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68 protocols using dynapro

1

Protein Molecular Weight Analysis

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Size exclusion chromatography was carried out on an Alliance 2695 HPLC system (Waters, Dublin, Ireland) using a Superose 6 HR10/30 column (GE Healthcare, Cork, Ireland) run in a buffer containing 10 mM Tris-HCl, 300 mM NaCl and 50 mL CaCl2 at pH 7.5 with a flow rate of 0.6 mL/min. Detection was performed using a three-detector static light-scattering apparatus (MiniDAWN TREOS, Wyatt Technology, Haverhill, UK), a quasielastic light-scattering instrument (Dynapro, Wyatt Technology, Haverhill, UK) and a refractometer (OptilabrEX, Wyatt Technology, Haverhill, UK). Molecular weight calculations were performed with the ASTRA V software (Wyatt Technology, Haverhill, UK) as previously described [42 (link)]. Proteins were injected at a final concentration of 1 mg/mL (±0.1 mg/mL). Errors were assigned by the Astra software (Wyatt).
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2

Reconstitution and Kinase Activity of PI3Kα and PI4KIIα

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Purified PI3KIα enzyme was purchased from Invitrogen-Life Technologies. Purified PI4KIIα was purchased from Creative Biomart. Dynamic light scattering data were recorded on a Wyatt DynaPro dynamic light scattering plate reader. Endogenous PtdIns(4,5)P2 (brain, porcine) and phosphatidylinositol (PI) 1,2-dioleoyl-sn-glycero-3-phospho-(1′-myo-inositol) were purchased from Avanti Polar Lipids. ATP and TLC plates with silica gel 60 were purchased from Sigma. All solvents were purchased from Fischer Scientific.
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3

Drug Conjugate Characterization and Analysis

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The hydrodynamic radii (Rh) of the ELP160srt–ABD–Dox and KEKE–ELP160srt–ABD–Dox conjugates were determined by DLS (DynaPro; Wyatt Technology, Santa Barbara, CA) at 25 °C using a single detector at 90°. Samples were prepared in sortase reaction buffer at 25 × 10−6 M, filtered through 0.22 μm Millex-GV filters (Sigma-Aldrich, St. Louis, MO), and measured using a DynaPro plate reader (Wyatt Technology, Santa Barbara, CA). The data were analyzed with a regularization fit of the autocorrelation function using a Rayleigh sphere model. The purity of the drug conjugates (KEKE–ELP160–ABD–Dox and ABD–Dox) and efficiency of the sortase enzymatic reaction were assessed by size exclusion HPLC. Samples were injected into a LC10 HPLC (Shimadzu Scientific Instruments, Columbia, MD) with a Shodex OHPak SB-804 column (New York, NY) and PBS:acetonitrile (70:30 v/v) as the mobile phase at an isocratic flow rate of 0.3 mL min−1. Eluting peaks were detected with a UV–vis detector set at 488 nm. Mass spectrometry analysis of the ABD–Dox conjugate was performed on a Bruker Autoflex Speed MALDI-TOFMS (Bruker Daltonics, Billerica, MA) using succinic acid matrix and porcine insulin as the internal standard.
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4

Phosphatidylserine Liposomes Characterization

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Phosphatidylserine (PS) liposomes were prepared by suspending the lipid (porcine brain; Avanti Polar Lipids #840032P) at 5 mg/ml (13 mM) in 50 mM Tris buffer, pH 7.5. The suspension was extruded 11 times through a 50 nm pore polycarbonate membrane using an Avestin LiposoFast-Basic Membrane Extruder and the solution was stored at 4°C. This method is similar to previously described methods for the preparation of phosphatidylcholine-based liposomes containing PS [52 (link)] with the exception that PS was the only lipid solubilized and it was dissolved directly in 50mM Tris pH 7.5 prior to extrusion. The resulting liposomes were characterized in triplicate by dynamic light scattering on a Wyatt DynaPro reader and were 120nm (polydispersity 16nm). The expected sizes for 100 and 300nm Nanosphere size standards (ThermoFisher Scientific 3100A and 3300A, respectively) were observed. Upon addition of KRAS, the liposomes were 129nm (polydispersity 19nm) in the presence of assay buffer.
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5

Dynamic Light Scattering Analysis of sEV

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Using Dyna Pro (Wyatt Technologies, Santa Barbara, CA), sixty micro-liters of sEV samples were analyzed in triplicates to obtain Rg and absolute nanoparticle concentrations. Light scattering measurements were taken continuously at 18 angles between 15° and 151°; the captured data were integrated and analyzed using the DYNAMICS software (Wyatt Technologies).
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6

Characterization of Soybean Phospholipid Nanoparticles

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Example 1

A mixture of natural soybean phospholipids (188 mg) comprising phosphatidylcholine and lysophosphatidylcholine (about 3% w/w lysophosphatidylcholine by percentage weight of total phospholipids in the mixture) was dissolved in 10 ml of a hydro-organic solvent composed of 90% ethanol and 10% distilled water (v/v). The resulting preparation was optically clear.

When subjected to dynamic light scattering analysis (DLS) using a Wyatt DynaPro™ analyzer, the product was found to have no particles above 2 nm in diameter. A population of extremely small particles was observed with an average particle diameter of approximately 1 nm (the limit of detection of the DLS analyzer). The resulting preparation was stable at room temperature and when diluted 1:75 (v/v) in distilled water produced a uniform population of USLS particles with an average diameter of less than 100 nm (average diameter of 82.6 nm). See FIG. 1. The light scattering data showed a radius of 41.3 nm. The diluted preparation also was optically clear and remained stable at room temperature.

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7

PpSP15 Protein Characterization

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Approximately, 40 μL of 0.5 mg/mL PpSP15 were filtered through a 0.02 μm Anotop 10 filter (Whatman, Maidstone, United Kingdom) to remove any possible environmental contamination and loaded in quadruplicate onto a 384-well clear bottom black plate (Aurora Biotechnologies, Carlsbad, CA). Sample measurements were acquired 10 times over 5 s using a Wyatt DynaPro® plate reader II and analyzed using Dynamics Software package version 7.8 (Wyatt Technology, Santa Barbara, CA).
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8

Dynamic Light Scattering Characterization

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Dynamic light scattering experiments were performed with a DynaPro® NanoStar® instrument (WYATT technology, Santa Barbara, CA, USA). Data analysis was performed with the DYNAMICS software package. The analyzed correlation curves were averages of ten measurements of 7 s.
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9

Protein Size Determination by DLS

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Dynamic light scattering (DLS) was applied to determine the hydrodynamic radius (rH) of protein samples. Measurements were performed in a 96-well plate at 25.0 ± 0.1°C using a DynaPro plate reader 3 (Wyatt Technology, Santa Barbara, California). Proteins were diluted to 0.5 mg/mL, with 100 μL sample per well. Data processing was automatically performed by the software supplied with the instrument.
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10

Protein Hydrodynamic Radius Measurement

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DLS (DynaPro, Wyatt technology) was used to determine the hydrodynamic radius (RH) at 20 °C in 25 mM HEPES/150 mM NaCl, pH 7.4. Buffer solutions were filtered through a syringe filter prior experiment (Supor membrane, 0.2 μm pore width, PALL, Acrodisc). The scattering data was collected at a scattering angle of 90° for 20 s per acquisition with a total of 25 acquisitions. The measured intensity time correlation functions were analyzed using the cumulants method to calculate the diffusion coefficient. From this value, RH was determined using the Stokes-Einstein equation.
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