› 8pe9

X-ray diffraction
3.15Å resolution

Complex between DDR1 DS-like domain and PRTH-101 Fab

Released:
DOI: 10.2210/pdb8pe9/pdb
PDB entry 8pe9 coloured by chain, front view.
PDB entry 8pe9 coloured by chain, side view.
PDB entry 8pe9 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
A highly selective humanized DDR1 mAb reverses immune exclusion by disrupting collagen fiber alignment in breast cancer.
Liu J, Chiang HC, Xiong W, Laurent V, Griffiths SC, Dülfer J, Deng H, Sun X, Yin YW, Li W, Audoly LP, An Z, Schürpf T, Li R, Zhang N
OpenAccess logo J Immunother Cancer 11 (2023)
PMID: 37328286

Function and Biology Details

Reaction catalysed: 
ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-226207 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (4 distinct):
Epithelial discoidin domain-containing receptor 1 Chain: A
Molecule details ›
Chain: A
Length: 183 amino acids
Theoretical weight: 20.38 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q08345 (Residues: 188-370; Coverage: 20%)
Gene names: CAK, DDR1, EDDR1, NEP, NTRK4, PTK3A, RTK6, TRKE
Sequence domains: Discoidin domain-containing receptor 1/2, DS-like domain
PRTH-101 Fab, heavy chain Chain: H
Molecule details ›
Chain: H
Length: 222 amino acids
Theoretical weight: 23.85 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
PRTH-101 Fab, light chain Chain: L
Molecule details ›
Chain: L
Length: 212 amino acids
Theoretical weight: 22.79 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, FUC
Carbohydrate polymer
4 bound ligands:
Ligand CA 1 x CA
Ligand NAG 1 x NAG
Ligand ZN 3 x ZN
Ligand NA 1 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X10SA
Spacegroup: P21212
Unit cell:
a: 117.096Å b: 144.45Å c: 52.299Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.28 0.278 0.309
Expression system: Homo sapiens

Quick links

Citations

1 review citation

Regulation of tumor immunity and immunotherapy by the tumor collagen extracellular matrix.
Flies et al. (2023)
1 other article

1 mention without citation

A highly selective humanized DDR1 mAb reverses immune exclusion by disrupting collagen fiber alignment in breast cancer.
Liu et al. (2023)