GL1X · GenesisL1 explorer

MolNFT v1 · #172965 · protein

Cryo-EM structure of ND6-P25L mutant respiratory complex I from mus musculus at 3.8 a

7AK6: “Cryo-EM structure of ND6-P25L mutant respiratory complex I from mus musculus at 3.8 a”. Electron microscopy, 10 ligands (SF4, 3PE, FES). MolNFT v1 #172965 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB
7AK6
Type
protein
Length
8,061 residues
Chains
45
Method
electron microscopy
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt
P03899, Q9DC70, Q9DCT2, Q91WD5, Q9D6J6, Q91YT0, Q91VD9, P03888, Q8K3J1, A9UIY5, 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
SF4, 3PE, FES, CDL, EHZ, PC1, FMN, ATP, NDP, ZN

Structure

electron microscopy · 45 distinct chains.

ChainMoleculeTypeResiduesSecondary structureUniProt
A—protein93—P03899
B—protein155—Q9DC70
C—protein207—Q9DCT2
D—protein417—Q91WD5
E—protein210—Q9D6J6
F—protein428—Q91YT0
G—protein686—Q91VD9
H—protein305—P03888
I—protein178—Q8K3J1
J—protein171—A9UIY5
K—protein98—P03903
L—protein606—P03921
M—protein459—P03911
N—protein344—P03893
O—protein319—Q99LC3
P—protein288—Q9DC69
Q—protein125—Q9CXZ1
R—protein94—P52503
S—protein82—Q9CQ75
T—protein72—Q9CR21
U—protein88—Q9CR21
V—protein112—Q9CPP6
W—protein114—Q9CQZ5
X—protein171—Q9DCJ5
Y—protein140—G5E814
Z—protein139—Q9ERS2
a—protein68—O35683
b—protein82—Q9CQ91
c—protein46—Q9CQY9
d—protein119—Q9CQ54
e—protein104—Q99LY9
f—protein51—P0DN34
g—protein102—O09111
h—protein137—Q9CQH3
i—protein95—Q3UIU2
j—protein62—Q9CPU2
k—protein77—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

  • SF4 · Iron/sulfur cluster · ligand · 6 copies · chains B, D, F, G, I
  • 3PE · 1,2-diacyl-sn-glycero-3-phosphoethanolamine · ligand · 4 copies · chains D, H, I, Z, b, A, J, a, L, M, l, g
  • FES · Fe2/s2 (inorganic) cluster · ligand · 2 copies · chains E, G
  • CDL · Cardiolipin · ligand · 2 copies · chains L, M, h, N, X, d, f
  • 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
  • PC1 · 1,2-diacyl-sn-glycero-3-phosphocholine · ligand · chains B, H, q
  • 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

  • 7AK6 · Cryo-EM structure of ND6-P25L mutant respiratory complex I from Mus musculus at 3.8 A · the same entry in another collection · chain I against I, TM-score 1.00

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