PDBe 5lc5

Electron Microscopy
4.35Å resolution

Structure of mammalian respiratory Complex I, class2

Released:
Source organism: Bos taurus
Primary publication:
Structure of mammalian respiratory complex I.
OpenAccess logo Nature 536 354-8 (2016)
PMID: 27509854
Related structures: EMD-4032

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero 45-mer (preferred)
Entry contents:
45 distinct polypeptide molecules
Macromolecules (45 distinct):
NADH-ubiquinone oxidoreductase chain 3 Chain: A
Molecule details ›
Chain: A
Length: 111 amino acids
Theoretical weight: 12.51 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P03898 (Residues: 2-112; Coverage: 97%)
Gene names: MT-ND3, MTND3, NADH3, ND3
NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial Chain: B
Molecule details ›
Chain: B
Length: 147 amino acids
Theoretical weight: 16.63 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P42026 (Residues: 64-210; Coverage: 68%)
Gene name: NDUFS7
Sequence domains: NADH ubiquinone oxidoreductase, 20 Kd subunit
NADH dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial Chain: C
Molecule details ›
Chain: C
Length: 206 amino acids
Theoretical weight: 24.2 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P23709 (Residues: 46-251; Coverage: 77%)
Gene name: NDUFS3
Sequence domains: Respiratory-chain NADH dehydrogenase, 30 Kd subunit
NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial Chain: D
Molecule details ›
Chain: D
Length: 426 amino acids
Theoretical weight: 48.69 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P17694 (Residues: 38-463; Coverage: 92%)
Gene name: NDUFS2
Sequence domains: Respiratory-chain NADH dehydrogenase, 49 Kd subunit
NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial Chain: E
Molecule details ›
Chain: E
Length: 249 amino acids
Theoretical weight: 27.34 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P04394 (Residues: 1-249; Coverage: 100%)
Gene name: NDUFV2
Sequence domains: Thioredoxin-like [2Fe-2S] ferredoxin
NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial Chain: F
Molecule details ›
Chain: F
Length: 464 amino acids
Theoretical weight: 50.72 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P25708 (Residues: 1-464; Coverage: 100%)
Gene names: NDUFV1, UQOR1
Sequence domains:
NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial Chain: G
Molecule details ›
Chain: G
Length: 715 amino acids
Theoretical weight: 66.44 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P15690 (Residues: 1-232; Coverage: 32%)
Gene name: NDUFS1
Sequence domains:
NADH-ubiquinone oxidoreductase chain 1 Chain: H
Molecule details ›
Chain: H
Length: 313 amino acids
Theoretical weight: 35.08 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P03887 (Residues: 3-315; Coverage: 98%)
Gene names: MT-ND1, MTND1, NADH1, ND1
Sequence domains: NADH dehydrogenase
NADH dehydrogenase [ubiquinone] iron-sulfur protein 8, mitochondrial Chain: I
Molecule details ›
Chain: I
Length: 176 amino acids
Theoretical weight: 20.22 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P42028 (Residues: 37-212; Coverage: 83%)
Gene name: NDUFS8
Sequence domains: 4Fe-4S dicluster domain
NADH-ubiquinone oxidoreductase chain 6 Chain: J
Molecule details ›
Chain: J
Length: 171 amino acids
Theoretical weight: 18.62 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P03924 (Residues: 2-172; Coverage: 98%)
Gene names: MT-ND6, MTND6, NADH6, ND6
Sequence domains: NADH-ubiquinone/plastoquinone oxidoreductase chain 6
NADH-ubiquinone oxidoreductase chain 4L Chain: K
Molecule details ›
Chain: K
Length: 95 amino acids
Theoretical weight: 10.44 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P03902 (Residues: 2-96; Coverage: 97%)
Gene names: MT-ND4L, MTND4L, NADH4L, ND4L
NADH-ubiquinone oxidoreductase chain 5 Chain: L
Molecule details ›
Chain: L
Length: 604 amino acids
Theoretical weight: 68.07 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P03920 (Residues: 2-605; Coverage: 100%)
Gene names: MT-ND5, MTND5, NADH5, ND5
Sequence domains:
NADH-ubiquinone oxidoreductase chain 4 Chain: M
Molecule details ›
Chain: M
Length: 457 amino acids
Theoretical weight: 51.89 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P03910 (Residues: 3-459; Coverage: 100%)
Gene names: MT-ND4, MTND4, NADH4, ND4
