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P53 antibody do 1

Manufactured by Santa Cruz Biotechnology
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The P53 antibody DO-1 is a monoclonal antibody that recognizes the p53 tumor suppressor protein. It binds to the N-terminal domain of p53 and is commonly used for the detection and analysis of p53 in various experimental applications.

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13 protocols using p53 antibody do 1

1

Affinity Purification of 53BP1 and p53 Complexes

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Cells lyzed in Benzonase Lysis Buffer (20 mM HEPES [pH 7.9], 40 mM KCl, 2 mM MgCl2, 12% glycerol, 0.5% CHAPS, 50 U/ml Benzonase [Novagen], 0.05% [v/v] phosphatase inhibitors [Sigma-Aldrich] and protease inhibitors [Roche]) were supplemented with KCL to a 450 mM final concentration and gently mixed for 30 min at 4°C. Clarified lysates were then cassette dialyzed (Slide-A-Lyzer, Thermo Fisher Scientific) in dialysis buffer (20 mM HEPES [pH 7.9], 100 mM KCl, 0.2 mM EDTA, 10% Glycerol, 0.5 mM DTT, 0.5 mM PMSF, 5 mM NaF, 10 mM β-glycerolphosphate). Flag-HA-53BP1 or endogenous p53 complexes were purified from 1–2 mg total protein using anti-FLAG M2 magnetic resin (Sigma-Aldrich) or p53 DO-1 antibody (Santa Cruz Biotechnology) coupled to protein G Dynabeads (Invitrogen). Protein-bead complexes washed extensively in dialysis buffer were either boiled in Laemmli buffer or eluted in 3× Flag peptide (Sigma-Aldrich).
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2

p53 Immunoprecipitation from Cell Lysates

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Protein lysates were prepared and quantified as described under Western blotting section. Approximately 250 µg of proteins were pre-incubated with Protein A/G Dynabeads (Thermo Fisher Scientific), followed by overnight incubation with 2 μg of p53 DO-1 antibody (Santa Cruz Biotechnology) at 4°C with gentle agitation. Normal mouse IgG (Santa Cruz Biothechnology) was used as a non-specific IgG control, and 10% of the sample from each immunoprecipitation was reserved for input control. Subsequently, lysates were incubated with 25 μl of Protein A/G Dynabeads for 3 h at 4°C and immunoprecipitated proteins were collected using magnetic stand, washed three times, boiled in 1× sample loading buffer for 10 min and analyzed by WB.
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3

Lung Cancer Cell Line Cultivation

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H1299, H441, A549, and H460 [American Type Culture Collection (ATCC), Manassas, VA, USA] were cultured in RPMI-1640 medium that was supplemented with 10% fetal bovine serum (FBS; Hyclone, Logan, UT, USA) and 1% penicillin/streptomycin (Gibco/Thermo Fisher Scientific, Waltham, MA, USA) in a humidified atmosphere of 5% CO2 and 95% air. C-Met, PARP, and cleaved caspase 3 antibodies were from Cell Signaling Technology (Danvers, MA, USA). p53 (DO-1) antibody was from Santa Cruz Biotechnology (Santa Cruz, CA, USA). V5 antibody was from Invitrogen (Grand Island, NY, USA). β-Actin antibody was from Sigma-Aldrich (St. Louis, MO, USA). Horseradish peroxidase-conjugated goat anti-mouse secondary antibodies were obtained from Bio-Rad (Hercules, CA, USA). Goat anti-rabbit IgG (H + L) secondary antibody was from Invitrogen (Waltham, MA, USA). MG-132 was from Calbiochem (San Diego, CA, USA). Bortezomib was from Cayman Chemical (Ann Arbor, MI, USA). ONX 0914 was purchased from ApexBio (Houston, TX, USA). Actinomycin D and cycloheximide were from Sigma-Aldrich. All of the materials used in the experiments are in the highest grades and are commercially available.
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4

