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86 protocols using anti flag

1

TRAF4 Regulation in Cell Signaling

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Antibodies used in this article include anti-TRAF4 (Proteintech: Wuhan, China, CAS: 66755-1-Ig), anti-TRAF4 (Abcam: NY, USA, CAS: ab245666), anti-Tubulin (Proteintech: Wuhan, China, CAS: 66031-1-Ig), anti-E-cadherin (Proteintech: Wuhan, China, CAS: 20874-1-AP), anti-MMP2 (Proteintech: Wuhan, China, CAS: 10373-2-AP), anti-β-catenin (Cell Signaling Technology: Danvers, MA, USA, CAS: 8480), anti-CCND1 (Proteintech: Wuhan, China, CAS: 60186-1-Ig), anti-GSK3β (Proteintech: Wuhan, China, CAS: 22104-1-AP), anti-p-GSK3β (Cell Signaling Technology: Danvers, MA, USA, CAS: 5558), anti-AKT1 (Proteintech: Wuhan, China, CAS: 60203-2-Ig), anti-p-AKT (Cell Signaling Technology: Danvers, MA, USA, CAS: 13038), anti-SETDB1(Cell Signaling Technology: Danvers, MA, USA, CAS: 2196), anti-Flag (Proteintech: Wuhan, China, CAS: 66008-3-Ig), anti-Flag (Proteintech: Wuhan, China, CAS: 80010-1-RR), anti-MYC-tag (Proteintech: Wuhan, China, CAS: 60003-2-Ig), anti-MYC-tag (Proteintech: Wuhan, China, CAS: 16286-1-AP), and anti-HA (Proteintech: Wuhan, China, CAS: 51064-2-AP).
Reagents used in this article including Cycloheximide (CHX) (Merck: Kenilworth, NJ, USA, CAS: 66-81-9) and proteasome inhibitor (MG-132) (MCE: Chongqing, China, CAS: 133407-82-6).
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2

Nsp14 Colocalization and STAT1 Translocation

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To determine whether Nsp14 co-localizes with chJAK1, the HD11 cells were planted on glass coverslips and grown overnight in 35 mm cell culture dishes. The cells were transfected with pcDNA3.1-Flag-Nsp14 and pCMV-Myc-chJAK1 for 24 h and washed three times with cold PBS. They were treated for 15 min at room temperature with 4% paraformaldehyde. Then, the cells were incubated with anti-Flag antibodies and rabbit polyclonal anti-Myc primary antibodies (Proteintech) (1:100) for 1 h.
To explore the effect of Nsp14 on nuclear translocation of chSTAT1, HD11 cells were transfected with pcDNA3.1-Flag-Nsp14 for 24 h, stimulated with chIFN-γ (100 ng/mL) for 30 min before being washed three times with cold PBS, and treated for 15 min at room temperature with 4% paraformaldehyde. The cells were then incubated with anti-Flag (Proteintech) and anti-chSTAT1 (Bioss) antibodies (1:100) for 1 h.
All the cells were washed with PBS and incubated with secondary antibodies (CoraLite488-conjugated donkey anti-mouse IgG (H + L) and CoraLite594-conjugated donkey anti-rabbit IgG (H + L) (1:200)) for 1 h. Then, the cells were dyed with DAPI (Beyotime) for 10 min and washed with cold PBS. The images were captured using a laser scanning confocal microscope (Zeiss, Jena, Germany).
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3

Western Blot Analysis of Protein Complexes

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Analysis of protein expression and IP experiments was performed by resolving proteins by SDS-PAGE, transfer to PVDF and immunoblotting. Primary antibodies used for immunoblotting were: anti-FLAG (Proteintech, 20543-1-AP, 1:4000) or anti-FLAG (Proteintech, 66008-3-Ig, 1:4000), anti-NAF1 (Abcam, ab157106, 1:1000), anti-NHP2 (Proteintech, 15128-1-AP, 1:5000), anti-NOP10 (Abcam, ab134902, 1:500), anti-dyskerin (Santa Cruz, sc-373956, H-3, 1:1500), anti-GAR1 (Proteintech, 11711-1-AP, 1:1000), anti-His (Santa Cruz, sc-8036, H-3, 1:500), and anti-alpha tubulin (Sigma, T5168, 1:5000).
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4

