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6 protocols using transcend biotin lysyl trna

1

Probing PAK4-PPARγ Protein Interactions

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The PAK4 truncated mutants were synthesized in vitro with specific PCR-amplified fragments using Transcend Biotin-Lysyl-tRNA and TnT Quick Coupled Transcription/Translation System (Promega, Madison, WI) following the manufacturer’s instructions. The recombinant GST and GST-tagged PPARγ fusion protein was expressed bacterially following induction with IPTG (1.0 mg/ml) and was purified using MagneGST Pull-Down System (Promega) following manufacturer’s protocol and verified by SDS-PAGE. About ~2 µg aliquots of protein-coated GST particles were incubated with biotin-labeled PAK4 truncated mutants overnight at 4°C. Beads were washed for 2–3 times, eluted in 20 µl of pre-heated sample buffer, separated on SDS–PAGE, transferred to nitrocellulose membrane. The in vitro protein binding was detected with Transcend Nonradioactive Translation Detection Systems following manufacturer’s instructions.26 (link)
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2

Biotin-Based Detection of Translation

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In vitro generated RNA transcripts above were used templates for in vitro translation assays using a Rabbit Reticulocyte Lysate kit (Promega) at the indicated concentrations. Reactions were performed at 1/5th volume with the inclusion of Transcend Biotin-Lysyl-tRNA (Promega) to allow antibody independent detection of all translated products. Samples were assayed by western blot (as above) with the exception that membranes were blocked with 5% BSA/TBS for 1 hour, incubated with IRDye 800CW Streptavidin (LICOR) for 1 hour, washed 3 times and visualised using the LICOR Odyssey Fc imaging system.
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3

In Vitro Synthesis and Detection of MYLK3 Protein

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A MYLK3 ORF clone generated by GenScript (Clone ID: OMu23765) in the pcDNA3.1(+) vector was used as the backbone for subsequent 5′UTR cloning. 5′ UTR of B6N and B6J MYLK3 was cloned immediately upstream of the canonical ATG and immediately downstream of the T7 promoter by Gibson Assembly (89 (link)) and confirmed by Sanger sequencing. 1 μg of plasmid was added to 40 μl of TnT Quick Master Mix (Promega) with 1 μl of methionine and 1 μl of Transcend Biotin-Lysyl-tRNA and incubated at 30°C for 1 h. A negative control reaction was set up containing no plasmid DNA, and a positive control containing a luciferase expression vector. The products of each reaction were separated by SDS–PAGE and then transferred onto a nitrocellulose membrane. The membrane was blocked in 5% BSA and incubated with MYLK3 and detected by Western blot protocol or with streptavidin–HRP conjugate and incubated for 2 h, followed by detection with substrate as per the manufacturer’s instructions (Promega). Membranes were visualised using a Licor Odyssey Fc and ImageStudio software.
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4

In Vitro Translation of Micropeptides

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The in vitro translation analysis was performed using the TnT quick coupled transcription/translation system (Promega), following the manufacturer’s instructions. In brief, a T7 promoter was attached to the 5′-end of the three LETR1 transcripts and the luciferase ORF (positive control) by PCR amplification using Phusion high-fidelity DNA Polymerase (New England BioLabs). After gel purification, PCR fragments were used as templates to perform the in vitro translation reaction for 90 min at 30 °C. Transcend biotin-lysyl-tRNA (Promega) was used to label the newly synthesized proteins. Next, western blotting was performed largely as described above, with the exception of the usage of Bolt 12% Bis-Tris gels to be able to separate and keep small-sized proteins (micropeptides). Detection of biotinylated proteins was performed using the Transcend chemiluminescent non-radioactive translation detection system (Promega), following the manufacturer’s instructions. Blots were imaged on a ChemiDoc imaging system (Bio-Rad).
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5

Probing PAK4-PPARγ Protein Interactions

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The PAK4 truncated mutants were synthesized in vitro with specific PCR-amplified fragments using Transcend Biotin-Lysyl-tRNA and TnT Quick Coupled Transcription/Translation System (Promega, Madison, WI) following the manufacturer’s instructions. The recombinant GST and GST-tagged PPARγ fusion protein was expressed bacterially following induction with IPTG (1.0 mg/ml) and was purified using MagneGST Pull-Down System (Promega) following manufacturer’s protocol and verified by SDS-PAGE. About ~2 µg aliquots of protein-coated GST particles were incubated with biotin-labeled PAK4 truncated mutants overnight at 4°C. Beads were washed for 2–3 times, eluted in 20 µl of pre-heated sample buffer, separated on SDS–PAGE, transferred to nitrocellulose membrane. The in vitro protein binding was detected with Transcend Nonradioactive Translation Detection Systems following manufacturer’s instructions.26 (link)
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6

In vitro translation of NRCP protein

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NRCP-pCL-Neo with full length NRCP and luciferase positive control plasmid was used for in vitro translation assays using the TnT Quick Coupled Transcription/Translation System (Promega, WI) with 1 mM methionine and Transcend Biotin-Lysyl-tRNA (Promega) according to the manufacturer’s instructions. For detailed procedure please refer to supplementary methods.
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