Immunoblot Analysis of Cellular Proteins

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Immunoblot analysis was carried out as previously described.18 (link) Briefly, 4–20 × 106 cells were treated with different reagents as indicated and lysed in RIPA buffer (50 mM Tris HCl, 137 mM NaCl, 0.5% Na Deoxycholate, 1% Triton X-100, 0.1% SDS, protease inhibitors). Proteins were separated by SDS-PAGE and transferred to a nitrocellulose membrane (Amersham Biosciences, Little Chalfon, UK) using a semi-dry blotting approach. The following antibodies were used: p53 (DO-1) antibody was purchased from Santa Cruz Biotechnology (Heidelberg, Germany). Tubulin and actin (A5441) antibodies were purchased from Sigma-Aldrich (St. Louis, MO, USA).
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5

Chromatin Fractionation of PEITC-Treated SK-BR-3 Cells

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SK-BR-3 cells were treated with the indicated concentrations of PEITC or DMSO as a control for 4 h. Cells were trypsinized and harvested by centrifugation at 500 × g for 5 min. Cell pellets were washed once with ice-cold PBS and transferred to 1.5-ml microcentrifuge tubes followed by centrifugation at 500 × g for 2 min. Pellets were stored at −80 °C prior to chromatin fractionation following the manufacturer's instruction (Subcellular Protein Fractionation Kit, Thermo Scientific) to generate nuclear soluble and chromatin-bound protein fractions. Ten micrograms of protein from the soluble nuclear extract and the chromatin-bound nuclear extract for the samples from DMSO- or PEITC-treated cells were resolved on 4–12% SDS-PAGE and transferred to PVDF membranes. Blots were probed with p53 (DO-1) antibody (1 : 1000, Santa Cruz Biotechnology). Histone H3 and TopoIIB, which served as markers for the chromatin and soluble nuclear fractions, respectively, were detected with rabbit anti-Histone H3 polyclonal (Thermo Scientific) and mouse anti-TopoIIB monoclonal (Santa Cruz Biotechnology) antibodies.
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6

PEITC Modulates p53 Chromatin Binding

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DU145 cells were treated with indicated concentrations of PEITC or DMSO as a control for 4 h. Cells were harvested by centrifugation at 500 × g for 5 min and pellets were washed once with ice-cold PBS. Cells were transferred to 1.5 ml microcentrifuge tubes followed by centrifugation at 500 × g for 2 min. Pellets were stored at − 80 °C prior to chromatin fractionation. Nuclear soluble and chromatin-bound fractions were then prepared following the manufacturer’s instruction (Subcellular protein fractionation kit, Thermo Scientific). Ten μg of protein from the soluble nuclear extract and the chromatin-bound nuclear extract for the samples from DMSO- or PEITC-treated cells were resolved on 4–12% SDS-PAGE and transferred to PVDF membranes. Blots were probed with p53 (DO-1) antibody (1:1000, Santa Cruz Biotechnology). Histone H3 and TopoIIB served as markers for the chromatin and soluble nuclear fractions, respectively. The markers were detected using rabbit anti-Histone H3 polyclonal (Thermo Scientific) and mouse anti-TopoIIB monoclonal (Santa Cruz Biotechnology) antibodies, respectively.
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7

In vitro Binding Assay of Mutant p53 and Hsp40

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In vitro binding assay was performed as previously described (King et al., 2001 (link); Takada et al., 2012 ) with some modifications. Briefly, purified recombinant p53 R175H (250 nM) or His-p53 R175H (55 nM, Thermo Scientific) and His-Hsp40 (1 μM) in 90 μl of assay buffer [phosphate buffered saline pH 7.4, bovine serum albumin (100 μg/ml), 0.01% Triton X-100] with protease inhibitor cocktail (Roche) were incubated with the indicated concentrations of CTM in 10 μl of DMSO at 4°C for overnight. Subsequently, 900 μl of binding buffer and p53 antibody (DO-1, Santa Cruz Biotechnology) with Protein A/G PLUS-Agarose (Santa Cruz Biotechnology) were added, followed by immunoprecipitation. All experiments were performed independently at a minimum of three times.
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8

