The Shc1 complexes were pulled down by FLAG-IP and subjected to LC-MS/MS for discovery. Then a PRM quantification was performed to confirm and profile the component of Shc1 complexes. A pseudo-targeted PRM was performed for discovery more low-abundance phosphopeptides from Shc1 complexes without pre-enrichment. A PRM quantification also was performed for profiling the phosphorylation sites identified in this work.