› 6hm7

X-ray diffraction
1.64Å resolution

CRYSTAL STRUCTURE OF SPLEEN TYROSINE KINASE (SYK) IN COMPLEX WITH A 2-(PHENOXYMETHYL)PYRIDINE INHIBITOR

Released:
DOI: 10.2210/pdb6hm7/pdb
PDB entry 6hm7 coloured by chain, front view.
PDB entry 6hm7 coloured by chain, side view.
PDB entry 6hm7 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Discovery of potent and selective Spleen Tyrosine Kinase inhibitors for the topical treatment of inflammatory skin disease.
Barker MD, Liddle J, Atkinson FL, Wilson DM, Dickson MC, Ramirez-Molina C, Lewis H, Davis RP, Somers DO, Neu M, Jones E, Watson R
Bioorg Med Chem Lett 28 3458-3462 (2018)
PMID: 30249354

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-155056 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Tyrosine-protein kinase SYK Chain: A
Molecule details ›
Chain: A
Length: 276 amino acids
Theoretical weight: 32.1 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P43405 (Residues: 360-635; Coverage: 44%)
Gene name: SYK
Sequence domains: Protein tyrosine and serine/threonine kinase
Structure domains:

Ligands and Environments

4 bound ligands:
Ligand GDH 1 x GDH
Ligand BR 3 x BR
Ligand GOL 1 x GOL
Ligand DMS 1 x DMS
1 modified residue:
Ligand PTR 1 x PTR

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: P21
Unit cell:
a: 41.114Å b: 84.892Å c: 40.361Å
α: 90° β: 100.16° γ: 90°
R-values:
R R work R free
0.174 0.172 0.21
Expression system: Spodoptera frugiperda

Quick links

Citations

3 review citations

Current and emerging treatments for chronic spontaneous urticaria.
Johal et al. (2020)
2 more

1 mention without citation

Rapid Characterization of Chemical Components in Edible Mushroom Sparassis crispa by UPLC-Orbitrap MS Analysis and Potential Inhibitory Effects on Allergic Rhinitis.
Wang et al. (2019)