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14 protocols using kinetics buffer

1

Kinetics of LAH31 Fab Binding to HA

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The kinetics of LAH31 Fab binding to prefusion HA or postfusion HA2 was determined using an Octet R8 system (Sartorius) at 30°C with shaking at 1,000 rpm. The biotinylated prefusion HA or postfusion HA2 were loaded at 0.664 μg/mL and 0.4 μg/mL in 1× kinetics buffer (Sartorius) for 300 s onto streptavidin biosensors (Sartorius), respectively, and incubated with serially diluted LAH31 Fab (2-fold derail dilution start from 8,000 nM and 80 nM for prefusion HA and postfusion HA2, respectively) for 180 s, followed by immersion in 1× kinetics buffer for 300 s of dissociation time.
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2

Kinetics Analysis of Bispecific Antibodies

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BLI was performed using Octet RED96 (Sartorius, Göttingen, Germany) at a constant temperature of 25 °C. The assay buffer was PBS, pH 7.4, with 1× Kinetics Buffer (Sartorius, Göttingen, Germany). Biotinylated CD59 was used for coating of super streptavidin biosensors (Sartorius, Göttingen, Germany) at 10 µg/mL for 300 s, and bispecific antibodies in 2-fold-dilution steps were allowed to bind for 600 s and dissociate for 600 s. Buffer-only controls were subtracted from the response curve and the kinetic parameters were derived with Octet Evaluation software 11.1 (Sartorius, Göttingen, Germany) using bivalent binding model.
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3

BLI Competition Assay for Antibody Binding

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Site I, II, and III antibodies were bought from BEI resources. BLI competition was performed through Sartorius Octet Discovery software (v 12.2). PentaHis Sartorius probes were soaked into a solution of 10 µg/ml Turkey2004 GP38-his/strep for 60 s. Following loading of the probe these were then dipped into Sartorius 1× kinetics buffer for 30 s. Probes were then dipped into the first antibody solution 10 µg/ml for 600 s to saturate. Probes were then dipped into kinetics buffer for 30 s and then dipped into competing a 10 µg/ml antibody solution for 300 s. Following competition, the probes were then regenerated in 10 mM glycine for 10 s and then dipped into kinetics buffer to wash the probes for 10 s. This step was done three times to fully dissociate the previous proteins. Processing was performed by taken by the maximum signal during each step involving the antibody. Calculation of percent inhibition was performed by taking the competing antibodies signal and dividing by the max signal by the same antibody during when it was used as a saturating step. This number was multiplied by a 100 to give a percentage inhibition, and lower percentages indicate less shift in nm and more competition between two antibodies and calculations were performed in Microsoft Excel.
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4

Antibody-mediated S Protein Binding

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Antibodies were immobilized at a concentration of 10 µg/mL on anti-hIgG (AHC) sensors (Sartorius, cat. #18-5060) in 1× kinetics buffer (Sartorius, cat. #18-1105) in 384-well black tilted-bottom polypropylene microplates (Sartorius cat. #18-5076). The experiment was performed in triplicate with an Octet HTX instrument (Sartorius) at 30 °C with a shaking speed of 1000 rpm. Sensor hydration was 600 s, immobilization of antibodies 600 s, followed by washing for 300 s, and then binding the S proteins at 10 μg/mL for 300 s and dissociation for 300 s. The data analysis was performed using FortéBio Data Analysis 12.0 software (Sartorius).
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5

Biolayer Interferometry Characterization of Peptide-Antibody Interactions

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BLI experiments were performed with an Octet®RED 96e apparatus (ForteBio, Sartorius, Göttingen, Germany). Biotinylated EMPD-characteristic peptide (GGSAQSQRAPDRVLCHSGQQQGLPRAAGGSVP-K-biotin) was purchased from Fisher Scientific and used for coating of streptavidin sensors (ForteBio, Sartorius) at 5 µg/mL. Antibodies in two-fold dilutions in assay buffer (PBS with 1× Kinetics buffer, ForteBio, Sartorius) starting from 250 nM were allowed to associate for 15 min and dissociate for 20 min into the same buffer at 25 °C with shaking at 1000 rpm. After subtracting the response of antibodies binding to an uncoated tip and the baseline recorded as a response of a peptide-coated tip immersed in assay buffer, the data were analyzed with the ForteBio Data Analysis package, Version 11.0, and a two-to-one binding model was used for the fitting of raw data.
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6

