Table 1.
Proteins Identified in the Brd2 Complex
| protein | accession | MW | no. peptides matcheda by MS/MS |
|---|---|---|---|
| Chromatin-related | kDa | ||
| Histone H2B | P02278 | 13.8 | 12 |
| Histone H2A | 121992 | 15.1 | 2 |
| Histone H3 | 122064 | 11.3 | 3 |
| Histone H4 | P02304 | 11.2 | 18 |
| Snf2β; Brg-1 (brahma) | P51532 | 184.6 | 2 |
| Swi/Snf p155, Brg-1 associated (Baf155) | AAC50693 | 122.6 | 4 |
| Swi/Snf-related chromatin regulator p270 | O14497 | 205.9 | 2 |
| Histone deacetylase(HDAC) 11 | Q96DB2 | 39.2 | 4 |
| Chromatin assembly factor(CAF) 1, subunit B | Q13112 | 61.5 | 2 |
| Nucleosome assembly protein (NAP) 1-like 3 | Q99457 | 57.5 | 4 |
| Nucleosome assembly protein 1, centrosome- associated | NP_009117 | 281.1 | 2 |
| DNA-dependent protein kinase | P78527 | 468.8 | 4 |
| Transcription-associated factors and co-activators | |||
| TATA Box Binding Protein (TBP) | O29874 | 20.1 | 3 |
| TAFII170 (Snf2 family) | O14981 | 206.8 | 1 |
| TAFII250 | P21675 | 212.7 | 2 |
| TAFII55 | NP_005633 | 40.3 | 2 |
| RNA Polymerase β | Q889X7 | 154.6 | 3 |
| E2F-1 | JC4929 | 47.0 | 2 |
| DP-1 (E2F binding partner) | Q22703 | 67.9 | 2 |
| Zn finger protein 157 (Krüppel- type C2H2 Zn finger) | P51786 | 58.2 | 2 |
| CREB Binding Protein (CBP) | NP_004371 | 265.3 | 1 |
| p300 | NP_001420 | 264.2 | 1 |
| Homeobox protein Meis1 | O00470 | 45.8 | 3 |
| Med6 | CAG46498 | 28.4 | 2 |
| Cell cycle regulators | |||
| NimA-related mitotic regulator Nek9 | Q8TD19 | 107.1 | 3 |
| Proliferation antigen KI-67 | P46013 | 358.5 | 4 |
| Brd2 | NP_005095 | 88.1 | 3 |
| Cyclin A2 | P20248 | 48.5 | 2 |
| Controlsb | |||
| Ig κ chain | P01837 | 11.8 | 7 |
| Ig μ chain | 4959482 | 13.5 | 5 |
| Staphylococcus protein Ac | P02976 | 57.3 | 11 |
| Serum albuminc | P02768 | 69.3 | 7 |
a
Peptides were matched based on positive identifications within PLGS 2.1/2.2, and ladder scores >10 defined a cutoff for initial identification. Conclusive matches were confirmed manually for all spectra; please see text for details.
b
Positive controls that were expected and confirmed in all column eluates, including mock eluates of columns without protein extracts applied.
c
Nonreactive component of column purification matrix or common constituent of cell growth medium.