4YJT

THE KINASE DOMAIN OF HUMAN SPLEEN TYROSINE (SYK) IN COMPLEX WITH GTC000233

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.52 Å
  • R-Value Free: 0.208 
  • R-Value Work: 0.174 
  • R-Value Observed: 0.176 

wwPDB Validation   3D Report Full Report



Literature

Discovery of GSK143, a highly potent, selective and orally efficacious spleen tyrosine kinase inhibitor.

Liddle, J., Atkinson, F.L., Barker, M.D., Carter, P.S., Curtis, N.R., Davis, R.P., Douault, C., Dickson, M.C., Elwes, D., Garton, N.S., Gray, M., Hayhow, T.G., Hobbs, C.I., Jones, E., Leach, S., Leavens, K., Lewis, H.D., McCleary, S., Neu, M., Patel, V.K., Preston, A.G., Ramirez-Molina, C., Shipley, T.J., Skone, P.A., Smithers, N., Somers, D.O., Walker, A.L., Watson, R.J., Weingarten, G.G.

(2011) Bioorg Med Chem Lett 21: 6188-6194

  • DOI: 10.1016/j.bmcl.2011.07.082
  • Primary Citation of Related Structures:  
    3SRV, 4YJU, 4YJO, 4YJP, 4YJQ, 4YJR, 4YJS, 4YJT

  • PubMed Abstract: 

    • The lead optimisation of the diaminopyrimidine carboxamide series of spleen tyrosine kinase inhibitors is described. The medicinal chemistry strategy was focused on optimising the human whole blood activity whilst achieving a sufficient margin over liabi ...

    The lead optimisation of the diaminopyrimidine carboxamide series of spleen tyrosine kinase inhibitors is described. The medicinal chemistry strategy was focused on optimising the human whole blood activity whilst achieving a sufficient margin over liability kinases and hERG activity. GSK143 is a potent and highly selective SYK inhibitor showing good efficacy in the rat Arthus model.

    Organizational Affiliation: 

    GlaxoSmithKline R&D, Medicines Research Centre, Gunnels Wood Road, Stevenage, Hertfordshire, UK. john.2.liddle@gsk.com



