› 7kyc

Electron Microscopy
2.8Å resolution

Structure of the S. cerevisiae phosphatidylcholine flippase Dnf1-Lem3 complex in the E2P state

Released:
DOI: 10.2210/pdb7kyc/pdb
PDB entry 7kyc coloured by chain, front view.
PDB entry 7kyc coloured by chain, side view.
PDB entry 7kyc coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Primary publication:
Transport mechanism of P4 ATPase phosphatidylcholine flippases.
Bai L, You Q, Jain BK, Duan HD, Kovach A, Graham TR, Li H
OpenAccess logo Elife 9 (2020)
PMID: 33320091
Related structures: EMD-23075

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-152422 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (4 distinct):
Phospholipid-transporting ATPase DNF1 Chain: A
Molecule details ›
Chain: A
Length: 1571 amino acids
Theoretical weight: 178 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P32660 (Residues: 1-1571; Coverage: 100%)
Gene names: DNF1, SYGP-ORF7, YER166W
Sequence domains:
Phospholipid-transporting ATPase accessory subunit LEM3 Chain: B
Molecule details ›
Chain: B
Length: 414 amino acids
Theoretical weight: 47.49 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P42838 (Residues: 1-414; Coverage: 100%)
Gene names: BRE3, LEM3, N0333, ROS3, YNL323W
Sequence domains: LEM3 (ligand-effect modulator 3) family / CDC50 family

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
4 bound ligands:
Ligand BEF 1 x BEF
Ligand MG 1 x MG
Ligand POV 3 x POV
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this EM entry.
Resolution: 2.8Å
Relevant EMDB volumes: EMD-23075
Expression system: Saccharomyces cerevisiae S288C

Quick links

Citations

6 review citations

Regulation of phospholipid distribution in the lipid bilayer by flippases and scramblases.
Sakuragi et al. (2023)
5 more

3 mentions without citation

Consensus, controversies, and conundrums of P4-ATPases: The emerging face of eukaryotic lipid flippases.
Duan et al. (2024)
2 more