MK2 complex with inhibitor 6-(5-(2-aminopyrimidin-4-ylamino)-2-hydroxyphenyl)-N-methylbenzo[b]thiophene-2-carboxamide

Experimental Data Snapshot

  • Resolution: 2.90 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.230 
  • R-Value Observed: 0.232 

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Ligand Structure Quality Assessment 

This is version 1.3 of the entry. See complete history


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: https://doi.org/10.1016/j.bmcl.2009.10.102
  • Primary Citation of Related Structures:  
    3KA0, 3KC3

  • 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 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.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
MAP kinase-activated protein kinase 2320Homo sapiensMutation(s): 1 
Gene Names: MAPKAPK2
UniProt & NIH Common Fund Data Resources
Find proteins for P49137 (Homo sapiens)
Explore P49137 
Go to UniProtKB:  P49137
PHAROS:  P49137
GTEx:  ENSG00000162889 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP49137
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on MK3

Download Ideal Coordinates CCD File 
B [auth A]6-{5-[(2-aminopyrimidin-4-yl)amino]-2-hydroxyphenyl}-N-methylidene-1-benzothiophene-2-carboxamide
C20 H15 N5 O2 S
Experimental Data & Validation

Experimental Data

  • Resolution: 2.90 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.230 
  • R-Value Observed: 0.232 
  • Space Group: F 41 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 253.508α = 90
b = 253.508β = 90
c = 253.508γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
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: 2010-01-12
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Advisory, Version format compliance
  • Version 1.2: 2021-10-13
    Changes: Database references, Derived calculations
  • Version 1.3: 2024-02-21
    Changes: Data collection