Table 4.
Identification of CSN Dynamic Interactors Using MAP-SILAC and PAM-SILAC Approachesa
| MAP-SILAC(1) |
PAM-SILAC(1) |
MAP-SILAC(2) |
PAM-SILAC(2) |
||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| acc | n | avg | std | n | avg | std | n | avg | std | n | avg | std | protein name |
| Q13620b | 15 | high | n/a | 8 | 2.4 | 0.3 | 19 | high | n/a | 17 | 1.6 | 0.1 | Cullin-4B |
| Q13619b | 3 | high | n/a | 4 | 1.6 | 0.1 | 3 | high | n/a | 2 | 2.1 | 0.2 | Cullin-4A |
| Q13618b | 6 | high | n/a | – | – | – | 15 | high | n/a | 3 | 1.4 | 0.3 | Cullin-3 |
| Q13617b | 5 | high | n/a | – | – | – | 12 | high | n/a | 1 | 1.4 | – | Cullin-2 |
| Q13616b | 11 | high | n/a | 2 | 1.6 | 0.2 | – | – | – | – | – | – | Cullin-1 |
| Q16531b | 19 | high | n/a | 8 | 2.9 | 0.7 | 33 | high | n/a | 13 | 2.2 | 0.3 | DNA damage-binding protein 1 |
| Q92466b | 4 | high | n/a | 2 | 1.5 | 0.2 | 9 | high | n/a | 4 | 1.6 | 0.1 | DNA damage-binding protein 2 |
| Q6PJ61 | 3 | high | n/a | 2 | 1.6 | 0.3 | – | – | – | 3 | 1.2 | 0.2 | F-box only protein 46 |
| Q9P2K6 | 2 | high | n/a | 2 | 1.5 | 0.0 | 7 | high | n/a | 3 | 1.0 | 0.1 | Kelch domain-containing protein 5 |
| O15085 | 1 | high | n/a | 2 | 1.6 | 0.6 | 3 | high | n/a | 2 | 0.9 | 0.1 | Rho guanine nucleotide exchange factor 11 |
| P62877b | 3 | high | n/a | 2 | 2.4 | 0.0 | 3 | high | n/a | 3 | 1.9 | 0.2 | RING-box protein 1 |
| O75970 | 20 | 15.4 | 3.9 | 10 | 2.3 | 0.6 | 13 | 16.0 | 5.4 | 7 | 1.7 | 0.4 | Multiple PDZ domain protein |
| Q8N3R9 | 7 | 14.2 | 3.7 | 5 | 2.5 | 0.7 | 14 | 8.8 | 2.6 | 3 | 1.9 | 0.1 | MAGUK p55 subfamily member 5 |
| Q8NI35 | 2 | 13.9 | 2.5 | 6 | 2.7 | 0.7 | 1 | 13.0 | n/a | 1 | 2.5 | – | InaD-like protein |
| Q9NUP9 | 2 | 9.1 | 1.2 | 2 | 2.2 | 0.6 | 1 | 8.2 | – | 2 | 1.2 | 0.1 | Lin-7 homologue C |
| P35580 | 5 | 7.5 | 1.7 | 4 | 2.8 | 0.7 | 6 | 8.0 | 0.9 | 1 | 2.4 | – | Myosin-10 |
| Q5VUJ6 | 10 | 6.7 | 1.7 | 4 | 1.7 | 0.1 | 8 | 6.4 | 1.3 | 8 | 1.7 | 0.2 | Leucine-rich repeat and calponin homology domain-containing protein 2 |
| P53355 | 6 | 5.1 | 1.2 | 2 | 1.0 | 0.1 | 7 | 4.7 | 1.2 | 6 | 1.1 | 0.2 | Death-associated protein kinase 1 |
| O14974 | 14 | 3.3 | 0.4 | 9 | 0.7 | 0.1 | 9 | 2.9 | 0.6 | 2 | 0.9 | 0.1 | Protein phosphatase 1 regulatory subunit 12A |
| Q9Y2D5 | 8 | 2.4 | 0.6 | 4 | 0.7 | 0.1 | 5 | 2.5 | 0.4 | 3 | 0.6 | 0.0 | A-kinase anchor protein 2 |
a
Note: Dynamic interactors are the proteins with MAP-SILAC ratios much higher than PAM-SILAC ratios (> 2-fold). n, number of unique peptides used for quantitation; avg, average value of SILAC ratios (L/H), high SILAC ratios indicate that the heavy labeled peaks of the peptide pairs were not detected; std, standard deviation of SILAC ratios in each experiment.
b
Proteins are known to interact with CSN complex.