GL1X · GenesisL1 explorer

MolNFT v2 · #175002 · protein

Cryo-EM structure of respiratory complex I in the deactive state from Mus musculus at 3.2 A

7AK5: “Cryo-EM structure of respiratory complex I in the deactive state from Mus musculus at 3.2 A”. Electron microscopy at 3.17, 10 ligands (3PE, SF4, CDL). MolNFT v2 #175002 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB
7AK5
Type
protein
Length
8,069 residues
Chains
45
Method
electron microscopy
Collection
MolNFT v2 / PDB Bank
Contract
0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner
0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution
3.17
Source
Mus musculus
UniProt
P03899, Q9DC70, Q9DCT2, Q91WD5, Q9D6J6, Q91YT0, Q91VD9, P03888, Q8K3J1, P03925, P03903, P03921, P03911, P03893, Q99LC3, Q9DC69, Q9CXZ1, P52503, Q9CQ75, Q9CR21, Q9CPP6, Q9CQZ5, Q9DCJ5, G5E814, Q9ERS2, O35683, Q9CQ91, Q9CQY9, Q9CQ54, Q99LY9, P0DN34, O09111, Q9CQH3, Q3UIU2, Q9CPU2, Q9CQZ6, Q9D6J5, Q9CQC7, Q9CQJ8, Q9CR61, Q9DCS9, Q7TMF3, Q9Z1P6, Q8BK30
Ligands
3PE, SF4, CDL, PC1, FES, EHZ, FMN, ATP, NDP, ZN

Structure

electron microscopy · resolution 3.17 · 45 distinct chains.

ChainMoleculeTypeResiduesSecondary structureUniProt
A—protein90—P03899
B—protein155—Q9DC70
C—protein206—Q9DCT2
D—protein419—Q91WD5
E—protein210—Q9D6J6
F—protein428—Q91YT0
G—protein687—Q91VD9
H—protein308—P03888
I—protein178—Q8K3J1
J—protein171—P03925
K—protein98—P03903
L—protein606—P03921
M—protein459—P03911
N—protein344—P03893
O—protein320—Q99LC3
P—protein290—Q9DC69
Q—protein125—Q9CXZ1
R—protein94—P52503
S—protein82—Q9CQ75
T—protein73—Q9CR21
U—protein88—Q9CR21
V—protein112—Q9CPP6
W—protein114—Q9CQZ5
X—protein171—Q9DCJ5
Y—protein140—G5E814
Z—protein139—Q9ERS2
a—protein68—O35683
b—protein83—Q9CQ91
c—protein46—Q9CQY9
d—protein119—Q9CQ54
e—protein104—Q99LY9
f—protein50—P0DN34
g—protein101—O09111
h—protein137—Q9CQH3
i—protein96—Q3UIU2
j—protein63—Q9CPU2
k—protein78—Q9CQZ6
l—protein156—Q9D6J5
m—protein125—Q9CQC7
n—protein176—Q9CQJ8
o—protein114—Q9CR61
p—protein168—Q9DCS9
q—protein143—Q7TMF3
r—protein96—Q9Z1P6
s—protein39—Q8BK30

Ligands and binding sites

  • 3PE · 1,2-diacyl-sn-glycero-3-phosphoethanolamine · ligand · 8 copies · chains A, H, J, Z, a, D, I, b, L, M, l, N, Y, g, O, d, f, h, i
  • SF4 · Iron/sulfur cluster · ligand · 6 copies · chains B, D, F, G, I
  • CDL · Cardiolipin · ligand · 4 copies · chains L, M, g, h, N, X, d, f, i, p, H, I, a, q, r
  • PC1 · 1,2-diacyl-sn-glycero-3-phosphocholine · ligand · 2 copies · chains B, H, q, I, Z, r
  • FES · Fe2/s2 (inorganic) cluster · ligand · 2 copies · chains E, G
  • EHZ · ~{S}-[2-[3-[[(2~{R})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] (3~{S})-3-oxidanyltetradecanethioate · ligand · 2 copies · chains T, W, U, n
  • FMN · Flavin mononucleotide · ligand · chains F
  • ATP · Adenosine-5'-triphosphate · ligand · chains O
  • NDP · Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate · ligand · chains B, P
  • ZN · Zinc ion · metal · chains R

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Compared structures

  • 7AK5 · Cryo-EM structure of respiratory complex I in the deactive state from mus musculus at 3.2… · the same entry in another collection · chain I against I, TM-score 1.00

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