3KC3

MK2 complexed to inhibitor N4-(7-(benzofuran-2-yl)-1H-indazol-5-yl)pyrimidine-2,4-diamine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.230 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

2,4-Diaminopyrimidine MK2 inhibitors. Part I: Observation of an unexpected inhibitor binding mode.

Argiriadi, M.A.Ericsson, A.M.Harris, C.M.Banach, D.L.Borhani, D.W.Calderwood, D.J.Demers, M.D.Dimauro, J.Dixon, R.W.Hardman, J.Kwak, S.Li, B.Mankovich, J.A.Marcotte, D.Mullen, K.D.Ni, B.Pietras, M.Sadhukhan, R.Sousa, S.Tomlinson, M.J.Wang, L.Xiang, T.Talanian, R.V.

(2010) Bioorg.Med.Chem.Lett. 20: 330-333

  • DOI: 10.1016/j.bmcl.2009.10.102
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • MK2 is a Ser/Thr kinase of significant interest as an anti-inflammatory drug discovery target. Here we describe the development of in vitro tools for the identification and characterization of MK2 inhibitors, including validation of inhibitor interac ...

    MK2 is a Ser/Thr kinase of significant interest as an anti-inflammatory drug discovery target. Here we describe the development of in vitro tools for the identification and characterization of MK2 inhibitors, including validation of inhibitor interactions with the crystallography construct and determination of the unique binding mode of 2,4-diaminopyrimidine inhibitors in the MK2 active site. Use of these tools in the optimization of a potent and selective inhibitor lead series is described in the accompanying Letter.


    Organizational Affiliation

    Abbott Laboratories, 100 Research Drive, Worcester, MA 01605-5314, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
MAP kinase-activated protein kinase 2
A, B, C, D, E, F, G, H, I, J, K, L
324Homo sapiensMutation(s): 0 
Gene Names: MAPKAPK2
EC: 2.7.11.1
Find proteins for P49137 (Homo sapiens)
Go to Gene View: MAPKAPK2
Go to UniProtKB:  P49137
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MK2
Query on MK2

Download SDF File 
Download CCD File 
A, B, C, D, E, F, H, I, J, K, L
N~4~-[7-(1-benzofuran-2-yl)-1H-indazol-5-yl]pyrimidine-2,4-diamine
N4-[7-(1-benzofuran-2-yl)-1H-indazol-5-yl]pyrimidine-2,4-diamine
C19 H14 N6 O
IQDDLNJTLVXFQA-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
MK2IC50: 1300 nM (100) BINDINGDB
MK2IC50: 160 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.230 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 139.351α = 90.00
b = 179.793β = 90.00
c = 214.376γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data collection
HKL-2000data scaling
HKL-2000data reduction
REFMACrefinement
MOLREPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-01-12
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Version format compliance