5NG2

Structure of RIP2K(D146N) with bound Staurosporine

Summary for 5NG2

• Entry DOI: 10.2210/pdb5ng2/pdb
• Descriptor: Receptor-interacting serine/threonine-protein kinase 2, STAUROSPORINE, PHOSPHATE ION, ... (4 entities in total)
• Functional Keywords: rip2k, kinase, inactive state, staurosporine, transferase
• Biological source: Homo sapiens (Human)
• Total number of polymer chains: 2
• Total formula weight: 71124.82

Authors

Pellegrini, E.,Cusack, S. (deposition date: 2017-03-16, release date: 2017-06-07, Last modification date: 2024-01-17)

Primary citation

Pellegrini, E.,Signor, L.,Singh, S.,Boeri Erba, E.,Cusack, S.
Structures of the inactive and active states of RIP2 kinase inform on the mechanism of activation.
PLoS ONE, 12:e0177161-e0177161, 2017

PubMed Abstract: Innate immune receptors NOD1 and NOD2 are activated by bacterial peptidoglycans leading to recruitment of adaptor kinase RIP2, which, upon phosphorylation and ubiquitination, becomes a scaffold for downstream effectors. The kinase domain (RIP2K) is a pharmaceutical target for inflammatory diseases caused by aberrant NOD2-RIP2 signalling. Although structures of active RIP2K in complex with inhibitors have been reported, the mechanism of RIP2K activation remains to be elucidated. Here we analyse RIP2K activation by combining crystal structures of the active and inactive states with mass spectrometric characterization of their phosphorylation profiles. The active state has Helix αC inwardly displaced and the phosphorylated Activation Segment (AS) disordered, whilst in the inactive state Helix αC is outwardly displaced and packed against the helical, non-phosphorylated AS. Biophysical measurements show that the active state is a stable dimer whilst the inactive kinase is in a monomer-dimer equilibrium, consistent with the observed structural differences at the dimer interface. We conclude that RIP2 kinase auto-phosphorylation is intimately coupled to dimerization, similar to the case of BRAF. Our results will help drug design efforts targeting RIP2 as a potential treatment for NOD2-RIP2 related inflammatory diseases.

PubMed: 28545134
DOI: 10.1371/journal.pone.0177161

Experimental method

X-RAY DIFFRACTION (2.8 Å)