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3 protocols using ci 1040

1

Disrupting uPAR-Integrin Interaction

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Inhibition of uPAR-integrin interaction was obtained with the M25 peptide, previously identified in a phage display library, able to uncouple uPAR from integrin α-chain. The peptide was produced in collaboration with the Peptide Facility at Biotechnology Center, University of Padova (CRIBI). In the β-propeller model of α-chain folding, the sequence of this peptide (STYHHLSLGYMYTLN) spans an exposed loop on the ligand-binding surface of α-chain, thus impairing integrin α chain-uPAR interaction. In cell culture M25 water solution was used at 50 μM at 37 °C. MEK1/2 inhibition was achieved with 1 μM CI-1040 (Cayman Chemical) while ERK1/2 inhibition was obtained with 1 μM SCH772984 (Cayman Chemical).
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2

Ubiquitination Pathway Regulation in Cells

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The primers were synthesized and PAGE purified by IDT DNA. Fugene 6 transfection reagent was purchased from Promega while Lipofectamine RNAiMax was from Life Technologies/Invitrogen. All cell culture reagents including media, antibiotics were from GIBCO/Invitrogen. Antibodies to total Ubiquitin (clone P4D1) was from Santacruz Biotechnology, Luciferase (Millipore), pAKT, AKT (Cell Signaling), Ubiquitin, Lys63 specific (clone Apu3, Millipore), His-tag (clone H3 and C-term, Invitrogen) or Millipore (H8 clone). FLAG tag-HRP antibody (Clone M2) was purchased from Sigma Aldrich. HRP-conjugated and fluorophore-conjugated secondary antibodies were from Jackson ImmunoResearch. ON-TARGET plus siRNA to TRAF6 and scrambled control siRNA were obtained from GE Life Sciences/Dharmacon. D-Luciferin was from Xenogen Corp while GloSensor was from Promega. Erlotinib was a kind gift from Genentech. Tyrphostin AG1478 was obtained from Cayman Chemical. TNF-α antagonist (WP9QY) and IL-1R antagonist were from SantaCruz biotechnology. Recombinant IGF-1, IL-1α were from PepreoTech. CI-1040, GF109203X, NVP-AEW541 and MK2206 (Cayman Chemical), and Linsitinib (LC Laboratories). Protein A and Protein G sepharose beads were from GE HealthCare. Purified NEDD4-1 (Sigma Aldrich), Myc-tagged ubiquitin (Cat. No. U-115) UBE1 (Cat. No. E305), and UBCH5 (Cat. No. E2-616) all were from Boston Biochemicals.
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3

Inhibitor Characterization for Cellular Signaling

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The MAPK inhibitors CI‐1040 (against MEK 1/2) and JNK‐IN‐8 (against JNK 1/2/3) were obtained from Cayman Chemical and Sigma‐Aldrich, respectively. The MTH1 inhibitor TH588 was a kind offer from Prof. T. Helleday (Karolinska Institutet, Solna, Sweden). The STAT inhibitors Stattic (against STAT3) and AS1517499 (against STAT6) were purchased from Sigma‐Aldrich. Inhibitors were diluted in DMSO and stored at −20°C.
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