› 5d7f

X-ray diffraction
1.3Å resolution

X-ray structure of Ca(2+)-S100B with human RAGE-derived W72 peptide

Released:
DOI: 10.2210/pdb5d7f/pdb
PDB entry 5d7f coloured by chain, front view.
PDB entry 5d7f coloured by chain, side view.
PDB entry 5d7f coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Jensen JL, Colbert CL

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-137554 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Protein S100-B Chains: A, B
Molecule details ›
Chains: A, B
Length: 92 amino acids
Theoretical weight: 10.73 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P04271 (Residues: 1-92; Coverage: 100%)
Gene name: S100B
Sequence domains:
Structure domains: EF-hand
Advanced glycosylation end product-specific receptor Chain: P
Molecule details ›
Chain: P
Length: 15 amino acids
Theoretical weight: 1.53 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: Q15109 (Residues: 65-79; Coverage: 4%)
Gene names: AGER, RAGE

Ligands and Environments

2 bound ligands:
Ligand CA 4 x CA
Ligand GOL 6 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P21
Unit cell:
a: 35.089Å b: 59.824Å c: 47.563Å
α: 90° β: 111.65° γ: 90°
R-values:
R R work R free
0.158 0.157 0.183
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

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