amino acids
Theoretical weight: 22.91 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q95748 (Residues: 1-190; Coverage: 100%)
Gene names: AtMg00070, NAD9
Sequence domains: Respiratory-chain NADH dehydrogenase, 30 Kd subunit
NADH dehydrogenase [ubiquinone] iron-sulfur protein 2 Chain: D
Molecule details ›
Chain: D
Length: 394 amino acids
Theoretical weight: 45.04 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: P93306 (Residues: 1-394; Coverage: 100%)
Gene names: AtMg00510, NAD7
Sequence domains: Respiratory-chain NADH dehydrogenase, 49 Kd subunit
NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial Chain: E
Molecule details ›
Chain: E
Length: 255 amino acids
Theoretical weight: 28.42 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: O22769 (Residues: 1-255; Coverage: 100%)
Gene names: At4g02580, T10P11.14
Sequence domains: Thioredoxin-like [2Fe-2S] ferredoxin
NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial Chain: F
Molecule details ›
Chain: F
Length: 486 amino acids
Theoretical weight: 53.52 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9FNN5 (Residues: 1-486; Coverage: 100%)
Gene names: At5g08530, MAH20.9
Sequence domains:
NADH dehydrogenase [ubiquinone] iron-sulfur protein 1, mitochondrial Chain: G
Molecule details ›
Chain: G
Length: 748 amino acids
Theoretical weight: 81.62 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9FGI6 (Residues: 1-748; Coverage: 100%)
Gene names: At5g37510, EMB1467, MPA22.5
Sequence domains:
NADH dehydrogenase [ubiquinone] iron-sulfur protein 8-A, mitochondrial Chain: I
Molecule details ›
Chain: I
Length: 222 amino acids
Theoretical weight: 25.54 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q42599 (Residues: 1-222; Coverage: 100%)
Gene names: At1g79010, YUP8H12R.37, YUP8H12R_21
Sequence domains: 4Fe-4S dicluster domain
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial Chain: P
Molecule details ›
Chain: P
Length: 402 amino acids
Theoretical weight: 43.99 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9SK66 (Residues: 1-402; Coverage: 100%)
Gene names: At2g20360, F11A3.9
Sequence domains: NAD dependent epimerase/dehydratase family
NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial Chain: Q
Molecule details ›
Chain: Q
Length: 154 amino acids
Theoretical weight: 17.16 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9FJW4 (Residues: 1-154; Coverage: 100%)
Gene names: At5g67590, FRO1, K9I9.16
Sequence domains: NADH dehydrogenase ubiquinone Fe-S protein 4
NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial Chain: R
Molecule details ›
Chain: R
Length: 110 amino acids
Theoretical weight: 12.25 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9M9M6 (Residues: 1-110; Coverage: 100%)
Gene names: At3g03070, T17B22_24
Sequence domains: Zinc-finger domain
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 Chain: S
Molecule details ›
Chain: S
Length: 97 amino acids
Theoretical weight: 10.87 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9FIJ2 (Residues: 1-97; Coverage: 100%)
Gene names: At5g47890, MCA23_23
Sequence domains: Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain
Acyl carrier protein 2, mitochondrial Chain: U
Molecule details ›
Chain: U
Length: 126 amino acids
Theoretical weight: 14.18 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: O80800 (Residues: 1-126; Coverage: 100%)
Gene names: At1g65290, MTACP2, T8F5.6
Sequence domains: Phosphopantetheine attachment site
Probable NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5, mitochondrial Chain: V
Molecule details ›
Chain: V
Length: 169 amino acids
Theoretical weight: 19.2 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9FLX7 (Residues: 1-169; Coverage: 100%)
Gene names: At5g52840, MXC20.6
Sequence domains: ETC complex I subunit conserved region
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6 Chain: W
Molecule details ›
Chain: W
Length: 133 amino acids
Theoretical weight: 15.1 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9LHI0 (Residues: 1-133; Coverage: 100%)
Gene names: At3g12260, F28J15.12, MQC3.9
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13-A Chain: Z
Molecule details ›
Chain: Z
Length: 143 amino acids
Theoretical weight: 16.15 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q8RWA7 (Residues: 1-143; Coverage: 100%)
Gene names: At1g04630, MEE4, T1G11.12
Sequence domains: GRIM-19 protein
Probable NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 Chain: q
Molecule details ›
Chain: q
Length: 159 amino acids
Theoretical weight: 18.35 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9M9M9 (Residues: 1-159; Coverage: 100%)
Gene names: At3g03100, T17B22.21
Sequence domains: NADH ubiquinone oxidoreductase subunit NDUFA12
Furry Chain: r
Molecule details ›
Chain: r
Length: 131 amino acids
Theoretical weight: 15.06 KDa
Source organism: Arabidopsis thaliana
UniProt:
  • Canonical: Q9SD78 (Residues: 1-131; Coverage: 100%)
Gene names: At5g08060, At5g08060/F13G24_260, F13G24.260, T22D6.4

Ligands and Environments

6 bound ligands:
Ligand SF4 6 x SF4
Ligand FES 2 x FES
Ligand FMN 1 x FMN
Ligand NDP 1 x NDP
Ligand ZN 1 x ZN
Ligand 8Q1 1 x 8Q1
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.91Å
Relevant EMDB volumes: EMD-11873

Quick links

Citations

11 review citations

Structure of respiratory complex I - An emerging blueprint for the mechanism.
Kampjut et al. (2022)
10 more