KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Rabbit monoclonal anti-Mcl-1 (D2W9E) | Cell Signaling Technology | Cat# 94296, RRID: AB_2722740 |
| Rabbit monoclonal anti-Phospho-Mcl-1 (Ser64) | Cell Signaling Technology | Cat# 13297, RRID: AB_2798173 |
| Rabbit polyclonal anti-Phospho-Mcl-1 (Ser159/Thr163) | Cell Signaling Technology | Cat# 4579, RRID: AB_2144100 |
| Rabbit monoclonal anti-Phospho-Mcl-1 (Thr163) (D5M9D) | Cell Signaling Technology | Cat# 14765, RRID: AB_2716686 |
| Rabbit monoclonal anti-Bcl-2 (D55G8) | Cell Signaling Technology | Cat# 4223, RRID: AB_1903909 |
| Rabbit monoclonal anti-Bcl-xL (54H6) | Cell Signaling Technology | Cat# 2764, RRID: AB_2228008 |
| Rabbit polyclonal anti-Acetylated-Lysine | Cell Signaling Technology | Cat# 9441, RRID: AB_331805 |
| Rabbit monoclonal anti-p300 (D8Z4E) | Cell Signaling Technology | Cat# 86377, RRID: AB_2800077 |
| Rabbit monoclonal anti-CBP (D6C5) | Cell Signaling Technology | Cat# 7389, RRID: AB_2616020 |
| Rabbit monoclonal anti-PCAF (C14G9) | Cell Signaling Technology | Cat# 3378, RRID: AB_2128409 |
| Rabbit monoclonal anti-GCN5L2 (C26A10) | Cell Signaling Technology | Cat# 3305, RRID: AB_2128281 |
| Rabbit monoclonal anti-USP9X (D4Y7W) | Cell Signaling Technology | Cat# 14898, RRID: AB_2798640 |
| Rabbit polyclonal anti-SirT1 (1F3) | Cell Signaling Technology | Cat# 8469, RRID: AB_10999470 |
| Rabbit polyclonal anti-SirT2 (D4O5O) | Cell Signaling Technology | Cat# 12650, RRID: AB_2716762 |
| Rabbit monoclonal anti-SirT3 (D22A3) | Cell Signaling Technology | Cat# 5490, RRID: AB_10828246 |
| Rabbit monoclonal anti-Cleaved PARP (Asp214) (D64E10) | Cell Signaling Technology | Cat# 5625, RRID: AB_10699459 |
| Rabbit polyclonal anti-Cleaved Caspase-3 (Asp175) | Cell Signaling Technology | Cat# 9661, RRID: AB_2341188 |
| Rabbit monoclonal anti-COX IV (3E11) | Cell Signaling Technology | Cat# 4850, RRID: AB_2085424 |
| Mouse monoclonal anti-Lamin A/C (4C11) | Cell Signaling Technology | Cat# 4777, RRID: AB_10545756 |
| Mouse monoclonal anti-GFP (4B10) | Cell Signaling Technology | Cat# 2955, RRID: AB_1196614 |
| Rabbit monoclonal anti-Myc-Tag (71D10) | Cell Signaling Technology | Cat# 2278, RRID: AB_490778 |
| Mouse monoclonal anti-Myc-Tag (9B11) | Cell Signaling Technology | Cat# 94296; RRID: AB_2722740 |
| Mouse anti-Myc-Tag immobilized (bead conjugate) | Cell Signaling Technology | Cat# 3400, RRID: AB_10692357 |
| Mouse monoclonal anti-Mcl-1 (B-6) AC | Santa Cruz Biotechnology | Cat# sc-74436 AC, RRID: AB_1126069 |
| Mouse monoclonal anti-USP13 (B-9) | Santa Cruz Biotechnology | Cat# sc-514416 |
