Table III. Endomembrane regulators identified in affinity purifications. Proteins significantly enriched with each affinity purification are marked with a grey background and the fold enrichment over that of control baits is shown. Significant and fold enrichment was calculated using SAINT Express. NS: proteins that were identified in an enrichment, but not significantly. A: No peptides to this protein were identified. Annotations for inclusion in a complex were manually curated from literature (26, 47, 56, 65, 78, 79, 82, 93, 101, 113–118).

ATG number	Group	Short name	YFP-RABD2a/ARA5	RABF1/ARA6-RFP	RFP-RABF2b/ARA7	CLC2-GFP	YFP-GOT1	YFP-RABG3f	YFP-VAMP711
AT5G22780	CCV	Adaptin α2	NS	NS	11	NS	NS	A	A
AT2G25430		ECA4	NS	NS	NS	73	A	43	NS
AT4G32285		CAP1	NS	NS	60	NS	A	A	A
AT3G11130		CHC1	NS	NS	NS	29	NS	NS	NS
AT3G08530		CHC2	NS	NS	NS	60	NS	A	A
AT2G20760		CLC1	A	NS	NS	18	A	A	A
AT2G40060		CLC2	NS	NS	A	110	NS	A	A
AT4G33650		DRP3A	8	NS	10	7	NS	NS	NS
AT1G10290		DRP2A	NS	NS	NS	NS	NS	NS	3
AT4G34660		SH3PH	A	A	NS	40	A	A	A
AT1G52360	Coatomer	SEC27p	5	4	10	NS	NS	7	NS
AT4G31480		SEC26p	NS	A	A	NS	A	11	NS
AT4G31490		SEC26p	NS	NS	12	NS	NS	A	A
AT1G62020		RET1p	16	16	21	NS	NS	12	7
AT2G21390		RET1p	6	7	9	NS	NS	6	NS
AT5G05010		RET2p	10	NS	10	NS	NS	NS	NS
AT3G63460		SEC31B	8	6	10	NS	NS	NS	NS
AT5G16300	COG	COG1/VPS51	33	NS	120	NS	NS	NS	NS
AT4G24840		COG2	NS	NS	37	NS	NS	NS	A
AT1G67930		COG5	NS	NS	20	A	NS	A	A
AT5G51430		COG7	27	NS	50	NS	A	NS	NS
AT5G11980		COG8	30	NS	47	NS	NS	NS	A
AT2G27600	ESCRT	VPS4	NS	NS	7	A	NS	8	A
AT5G03540	EXOCYST	EXO70A1	NS	NS	60	NS	A	NS	A
AT5G59730		EXO70H7	NS	NS	30	NS	A	A	A
AT5G49830		EXO84B/VPS51	NS	NS	40	NS	NS	23	NS
AT5G12370		SEC10	9	NS	12	NS	NS	NS	NS
AT1G47550		SEC3A	NS	NS	NS	NS	NS	33	NS
AT1G76850		SEC5A	NS	NS	107	NS	NS	NS	NS
AT3G10380		SEC8	20	12	29	10	NS	12	NS
AT4G02030	GARP	VPS51	NS	NS	8	NS	A	NS	A
AT1G71270		VPS52	33	40	50	40	NS	37	NS
AT1G50500		VPS53	37	NS	87	NS	NS	60	NS
AT4G19490		VPS54	15	NS	46	NS	NS	NS	NS
AT3G60860	GEF	BIG2	24	NS	60	NS	A	NS	NS
AT1G01960		BIG3	15	NS	33	8	NS	9	NS
AT3G43300		BIG5/MIN7	16	NS	23	NS	NS	11	NS
AT1G13980		GNOM	53	NS	97	NS	NS	NS	A
AT2G01470		SEC12	NS	NS	NS	A	NS	NS	33
AT1G16920	GTPase	AtRABA1b	7	NS	5	NS	NS	NS	NS
AT4G18800		AtRABA1d	NS	NS	33	NS	NS	NS	116
AT3G46830		AtRABA2c	14	NS	NS	A	NS	38	NS
AT4G17170		AtRABB1c	NS	NS	NS	NS	NS	6	4
AT1G43890		AtRABC1	NS	12	NS	NS	NS	6	A
AT3G11730		AtRABD1	A	NS	NS	NS	NS	30	NS
AT1G02130		AtRABD2a	56	NS	NS	NS	NS	NS	NS
AT5G47200		AtRABD2b	NS	NS	10	NS	NS	11	7
AT3G54840		AtRABF1	NS	195	NS	NS	A	NS	A
AT4G19640		AtRABF2b	100	272	2330	NS	NS	76	NS
AT3G18820		AtRABG3f	NS	NS	NS	A	NS	120	9
AT2G44610		AtRABH1b	NS	NS	NS	NS	NS	6	NS
AT3G56110	RAB regulator	AtPRA1.B1	NS	A	117	A	53	NS	A
AT2G40380		AtPRA1.B2	NS	A	NS	A	60	NS	A
AT2G38360		AtPRA1.B4	NS	NS	110	A	NS	NS	NS
AT2G44100		GDI1	NS	A	57	A	A	657	A
AT3G59920		GDI2	NS	A	NS	A	A	177	A
AT3G19770		VPS9a	A	NS	130	A	A	A	A
AT4G30260		YIP4b	62	NS	104	A	A	NS	NS
AT3G05280		YIP5b	80	A	NS	A	NS	NS	60
AT1G75850	RETROMER	VPS35A	NS	A	NS	A	A	40	A
AT2G17790		VPS35B	NS	NS	NS	A	A	43	A
AT5G06140		SNX1	NS	NS	53	NS	A	NS	NS
AT2G45200	SNARE	GOS12	NS	A	A	NS	40	A	A
AT4G04910		NSF	70	NS	113	NS	70	NS	93
AT3G05710		SYP43	NS	A	23	A	A	A	NS
AT1G16240		SYP51	NS	NS	NS	A	A	NS	53
AT4G32150		VAMP711	A	NS	NS	A	NS	A	1713
AT1G04750		VAMP721	A	A	A	A	A	A	167
AT2G33120		VAMP722	33	9	16	NS	6	18	A
AT3G54300		VAMP727	NS	NS	40	A	A	A	A
AT3G27530	Tether	GC6	NS	NS	17	NS	NS	NS	A
AT1G21630	TPLATE complex	EH2	NS	NS	NS	20	A	A	A
AT2G07360		TASH3	8	NS	6	5	A	A	NS
AT5G57460		TML	23	NS	NS	NS	A	A	A
AT3G01780		TPLATE	NS	7	10	NS	NS	NS	NS
AT3G50590		TWD40–1	6	NS	8	NS	NS	A	A
AT5G24710		TWD40–2	NS	NS	NS	10	A	NS	A
AT5G11040	TRAPP	TRS120	NS	23	NS	A	A	NS	NS
AT5G16280		TRS85	417	NS	NS	A	NS	53	NS
AT3G52850	VSR	VSR1	NS	NS	52	A	NS	A	NS
AT2G14740		VSR3	A	A	A	A	A	A	47
AT2G14720		VSR4	NS	NS	147	A	A	NS	A
AT2G20990		SYPA	48	NS	26	46	NS	NS	NS
AT5G14950	Golgi marker	GMII	NS	NS	NS	NS	94	NS	A
AT2G28520	TGN marker	VHA-A1	NS	NS	50	NS	NS	A	NS