Analyzing p53 Transcriptional Activity

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H1299 cells were seeded (200 000 cells per well) into a six-well plate (Falcon) and 24 h later co-transfected—in the presence of the Jet Pei reagent (Ozyme), as recommended by the manufacturer—with pCMVp53WT or its mutant derivatives (3 μg), variants of p53BS-luc (2 μg) and pCMLacZ (0.6 μg). Media was exchanged six hours after transfection. The antibiotic G418 (200 μg/ml) was added with the fresh media 6 h post-transfection. Protein extracts were prepared 24 h after transfection and enzymatic activities were measured as previously described (46 (link)). For each experimental set-up, at least five independent transfection experiments were performed. For visualization of short and long forms of the p53 protein, protein extracts were prepared using 200 μl of a room tempered 1× Glo buffer; incubation for 5 min at 25°C while shaking at 550 rpm. Approximately 0.5 μg of protein extracts were subjected to the ‘Western-like’ analyses using the Jess Protein Simple device; the total protein was measured by Bradford. The p53 antibody (DO-1; the N-terminal epitope mapping between amino acid residues 11–25 of p53; Santa Cruz Biotechnology) was used at its saturating conditions 1:100. The equal loading was monitored by the total protein staining (Protein Simple).
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9

Co-Immunoprecipitation of p53 and MDM2

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Co-IP assay was carried out as described previously with modifications.43 (link) H1299 cells were transfected with different cDNA expressing p53-72P, p53-72R or MDM2 for 24 h, and treated with HL001 (20 μM) for 36 h. Cells were washed with cold PBS and lysed in lysis buffer (50 mM Tris-HCl, pH=7.0, 150 mM NaCl, 1 mM EDTA and 1% NP-40 supplemented with protease inhibitor cocktail). The whole-cell lysates were incubated with 2 μg p53 antibody DO-1 (Santa Cruz Biotechnology, Santa Cruz, CA, USA) and 20 μl protein A/G Sepharose beads (Santa Cruz Biotechnology) overnight at 4 °C. The immunocomplexes were washed with lysis buffer for three times and separated by SDS–PAGE followed by western blotting analysis. As p53 protein band is overlapping with IgG bands, IgG light chain was further detected by using specific anti-IgG light chain secondary antibody from (Jackson immunoResearch, West Grove, PA, USA).
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10

Comprehensive Protein Expression Analysis

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Total protein was extracted with RIPA lysis buffer containing 1% protease inhibitor cocktail (Abcam). Equal amounts of total protein were subjected to sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) and were transferred onto a polyvinylidene fluoride (PVDF) membrane. Blocking for one hour was at room temperature with 5% non-fat milk. The membrane was incubated overnight with the primary antibodies (dilution ration 1:1000) at 4 °C with at room temperature, including CDK4, Cyclin D1, Phospho-Rb (Ser780), p27, p21, c-Myc, p16, p-Cdc2 (Try15), Cdc2, Cyclin B1, Acetyl-p53 (Lys382), Bax and Hsp60, and the incubation for the secondary antibodies was one hour at room temperature. Bands visualization was conducted by an ECL Advance Western Blotting Detection Kit (Amersham, UK). Antibodies against CCDC69, c-Myc and p16 were from Abcam (ab175301, ab32072 and ab108349). p53 Antibody (DO-1) antibody was purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). All other antibodies were purchased from Cell Signaling Technology (Danvers, MA, USA). An HRP-conjugated anti-rabbit IgG antibody was used as secondary antibody (Abcam, ab191866). β-actin or GAPDH was used as an internal control for normalization of protein quantity.
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