MALDI analysis of FRET reaction products revealed a fragment of mass 889.46, corresponding to the predicted mass of d-PVPPKT-OH (top) when d-PVPPKTGDS-e was incubated with SrtBΔN26. This fragment was absent in the mock treated peptide sample (bottom), indicating that SrtBΔN26 cleaves the d-PVPPKTGDS-e between the T and G residues. Kinetic measurements of SrtB activity In order to calculate the in vitro kinetic parameters of SrtBΔN26 for the d-SDSPKTGDN-e and d-PVPPKTGDS-e peptides, we performed a kinetic analysis of the sortase-catalyzed hydrolysis reaction. Figure 7A

shows the progress this website curves of the SrtBΔN26 catalyzed hydrolysis reactions at various d-SDSPKTGDN-e concentrations. For each progress curve, the amount of fluorescent product (after conversion from RFU to concentration) was approximately 5% of the initial substrate concentration. NVP-BGJ398 Within the time period analyzed, the progress curves are linear, so the steady state rate (V) was determined by fitting the data to a linear function. Figure 7B shows V plotted against the concentration of the peptide. Non-linear regression of these data fitted to a modified Michaelis-Menten equation incorporating substrate inhibition (Equation 1): Figure 7 Kinetic parameters of SrtB ΔN26 . In order to determine the in vitro kinetic parameters of SrtBΔN26 for the SPKTG and PPKTG motifs, we selleck products performed a kinetic analysis of the sortase-catalyzed hydrolysis reaction. A. Progress curves

of the SrtBΔN26-catalyzed hydrolysis reactions

at various concentrations of d-SDSPKTGDN-e [8 (blue ●), 10 (green ▪), 20 (red ▲), 40 (teal ▼), 80 (purple ♦), 160 (yellow ), 200 (black ★), and 240 μM (blue +). The steady state rate (V) was determined by fitting the data to a linear function. B. Plot of V against the concentration of the peptide [S]. Nonlinear regression of these data fitted to Equation 1 resulted in a K m of 74.7 ± 48.2 μM for d-SDSPKTGDN-e. SrtBΔN26 is subject to substrate inhibition at peptide concentrations > 30 μM, which is not expected to be physiologically relevant. $$ V=\fracV_max\cdot \left[S\right]K_m+\left[S\right]+\frac\left[S\right]^2K_i all $$ (1) Using SciPy 0.11.0 in Python 2.7.3, where V max is the apparent maximal enzymatic velocity, K m is the apparent Michaelis constant, and K i is the apparent inhibitor dissociation constant for unproductive substrate binding. This resulted in a K m of 74.7 ± 48.2 μM and a K cat of 1.1×10−3 ± 6×10−4 min−1 for d-SDSPKTGDN-e (Figure 7B). This analysis was performed for d-PVPPKTGDS-e, resulting in a K m of 53.3 ± 25.6 μM and a K cat of 8.3×10−4 ± 3×10−4 min−1. SrtBΔN26 is subject to substrate inhibition; at peptide concentrations greater than 30 μM, the rate of SrtBΔN26 activity decreases. Substrate inhibition has previously been observed for other sortase enzymes in vitro, and is not expected to be physiologically relevant [40]. Inhibiting SrtB activity We sought to determine whether C.