In our experiments, the methodology works as follows: frequent itemsets are extracted in three ways by considering: (1) Data having cleavage class value, (2) Data having non-cleavage class value (3) All the dataset regardless of class value.
Taken together, our data on cleavage of peptide substrates, faithfully supported by crystal structures, present an extraordinary example of fine adjustment of enzyme mechanism.
In contrast to these data, PABP cleavage induced by HIV-1 PR has little impact on the translation of polyadenylated encephalomyocarditis virus internal ribosome entry site (IRES -containing mRNAs.
This approach, together with data from cleavage of polyUb chains by ataxin-3 (in which we detect monoUb) ensures us that the absence of monoUb from diUb cleavage assays is due to the actual absence of monoUb generated during the reaction rather than to a lack of detection on immunoblots.
An analysis of kinetic data of cleavage of VEGF165 by plasmin yielded a bimolecular rate constant of kP = 631 M−1s−1 at 37°C, which is at the low end of typical ECM enzyme-substrate reactions for the MMPs (refer to Supplement S1, section S1; Table S1).
All data on cleavage sites of REases were obtained from REBASE [ 25].
To further confirm the above data, PARP cleavage, another marker for apoptosis, was determined by western blot.
Our data revealed cleavage of caspase 12 during MI, that was absent in the two other groups.
We used Bcd protein expression data from cleavage cycle 13 [ 34] that were downloaded from the FlyEx database [ 9, 35].
These observations are consistent with our in vitro and in vivo data on cleavage efficiency in constructs expressing GFP and CherryFP fluorescent 'reporter' proteins separated by F2As of 58, 50, 40 and 30aa.
