Positive ion ESI-MS has been used to examine the fragmentation pathways of the complex ions of deoxydinucleotides with H+, Na+, K+ by LCQ instrument. It had been found that the dissociation varied markedly due to the differences of the base sequence. The alkali-metal ion binding site and the characterization of dissociation were directed by the size of metal ion, the sequence of base and the steric hindrance.
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