Structure of the mitogen activated kinase kinase 7 in complex with pyrazolopyrimidine 1m

Experimental Data Snapshot

  • Resolution: 2.52 Å
  • R-Value Free: 0.294 
  • R-Value Work: 0.237 
  • R-Value Observed: 0.241 

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Characterization of Covalent Pyrazolopyrimidine-MKK7 Complexes and a Report on a Unique DFG-in/Leu-in Conformation of Mitogen-Activated Protein Kinase Kinase 7 (MKK7).

Wolle, P.Engel, J.Smith, S.Goebel, L.Hennes, E.Lategahn, J.Rauh, D.

(2019) J Med Chem 62: 5541-5546

  • DOI: https://doi.org/10.1021/acs.jmedchem.9b00472
  • Primary Citation of Related Structures:  
    6QFL, 6QFR, 6QFT, 6QG4, 6QG7, 6QHO, 6QHR

  • PubMed Abstract: 

    Pyrazolopyrimidines are well-established as covalent inhibitors of protein kinases such as the epidermal growth factor receptor or Bruton's tyrosine kinase, and we recently described their potential in targeting mitogen-activated protein kinase kinase 7 (MKK7). Herein, we report the structure-activity relationship of pyrazolopyrimidine-based MKK7 inhibitors and solved several complex crystal structures to gain insights into their binding mode. In addition, we present two structures of apo-MKK7, exhibiting a DFG-out and an unprecedented DFG-in/Leu-in conformation.

  • Organizational Affiliation

    Faculty of Chemistry and Chemical Biology , TU Dortmund University , Otto-Hahn-Strasse 4a , 44227 Dortmund , Germany.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Dual specificity mitogen-activated protein kinase kinase 7318Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for O14733 (Homo sapiens)
Explore O14733 
Go to UniProtKB:  O14733
PHAROS:  O14733
GTEx:  ENSG00000076984 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO14733
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on J3N

Download Ideal Coordinates CCD File 
B [auth A]1-[(3~{R})-3-[4-azanyl-3-(1~{H}-pyrrolo[2,3-b]pyridin-5-yl)pyrazolo[3,4-d]pyrimidin-1-yl]piperidin-1-yl]propan-1-one
C20 H22 N8 O
Experimental Data & Validation

Experimental Data

  • Resolution: 2.52 Å
  • R-Value Free: 0.294 
  • R-Value Work: 0.237 
  • R-Value Observed: 0.241 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 62.1α = 90
b = 69β = 90
c = 84.9γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata 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: 2019-05-22
    Type: Initial release
  • Version 1.1: 2019-05-29
    Changes: Data collection, Database references
  • Version 1.2: 2019-06-05
    Changes: Data collection, Derived calculations, Structure summary
  • Version 1.3: 2019-06-12
    Changes: Data collection, Database references
  • Version 1.4: 2019-06-26
    Changes: Data collection, Database references
  • Version 1.5: 2024-01-24
    Changes: Data collection, Database references, Refinement description