› 8blu

X-ray diffraction
1.5Å resolution

The PDZ domains of human SDCBP

Released:
DOI: 10.2210/pdb8blu/pdb
PDB entry 8blu coloured by chain, front view.
PDB entry 8blu coloured by chain, side view.
PDB entry 8blu coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Bradshaw WJ, Katis VL, Daniel-Mozo M, Bountra C, von Delft F, Brennan PE

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-126342 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Syntenin-1 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 195 amino acids
Theoretical weight: 21.43 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: O00560 (Residues: 106-298; Coverage: 65%)
Gene names: MDA9, SDCBP, SYCL
Sequence domains: PDZ domain

Ligands and Environments

7 bound ligands:
Ligand EDO 9 x EDO
Ligand SO4 3 x SO4
Ligand GOL 2 x GOL
Ligand DGL 2 x DGL
Ligand MES 1 x MES
Ligand GLY 4 x GLY
Ligand ALA 1 x ALA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P21
Unit cell:
a: 79.603Å b: 49.588Å c: 118.194Å
α: 90° β: 93.928° γ: 90°
R-values:
R R work R free
0.184 0.183 0.223
Expression system: Escherichia coli BL21

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