› 7vgh

Electron Microscopy
3.39Å resolution

Cryo-EM structure of the human P4-type flippase ATP8B1-CDC50B in the auto-inhibited E2P state

Released:
DOI: 10.2210/pdb7vgh/pdb
PDB entry 7vgh coloured by chain, front view.
PDB entry 7vgh coloured by chain, side view.
PDB entry 7vgh coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural insights into the activation of autoinhibited human lipid flippase ATP8B1 upon substrate binding.
Cheng MT, Chen Y, Chen ZP, Liu X, Zhang Z, Chen Y, Hou WT, Zhou CZ
OpenAccess logo Proc Natl Acad Sci U S A 119 e2118656119 (2022)
PMID: 35349344
Related structures: EMD-31969

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-128956 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (5 distinct):
Cell cycle control protein 50B Chain: A
Molecule details ›
Chain: A
Length: 363 amino acids
Theoretical weight: 40.31 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q3MIR4 (Residues: 1-351; Coverage: 100%)
Gene names: CDC50B, TMEM30B
Sequence domains: LEM3 (ligand-effect modulator 3) family / CDC50 family
Phospholipid-transporting ATPase IC Chain: B
Molecule details ›
Chain: B
Length: 1294 amino acids
Theoretical weight: 148.54 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: O43520 (Residues: 1-1251; Coverage: 100%)
Gene names: ATP8B1, ATPIC, FIC1, PFIC
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
2 bound ligands:
Ligand NAG 1 x NAG
Ligand MG 1 x MG
1 modified residue:
Ligand PHD 1 x PHD

Experiments and Validation Details

Entry percentile scores
Resolution: 3.39Å
Relevant EMDB volumes: EMD-31969
Expression system: Homo sapiens

Quick links

Citations

3 review citations

Genetic alterations and molecular mechanisms underlying hereditary intrahepatic cholestasis.
Xie et al. (2023)
2 more

1 mention without citation

Physiological and Pathological Functions of TMEM30A: An Essential Subunit of P4-ATPase Phospholipid Flippases.
Li et al. (2023)