› 3bps

X-ray diffraction
2.41Å resolution

PCSK9:EGF-A complex

Released:
DOI: 10.2210/pdb3bps/pdb
PDB entry 3bps coloured by chain, front view.
PDB entry 3bps coloured by chain, side view.
PDB entry 3bps coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Molecular basis for LDL receptor recognition by PCSK9.
Kwon HJ, Lagace TA, McNutt MC, Horton JD, Deisenhofer J
Proc Natl Acad Sci U S A 105 1820-5 (2008)
PMID: 18250299

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-134047 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Proprotein convertase subtilisin/kexin type 9 Chain: P
Molecule details ›
Chain: P
Length: 100 amino acids
Theoretical weight: 11.28 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8NBP7 (Residues: 53-152; Coverage: 15%)
Gene names: NARC1, PCSK9, PSEC0052
Sequence domains: Peptidase inhibitor I9
Structure domains: Peptidase S8 propeptide/proteinase inhibitor I9
Proprotein convertase subtilisin/kexin type 9 Chain: A
Molecule details ›
Chain: A
Length: 540 amino acids
Theoretical weight: 57.44 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8NBP7 (Residues: 153-692; Coverage: 82%)
Gene names: NARC1, PCSK9, PSEC0052
Sequence domains:
Structure domains:
Low-density lipoprotein receptor Chain: E
Molecule details ›
Chain: E
Length: 83 amino acids
Theoretical weight: 9.09 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P01130 (Residues: 314-393; Coverage: 10%)
Gene name: LDLR
Structure domains: Laminin

Ligands and Environments

1 bound ligand:
Ligand CA 1 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P41212
Unit cell:
a: 116.952Å b: 116.952Å c: 134.878Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.205 0.203 0.24
Expression system: Escherichia coli

Quick links

Citations

71 review citations

Mechanisms and regulation of cholesterol homeostasis.
Luo et al. (2020)
70 more

10 mentions without citation

The biology of PCSK9 from the endoplasmic reticulum to lysosomes: new and emerging therapeutics to control low-density lipoprotein cholesterol.
Poirier et al. (2013)
9 more