Western Blot Analysis of Cellular Proteins

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The antibodies included the following: anti-SQSTM1/p62 (M162-3, Medical Biological Laboratories, Japan), anti-SQSTM1/p62 (ab109012, Abcam, USA), anti-p53 (sc-126, Santa Cruze Biotechnology, USA), anti-p53 (10,442–1-AP, Proteintech, China), anti-mutant p53 (ab32049, Abcam), anti-NRF2 (M200-3, Medical Biological Laboratories), anti-NRF2 (16,396–1-AP, Proteintech), anti-ubiquitin (10,201–2-AP, Proteintech), anti-GAPDH (#5174, Cell Signaling Technology), anti-β-actin (#4970, Cell Signaling Technology), anti-HA (M180-3 and M561, Medical Biological Laboratories), anti-His (D291-3, Medical Biological Laboratories), anti-Flag (M185, Medical Biological Laboratories), anti-Flag (20,543–1-AP, Proteintech), anti-SLC7A11 (NB300-318, Novus, USA), anti-SLC7A11 (26,864–1-AP, Proteintech) anti-HO1 (ab68477, Abcam), anti-HO1 (10,701–1-AP, Proteintech), anti-NQO1 (ab80588, Abcam), anti-Keap1 (10,503–2-AP, Proteintech).
The reagents included the following: Erastin (S7242, Selleck, USA), APR-246 (HY-19980, MCE, USA), Pifithrin-α (HY-15484, MCE), Nutlin-3 (S1061, Selleck).
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5

Western Blot Analysis of Protein Targets

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Whole-cell proteins were harvested, and the protein concentrations were measured using a BCA kit (Biosharp, Hefei, China). Equal amounts of protein (20 μg) were separated by 10% SDS-PAGE and transferred onto nitrocellulose membranes (EMD Millipore, MA, USA); subsequently, the membranes were blocked in 5% nonfat dry milk for 2 hours at room temperature. The membranes were incubated with primary antibodies at 4°C overnight, washed with TBST, and incubated with anti-HRP-conjugated Affinipure goat anti-rabbit/mouse lgG(H+L) (Proteintech, Wuhan, China). The signals were detected using an ECL Western blotting kit (Biosharp, Hefei, China). The primary antibodies used included anti-PADI6 (Thermo Fisher, MA, USA), anti-GAPDH (Proteintech, Wuhan, China), anti-YAP1 (Proteintech, Wuhan, China), anti-FLAG (Sigma, MO, USA), anti-beta tubulin (Proteintech, Wuhan, China), anti-14-3-3 (Proteintech, Wuhan, China), anti-MMP2 (Proteintech, Wuhan, China) and anti-MMP9 (Proteintech, Wuhan, China) antibodies.
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6

Ganoderma lucidum Mycelia Protein Extraction and Western Blot

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Ganoderma lucidum mycelia were washed and homogenized in 1 mL of lysis buffer (25 mM Tris base (pH 7.4), 200 mM glycine, 5 mM EDTA, 1 mM phenylmethyl sulfonyl fluoride, and 1 mM 2-mercaptoethanol). The homogenates were centrifuged at 12,000×g for 20 min at 4 °C, then protein concentration in the supernatants was determined using the Bradford method. For western bolt analysis, 30 µg of protein was separated on a 12% SDS-polyacrylamide gel and electro-transferred to a polyvinylidene difluoride membrane in TBST buffer [10 mM Tris/HCl (pH 7.4), 100 mM NaCl, 0.1% Tween 20] for 1 h. Membranes were blocked with non-fat milk dissolved in TBSF buffer at room temperature for 2 h, followed by incubation with primary antibodies (anti-Flag, PROTEINTECH, Cat No. 20543-1-AP at 1:5000 dilution; anti-tubulin rabbit polyclonal antibody, BBI, Cat No. D110015 at 1:5000 dilution). Membranes were washed with TBSF and incubated with an HRP-conjugated goat anti-rabbit IgG (BBI, Cat No. D110058 at 1:5000 dilution). The blots were washed with TBSF buffer again, and the bands were visualized using an enhanced chemiluminescene method.
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7

