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12 protocols using phospho rps6

1

Immunoblotting of Phosphorylated Proteins

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Tissue samples were collected and flash frozen. After 24 h, protein was extracted and immunoblotting performed as previously described.43 (link) The membranes were blocked with 5% non-fat dry milk for 1 h and then probed with primary antibodies against phospho RPS6 (Ser235/236, 4858, Cell Signaling Technology), phospho AKT (Ser473, 4060, Cell Signaling Technology), phospho 4EBP1 (Thr37/46, 2855, Cell Signaling Technology), total RPS6 (2217, Cell Signaling Technology), total AKT (4691, Cell Signaling Technology) or total 4EBP1(9644, Cell Signaling Technology) in bovine serum albumin at 1:1000. Anti-GAPDH antibody (8884, Cell Signaling Technology) was used as a loading control at a ratio of 1:5000.
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2

Salternamide A Biochemical Assay

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Salternamide A (SA, Figure 1A) was dissolved in 100% DMSO and stored at −20 °C for subsequent analysis. Cobalt (II) chloride (CoCl2) and MG132 were purchased from Sigma-Aldrich (St. Louis, MO, USA). Antibodies for HIF-1α, Akt, phospho-Akt (Thr308), PI3K, phospho-PI3K (Tyr458/199), RPS6, phospho-RPS6 (Ser235/236), p70S6K1, phospho-p70S6K1 (Thr389), phospho-STAT3 (Tyr705), mTOR, phospho-mTOR (Ser2448), 4E-BP1, phospho-4E-BP1 (Thr37/46), eIF4E, phospho-eIF4E (Ser209), phospho-CDC2 (Thr161), CDC25C, phospho-CDC25C (Ser216), Chk1, phospho-Chk1 (Ser345), phospho-Chk2 (Thr168), caspase-3, caspase-8, caspase-9, cleaved caspase-3, cleaved caspase-8, and LC3B were purchased from Cell Signaling Technology (Danvers, MA, USA). Antibodies for ERK 1/2, phospho-ERK 1/2 (Thr202/Tyr204), STAT3, CDC2, cyclin B1, cyclin A, Bcl-2, and Bcl-xL were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Antibodies for VHL, PARP, cleaved PARP, and Bim were purchased from BD Pharmingen™ (BD Biosciences, San Jose, CA, USA). Hsp90 antibody was purchased from Stressgen Bioreagents (Ann Arbor, MI, USA).
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3

Immunoblotting of mTOR Pathway Proteins

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The phospho and total antibodies used for immunoblotting were purchased from Cell Signaling (Beverly, CA): phospho‐Akt (Ser308; 1:1000), phospho‐mTOR (Ser2448; 1:500), phospho‐S6K1 (Thr389;1: 500), phospho‐4E‐BP1 (Thr37/46; 1:1000), and phospho‐rpS6 (Ser240/244; 1:250). Total protein was detected for Akt (1:1000), mTOR (1:500), S6K1 (1:500), 4E‐BP1 (1:1000), and rpS6 (1:250). Anti‐rabbit IgG HRP‐conjugated secondary antibody was purchased from Amersham Bioscience (1:2000).
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4

Comprehensive Cell Lysis and Immunoblotting

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Cells were lyzed using 0.20% NP40, 50 mM Tris pH 7.5, 5% Glycerol, 1.5 mM MgCl2, 100 mM NaCl lysis buffer containing Phosphatase Inhibitor Cocktail 2 (Sigma, P5726) and cOmplete Protease Inhibitor Cocktail (Roche, 11873580001). Lysates were resolved by SDS-PAGE and incubated with primary antibodies. Antibodies used were against actin (A5441), CAMKK2 (HPA017389) (both Sigma), ERK1/2 (Sigma, M5670) and phospho-AKT (Ser473)(#9271), AKT (#9272), ALK(#3633), phospho-p90RSK (Ser380)(#12032), RSK1/2/3 (#9355), RSK1(#9333), RSK2 (#5528), phospho-RPS6 (Ser235/236)(#4858), RPS6 (#2217), phospho-ERK1/2 (Thr202/Tyr204)(#4267), phospho-FAK1 (Tyr397)(#8556), FAK1 (#13009), phospho-IGF1R (Tyr1131)(#3021), IGF1R (#9750), cleaved Caspase 3 (#9661), PARP-1 (#9542), AMPK1 (#2795), pAMPKα (Thr172)(#2535), FER (#4268), phospho-YB1 (Ser102)(#2900), and YB1 (#4202) were from Cell Signaling. Secondary antibodies were HRP-conjugated α-rabbit or α-mouse (GE Healthcare).
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5

Western Blot Antibody Panel for Cell Signaling

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Primary antibodies against GFP (Takara Bio, 632380, AB_10013427; 1:5000), G-6-PDH (Sigma-Aldrich, A9521, AB_258454; 1:5000), Adh1 (Millipore, 126745, AB_564196; 1:200000), RPS6 (Cell Signaling Technology, 2217, AB_331355; 1:1000), phospho-RPS6 (Ser235-236) (Cell Signaling Technology, 4856, AB_2181037; 1:1000), RPS6KB (Cell Signaling Technology, 2708, AB_390722; 1:1000), phospho-RPS6KB (Thr389) (Cell Signaling Technology, 9205, AB_330944; 1:1000), EIF4EBP1 (Cell Signaling Technology, 9452, AB_331692; 1:1000), phospho-EIF4EBP1 (Thr37/46) (Cell Signaling Technology, 2855, AB_560835; 1:1000), phospho-EIF4EBP1 (Ser65) (Cell Signaling Technology, 9451, AB_330947; 1:1000), AKT1 (Cell Signaling Technology, 4691, AB_915783; 1:1000), phospho-AKT(Ser473) (Cell Signaling Technology, 4060, AB_2315049; 1:1000), phospho-AKT(Thr308) (Cell Signaling Technology, 13038, AB_2629447; 1:1000), ULK1 (Cell Signaling Technology, 8359, AB_11178668; 1:1000), phospho-ULK1(Ser757) (Cell Signaling Technology, 6888, AB_10829226; 1:1000), MAP1LC3 AB (Cell Signaling Technology, 12741, AB_2617131; 1:1000), β-actin (Cell Signaling Technology, 4967, AB_330288; 1:1000) were used.
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6

