› 4kdt

X-ray diffraction
2.6Å resolution

Structure of an early native-like intermediate of beta2-microglobulin amyloidosis

Released:
DOI: 10.2210/pdb4kdt/pdb
PDB entry 4kdt coloured by chain, front view.
PDB entry 4kdt coloured by chain, side view.
PDB entry 4kdt coloured by chain, top view.
Source organisms:
Primary publication:
Structure of an early native-like intermediate of β2-microglobulin amyloidogenesis.
Vanderhaegen S, Fislage M, Domanska K, Versées W, Pardon E, Bellotti V, Steyaert J
Protein Sci 22 1349-57 (2013)
PMID: 23904325

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-211467 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Nanobody24 Chains: A, B
Molecule details ›
Chains: A, B
Length: 134 amino acids
Theoretical weight: 14.99 KDa
Source organism: Camelidae
Expression system: Escherichia coli
Structure domains: Immunoglobulins
Beta-2-microglobulin Chains: C, D
Molecule details ›
Chains: C, D
Length: 100 amino acids
Theoretical weight: 11.84 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P61769 (Residues: 21-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins

Ligands and Environments

2 bound ligands:
Ligand SO4 6 x SO4
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P42212
Unit cell:
a: 96.79Å b: 96.79Å c: 167.79Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.228 0.226 0.274
Expression systems:
  • Escherichia coli
  • Escherichia coli BL21(DE3)

Quick links

Citations

5 review citations

Camelid nanobodies: killing two birds with one stone.
Desmyter et al. (2015)
4 more

2 mentions without citation

Structure of an early native-like intermediate of β2-microglobulin amyloidogenesis.
Vanderhaegen et al. (2013)
1 more