PDBe 1ybo

X-ray diffraction
2.3Å resolution

Crystal structure of the PDZ tandem of human syntenin with syndecan peptide

Released:

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Syntenin-1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 166 amino acids
Theoretical weight: 18.02 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: O00560 (Residues: 113-273; Coverage: 54%)
Gene names: MDA9, SDCBP, SYCL
Sequence domains:
Structure domains: Pdz3 Domain
Syndecan-4 Chains: C, D
Molecule details ›
Chains: C, D
Length: 17 amino acids
Theoretical weight: 1.97 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P31431 (Residues: 182-198; Coverage: 9%)
Gene name: SDC4

Ligands and Environments

No bound ligands

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X8C
Spacegroup: P41212
Unit cell:
a: 72.322Å b: 72.322Å c: 125.921Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.197 0.193 0.273
Expression systems:
  • Escherichia coli BL21
  • Not provided