5TWL

Structure of Maternal Embryonic Leucine Zipper Kinase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.42 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.196 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

MELK is not necessary for the proliferation of basal-like breast cancer cells.

Huang, H.T.Seo, H.S.Zhang, T.Wang, Y.Jiang, B.Li, Q.Buckley, D.L.Nabet, B.Roberts, J.M.Paulk, J.Dastjerdi, S.Winter, G.E.McLauchlan, H.Moran, J.Bradner, J.E.Eck, M.J.Dhe-Paganon, S.Zhao, J.J.Gray, N.S.

(2017) Elife 6: --

  • DOI: 10.7554/eLife.26693
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Thorough preclinical target validation is essential for the success of drug discovery efforts. In this study, we combined chemical and genetic perturbants, including the development of a novel selective maternal embryonic leucine zipper kinase (MELK) ...

    Thorough preclinical target validation is essential for the success of drug discovery efforts. In this study, we combined chemical and genetic perturbants, including the development of a novel selective maternal embryonic leucine zipper kinase (MELK) inhibitor HTH-01-091, CRISPR/Cas9-mediated MELK knockout, a novel chemical-induced protein degradation strategy, RNA interference and CRISPR interference to validate MELK as a therapeutic target in basal-like breast cancers (BBC). In common culture conditions, we found that small molecule inhibition, genetic deletion, or acute depletion of MELK did not significantly affect cellular growth. This discrepancy to previous findings illuminated selectivity issues of the widely used MELK inhibitor OTSSP167, and potential off-target effects of MELK-targeting short hairpins. The different genetic and chemical tools developed here allow for the identification and validation of any causal roles MELK may play in cancer biology, which will be required to guide future MELK drug discovery efforts. Furthermore, our study provides a general framework for preclinical target validation.


    Organizational Affiliation

    Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, United States.,MRC Protein Phosphorylation and Ubiquitylation Unit, College of Life Sciences, University of Dundee, Dundee, United Kingdom.,Department of Medicine, Harvard Medical School, Boston, United States.,Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, United States.,Novartis Institutes for Biomedical Research, Cambridge, United States.,Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Maternal embryonic leucine zipper kinase
A
341Homo sapiensMutation(s): 0 
Gene Names: MELK (KIAA0175)
EC: 2.7.11.1
Find proteins for Q14680 (Homo sapiens)
Go to Gene View: MELK
Go to UniProtKB:  Q14680
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
H91
Query on H91

Download SDF File 
Download CCD File 
A
9-(3,5-dichloro-4-hydroxyphenyl)-1-{trans-4-[(dimethylamino)methyl]cyclohexyl}-3,4-dihydropyrimido[5,4-c]quinolin-2(1H)-one
C26 H28 Cl2 N4 O2
FUVRHGKKWNNBJX-RHDGDCLCSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
H91IC50: 10.5 nM BINDINGMOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.42 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.196 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 57.520α = 90.00
b = 68.300β = 90.00
c = 104.950γ = 90.00
Software Package:
Software NamePurpose
XDSdata processing
XSCALEdata scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-11-22
    Type: Initial release
  • Version 1.1: 2018-12-19
    Type: Data collection, Database references