Sequence domains: Proton-conducting membrane transporter
NADH-ubiquinone oxidoreductase chain 2 Chain: N
Molecule details ›
Chain: N
Length: 344 amino acids
Theoretical weight: 38.9 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P03892 (Residues: 2-345; Coverage: 99%)
Gene names: MT-ND2, MTND2, NADH2, ND2
Sequence domains:
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial Chain: O
Molecule details ›
Chain: O
Length: 314 amino acids
Theoretical weight: 34.01 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P34942 (Residues: 114-341; Coverage: 67%)
Gene name: NDUFA10
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial Chain: P
Molecule details ›
Chain: P
Length: 335 amino acids
Theoretical weight: 28.53 KDa
Source organism: Bos taurus
NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial Chain: Q
Molecule details ›
Chain: Q
Length: 113 amino acids
Theoretical weight: 9.63 KDa
Source organism: Bos taurus
NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial Chain: R
Molecule details ›
Chain: R
Length: 89 amino acids
Theoretical weight: 8.32 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P23934 (Residues: 87-121; Coverage: 28%)
Gene name: NDUFS6
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 Chain: S
Molecule details ›
Chain: S
Length: 80 amino acids
Theoretical weight: 9.27 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q02370 (Residues: 17-96; Coverage: 81%)
Gene name: NDUFA2
Sequence domains: Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain
Acyl carrier protein, mitochondrial Chain: T
Molecule details ›
Chain: T
Length: 75 amino acids
Theoretical weight: 8.67 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P52505 (Residues: 76-150; Coverage: 48%)
Gene name: NDUFAB1
Sequence domains: Phosphopantetheine attachment site
Acyl carrier protein, mitochondrial Chain: U
Molecule details ›
Chain: U
Length: 85 amino acids
Theoretical weight: 9.85 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P52505 (Residues: 72-156; Coverage: 55%)
Gene name: NDUFAB1
Sequence domains: Phosphopantetheine attachment site
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5 Chain: V
Molecule details ›
Chain: V
Length: 116 amino acids
Theoretical weight: 13.33 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P23935 (Residues: 1-116; Coverage: 100%)
Gene name: NDUFA5
Sequence domains: ETC complex I subunit conserved region
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6 Chain: W
Molecule details ›
Chain: W
Length: 128 amino acids
Theoretical weight: 15.08 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q02366 (Residues: 1-128; Coverage: 100%)
Gene name: NDUFA6
Sequence domains: Complex 1 protein (LYR family)
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 Chain: X
Molecule details ›
Chain: X
Length: 169 amino acids
Theoretical weight: 18.12 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P42029 (Residues: 1-114; Coverage: 66%)
Gene name: NDUFA8
Sequence domains: CHCH domain
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11 Chain: Y
Molecule details ›
Chain: Y
Length: 138 amino acids
Theoretical weight: 14.41 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q8HXG6 (Residues: 2-139; Coverage: 98%)
Gene name: NDUFA11
Sequence domains: Tim17/Tim22/Tim23/Pmp24 family
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13 Chain: Z
Molecule details ›
Chain: Z
Length: 138 amino acids
Theoretical weight: 14.14 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q95KV7 (Residues: 32-100; Coverage: 48%)
Gene names: GRIM19, NDUFA13
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1 Chain: a
Molecule details ›
Chain: a
Length: 70 amino acids
Theoretical weight: 8.12 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q02377 (Residues: 1-70; Coverage: 100%)
Gene name: NDUFA1
Sequence domains: NADH-ubiquinone oxidoreductase MWFE subunit
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3 Chain: b
Molecule details ›
Chain: b
Length: 80 amino acids
Theoretical weight: 7.86 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q02371 (Residues: 2-46; Coverage: 54%)
Gene name: NDUFA3
NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial Chain: c
Molecule details ›
Chain: c
Length: 76 amino acids
Theoretical weight: 8.8 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q02376 (Residues: 1-76; Coverage: 100%)
