This paper describes the optimization of sample preparation for MALDI 193-nm photofragment ion time-of-flightmass spectrometry to sequence small to medium-sizedpeptides from peptide mixtures. We show that matrixadditives, such as fructose and phenylbutyric acid havea dramatic effect on the abundance of fragment ionsobserved in the post-source decay spectra. A dried-dropletMALDI matrix consisting of 1:1
-cyano-4-hydroxycinnamic acid/fructose proves to be an excellent matrix forphotodissociation because [M + H]
+ ions are formed withlow internal energies, and the photofragment ion spectrum contains high abundances of sequence-informativeions. The addition of fructose appears to improve overallsample homogeneity and durability, as compared toconventional
-cyano-4-hydroxycinnamic acid dried-droplet preparations. MALDI-TOF photodissociation isthen used to selectively sequence the peptides bradykinin(RPPGFSPFR), des-Arg
9 bradykinin (RPPGFSPF), andsubstance P-amide (RPKPQQFFGLM-NH
2) from a mixture of five peptides.