Table 1.

GFP nanobody bead pull-down from Brca2^GFP/GFP mES cells labelled for three-state Stable Isotope Labelling with Amino acids in Cell culture (SILAC). Brca2^GFP/GFP mES cells were labelled with Light (L, K0R0), Medium (M, K4R6), and Heavy (H, K8R10) SILAC states. The cells were lysed in immunoprecipitation buffer immediately after the exposure to 42 °C for 0, 20, or 60 min. Precipitated proteins were separated by Sodium Dodecyl Sulfate-Polyacrylamide Gel Electrophoresis (SDS-PAGE) and analyzed by mass spectrometry. The treated to untreated SILAC ratios from two independent reciprocal label-swap experiments are given in the table, comparing 37 °C (“untreated”) with 20 min at 42 °C (“treated”) in the first column, and 37 °C with 60 min at 42 °C (“treated”) in the second.

Protein	Peptides	Coverage	Maxquant Pep	20 Min HT		60 Min HT
				Exp 1	Exp 2	Exp 1	Exp 2
BRCA2	211	65	0.0E + 00	1.20	0.90	0.28	0.53
PALB2	36	44.5	0.0E + 00	1.49	0.92	0.30	0.37
RAD51	16	57.5	0.0E + 00	1.24	0.57	0.18	0.22
BRCA1	19	12.9	2.5E − 58	1.25	1.39	0.15	0.83
KEAP1	21	39.6	3.5E − 164	1.42	1.02	0.29	0.42
MORF4L1	17	61.9	1.1E − 271	1.44	0.89	0.29	0.42
MORF4L2	11	43.1	2.2E − 78	1.47	0.79	0.71	0.49
Ubiquitin	8	56.4	8.3E − 87	3.42	4.60	4.06	3.54
HSPB1	10	67.9	4.3E − 69	1.45	2.26	3.19	1.87
USP28	6	6	1.0E − 12	1.61	3.75	1.00	2.74
		%		SILAC ratio treated to untreated