› 3m9s

X-ray diffraction
4.5Å resolution

Crystal structure of respiratory complex I from Thermus thermophilus

Released:
DOI: 10.2210/pdb3m9s/pdb
PDB entry 3m9s coloured by chain, front view.
PDB entry 3m9s coloured by chain, side view.
PDB entry 3m9s coloured by chain, top view.
Source organism: Thermus thermophilus HB8
Primary publication:
The architecture of respiratory complex I.
Efremov RG, Baradaran R, Sazanov LA
Nature 465 441-5 (2010)
PMID: 20505720

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tridecamer (preferred)
PDBe Complex ID:
PDB-CPX-163776 (preferred)
Entry contents:
13 distinct polypeptide molecules
Macromolecules (13 distinct):
NADH-quinone oxidoreductase subunit 1 Chains: 1, A
Molecule details ›
Chains: 1, A
Length: 438 amino acids
Theoretical weight: 48.69 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q56222 (Residues: 1-438; Coverage: 100%)
Gene names: TTHA0089, nqo1
Sequence domains:
NADH-quinone oxidoreductase subunit 2 Chains: 2, B
Molecule details ›
Chains: 2, B
Length: 181 amino acids
Theoretical weight: 20.31 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q56221 (Residues: 1-181; Coverage: 100%)
Gene names: TTHA0088, nqo2
Sequence domains: Thioredoxin-like [2Fe-2S] ferredoxin
NADH-quinone oxidoreductase subunit 3 Chains: 3, C
Molecule details ›
Chains: 3, C
Length: 783 amino acids
Theoretical weight: 86.66 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q56223 (Residues: 1-783; Coverage: 100%)
Gene names: TTHA0090, nqo3
Sequence domains:
NADH-quinone oxidoreductase subunit 4 Chains: 4, D
Molecule details ›
Chains: 4, D
Length: 409 amino acids
Theoretical weight: 46.43 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q56220 (Residues: 1-409; Coverage: 100%)
Gene names: TTHA0087, nqo4
Sequence domains: Respiratory-chain NADH dehydrogenase, 49 Kd subunit
NADH-quinone oxidoreductase subunit 5 Chains: 5, E
Molecule details ›
Chains: 5, E
Length: 207 amino acids
Theoretical weight: 23.89 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q56219 (Residues: 1-207; Coverage: 100%)
Gene names: TTHA0086, nqo5
Sequence domains: Respiratory-chain NADH dehydrogenase, 30 Kd subunit
NADH-quinone oxidoreductase subunit 6 Chains: 6, F
Molecule details ›
Chains: 6, F
Length: 181 amino acids
Theoretical weight: 20.26 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q56218 (Residues: 1-181; Coverage: 100%)
Gene names: TTHA0085, nqo6
Sequence domains: NADH ubiquinone oxidoreductase, 20 Kd subunit
NADH-quinone oxidoreductase subunit 9 Chains: 9, G
Molecule details ›
Chains: 9, G
Length: 182 amino acids
Theoretical weight: 20.11 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q56224 (Residues: 1-182; Coverage: 100%)
Gene names: TTHA0092, nqo9
Sequence domains: 4Fe-4S binding domain
NADH-quinone oxidoreductase subunit 15 Chains: 7, J
Molecule details ›
Chains: 7, J
Length: 129 amino acids
Theoretical weight: 14.81 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SKZ7 (Residues: 1-129; Coverage: 100%)
Gene names: TTHA0496, nqo15
Sequence domains: NADH-quinone oxidoreductase chain 15
NADH-quinone oxidoreductase subunit 12 Chains: L, O
Molecule details ›
Chains: L, O
Length: 469 amino acids
Theoretical weight: 39.93 KDa
Source organism: Thermus thermophilus HB8
NADH-quinone oxidoreductase subunit 13 Chains: M, P
Molecule details ›
Chains: M, P
Length: 392 amino acids
Theoretical weight: 33.38 KDa
Source organism: Thermus thermophilus HB8
NADH-quinone oxidoreductase subunit 14 Chains: N, Q
Molecule details ›
Chains: N, Q
Length: 379 amino acids
Theoretical weight: 32.27 KDa
Source organism: Thermus thermophilus HB8
NADH-quinone oxidoreductase subunits 7, 10 and 11 Chains: R, S
Molecule details ›
Chains: R, S
Length: 274 amino acids
Theoretical weight: 23.34 KDa
Source organism: Thermus thermophilus HB8
NADH-quinone oxidoreductase subunit 8 Chains: H, T
Molecule details ›
Chains: H, T
Length: 181 amino acids
Theoretical weight: 15.42 KDa
Source organism: Thermus thermophilus HB8

Ligands and Environments

3 bound ligands:
Ligand SF4 14 x SF4
Ligand FMN 2 x FMN
Ligand FES 4 x FES
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: P21
Unit cell:
a: 96.39Å b: 336.09Å c: 262.24Å
α: 90° β: 100.59° γ: 90°

Quick links

Citations

79 review citations

Mitochondrial disorders as windows into an ancient organelle.
Vafai et al. (2012)
78 more

19 mentions without citation

The role of mitochondrial function and cellular bioenergetics in ageing and disease.
Brand et al. (2013)
18 more