Gene name: NDUFC1
Sequence domains: NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial
NADH dehydrogenase [ubiquinone] 1 subunit C2 Chain: d
Molecule details ›
Chain: d
Length: 114 amino acids
Theoretical weight: 11.99 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q02827 (Residues: 29-97; Coverage: 58%)
Gene name: NDUFC2
NADH dehydrogenase [ubiquinone] iron-sulfur protein 5 Chain: e
Molecule details ›
Chain: e
Length: 106 amino acids
Theoretical weight: 12.69 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q02379 (Residues: 1-106; Coverage: 100%)
Gene name: NDUFS5
Sequence domains: NADH:ubiquinone oxidoreductase, NDUFS5-15kDa
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1 Chain: f
Molecule details ›
Chain: f
Length: 57 amino acids
Theoretical weight: 6.98 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q02378 (Residues: 1-57; Coverage: 100%)
Gene name: NDUFB1
Sequence domains: MNLL subunit
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial Chain: g
Molecule details ›
Chain: g
Length: 154 amino acids
Theoretical weight: 17.59 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q8HXG5 (Residues: 1-154; Coverage: 100%)
Gene name: NDUFB11
Sequence domains: ESSS subunit of NADH:ubiquinone oxidoreductase (complex I)
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial Chain: h
Molecule details ›
Chain: h
Length: 186 amino acids
Theoretical weight: 18.07 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q02380 (Residues: 1-91; Coverage: 48%)
Gene name: NDUFB5
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6 Chain: i
Molecule details ›
Chain: i
Length: 121 amino acids
Theoretical weight: 11.64 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q02367 (Residues: 1-33; Coverage: 26%)
Gene name: NDUFB6
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, NDUFB2 Chain: j
Molecule details ›
Chain: j
Length: 52 amino acids
Theoretical weight: 4.44 KDa
Source organism: Bos taurus
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3, NDUFB3 Chain: k
Molecule details ›
Chain: k
Length: 74 amino acids
Theoretical weight: 6.32 KDa
Source organism: Bos taurus
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, NDUFB8 Chain: l
Molecule details ›
Chain: l
Length: 118 amino acids
Theoretical weight: 10.06 KDa
Source organism: Bos taurus
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4 Chain: m
Molecule details ›
Chain: m
Length: 118 amino acids
Theoretical weight: 13.42 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P48305 (Residues: 33-129; Coverage: 75%)
Gene name: NDUFB4
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9 Chain: n
Molecule details ›
Chain: n
Length: 166 amino acids
Theoretical weight: 19.25 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q02369 (Residues: 11-137; Coverage: 71%)
Gene names: NDUFB9, UQOR22
Sequence domains: Complex 1 protein (LYR family)
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7 Chain: o
Molecule details ›
Chain: o
Length: 58 amino acids
Theoretical weight: 7.58 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q02368 (Residues: 58-115; Coverage: 42%)
Gene name: NDUFB7
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10 Chain: p
Molecule details ›
Chain: p
Length: 169 amino acids
Theoretical weight: 16.91 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q02373 (Residues: 77-131, 132-143; Coverage: 38%)
Gene name: NDUFB10
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 Chain: q
Molecule details ›
Chain: q
Length: 138 amino acids
Theoretical weight: 16.31 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: O97725 (Residues: 2-139; Coverage: 95%)
Gene name: NDUFA12
Sequence domains: NADH ubiquinone oxidoreductase subunit NDUFA12
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7, NDUFA7 Chain: r
Molecule details ›
Chain: r
Length: 87 amino acids
Theoretical weight: 7.42 KDa
Source organism: Bos taurus
NADH dehydrogenase [ubiquinone] flavoprotein 3, NDUFV3 Chain: s
Molecule details ›
Chain: s
Length: 35 amino acids
Theoretical weight: 3 KDa
Source organism: Bos taurus

Ligands and Environments


Cofactor: Ligand NAP 1 x NAP

Cofactor: Ligand FMN 1 x FMN
3 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.35Å
Relevant EMDB volumes: EMD-4032