Source Name: 2023_Ghosh

Literature Information

Literature Title An amide to thioamide substitution improves the permeability and bioavailability of macrocyclic peptides
Doi 10.1038/s41467-023-41748-y
Research Group
  1. Indian Institute of Science
  2. CSIR-CDRI
  3. Academy of Scientific and Innovative Research
  4. Anthem Biosciences Pvt. Ltd.
  5. Eurofins Advinus Biopharma Services India Pvt. Ltd.
  6. -
Data Number 36
Minimum Molecular Weight 709.9
Maximum Molecular Weight 847.2


Assay Information 1

Assay Type PAMPA
Permeability Type logPe
Membrane Measurement Direction (Exclude PAMPA) -
Assay Detail 96-well BD Corning® pre-coated PAMPA plates were used following the supplier’s protocol. Donor wells were prepared by adding 300 µl of 100 µM of peptide in 5% DMSO/PBS at pH 7.4. The acceptor well was prepared by adding 200 µl of 5% DMSO/PBS at pH 7.4. The acceptor plate was gently placed on top of donor plate. This system was left undisturbed for 4 h at room temperature. After incubation, the peptide concentration was determined using UV/Vis spectroscopy & LCMS. The permeability was calculated using following formula Pe = -ln[1-C_A/C_equilibrium] / S*(1/V_D+1/V_A)*t where, V_D = Donor well volume (0.3 ml) V_A = Acceptor well volume (0.2 ml) S = Membrane area (0.3 cm^2) t = Incubation time in sec C_A = Concentration of compound in acceptor well C_equilibrium = Equilibrium concentration (compound concentration across donor and acceptor well if the membrane is 100% permeable to compound). C_equilibrium = [C_D*V_D - C_A*V_A] / (V_D – V_A).


Assay Information 2

Assay Type Caco2
Permeability Type logPapp
Membrane Measurement Direction (Exclude PAMPA) Average of Apical to Basolateral (AB) and Basolateral to Apical (BA)
Assay Detail Prior to the start of the assay, the cell monolayer was washed and pre-incubated at 37 ºC and 5% CO2 for 30 min with HBSS-HEPES buffer containing 1% DMSO. TEER values were measured before starting and after completion of the assay. For the apical to basolateral (A to B) assay, 0.5 mL buffer solution containing one of the above combinations was added to the apical compartment and 1.5 mL buffer containing 1% DMSO was added to the basolateral compartment. The assay plate was incubated at 37 ºC and 5% CO2. 100 μL samples from apical side at 0 and 120 min and 150 μL samples from the basolateral compartment at 30, 60, 90 and 120 min were withdrawn into acetonitrile containing 96-well plate. Similarly, for the basolateral to apical (B to A) assay, 0.5 mL buffer containing 1% DMSO and 1.5 mL buffer solution containing one of the above combinations were added to the apical compartment and basolateral compartment respectively. The assay plate was incubated at 37 ºC and 5% CO2. 150 μL samples from basolateral side at 0 and 120 min and 100 μL samples from the apical compartment at 30, 60, 90 and 120 min were withdrawn into a 96-well plate containing acetonitrile. At the end of the assay, the cell monolayer was washed with 500 μL buffer containing 1% DMSO and the washings were collected. Finally, the monolayer was washed with 500 μL acetonitrile to lyse the cells and the lysate was collected in tubes.
A fit-for-purpose LC-MS/MS method was used for the estimation of peptide(s) as well as the positive controls. Cumulative amount of peptides and Digoxin (Q) transported at teach time point was plotted as a function of time. The slope was used to calculate the rate of appearance of peptides and Digoxin in the basolateral compartment. Apparent permeability (Papp) was calculated using the following formula: Papp = (dQ/dt)/(A*C0) where, dQ/dt is the rate of appearance of the peptides and digoxin in the receiver compartment. A is the surface area of the membrane (1.12 cm2). C0 is the initial concentration of the test items and Digoxin. The efflux ratios were compared with and without Elacridar to assess whether the peptides are substrates of efflux transporter.