› 5onp

X-ray diffraction
1.34Å resolution

Alzheimer's Amyloid-Beta Peptide Fragment 1-40 in Complex with Cd-substituted Thermolysin

Released:
DOI: 10.2210/pdb5onp/pdb
PDB entry 5onp coloured by chain, front view.
PDB entry 5onp coloured by chain, side view.
PDB entry 5onp coloured by chain, top view.
Source organisms:
Primary publication:
Alzheimer's Aβ1-40 peptide degradation by thermolysin: evidence of inhibition by a C-terminal Aβ product.
Leite JP, Gales L
FEBS Lett 593 128-137 (2019)
PMID: 30403288

Function and Biology Details

Reaction catalysed: 
Preferential cleavage: -|-Leu > -|-Phe.
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-138361 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Thermolysin Chain: A
Molecule details ›
Chain: A
Length: 316 amino acids
Theoretical weight: 34.36 KDa
Source organism: Geobacillus stearothermophilus
UniProt:
  • Canonical: P43133 (Residues: 236-551; Coverage: 61%)
Gene names: nprM, nprS
Sequence domains:
Structure domains:
P3(40) Chain: B
Molecule details ›
Chain: B
Length: 5 amino acids
Theoretical weight: 430 Da
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P05067 (Residues: 700-704; Coverage: 1%)
Gene names: A4, AD1, APP

Ligands and Environments

3 bound ligands:
Ligand CA 3 x CA
Ligand CD 2 x CD
Ligand DMS 1 x DMS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID30B
Spacegroup: P6122
Unit cell:
a: 93.412Å b: 93.412Å c: 130.149Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.162 0.161 0.18
Expression system: Not provided

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