› 4dgi

X-ray diffraction
2.4Å resolution

Structure of POM1 FAB fragment complexed with human PrPc Fragment 120-230

Released:
DOI: 10.2210/pdb4dgi/pdb
PDB entry 4dgi coloured by chain, front view.
PDB entry 4dgi coloured by chain, side view.
PDB entry 4dgi coloured by chain, top view.
Source organisms:
Primary publication:
Structural studies on the folded domain of the human prion protein bound to the Fab fragment of the antibody POM1.
Baral PK, Wieland B, Swayampakula M, Polymenidou M, Rahman MH, Kav NN, Aguzzi A, James MN
Acta Crystallogr D Biol Crystallogr 68 1501-12 (2012)
PMID: 23090399

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-208986 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Major prion protein Chain: A
Molecule details ›
Chain: A
Length: 111 amino acids
Theoretical weight: 13.09 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P04156 (Residues: 120-230; Coverage: 48%)
Gene names: ALTPRP, PRIP, PRNP, PRP
Sequence domains: Prion/Doppel alpha-helical domain
Structure domains: Prion/Doppel protein, beta-ribbon domain
POM1 Fab Heavy chain Chain: H
Molecule details ›
Chain: H
Length: 218 amino acids
Theoretical weight: 23.4 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
POM1 Fab Light chain Chain: L
Molecule details ›
Chain: L
Length: 213 amino acids
Theoretical weight: 23.51 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: CLSI BEAMLINE 08ID-1
Spacegroup: C2
Unit cell:
a: 83.53Å b: 105.92Å c: 76.23Å
α: 90° β: 95.08° γ: 90°
R-values:
R R work R free
0.259 0.258 0.289
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Toward Therapy of Human Prion Diseases.
Aguzzi et al. (2018)
1 more

5 mentions without citation

Transition of the prion protein from a structured cellular form (PrPC ) to the infectious scrapie agent (PrPSc ).
Baral et al. (2019)
4 more