Low catalytic efficiency of basal-state protein
kinases often depends on activation loop residues blocking
substrate access to the catalytic cleft. Using the recombinant
soluble form of the insulin receptor's kinase domain
(IRKD) in its unphosphorylated state, activation loop conformation
was analyzed by limited proteolysis. The rate of activation
loop cleavage by trypsin is slow in the apo-IRKD. Bound
Mg-adenine nucleoside di- and triphosphates increased the
cleavage rate with half-maximal effects observed at 0.4–0.9
mM nucleotide. Adenosine monophosphate at concentrations
up to 10 mM was not bound appreciably by the IRKD and had
virtually no impact on activation loop cleavage. Amino-terminal
and carboxy-terminal core-flanking regions of the IRKD
had no statistically significant impact on the ligand-dependent
or -independent activation loop cleavages. Furthermore,
the core-flanking regions did not change the inherent conformational
stability of the active site or the global stability of
the IRKD, as determined by guanidinium chloride-induced
denaturation. These measurements indicate that the intrasterically
inhibitory conformation encompasses ≥90% of the ligand-free
basal state kinase. However, normal intracellular concentrations
of Mg-adenine nucleotides, which are in the millimolar
range, would favor a basal-state conformation of the activation
loop that is more accessible.