| Antibodies |
| Rb Anti-RNF114 |
Sigma-Aldrich |
HPA021184 |
| Mouse monoclonal c-Abl Antibody |
Santa Cruz |
sc-23 |
| Rb Phospho-CrkL (Tyr207) Antibody |
Cell Signaling Technology |
Cat#13181S |
| Mouse GAPDH Monoclonal Antibody |
Proteintech Group Inc |
60004-1-Ig |
| Mouse Beta Actin Monoclonal antibody |
Proteintech Group Inc |
66009-1-Ig |
| Rb Anti-Brd4 antibody |
Abcam plc |
Ab128874 |
| Bacterial and Virus Strains |
| N/A |
|
|
| Biological Samples |
| N/A |
|
|
| Chemicals, Peptides, and Recombinant Proteins |
| Myc-Flag-RNF114 human recombinant protein |
Origene |
TP309752 |
| Recombinant protein of human cyclin-dependent kinase inhibitor 1A |
Origene |
TP301765 |
| Ubiquitin Activating Enzyme (UBE1) |
BostonBiochem |
E-305 |
| Ubiquitin-conjugating Enzyme E2D 1 (UBE2D1) |
BostonBiochem |
E2-615 |
| FLAG (DYKDDDDK)-Ubiquitin |
BostonBiochem |
U-120 |
| Dimethyl Sulfoxide |
Fisher Chemical |
D128-500 (CAS 67-68-5) |
| Dulbecco’s Phosphate Buffered Saline (DPBS) |
Sigma-Aldrich |
D8537-500mL |
| L-15 Medium |
Sigma-Aldrich |
L1518-500mL |
| Iscove’s Modified Dulbecco’s Medium |
Sigma-Aldrich |
51471C-1000mL |
| Opti-MEM Reduced Serum Media |
ThermoFisher Scientific |
Cat#31985062 |
| Iodoacetamide 98% |
ACROS Organics |
Cat# AC122270050 |
| Iodoacetamide-13C2, 2-d2
|
Sigma-Aldrich |
Cat#721328 |
| Urea |
Fisher Chemical |
U15-500 (CAS 57-13-6) |
| ProteaseMAX Surfactant, lyophilized |
Promega |
REF#V2072 |
| Ammonium Bicarbonate |
Fisher Chemical |
A643-500 (CAS 1066-33-7) |
| TCEP 99% |
Strem Chemicals |
Cat#15-7400 (CAS 51805-45-9) |
| Formic Acid, 99.0+%, Optima LC/MS Grade |
Fisher Chemical |
A117-50 (CAS 64-18-6) |
| Sequencing Grade Modified Trypsin, Porcine |
Promega |
V511A |
| Covalent Ligand Library |
Enamine |
N/A |
| Tetramethylrhodamine-5-Iodoacetamide Dihydroiodide (IA-Rhodamine) |
Setareh Biotech |
6222 (CAS 114458-99-0) |
| Laemmli SDS sample buffer, reducing (4x) |
Alfa Aesar |
J60015 |
| Tris(benzyltriazole methylamine) (TBTA) |
Sigma-Aldrich |
678937 (CAS 510758-28-8) |
| Biotin-TEV-azide |
Weerapana et. al., 2010 |
N/A |
| Copper (II) Sulfate |
Sigma-Aldrich |
451657 |
| AcTEV Protease |
Invitrogen |
12575-015 |
| N-Hex-5-ynyl-2-iodo-acetamide (IAyne) |
Chess Gmbh |
3187 |
| Spectra Multicolor Broad Range Protein Ladder |
Thermo Scientific |
Prod#26634 |
| Pierce Protease inhibitor Mini Tablets, EDTA-free |
Thermo Scientific |
Prod#A32955 |
| High Capacity Streptavidin Agarose Resin |
Thermo Scientific |
Ref#20357 |
| Streptavidin Agarose Resin |
Thermo Scientific |
Ref#20349 |
| 4-hydroxybenzaldehyde |
Alfa Aesar |
A13580-22 (CAS 123-08-0) |
| 3,4-Dihydro-2H-pyran |
Sigma-Aldrich |
D106208-100mL (CAS 110-87-2) |
| 4’-Bromoacetophenone |
Sigma-Aldrich |
B56404-25G (CAS 99-90-1) |
| 4-(Boc-amino) butyl bromide |
Sigma-Aldrich |
90303-500mg-F (CAS 164365-88-2) |
| Hydrazine monohydrate |
Sigma-Aldrich |
207942-5g (CAS 7803-57-8) |
| Chloroacetyl chloride |
Sigma-Aldrich |
22880-100mL (CAS 79-04-9) |
| DIPEA |
Sigma-Aldrich |
D125806-100mL (CAS 7087-68-5) |
| JQ1 |
eNovation Chemicals |
D372464 (CAS 1268524-70-4) |
| HATU |
Sigma-Aldrich |
445460-5g (CAS 148893-10-1) |
| Propargylamine |
Sigma-Aldrich |
P50900-1g (CAS 2450-71-7) |
| N-Boc-7-bromoheptan-1-amine |
AChemBlock |
P41297 (CAS 142356-34-1) |
| tert-Butyl (2-(2-(2-(2-bromoethoxy)ethoxy)ethoxy)ethyl)carbamate |
Synthonix |
B37532 (CAS 1076199-21-7) |
| Pyridinium p-toluenesulfonate |
Sigma-Aldrich |
232238-5G (CAS 24057-28-1) |
| (E)-1,3-bis(4-bromophenyl)prop-2-en-1-one |
Princeton Bio |
PRIH93ED8598 (CAS 5471-96-5) |
| Nimbolide |
Cayman Chemicals |
19230 (CAS 25990-37-8) |
| Critical Commercial Assays |
| TMT10plex Isobaric Label Reagent Set |
ThermoFisher |
A37725 |
| WST8 reagent |
APExBio |
CCK-8 |
| Monarch Total RNA Miniprep Kit |
New England BioLabs |
T2010S |
| ProtoScript II reverse transcriptase Kit |
New England BioLabs |
M0368L |
| DyNAmo HS SYBR Green Kit |
Fisher Scientific |
F-410L |
| Deposited Data |
| Experimental Models: Cell Lines |
| 231MFP |
(Jessani et al., 2004) |
N/A |
| K562 |
ATCC |
CCL-243 |
| HAP1 |
Horizon Discovery |
HZGHC55905 |
| HAP1 (RNF114 Knockout) |
Horizon Discovery |
HZGHC55905 |
| Experimental Models: Organisms/Strains |
| N/A |
|
|
| Oligonucleotides |
| N/A |
|
|
| Recombinant DNA |
| N/A |
|
|
| Software and Algorithms |
| ImageJ |
(Schneider et al., 2012) |
https://imagej.nih.gov/ij/ |
| IP2 proteomics pipeline 5.0.1 |
Integrated Proteomics Applications |
N/A |
| Other |
|
|
|
