3BRT

NEMO/IKK association domain structure

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.238 

wwPDB Validation 3D Report Full Report


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

Literature

Structure of a NEMO/IKK-Associating Domain Reveals Architecture of the Interaction Site.

Rushe, M., Silvian, L., Bixler, S., Chen, L.L., Cheung, A., Bowes, S., Cuervo, H., Berkowitz, S., Zheng, T., Guckian, K., Pellegrini, M., Lugovskoy, A.

(2008) Structure 16: 798-808

  • DOI: 10.1016/j.str.2008.02.012
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    • The phosphorylation of IkappaB by the IKK complex targets it for degradation and releases NF-kappaB for translocation into the nucleus to initiate the inflammatory response, cell proliferation, or cell differentiation. The IKK complex is composed of ...

    The phosphorylation of IkappaB by the IKK complex targets it for degradation and releases NF-kappaB for translocation into the nucleus to initiate the inflammatory response, cell proliferation, or cell differentiation. The IKK complex is composed of the catalytic IKKalpha/beta kinases and a regulatory protein, NF-kappaB essential modulator (NEMO; IKKgamma). NEMO associates with the unphosphorylated IKK kinase C termini and activates the IKK complex's catalytic activity. However, detailed structural information about the NEMO/IKK interaction is lacking. In this study, we have identified the minimal requirements for NEMO and IKK kinase association using a variety of biophysical techniques and have solved two crystal structures of the minimal NEMO/IKK kinase associating domains. We demonstrate that the NEMO core domain is a dimer that binds two IKK fragments and identify energetic hot spots that can be exploited to inhibit IKK complex formation with a therapeutic agent.

    Organizational Affiliation: 

    Biogen Idec Inc., Cambridge, MA 02142, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Inhibitor of nuclear factor kappa-B kinase subunit beta,Inhibitor of nuclear factor kappa-B kinase subunit alpha
A, C
47Homo sapiensMutation(s): 0 
Gene Names: CHUK (IKKA, TCF16), IKBKB (IKKB)
EC: 2.7.11.10 2.7.11.10
Find proteins for O15111 (Homo sapiens)
Go to Gene View: CHUK
Go to UniProtKB:  O15111
Find proteins for O14920 (Homo sapiens)
Go to Gene View: IKBKB
Go to UniProtKB:  O14920
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
NF-kappa-B essential modulator
B, D
68Homo sapiensMutation(s): 1 
Gene Names: IKBKG (FIP3, NEMO)
Find proteins for Q9Y6K9 (Homo sapiens)
Go to Gene View: IKBKG
Go to UniProtKB:  Q9Y6K9
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.238 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 41.869α = 90.00
b = 105.556β = 90.00
c = 56.707γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing
CBASSdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

  • Deposited Date: 2007-12-21 
  • Released Date: 2008-04-22 
  • Deposition Author(s): Silvian, L.F.

Revision History 

  • Version 1.0: 2008-04-22
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2017-08-02
    Type: Advisory, Source and taxonomy