› 6k7l

Electron Microscopy
2.83Å resolution

Cryo-EM structure of the human P4-type flippase ATP8A1-CDC50 (E2P state class2)

Released:
DOI: 10.2210/pdb6k7l/pdb
PDB entry 6k7l coloured by chain, front view.
PDB entry 6k7l coloured by chain, side view.
PDB entry 6k7l coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Cryo-EM structures capture the transport cycle of the P4-ATPase flippase.
Hiraizumi M, Yamashita K, Nishizawa T, Nureki O
Science 365 1149-1155 (2019)
PMID: 31416931
Related structures: EMD-9939

Function and Biology Details

Reaction catalysed: 
ATP + H(2)O + phospholipid(Side 1) = ADP + phosphate + phospholipid(Side 2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-192631 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Phospholipid-transporting ATPase IA Chain: A
Molecule details ›
Chain: A
Length: 1154 amino acids
Theoretical weight: 130.54 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q9Y2Q0 (Residues: 1-1164; Coverage: 99%)
  • Best match: Q9Y2Q0-3 (Residues: 1-1149)
Gene names: ATP8A1, ATPIA
Sequence domains:
Cell cycle control protein 50A Chain: C
Molecule details ›
Chain: C
Length: 361 amino acids
Theoretical weight: 40.73 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q9NV96 (Residues: 1-361; Coverage: 100%)
Gene names: C6orf67, CDC50A, TMEM30A
Sequence domains: LEM3 (ligand-effect modulator 3) family / CDC50 family

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, MAN
Carbohydrate polymer
4 bound ligands:
Ligand BEF 1 x BEF
Ligand MG 1 x MG
Ligand Y01 1 x Y01
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.83Å
Relevant EMDB volumes: EMD-9939
Expression system: Homo sapiens

Quick links

Citations

17 review citations

Flagging fusion: Phosphatidylserine signaling in cell-cell fusion.
Whitlock et al. (2021)
16 more

5 mentions without citation

Structural insights into the activation of autoinhibited human lipid flippase ATP8B1 upon substrate binding.
Cheng et al. (2022)
4 more