| Rabbit polyclonal anti-Vinculin (H-300) | Santa Cruz Biotechnology | Cat# sc-5573, RRID: AB_2214507 |
| Goat polyclonal anti-Lamin B1 (S-20) | Santa Cruz Biotechnology | Cat# sc-30264, RRID: AB_2136305 |
| Rabbit polyclonal anti-HA-probe (Y-11) | Santa Cruz Biotechnology | Cat# sc-805 |
| Mouse monoclonal purified anti-HA.11 Epitope Tag |
BioLegend | Cat# 901503, RRID: AB_2565005 |
| Anti c-Myc antibody beads (10D11) | FUJIFILM Wako | Cat# 016-26503 |
| Mouse monoclonal anti-V5 Tag | Thermo Fisher Scientific | Cat# R960-25, RRID: AB_2556564 |
| Mouse monoclonal anti-DUB3 | Sigma-Aldrich | Cat# WH0377630M1, RRID: AB_1841372 |
| Mouse monoclonal anti-alpha-Tubulin | Sigma-Aldrich | Cat# T5168, RRID: AB_477579 |
| Rabbit polyclonal anti-Flag | Sigma-Aldrich | Cat# F7425, RRID: AB_439687 |
| Mouse monoclonal anti-Flag M2 | Sigma-Aldrich | Cat# F3165, RRID: AB_259529 |
| Anti-Flag M2 Affinity Gel | Sigma-Aldrich | Cat# A2220, RRID: AB_10063035 |
| Mouse monoclonal anti-HA-Agarose antibody | Sigma-Aldrich | Cat# A2095, RRID: AB_257974 |
| Goat polyclonal anti-Mouse IgG (whole molecule), HRP conjugated | Sigma-Aldrich | Cat# A4416, RRID: AB_258167 |
| Goat anti-Rabbit IgG (whole molecule)-Peroxidase antibody | Sigma-Aldrich | Cat# A4914, RRID: AB_258207 |
| Mouse monoclonal anti-acetylated-K40-MCL1 | This paper | N/A |
| Bacterial and virus strains | ||
| XL10-Gold Ultracompetent Cells | Agilent Technologies | Cat# 200315 |
| Chemicals, peptides, and recombinant proteins | ||
| MG132 | Enzo Life Sciences | Cat# BML-PI102-0025 |
| A-485 | MedChemExpress | Cat# HY-107455 |
| C646 | MedChemExpress | Cat# HY-13823 |
| WP1130 | MedChemExpress | Cat# HY-13264 |
| Cycloheximide | Sigma-Aldrich | Cat# C1988 |
| Trichostatin A | Sigma-Aldrich | Cat# T8552 |
| Nicotinamide | Sigma-Aldrich | Cat# 72340 |
| Critical commercial assays | ||
| QuikChange II XL Site-Directed Mutagenesis Kit |
Agilent Technologies | Cat# 200516 |
| NE-PER Nuclear and Cytoplasmic Extraction Reagents |
Thermo Fisher Scientific | Cat# 78833 |
| Cell Fractionation Kit | Abcam | Cat# ab109719 |
| CellTiter-Glo | Promega | Cat# G7571 |
| Deposited data | ||
| Mass spectrometry data | This paper | MassIVE: MSV000088231 |
| Original western blot images | This paper | Mendeley Data: https://doi.org/10.17632/pyfpzd2tv5.1 |
| Experimental models: Cell lines | ||
| HeLa | ATCC | Cat# CCL-2.2, RRID:CVCL_0058 |
| HEK293T | ATCC | Cat# CRL-3216, RRID:CVCL_0063 |
| MCF7 | Dr. Piotr Sicinski lab, DFCI | N/A |
| SKBR3 | Dr. Piotr Sicinski lab, DFCI | N/A |
| MDA-MB-231 | Dr. Alex Toker lab, BIDMC | N/A |
| BT-20 | ATCC | Cat# CRL-7912, RRID:CVCL_0178 |
