5T8Q

Crystal structure of murine NF-kappaB inducing kinase (NIK) bound to aryl pyrrole fragment 17

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.63 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.198 
  • R-Value Observed: 0.203 

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This is version 1.2 of the entry. See complete history. 


Literature

Structure-Based Design of Tricyclic NF-kappa B Inducing Kinase (NIK) Inhibitors That Have High Selectivity over Phosphoinositide-3-kinase (PI3K).

Castanedo, G.M., Blaquiere, N., Beresini, M., Bravo, B., Brightbill, H., Chen, J., Cui, H.F., Eigenbrot, C., Everett, C., Feng, J., Godemann, R., Gogol, E., Hymowitz, S., Johnson, A., Kayagaki, N., Kohli, P.B., Knuppel, K., Kraemer, J., Kruger, S., Loke, P., McEwan, P., Montalbetti, C., Roberts, D.A., Smith, M., Steinbacher, S., Sujatha-Bhaskar, S., Takahashi, R., Wang, X., Wu, L.C., Zhang, Y., Staben, S.T.

(2017) J Med Chem 60: 627-640

  • DOI: 10.1021/acs.jmedchem.6b01363
  • Primary Citation of Related Structures:  
    5T8F, 5T8O, 5T8P, 5T8Q

  • PubMed Abstract: 

    • We report here structure-guided optimization of a novel series of NF-κB inducing kinase (NIK) inhibitors. Starting from a modestly potent, low molecular weight lead, activity was improved by designing a type 11/2 binding mode that accessed a back pocket past the methionine-471 gatekeeper ...

    We report here structure-guided optimization of a novel series of NF-κB inducing kinase (NIK) inhibitors. Starting from a modestly potent, low molecular weight lead, activity was improved by designing a type 11/2 binding mode that accessed a back pocket past the methionine-471 gatekeeper. Divergent binding modes in NIK and PI3K were exploited to dampen PI3K inhibition while maintaining NIK inhibition within these series. Potent compounds were discovered that selectively inhibit the nuclear translocation of NF-κB2 (p52/REL-B) but not canonical NF-κB1 (REL-A/p50).

    Organizational Affiliation: 

    Genentech, Inc. 1 DNA Way, South San Francisco, California 94080, United States.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Mitogen-activated protein kinase kinase kinase 14A, B349Mus musculusMutation(s): 0 
Gene Names: Map3k14, Nik
EC: 2.7.11.25
UniProt
Find proteins for Q9WUL6 (Mus musculus)
Explore Q9WUL6 
Go to UniProtKB:  Q9WUL6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9WUL6
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.63 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.198 
  • R-Value Observed: 0.203 
  • Space Group: P 43
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 143.969α = 90
b = 143.969β = 90
c = 46.455γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-01-11
    Type: Initial release
  • Version 1.1: 2017-01-25
    Changes: Database references
  • Version 1.2: 2017-02-08
    Changes: Database references