Immunoblot Analysis of Phosphorylated RPS6

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Keratinocytes were grown in culture plates and directly lysed using 1X SDS sample buffer containing 1% SDS, 50 mM TrisHCl pH 6.8, 10% glycerol, 50 mM DTT and Bromophenol blue. Samples were boiled and centrifuged for 1 minute at 16,000 × g. Samples were separated on mini-PROTEAN 4–20% TGX gels (Biorad) and blotted on PVDF membranes. Membranes were blocked with Protein Free Blocking Buffer (Thermo scientific) and Immunostained overnight with phospho-RPS6 (5364, Cell Signaling Technology) and alpha-tubulin (T6074, Sigma-Aldrich) antibodies. Staining with secondary antibodies (LiCor) was performed for one hour and membranes where scanned using the Odyssey CLx imaging system from LiCor.
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7

Pharmacological Inhibition of mTOR

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RAD001 (No 07741; Sigma-Aldrich Co., St Louis, MO, USA) was dissolved in dimethyl sulfoxide (DMSO). All other chemicals, unless otherwise stated, were from Sigma-Aldrich Co. Antibodies against mTOR, phospho-mTOR (Ser2448), phospho-mTOR (Ser2481), AKT, phospho-AKT (Ser473), rpS6, phospho-rpS6, 4EBP1 and phospho-4EBP1 were purchased from Cell Signaling Technology (Danvers, MA, USA). Antibodies against enhanced green fluorescent protein (EGFP) and β-actin were from Sigma-Aldrich Co.
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8

Immunoblotting Analysis of Signaling Pathways

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Spheroid and colon tissue samples were collected and flash frozen. After 24 hours, protein was extracted and immunoblotting performed as previously described (50). The membranes were blocked with 5% non-fat dry milk for one hour and then probed with primary antibodies against phospho RPS6 (Ser235/236, #4858, Cell Signaling Technology), phospho AKT (Ser473, #4060, Cell Signaling Technology), phospho 4EBP1 (Thr37/46, #2855, Cell Signaling Technology), phospho EEF2 (Thr 56, #2331, Cell Signaling Technology), total RPS6 (#2217, Cell Signaling Technology), total AKT (#4691, Cell Signaling Technology), total 4EBP1 (9644, Cell Signaling Technology)), or total eEF2 (#2332, Cell Signaling Technology) in bovine serum albumin at 1:1000. Anti-GAPDH (#8884, Cell Signaling Technology) or β-actin (#5125, Cell Signaling Technology) antibodies were used as a loading control at a ratio of 1:1000.
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9

Signaling Pathway Regulation in Cells

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Fluocinolone acetonide (FA), croton oil (CO), Wortmannin (WM), AZD8055 (AZD), NVP-BEZ235 (NVP), MK-2206 (MK), and 5-bromo-2′-deoxyuridine (BrdU), were from Sigma Aldrich (St. Louis, MO), LY294002 (LY) was from LC Laboratories (Woburn, MA). TNF-α and cytoplasmic and nuclear fractionation kit were from Thermo Fisher Scientific (Waltham, MA).
We used antibodies to GR (sc-8992, RRID:AB_2155784), RelA/p65 (sc-8008, RRID:AB_628017), phospho-RelA/p65 (Ser536) (sc-136548, RRID:AB_10610391), IκB (sc-1643, RRID:AB_627772), phospho-IκB (Ser32) (sc-8404, RRID:AB_627773), FKBP51 (sc-271547, RRID:AB_10649040) (Santa Cruz Biotechnology, Dallas, TX); GAPDH (G9545, RRID:AB_796208, Sigma Aldrich); phospho-GR (Ser211) (4161, RRID:AB_2155797), phospho-rpS6 (Ser235/236) (4856S, RRID:AB_2181037), phospho-4E-BP1 (Thr37/46) (9459L, RRID:AB_2262165), phospho-P70S6K (Thr389) (9234, RRID:AB_2269803), phospho-AKT (Thr308 and Ser473) (9266S, RRID:AB_659801 and 9271, RRID:AB_329825), lamin B (12586, RRID:AB_2650517) and tubulin (2148, RRID:AB_2288042) (Cell Signaling, San Jose, CA), REDD1 (10638-1-AP, RRID,AB_2245711, Proteintech Group, Rosemont, IL).
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10

Antibody Characterization and Validation

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All antibodies were ordered without any carrier proteins that could interfere with antibody functionalization. EGFR (Ab231, Abcam), NOTCH1 (AF5317, RnD systems), JAG1 (AF1277, RnD systems), KLK6 (AF2008, RnD systems), phospho-FAK (AF4528, RnD systems), phospho-RPS6 (5364, Cell Signaling Technology), ITGA6 (Produced and purified in house from hybridoma P5G10, DSHB), TGM1 (Produced and purified in house from BC1 hybridoma, a kind gift from Prof. Robert Rice), alpha-tubulin (T6074, Sigma-Aldrich).
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