Table 1. Proteomic analysis of GFP-RCP immunoprecipitates.
| Protein | Accession number |
IP:GFP |
IP:GFP-RCP |
||
|---|---|---|---|---|---|
| Number of peptides (unique) | Percentage covered (%) | Number of peptides (unique) | Percentage covered (%) | ||
| Ubiquitin | P62988 | — | — | 4 (3) | 50 |
| Rab11B | Q15907 | — | — | 53 (8) | 40 |
| Heat shock cognate 71 kDa | P11142 | 1 (1) | 3 | 43 (16) | 32 |
| Rab6A | P20340 | — | — | 18 (5) | 25 |
| α-actinin 4 | O43707 | — | — | 32 (16) | 23 |
| Rab11-FIP1 (RCP) | Q6WKZ4 | — | — | 60 (17) | 16 |
| Clathrin heavy chain 1 | Q00610 | — | — | 27 (15) | 13 |
| Rab11-FIP5 | Q9BXF6 | — | — | 11 (5) | 13 |
| Rab14 | P61106 | — | — | 6 (2) | 13 |
| 5'-nucleotidase | P21589 | 1 (1) | 2 | 9 (5) | 13 |
| Myoferlin | Q9NZM1 | — | — | 34 (20) | 12 |
| Aminopeptidase N | P15144 | — | — | 21 (9) | 12 |
| Ephrin type-A receptor 2 (EphA2) | P29317 | — | — | 18 (9) | 12 |
| Peroxisomal multifunctional enzyme type 2 | P51659 | — | — | 11 (5) | 10 |
| Desmoglein 2 | Q14126 | — | — | 8 (6) | 10 |
| Myeloid-associated differentiation marker | Q96S97 | — | — | 8 (2) | 10 |
| Heat shock 70 kDa protein 1 | P08107 | — | — | 3 (3) | 10 |
| β1 integrin | P05556 | 1 (1) | 1 | 17 (5) | 9 |
| EGFR | P00533 | — | — | 17 (7) | 8 |
| Neurabin 2 | Q96SB3 | — | — | 7 (6) | 8 |
| 4F2 cell-surface antigen heavy chain | P08195 | — | — | 3 (3) | 8 |
Immunoprecipitates generated in Fig. 1a were analysed by MALDI-TOF mass spectrometry. Proteins that were significantly more abundant in GFP-RCP (IP:GFP-RCP) than GFP (IP:GFP) immunoprecipitates are listed. The number of peptides identified by mass spectrometry and the percentage of these proteins covered by the identified peptides are indicated.