› 5g1e

X-ray diffraction
1.92Å resolution

The complex structure of syntenin-1 PDZ domain with c-terminal extension

Released:
DOI: 10.2210/pdb5g1e/pdb
PDB entry 5g1e coloured by chain, front view.
PDB entry 5g1e coloured by chain, side view.
PDB entry 5g1e coloured by chain, top view.
Source organism: Rattus norvegicus
Primary publication:
New structural insight of C-terminal region of Syntenin-1, enhancing the molecular dimerization and inhibitory function related on Syndecan-4 signaling.
Choi Y, Yun JH, Yoo J, Lee I, Kim H, Son HN, Kim IS, Yoon HS, Zimmermann P, Couchman JR, Cho HS, Oh ES, Lee W
Sci Rep 6 36818 (2016)
PMID: 27830760

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-191603 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Syntenin-1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 201 amino acids
Theoretical weight: 21.82 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9JI92 (Residues: 108-300; Coverage: 64%)
Gene name: Sdcbp
Sequence domains: PDZ domain
Structure domains: Pdz3 Domain

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PAL/PLS BEAMLINE 5C (4A)
Spacegroup: P212121
Unit cell:
a: 52.74Å b: 63.318Å c: 103.62Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.234 0.232 0.28
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

6 review citations

Syndecan-4 as a Pathogenesis Factor and Therapeutic Target in Cancer.
Onyeisi et al. (2021)
5 more

2 mentions without citation

New structural insight of C-terminal region of Syntenin-1, enhancing the molecular dimerization and inhibitory function related on Syndecan-4 signaling.
Choi et al. (2016)
1 more