› 3f6k

X-ray diffraction
2Å resolution

Crystal structure of the Vps10p domain of human sortilin/NTS3 in complex with neurotensin

Released:
DOI: 10.2210/pdb3f6k/pdb
PDB entry 3f6k coloured by chain, front view.
PDB entry 3f6k coloured by chain, side view.
PDB entry 3f6k coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Ligands bind to Sortilin in the tunnel of a ten-bladed beta-propeller domain.
Quistgaard EM, Madsen P, Grøftehauge MK, Nissen P, Petersen CM, Thirup SS
Nat Struct Mol Biol 16 96-8 (2009)
PMID: 19122660

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-151867 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (4 distinct):
Sortilin Chain: A
Molecule details ›
Chain: A
Length: 685 amino acids
Theoretical weight: 76.77 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: Q99523 (Residues: 78-756; Coverage: 85%)
Gene name: SORT1
Sequence domains:
Structure domains:
Neurotensin Chain: N
Molecule details ›
Chain: N
Length: 13 amino acids
Theoretical weight: 1.68 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P30990 (Residues: 151-163; Coverage: 9%)
Gene name: NTS

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
2 bound ligands:
Ligand PGE 1 x PGE
Ligand GOL 1 x GOL
1 modified residue:
Ligand PCA 1 x PCA

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: C2
Unit cell:
a: 145.76Å b: 74.53Å c: 108.33Å
α: 90° β: 131.87° γ: 90°
R-values:
R R work R free
0.205 0.204 0.229
Expression systems:
  • Cricetulus griseus
  • Not provided

Quick links

Citations

18 review citations

Lysosome biogenesis and lysosomal membrane proteins: trafficking meets function.
Saftig et al. (2009)
17 more

15 mentions without citation

Sortilin in Glucose Homeostasis: From Accessory Protein to Key Player?
Blondeau et al. (2018)
14 more