6HKM

Crystal structure of Compound 1 with ERK5


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.47 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.218 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Discovery and Characterization of the Potent and Highly Selective (Piperidin-4-yl)pyrido[3,2- d]pyrimidine Based in Vitro Probe BAY-885 for the Kinase ERK5.

Nguyen, D.Lemos, C.Wortmann, L.Eis, K.Holton, S.J.Boemer, U.Moosmayer, D.Eberspaecher, U.Weiske, J.Lechner, C.Prechtl, S.Suelzle, D.Siegel, F.Prinz, F.Lesche, R.Nicke, B.Nowak-Reppel, K.Himmel, H.Mumberg, D.von Nussbaum, F.Nising, C.F.Bauser, M.Haegebarth, A.

(2019) J. Med. Chem. 62: 928-940

  • DOI: 10.1021/acs.jmedchem.8b01606
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The availability of a chemical probe to study the role of a specific domain of a protein in a concentration- and time-dependent manner is of high value. Herein, we report the identification of a highly potent and selective ERK5 inhibitor BAY-885 by h ...

    The availability of a chemical probe to study the role of a specific domain of a protein in a concentration- and time-dependent manner is of high value. Herein, we report the identification of a highly potent and selective ERK5 inhibitor BAY-885 by high-throughput screening and subsequent structure-based optimization. ERK5 is a key integrator of cellular signal transduction, and it has been shown to play a role in various cellular processes such as proliferation, differentiation, apoptosis, and cell survival. We could demonstrate that inhibition of ERK5 kinase and transcriptional activity with a small molecule did not translate into antiproliferative activity in different relevant cell models, which is in contrast to the results obtained by RNAi technology.


    Organizational Affiliation

    Research & Development, Pharmaceuticals , Bayer AG , 13353 Berlin , Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Mitogen-activated protein kinase 7
A
347Homo sapiensMutation(s): 0 
Gene Names: MAPK7 (BMK1, ERK5, PRKM7)
EC: 2.7.11.24
Find proteins for Q13164 (Homo sapiens)
Go to Gene View: MAPK7
Go to UniProtKB:  Q13164
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
G92
Query on G92

Download SDF File 
Download CCD File 
A
[4-(6,7-dimethoxyquinazolin-4-yl)piperidin-1-yl]-[4-(trifluoromethyloxy)phenyl]methanone
C23 H22 F3 N3 O4
SRRBAUZQZOASOY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.47 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.218 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 92.477α = 90.00
b = 92.477β = 90.00
c = 108.450γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
XDSdata reduction
REFMACrefinement
PHASERphasing
Aimlessdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-02-27
    Type: Initial release