Biolayer Interferometry Characterization of Peptide-Antibody Interactions

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BLI experiments were performed with an Octet®RED 96e apparatus (ForteBio, Sartorius, Göttingen, Germany). Biotinylated EMPD-characteristic peptide (GGSAQSQRAPDRVLCHSGQQQGLPRAAGGSVP-K-biotin) was purchased from Fisher Scientific and used for coating of streptavidin sensors (ForteBio, Sartorius) at 5 µg/mL. Antibodies in two-fold dilutions in assay buffer (PBS with 1× Kinetics buffer, ForteBio, Sartorius) starting from 250 nM were allowed to associate for 15 min and dissociate for 20 min into the same buffer at 25 °C with shaking at 1000 rpm. After subtracting the response of antibodies binding to an uncoated tip and the baseline recorded as a response of a peptide-coated tip immersed in assay buffer, the data were analyzed with the ForteBio Data Analysis package, Version 11.0, and a two-to-one binding model was used for the fitting of raw data.
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7

Monovalent and Avidity Fab Binding Assays

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Bio-layer interferometry measurements were performed using a ForteBio Octet Red96 (Sartorius). Monovalent binding assays were performed using High precision streptavidin biosensors (Sartorius), loaded with 16NIP-BSA-biotin (Biosearch Technologies) [5.86nM]. Fabs were diluted in 1x Kinetics Buffer (KB) (Sartorius) and assayed at 100, 50, and 25 nM. Ligand-coated biosensors were regenerated by short incubation in HCl (Sigma-Aldrich) buffer followed by neutralization in 1x KB. For avidity measurements, Anti-human Fab-CH1 biosensors (Sartorius) were loaded with Fabs diluted in 1x KB [100 nM] and assayed with either 2NP-BSA or 9NP-BSA (Biosearch Technologies) at 0.33 and 0.11 μM.
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8

Monovalent and Avidity Fab Binding Assays

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Bio-layer interferometry measurements were performed using a ForteBio Octet Red96 (Sartorius). Monovalent binding assays were performed using High precision streptavidin biosensors (Sartorius), loaded with 16NIP-BSA-biotin (Biosearch Technologies) [5.86nM]. Fabs were diluted in 1x Kinetics Buffer (KB) (Sartorius) and assayed at 100, 50, and 25 nM. Ligand-coated biosensors were regenerated by short incubation in HCl (Sigma-Aldrich) buffer followed by neutralization in 1x KB. For avidity measurements, Anti-human Fab-CH1 biosensors (Sartorius) were loaded with Fabs diluted in 1x KB [100 nM] and assayed with either 2NP-BSA or 9NP-BSA (Biosearch Technologies) at 0.33 and 0.11 μM.
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9

Biolayer Interferometry Analysis of Recombinant and Natural SMases

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Biolayer interferometry analysis was performed using a ForteBio Octet RED96 instrument with streptavidin tips. The tips were hydrated in kinetics buffer (Sartorius) for 30 min prior to use, then washed with PBS to remove any nonspecifically bound proteins. Biotinylated, recombinant SMase from L. rusfescens (rLr), recombinant SMase from H. lepturus (rHl), cSMase, or natural SMase purified from H. lepturus venom (Hl) were immobilized onto the tips in kinetics buffer at 50 nM for 10 min. Binding experiments were performed by dipping the streptavidin‐coated tips into a 96‐well microplate containing the purified scFvs at 50, 250, and 500 nM, followed by a dissociation step in kinetics buffer. Data analysis was performed using ForteBio Data Analysis software. The association and dissociation rate constants (ka and kd) were calculated using a 1:1 binding model. The affinity constant (KD) was calculated as the ratio of kd to ka. All data was analyzed in triplicate, and the average values were reported.
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10

Kinetic Analysis of SARS-CoV-2 RBD and Her2 Binding Antibodies

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BLI experiments were performed to measure dissociation constants using an Octet R8 (Sartorius). Biotinylated SARS-CoV-2 RBD (Acrobio system) or biotinylated Her2/ERBB2 (Sino Biological) was loaded to a streptavidin biosensor tip (Sartorius) for 120s or 180s. A baseline was determined by incubating the sensor with Kinetics Buffer (Sartorius) for 60s. Antibody samples at different concentrations went through the association phase for 240s or 480s, and the dissociation phase for 720s or 1080s. All reactions were carried out in the Kinetics Buffer (Satorius). The binding kinetics were analyzed using the Octet DataAnalysis 10.0 software (Sartorius) to deduce the kinetic parameters. Experiments were performed in triplicate for glCV30 and glCV30-SDF-1α and duplicate for Trastuzumab(N30A/H91A) and Trastuzumab(N30A/H91A)-SDF-1α.
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