Table S1.

PBase-interacting peptides of DNA–PK components identified by LC-MS/MS

Protein name	Peptides
KU70
	R.SDSFENPVLQQHFR.N
	R.LGSLVDEFK.E
	R.TFNTSTGGLLLPSDTK.R
	R.ILELDQFK.G
	K.NIYVLQELDNPGAK.R
	R.DSLIFLVDASK.A
	R.NIPPYFVALVPQEEELDDQK.I
	R.FDDPGLMLMGFK.P
	R.DLLAVVFYGTEK.D
	R.DTGIFLDLMHLK.K
	R.NLEALALDLMEPEQAVDLTLPK.V
KU80
	R.HIEIFTDLSSR.F
	K.TDTLEDLFPTTK.I
	K.SQLDIIIHSLK.K
	R.HLMLPDFDLLEDIESK.I
	R.HLMLPDFDLLEDIESK.I
	K.IQPGSQQADFLDALIVSMDVIQHETIGK.K
	K.ASFEEASNQLINHIEQFLDTNETPYFMK.S
	R.DDEAAAVALSSLIHALDDLDMVAIVR.Y
DNA-PKcs
	R.NCISTVVHQGLIR.I
	K.DLLLNTMSQEEK.A
	R.YNFPVEVEVPMER.K
	R.YNFPVEVEVPMER.K
	R.TVGALQVLGTEAQSSLLK.A
	K.LLLQGEADQSLLTFIDK.A
	K.LLLQGEADQSLLTFIDK.A