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Tyrosine-protein kinase SYK A281Homo sapiensMutation(s): 0 
Gene Names: SYK
EC: 2.7.10.2
Find proteins for P43405 (Homo sapiens)
Explore P43405 
Go to UniProtKB:  P43405
NIH Common Fund Data Resources
PHAROS:  P43405
GTEx:  ENSG00000165025
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
4DQ
Query on 4DQ
Download Ideal Coordinates CCD File 
A
N~2~-(1,1-dioxido-2,3-dihydro-1,2-benzothiazol-6-yl)-N~4~-ethyl-5-fluoro-N~4~-(1H-indazol-4-yl)pyrimidine-2,4-diamine
C20 H18 F N7 O2 S
LLBDUMUPBVPAMJ-UHFFFAOYSA-N		 Ligand Interaction
GOL
Query on GOL
Download Ideal Coordinates CCD File 
A
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N		 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
PTR
Query on PTR		AL-PEPTIDE LINKINGC9 H12 N O6 PTYR
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
4DQIC50:  5.269999980926514   nM  BindingDB
4DQIC50:  3.5299999713897705   nM  BindingDB
4DQIC50:  2.549999952316284   nM  BindingDB
4DQIC50:  3.2899999618530273   nM  BindingDB
4DQIC50:  4.789999961853027   nM  BindingDB
4DQIC50:  6   nM  BindingDB
4DQIC50:  1.659999966621399   nM  BindingDB
4DQIC50:  4.75   nM  BindingDB
4DQIC50:  2.5299999713897705   nM  BindingDB
4DQIC50:  3.299999952316284   nM  BindingDB
4DQIC50:  2.0399999618530273   nM  BindingDB
4DQIC50:  4.019999980926514   nM  BindingDB
4DQIC50:  2.0299999713897705   nM  BindingDB
4DQIC50:  1.5399999618530273   nM  BindingDB
4DQIC50:  8.130000114440918   nM  BindingDB
4DQIC50:  3.049999952316284   nM  BindingDB
4DQIC50:  2.0199999809265137   nM  BindingDB
4DQIC50:  3.5   nM  BindingDB
4DQIC50:  6.579999923706055   nM  BindingDB
4DQIC50:  1.7999999523162842   nM  BindingDB
4DQIC50:  3.259999990463257   nM  BindingDB
4DQIC50:  2.75   nM  BindingDB
4DQIC50:  1.559999942779541   nM  BindingDB
4DQIC50:  2.009999990463257   nM  BindingDB
4DQIC50:  4.559999942779541   nM  BindingDB
4DQIC50:  1.4299999475479126   nM  BindingDB
4DQIC50:  4.579999923706055   nM  BindingDB
4DQIC50:  3.2699999809265137   nM  BindingDB
4DQIC50:  3.7799999713897705   nM  BindingDB
4DQIC50:  1.75   nM  BindingDB
4DQIC50:  3.0999999046325684   nM  BindingDB
4DQIC50:  2.119999885559082   nM  BindingDB
4DQIC50:  2.8499999046325684   nM  BindingDB
4DQIC50:  1.2599999904632568   nM  BindingDB
4DQIC50:  1.9299999475479126   nM  BindingDB
4DQIC50:  3.5999999046325684   nM  BindingDB
4DQIC50:  4.159999847412109   nM  BindingDB
4DQIC50:  2.619999885559082   nM  BindingDB
4DQIC50:  1.5099999904632568   nM  BindingDB
4DQIC50:  2.5899999141693115   nM  BindingDB
4DQIC50:  2.0999999046325684   nM  BindingDB
4DQIC50:  2.869999885559082   nM  BindingDB
4DQIC50:  0.4000000059604645   nM  BindingDB
4DQIC50:  2.0899999141693115   nM  BindingDB
4DQIC50:  1.9199999570846558   nM  BindingDB
4DQIC50:  3.309999942779541   nM  BindingDB
4DQIC50:  3.3299999237060547   nM  BindingDB
4DQIC50:  2.069999933242798   nM  BindingDB
4DQIC50:  1.909999966621399   nM  BindingDB
4DQIC50:  1.2699999809265137   nM  BindingDB
4DQIC50:  2.319999933242798   nM  BindingDB
4DQIC50:  2.4200000762939453   nM  BindingDB
4DQIC50:  4.050000190734863   nM  BindingDB
4DQIC50:  0.8700000047683716   nM  BindingDB
4DQIC50:  2.430000066757202   nM  BindingDB
4DQIC50:  1.4800000190734863   nM  BindingDB
4DQIC50:  2.680000066757202   nM  BindingDB
4DQIC50:  1.600000023841858   nM  BindingDB
4DQIC50:  3.630000114440918   nM  BindingDB
4DQIC50:  1.8300000429153442   nM  BindingDB
4DQIC50:  4.260000228881836   nM  BindingDB
4DQIC50:  2.390000104904175   nM  BindingDB
4DQIC50:  1.6100000143051147   nM  BindingDB
4DQIC50:  4.590000152587891   nM  BindingDB
4DQIC50:  2.1500000953674316   nM  BindingDB
4DQIC50:  3.380000114440918   nM  BindingDB
4DQIC50:  4.820000171661377   nM  BindingDB
4DQIC50:  2.9000000953674316   nM  BindingDB
4DQIC50:  1.6200000047683716   nM  BindingDB
4DQIC50:  3.9600000381469727   nM  BindingDB
4DQIC50:  4.150000095367432   nM  BindingDB
4DQIC50:  5.380000114440918   nM  BindingDB
4DQIC50:  6.900000095367432   nM  BindingDB
4DQIC50:  2.740000009536743   nM  BindingDB
4DQIC50:  2.4800000190734863   nM  BindingDB
4DQIC50:  3.940000057220459   nM  BindingDB
4DQIC50:  3.240000009536743   nM  BindingDB
4DQIC50:  7.190000057220459   nM  BindingDB
4DQIC50:  2.690000057220459   nM  BindingDB
4DQIC50:  0.9800000190734863   nM  BindingDB
4DQIC50:  2.9600000381469727   nM  BindingDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.52 Å
  • R-Value Free: 0.208 
  • R-Value Work: 0.174 
  • R-Value Observed: 0.176 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 39.328α = 90
b = 87.214β = 92.39
c = 40.23γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
BUSTERrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report


View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-09-30
    Type: Initial release