| C42 | Dr. Steven Balk lab, BIDMC | N/A |
| LNCaP-ABL (ABL) | Dr. Steven Balk lab, BIDMC | N/A |
| PC3 | Dr. Steven Balk lab, BIDMC | N/A |
| DU145 | Dr. Steven Balk lab, BIDMC | N/A |
| Experimental models: Organisms/strains | ||
| Nude Mouse | Charles River | BALB/c-nu/nu |
| Oligonucleotides | ||
| qRT-PCR Primer: Human MCL1 Forward: TGCTTCGGAAACTGGACATCA | This paper | N/A |
| qRT-PCR Primer: Human MCL1 Reverse: TAGCCACAAAGGCACCAAAAG | This paper | N/A |
| qRT-PCR Primer: Human GAPDH Forward: TCCTGCACCACCAACTGCTTA | This paper | N/A |
| qRT-PCR Primer: Human GAPDH Reverse: AGTGATGGCATGGACTGTGGT | This paper | N/A |
| Recombinant DNA | ||
| Myc-MCL1 | Ding et al., 2007 | N/A |
| Myc-MCL1 K5R | Inuzuka et al., 2011 | N/A |
| Myc-MCL1 K40R | Inuzuka et al., 2011 | N/A |
| Myc-MCL1 K40Q | This paper | N/A |
| Myc-MCL1 K136R | Inuzuka et al., 2011 | N/A |
| Myc-MCL1 K194R/197R | Inuzuka et al., 2011 | N/A |
| Myc-MCL1 K40Q/S159E/T163E | This paper | N/A |
| Myc-MCL1 K40R/S159A/T163A | This paper | N/A |
| pLenti-HA-MCL1 | Inuzuka et al., 2011 | N/A |
| pLenti-HA-MCL1 K40R | This paper | N/A |
| pLenti-HA-MCL1 K40Q | This paper | N/A |
| HA-MCL1 | Inuzuka et al., 2011 | N/A |
| HA-p300 | Askew et al., 2010 | Addgene Cat# 89094 |
| Flag-SIRT1 | North et al., 2003 | Addgene Cat# 13812 |
| Flag-SIRT2 | North et al., 2003 | Addgene Cat# 13813 |
| Flag-SIRT3 | North et al., 2003 | Addgene Cat# 13814 |
| Flag-SIRT4 | North et al., 2003 | Addgene Cat# 13815 |
| Flag-SIRT5 | North et al., 2003 | Addgene Cat# 13816 |
| Flag-SIRT6 | North et al., 2003 | Addgene Cat# 13817 |
| Flag-SIRT7 | North et al., 2003 | Addgene Cat# 13818 |
| pLKO-shMCL1 | TRC | N/A |
| pLKO-shp300 | TRC | N/A |
| pLKO-shUSP13 | TRC | N/A |
| HA-GCN5 | This paper | N/A |
| HA-Tip60α | This paper | N/A |
| HA-PCAF | This paper | N/A |
| HA-–-TRCP1 | This paper | N/A |
| Flag-His-USP9X | This paper | N/A |
| pLKO-shUSP9X | A gift from Dr. Qing Zhang, UNC | N/A |
| pLKO-shSIRT1 | TRC | N/A |
| pLKO-shSIRT2 | TRC | N/A |
| pLKO-shSIRT3 | TRC | N/A |
| HA-FBW7 | A gift from Dr. Keiichi Nakayama, Kyushu University, Japan | N/A |
| V5-TRIM17 | A gift from Dr. Tatsuya Sawasaki, Ehime University, Japan | N/A |
| Flag-HA-DUB3 | Sowa et al., 2009 | Addgene Cat# 22593 |
| Myc-Flag-USP13 | A gift from Dr. Lingqiang Zhang, Beijing Institute of Lifeomics, China | N/A |
| Human MCL1 CRISPR/Cas9 KO plasmids | Santa Cruz Biotechnology | Cat# sc-400079 and sc-400079-HDR |
| Software and algorithms | ||
| GraphPad Prism | GraphPad | https://www.graphpad.com |
| ImageJ | NIH | https://imagej.nih.gov/ij/ |