4RSS

Crystal structure of tyrosine-protein kinase SYK with an inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.83 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.214 

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Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

Highly potent and selective pyrazolylpyrimidines as Syk kinase inhibitors.

Choi, J.S.Hwang, H.J.Kim, S.W.Lee, B.I.Lee, J.Song, H.J.Koh, J.S.Kim, J.H.Lee, P.H.

(2015) Bioorg Med Chem Lett 25: 4441-4446

  • DOI: 10.1016/j.bmcl.2015.09.011
  • Primary Citation of Related Structures:  
    4RSS

  • PubMed Abstract: 
  • A series of pyrazolylpyrimidine scaffold based Syk inhibitors were synthesized and evaluated for their biological activities and selectivity. Lead optimization efforts provided compounds with potent Syk inhibition in both enzymatic and TNF-α release assay ...

    A series of pyrazolylpyrimidine scaffold based Syk inhibitors were synthesized and evaluated for their biological activities and selectivity. Lead optimization efforts provided compounds with potent Syk inhibition in both enzymatic and TNF-α release assay.


    Organizational Affiliation

    Department of Chemistry, Kangwon National University, Chuncheon 200-701, Republic of Korea. Electronic address: phlee@kangwon.ac.kr.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Tyrosine-protein kinase SYKA290Homo sapiensMutation(s): 0 
Gene Names: SYK
EC: 2.7.10.2
UniProt & NIH Common Fund Data Resources
Find proteins for P43405 (Homo sapiens)
Explore P43405 
Go to UniProtKB:  P43405
PHAROS:  P43405
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
4MG (Subject of Investigation/LOI)
Query on 4MG

Download Ideal Coordinates CCD File 
B [auth A]1-[(3-methyl-1-{2-[(1,2,3-trimethyl-1H-indol-5-yl)amino]pyrimidin-4-yl}-1H-pyrazol-4-yl)methyl]azetidin-3-ol
C23 H27 N7 O
WVDKJJLIGILVRJ-UHFFFAOYSA-N
 Ligand Interaction
Binding Affinity Annotations 
IDSourceBinding Affinity
4MG Binding MOAD:  4RSS IC50: 1.7 (nM) from 1 assay(s)
BindingDB:  4RSS IC50: min: 1.7, max: 56 (nM) from 2 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.83 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.214 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 39.964α = 90
b = 88.281β = 91.48
c = 40.85γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
MOLREPphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Ligand Structure Quality Assessment  



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-10-21
    Type: Initial release