NIK-dependent p100 processing into p52, Michaelis-Menten, SBML 2v4

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This model represents NIK-dependent p100 processing into p52 with Michaelis-Menten kinetics. While this model shows identical dose-response to the mass action representation, when IkBd degradation is included the dose-response is no-longer monotonic in mass action models due to substrate complex competition.

Related Publication
  • Substrate complex competition is a regulatory motif that allows NFκB RelA to license but not amplify NFκB RelB
  • Simon Mitchell, Alexander Hoffmann
  • Proceedings of the National Academy of Sciences of the United States of America , 4/ 2019
  • Institute for Quantitative and Computational Biosciences, University of California, Los Angeles, CA 90095
  • Signaling pathways often share molecular components, tying the activity of one pathway to the functioning of another. In the NFκB signaling system, distinct kinases mediate inflammatory and developmental signaling via RelA and RelB, respectively. Although the substrates of the developmental, so-called noncanonical, pathway are induced by inflammatory/canonical signaling, crosstalk is limited. Through dynamical systems modeling, we identified the underlying regulatory mechanism. We found that as the substrate of the noncanonical kinase NIK, the nfkb2 gene product p100, transitions from a monomer to a multimeric complex, it may compete with and inhibit p100 processing to the active p52. Although multimeric complexes of p100 (IκBδ) are known to inhibit preexisting RelA:p50 through sequestration, here we report that p100 complexes can inhibit the enzymatic formation of RelB:p52. We show that the dose–response systems properties of this complex substrate competition motif are poorly accounted for by standard Michaelis–Menten kinetics, but require more detailed mass action formulations. In sum, although tonic inflammatory signaling is required for adequate expression of the noncanonical pathway precursors, the substrate complex competition motif identified here can prevent amplification of the active RelB:p52 dimer in elevated inflammatory conditions to ensure reliable RelB-dependent developmental signaling independent of inflammatory context.
Simon MItchell

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MM-p52.xml NIK-dependent p100 processing into p52, Michaelis-Menten, SBML 2v4 16.80 KB Preview | Download

  • Model originally submitted by : Simon MItchell
  • Submitted: May 2, 2019 9:57:03 PM
  • Last Modified: May 2, 2019 9:57:03 PM
  • Version: 3 public model Download this version
    • Submitted on: May 2, 2019 9:57:03 PM
    • Submitted by: Simon MItchell
    • With comment: added publication