Table 1.
Summary of BRD1 PPIs identified by co-IP mass spectrometry
| Co-IP MS/MS | Co-IP strengtha | Protein | Uniprot ID | Gene name | Peptide P valueb |
|---|---|---|---|---|---|
| BRD1-S | 1 | BRD1 | O95696 | Bromodomain-containing protein 1 | <1 × 10–10 |
| ZC3H15 | Q8WU90 | Zinc finger CCCH domain-containing protein 15 | <1 × 10–10 | ||
| DRG1 | Q9Y295 | Developmentally regulated GTP-binding protein 1 | <1 × 10–10 | ||
| C1QBP | Q07021 | Complement component 1 Q sub-component-binding protein | <1 × 10–10 | ||
| MYST2 | O95251 | K(lysine) acetyltransferase 7 | <1 × 10–10 | ||
| SUV420H1 | Q4FZB7 | Suppressor of variegation 4-20 homolog 1 | <1 × 10–10 | ||
| MEAF6 | Q9HAF1 | MYST/Esa1-associated factor 6 | <1 × 10–10 | ||
| YWHAE | P62258 | 14-3-3 protein epsilon | 5.1 × 10–9 | ||
| PBRM1 | Q86U86 | Polybromo-1 | 2.7 × 10–3 | ||
| ING4 | Q9UNL4 | Inhibitor of growth protein 4 | 4.2 × 10–3 | ||
| ING5 | Q8WYH8 | Inhibitor of growth protein 5 | 1.1 × 10–2 | ||
| 2 | NPM1 | P06748 | Nucleophosmin | <1 × 10–10 | |
| YWHAZ | P63104 | 14-3-3 protein zeta/delta | <1 × 10–10 | ||
| KPNA1 | P52294 | Importin subunit alpha-1 | <1 × 10–10 | ||
| KPNA2 | P52292 | Importin subunit alpha-2 | <1 × 10–10 | ||
| CHD3/CHD4/CHD53 | Q14839/Q12873/Q8TDI03 | Chromodomain-helicase-DNA-binding protein 3/4/53 | <1 × 10–10 | ||
| YWHAB | P31946 | 14-3-3 protein beta/alpha | 1.6 × 10–7 | ||
| NAP1L4 | Q99733 | Nucleosome assembly protein 1-like 4 | 1.6 × 10–7 | ||
| CLTC | Q00610 | Clathrin heavy chain 1 | 2.7 × 10–6 | ||
| DNMT1 | P26358 | DNA (cytosine-5)-methyltransferase 1 | 1.6 × 10–5 | ||
| LYAR | Q9NX58 | Cell growth-regulating nucleolar protein | 2.1 × 10–5 | ||
| MRPS14 | O60783 | 28S ribosomal protein S14 | 5.6 × 10–4 | ||
| EIF3I | Q13347 | Eukaryotic translation initiation factor 3 subunit I | 5.2 × 10–3 | ||
| 3 | PHB2 | Q99623 | Prohibitin-2 | 8.4 × 10–7 | |
| NSUN2 | Q08J23 | NOP2/Sun RNA methyltransferase | 7.3 × 10–3 | ||
| BRD1-L | 1 | BRD1 | O95696 | Bromodomain-containing protein 1 | <1 × 10–10 |
| YWHAE | P62258 | 14-3-3 protein epsilon | <1 × 10–10 | ||
| ZC3H15 | Q8WU90 | Zinc finger CCCH domain-containing protein 15 | <1 × 10–10 | ||
| DRG1 | Q9Y295 | Developmentally regulated GTP-binding protein 1 | <1 × 10–10 | ||
| YWHAG | P61981 | 14-3-3 protein gamma | <1 × 10–10 | ||
| MEAF6 | Q9HAF1 | MYST/Esa1-associated factor 6 | 8.5 × 10–7 | ||
| ING5 | Q8WYH8 | Inhibitor of growth protein 5 | 9.1 × 10–4 | ||
| PBRM1 | Q86U86 | Polybromo-1 | 1.3 × 10–3 | ||
| MRPS34 | O60783 | 28S ribosomal protein S14 | 1.5 × 10–3 | ||
| ING4 | Q9UNL4 | Inhibitor of growth protein 4 | 6.2 × 10–3 | ||
| QSER1 | Q2KHR3 | Glutamine and serine-rich protein 1 | 6.4 × 10–3 | ||
| 2 | YWHAZ | P63104 | 14-3-3 protein zeta/delta | <1 × 10–10 | |
| CLTC | Q00610 | Clathrin heavy chain 1 | 9.8 × 10–4 | ||
| 3 | H3F3A/HIST1H3/HIST3H3c | P84243/P68431/Q16695c | Histone H3.3/Histone H3.1/Histone H3.1 tc | <1 × 10–10 | |
| YWHAH | Q04917 | 14-3-3 protein eta | <1 × 10–10 | ||
| C1QBP | Q07021 | Complement component 1 Q sub-component-binding protein | <1 × 10–10 | ||
| RPL22L1 | Q6P5R6 | 60S ribosomal protein L22-like | <1 × 10–10 |
aCo-IP strength, 1: co-IPed 3–4 out of four repeated experiments and sample/control enrichment ratio >3 across four control experiments, 2: co-IPed 3–4 times out of four repeated experiments and sample/control enrichment ratio >2 across four control experiments, 3: co-IPed two out of four repeated experiments and sample/control enrichment ratio >3 across four control experiments (for further details see “Methods”)
bCo-IPed proteins were sorted by the peptide P value (MaxQuant software) within each of three settings for co-IP strength
cIdentified peptides were unique to all listed proteins (encoded by more than one genetically related gene)