ChIP Assay for LC3B Overexpression

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For ChIP, 2 × 107 PC3 and LNCaP cells overexpressing LC3B were used. The experiment was performed using the Millipore ChIP kit (17-371, Boston, MA, USA) according to the manufacturer’s instructions. Finally, micrographs were obtained using Image Lab software. The antibody used was anti-Flag (66008-4-lg, ProteinTech). The primers used were FUS forward, 5′-CGTCCCCAGCCGCCGGGACCG-3′ and reverse, 5′-ACGCTCCGCCGCCTACGCACCG-3′.
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8

Investigating MYC-interacting proteins using affinity purification

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Cycloheximide and MG132 were purchased from Cayman Chemical (Ann Arbor, MI, USA). Lithium chloride was obtained from Thermo Fisher Scientific (Waltham, MA, USA). S-protein agarose beads were obtained from Merck (Rahway, NJ, USA). MYC antibody-conjugated agarose beads were from Thermo Fisher Scientific (Waltham, MA, USA). The following antibodies were used: anti-FLAG (Proteintech; San Diego, CA, USA), anti-MYC (Proteintech; San Diego, CA, USA), anti-OTUD7B (Proteintech; San Diego, CA, USA), anti-cyclophilin B (Invitrogen; Waltham, MA, USA), anti-HSP90 (Santa Cruz Biotechnology; Santa Cruz, CA, USA), anti-HA (Santa Cruz Biotechnology; Santa Cruz, CA, USA), anti-V5 (Proteintech; San Diego, CA, USA), anti-α-tubulin (Proteintech; San Diego, CA, USA), and anti-lamin B1 (Santa Cruz Biotechnology; Santa Cruz, CA, USA).
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9

Protein Expression and IP Analysis

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Analysis of protein expression and IP experiments was performed by resolving proteins by SDS-PAGE, transfer to PVDF and immunoblotting. Primary antibodies used for immunoblotting were: anti-FLAG (Proteintech, 20543-1-AP, 1:4000), anti-HA (Cell Signaling, 2367, 6E2, 1:1125), anti-NAF1 (Abcam, ab157106, 1:1000), anti-NHP2 (Proteintech, 15128–1-AP, 1:5000), anti-NOP10 (Abcam, ab134902, 1:500), anti-TCAB1 (Novus, NB100–68252, 1:2000), anti-reptin (Abcam, ab51500, 1:5000), anti-hTERT (Santa Cruz, sc7215, C-20, 1:500), anti-dyskerin (Santa Cruz, sc-373956, H-3, 1:1500), anti-PARN (Abcam, ab154214, 1:500), anti-RRP40 (Bethyl, A303–909A-T, 1/1500), anti-TIP60 (Santa Cruz, sc5725, N-17, 1/1000), anti-hGAR1 (from Dr Witold Filipowicz (40 (link)), 1/2000) and anti-actin (Chemicon MAB1501, 1:5000).
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10

Antibody Characterization for Research

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The antibodies used in the present study were shown as follows: anti-α-SYN antibody (Santa Cruz Biotechnology, Dallas, TX, USA), anti-MAOA antibody (Abcam, Cambridge, MA, USA), anti-Sp1 (Abcam, Cambridge, MA, USA), anti-R1 (ABclonal Technology, Wuhan, China), anti-Histone antibody (Cell Signaling Technology), anti-GAPDH antibody (Cell Signaling Technology, Danvers, MA, USA), anti-MAOB, anti-COMT, anti-ADH5, anti-FLAG, Goat anti-mouse IgG H&L and Goat anti-rabbit IgG H&L (Proteintech Group Inc., Rosemont, IL, USA), Goat anti-mouse Alexa 594 (Abcam) and Goat anti-rabbit Alexa 488 (Cell Signaling Technology).
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