Phase-I contains the modification reactions of oxidation, reduction, and hydrolysis.
Finally, the tRNA that reads the isoleucine ATA codon contains the modification to pseudouridine tRNA ψA ψIle, preventing cross reading of the AUG codon coding for methionine.
In some cases, the docking site is present in a protein different from that which contains the modification site, as exemplified by the F box motif.
The Y-axis gives an average percentage of visitation of the states containing the modifications described by each unit in the X-axis.
Only the initial shuttle vectors containing the modifications are specified.
Thus, to interrogate truly combinatorial histone modifications, one must either analyze intact histones (i.e. top down) or utilize enzymes that produce longer polypeptides (i.e. middle down) containing the modifications of interest, or the N-terminal tails in the case of histones.
Their application to HSA adducts resulted in improved protein coverage and signal intensity regarding the peptide containing the modification site, thereby highlighting the importance of a detailed optimization of digestion conditions.
mds means that the duplex is hemimethylated, i.e. methylated on the complementary strand not containing the modification.
The data is again shown as the ratio between the percentages of input minichromosomes containing the modification of interest in the treated sample compared to the untreated sample.
They have in common that the target protein is expressed in fusion with a C-terminal tag containing the modification site.
Modification of threonine at position 119 by 203 amu was also detected (Fig. 5C, Table 1), as evidenced by a series of y ions (y4 through y14 ) containing the modification, thus strongly suggesting attachment of a N-acetylhexosamine residue to the polypeptide chain.
