4DFN

Crystal structure of spleen tyrosine kinase complexed with an adamantylpyrazine inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.48 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.217 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Pyrazine-based Syk kinase inhibitors.

Forns, P.Esteve, C.Taboada, L.Alonso, J.A.Orellana, A.Maldonado, M.Carreno, C.Ramis, I.Lopez, M.Miralpeix, M.Vidal, B.

(2012) Bioorg.Med.Chem.Lett. 22: 2784-2788

  • DOI: 10.1016/j.bmcl.2012.02.087
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • A series of aminopyrazines as inhibitors of Syk kinase activity and showing inhibition of LAD2 cells degranulation is described. Optimization of the carboxamide motif with aminomethylpiperidines provided high potency inhibiting Syk but low cellular a ...

    A series of aminopyrazines as inhibitors of Syk kinase activity and showing inhibition of LAD2 cells degranulation is described. Optimization of the carboxamide motif with aminomethylpiperidines provided high potency inhibiting Syk but low cellular activity. Amides of cis and trans adamantanol showed good inhibitory activity against Syk as well as remarkable activity in LAD2 cells degranulation assay.


    Organizational Affiliation

    Almirall-Barcelona Science Park Unit, Barcelona Science Park, 08028 Barcelona, Spain.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Tyrosine-protein kinase SYK
A
274Homo sapiensMutation(s): 0 
Gene Names: SYK
EC: 2.7.10.2
Find proteins for P43405 (Homo sapiens)
Go to Gene View: SYK
Go to UniProtKB:  P43405
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
0K1
Query on 0K1

Download SDF File 
Download CCD File 
A
3-amino-6-[3-(1-methyl-1H-pyrazol-4-yl)phenyl]-N-[(1R,2r,3S,5s,7s)-5-hydroxyadamantan-2-yl]pyrazine-2-carboxamide
C25 H28 N6 O2
KADWYJUBGMHRCN-QWOVOEGBSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
0K1IC50: 40 nM BINDINGMOAD
0K1IC50: 20 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.48 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.217 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 40.295α = 90.00
b = 84.848β = 90.00
c = 90.996γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
XSCALEdata scaling
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-04-25
    Type: Initial release
  • Version 1.1: 2018-04-04
    Type: Advisory, Data collection
  • Version 1.2: 2018-04-11
    Type: Data collection, Source and taxonomy