Table II. Numbers of proteins identified in affinity purifications. Proteins that were identified in and unique to (according to criteria in materials and methods) each affinity purification. Percentage of proteins identified in selected previous proteomic studies was calculated from whether a protein was identified in Nikolovski et al. (39), 2012, Parsons et al. (37), 2012, Sadowski et al. (53), 2008, Dunkley et al. (33), 2006, Drakakaki et al. (44), 2012. Percentage of proteins with membrane associations was calculated using annotations from Uniprot (http://www.uniprot.org) and TAIR (http://www.arabidopsis.org/) as described in the materials and methods.

	Total number of proteins	Number of unique proteins	% previously identified	% membrane associated
YFP-RABD2a/ARA5	120	22	18%	34%
RABF1/ARA6-RFP	63	9	14%	33%
RFP-RABF2b/ARA7	279	121	43%	33%
CLC2-GFP	49	15	31%	24%
YFP-GOT1	62	30	48%	77%
YFP-RABG3f	136	42	31%	22%
YFP-VAMP711	51	12	24%	41%