› 5fdx

X-ray diffraction
2.65Å resolution

Structure of DDR1 receptor tyrosine kinase in complex with D2164 inhibitor at 2.65 Angstroms resolution.

Released:
DOI: 10.2210/pdb5fdx/pdb
PDB entry 5fdx coloured by chain, front view.
PDB entry 5fdx coloured by chain, side view.
PDB entry 5fdx coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Bartual SG, Pinkas DM, Wang Z, Ding K, Mahajan P, Kupinska K, Mukhopadhyay S, Strain-Damerell C, Chalk R, Borkowska O, Talon R, Kopec J, Williams E, Tallant C, Chaikuad A, Sorell F, Newman J, Burgess-Brown N, von Delft F, Arrowsmith CH, Edwards AM, Bountra C, Bullock A, Structural Genomics Consortium (SGC)

Function and Biology Details

Reaction catalysed: 
ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-170636 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Epithelial discoidin domain-containing receptor 1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 337 amino acids
Theoretical weight: 38.28 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q08345 (Residues: 601-913; Coverage: 35%)
Gene names: CAK, DDR1, EDDR1, NEP, NTRK4, PTK3A, RTK6, TRKE
Sequence domains: Protein tyrosine and serine/threonine kinase
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand 5X1 2 x 5X1
Ligand EDO 5 x EDO
Ligand PEG 3 x PEG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P21
Unit cell:
a: 45.548Å b: 120.34Å c: 63.02Å
α: 90° β: 94.87° γ: 90°
R-values:
R R work R free
0.198 0.194 0.273
Expression system: Spodoptera frugiperda

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