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5 protocols using mouse anti myc sc 40

1

Characterization of Mitochondrial Proteins

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Primary antibodies used were as follows: mouse anti-RHOT1 (Miro1, H00055288-M01; Abnova), rabbit anti-Miro2 (ab224089; Abcam), rabbit anti-TOMM40 (18409-1-AP; Proteintech), rabbit anti-VPS13D (ab202285; Abcam), mouse anti-GAPDH (40-1246; Proteus Biosciences Inc.), rabbit anti-GFP (ab290; Abcam), mouse anti-myc (sc-40; Santa Cruz Biotechnology), rabbit anti-RFP (600-401-379; Rockland Inc.). Secondary antibodies used were goat anti-mouse IgG (926-32210; LI-COR Biosciences) and goat anti-rabbit IgG (926-68021; LI-COR Biosciences).
Halo tag ligands were a kind gift from L. Lavis (Janelia Research Campus, Ashburn, VA). Valinomycin was purchased from Sigma-Aldrich and used at 10 µM concentration. RNAis for Miro1 were purchased from Ambion (4390824), and the ones for Miro2 were purchased from IDT (hs.Ri.RHOT2.13). Specific primers were purchased from IDT; for sequences, refer to Table S1.
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2

Western Blotting of Protein Targets

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Western blots were performed using standard procedure. Briefly, proteins were loaded on Any kD™ Mini-PROTEAN® TGX™ Gel (Bio-Rad) and run at 200 V for 30 min. Samples were electrophoretically transferred to a PVDF membrane at 25 V overnight. Membranes were blocked with 5% non-fat milk in Tris buffer saline with TWEEN-20 (TBST) buffer for 1 h at room temperature, washed, and incubated with primary antibody in TBST with 1% non-fat milk for 1 h. Secondary antibody in TBST with 1% non-fat milk was applied, and incubated at room temperature for 0.5 h. After washing with TBST, Immobilon Western HRP Substrate (Millipore) was used for signal detection and UN-SCAN-IT gel 6.1 software was used to quantify band intensity. The following antibodies were used: rabbit anti-GFP (NB600-303; Novusbio), mouse anti-Myc (SC-40; Santa Cruz Biotech), goat anti-rabbit IgG-HRP (65–6120; Invitrogen), goat anti-mouse IgG-HRP (31430; Thermo Fisher Scientific).
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3

Antibody Identification for Protein Analysis

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Primary antibodies used for this study were as follows: rabbit anti-APOB (ab20737, Abcam); mouse anti-CHC (610500, BD Transduction Laboratories); rabbit anti-ERLIN1 (17311-1AP, proteintech); rabbit-anti ERLIN2 (14781-1-AP, proteintech); mouse anti-FLAG (F9291, Sigma); rabbit anti-FLAG (20543-1-AP, proteintech); mouse anti-MYC (sc-40, Santa Cruz Biotechnology); rabbit anti-MYC (06–549, Millipore); rabbit anti-TM6SF2 (AAS00444C, Antibody Verify). Horseradish peroxidase-conjugated goat anti-rabbit IgG (31460) and donkey anti-mouse IgG (715-035-150) antibodies were from Pierce and Jackson ImmunoResearch, respectively.
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4

Screening Mouse Thymus Interactome with NIK

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We used the following antibodies: anti-Flag M2 (F3165) (Sigma-Aldrich, St Louis, MO), mouse anti-Myc (sc-40), rabbit anti-Myc (sc-789), mouse anti-HA (sc-805), anti-Parp1 (sc-25780), mouse anti-TRAF3 (sc-6933), rabbit anti-TRAF3 (sc-1828), anti-p65 (sc-8008) (Santa Cruz Biotechnology, Santa Cruz, CA), anti-NIK (4994), anti-p52 (4882), anti-RelB (4922s) (Cell Signaling, Beverly, MA), anti-CnAα (07-067), anti-CnAβ (07-068), anti-tubulin (CP06) (Millipore, Darmstadt, Germany). The following reagents used were in experiments: MG132 (Peptide Institute, Osaka, Japan) and an agonistic anti-LtβR antibody (Alexis Biochemicals, Läufelfingen, Switzerland).
In vitro virus selection was performed as reported previously22 (link). Briefly, a cDNA library was prepared from mouse fetal thymus RNA (embryonic day 18.5). NIK mRNA was used as bait, and prey were co-translated in a wheat germ extract (Molecuence, Yokohama, Japan) using a Qiagen Biorobot 8000. After four rounds of selection, we identified interaction sequence tags obtained by in vitro virus and verified them as reported previously23 (link)40 (link).
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5

Generating Jurkat Cells Expressing CD4

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Mouse anti-Myc (sc-40) and rabbit anti-paxillin (sc-5574) were from Santa Cruz Biotechnology. Mouse anti-pY31 paxillin was from BD Biosciences. Alexa Fluor 647 conjugated anti-human CD4 antibody was from SouthernBiotech. IRDye680CW goat antimouse IgG, and IRDye800CW goat anti-rabbit IgG were from Li-Cor Biotechnology. HEK293 cells and Jurkat cells were obtained from ATCC. The derivation and characterization of the HEK293-based Hck-expressing HZ-1 cells have been described elsewhere [19] (link). HEK293 and HZ1 cells were grown in high-glucose Dulbecco's modified Eagle's medium (DMEM; Sigma) supplemented with 10% fetal bovine serum (FBS), 0.05 mg/ml penicillin, and 0.05mg/ml streptomycin. Lentiviral transduction was employed to generate Jurkat cells stably expressing human CD4. Briefly, HEK293 cells were co-transfected with 2.5 !g pDelta8.9, 1.5 !g VSV-G and 3 !g pWPI-puro plasmid containing human CD4 cDNA in Opti-MEM medium with 12 !g PEI. After 5 hours, medium was refreshed with cell culture media. Supernatant was collected 48 hours post-transfection, filtered and used to infect Jurkat cells. Infected cells were selected with 6 !g/ml puromycin for 2 days. Single cell clones of CD4 transduced Jurkat cells were isolated by cellenONE X1 system. Jurkat cells were maintained in RPMI-1640 medium (Sigma) supplemented with 10% FBS, 0.05 mg/ml penicillin, and 0.05 mg/ml streptomycin.
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