Methods of quantitating heavy and light chain polypeptide pairs

Patent metadata

Field	Value
Publication number	US-9771573-B2
Application number	US-201314432153-A
Country	US
Kind code	B2
Filing date	Oct 3, 2013
Priority date	Oct 3, 2012
Publication date	Sep 26, 2017
Grant date	Sep 26, 2017

Abstract

Provided is a method of quantitatively determining the ability of individual IgG heavy chains to selectively pair with a particular IgG light chain when the heavy chains and two unique light chains are co-expressed. The method provides results with reasonable throughput and is robust and accurate. The co-expressed heavy and light chains do not need to be isolated and purified which enables more efficient screening.

First claim

What is claimed:

1. A high-throughput method of quantifying selectivity of a heavy chain polypeptide for pairing with a light chain polypeptide comprising the steps of:
(a) co-expressing from polynucleotides encoding heavy and light chain polypeptides a set of polypeptide constructs comprising:
a first heavy chain polypeptide comprising a VH and a CH1 region;
a first light chain polypeptide comprising a first VL and first CL region; and
a second light chain polypeptide comprising a second VL and second CL region;
wherein said heavy chain polypeptide and said light chain polypeptides are expressed such that the total amount of the heavy chain polypeptide is limiting; and wherein co-expressing the set of polypeptide constructs results in a set of polypeptide products;

(b) isolating heavy chain-paired polypeptide products comprising the heavy chain polypeptide paired with said first or second light chain polypeptide from the set of polypeptide products; and
(c) quantifying the amount of heavy chain polypeptide paired with said first light chain polypeptide (H1L1), and the amount of heavy chain polypeptide paired with said second light chain polypeptide (H2L2) in the heavy chain-paired polypeptide products to generate competition assay data;
wherein a greater amount of the heavy chain polypeptide paired with one of said first or second light chain polypeptide as compared to the other light chain polypeptide indicates selectivity of the heavy chain polypeptide for pairing with said first or second light chain polypeptide.

2. The method of claim 1 , wherein the first heavy chain polypeptide comprising a VH and CH1 region further comprises a CH3 region, or a CH2 region and a CH3 region.

3. The method of claim 1 , wherein the first heavy chain polypeptide is in a Fab format.

4. The method of claim 1 , wherein said heavy chain polypeptide, and first and second light chain polypeptides are expressed in a predetermined ratio of about 0.25:1, 1:1:1, 1:2:2, or 1:3:3.

5. The method of claim 3 , wherein step (a) is in a host cell, or in an in vitro non-cell expression system.

6. The method of claim 3 , further comprising the step of separating expressed polypeptides from an expression medium after expression.

7. The method of claim 6 wherein said expressed polypeptides are separated by centrifugation, or by use of a purification column.

8. The method of claim 3 , further comprising the steps of:
expressing said heavy chain polypeptide and one of said first and second light chain polypeptide in at least one host cell, in the absence of other light chain polypeptides;
isolating heavy chain-paired polypeptide products comprising the heavy chain polypeptide and one of said first and second light chain polypeptide; and
quantifying the amount of said heavy chain-paired polypeptide products, wherein said amount serves as a control standard for maximum detectable binding of said heavy chain polypeptide with one of said first and second light chain polypeptides.

9. The method of claim 8 , wherein products that comprise the heavy chain polypeptide and the desired light chain polypeptide provide the positive control standard.

10. The method of claim 8 , wherein products that comprise the heavy chain polypeptide and the less desired light chain polypeptide provide the negative control standard.

11. The method of claim 3 , wherein at least one light chain polypeptide comprises a detectable moiety.

12. The method of claim 11 , wherein said detectable moiety is a protein binding site, a ligand binding site, or a tag comprising a further detectable moiety.

13. The method of claim 11 , wherein the first and second light chain polypeptides are labeled with a different tag comprising a different detectable moiety.

14. The method of claim 11 , wherein at least one light chain polypeptide comprises a tag which is capable of being captured onto a surface comprising an interactive surface layer, and further detected and quantified by a device.

15. The method of claim 11 , wherein the detection moiety is detected by ELISA, SPR chips, bimolecular fluorescence complementation readout, Fluorescence-Activated Cell Sorting (FACS), Dissociation-Enhanced Lanthanide Fluorescent Immunoassay, fluorescence polarization/anisotropy (FP), fluorescent/Foerster resonance energy transfer (FRET, TR-FRET, HTRF), Bead-based proximity assay, or a combination thereof.

16. The method of claims 11 , wherein the detectable moiety is detected by measurement of fluorescence, quenching, radioactivity or chemiluminescence.

17. The method of claim 3 , wherein said heavy chain polypeptide is labeled with a tag.

18. The method of claim 17 , wherein said tag labeling said heavy chain polypeptide is capable of being captured onto a surface comprising an interactive surface layer, and further detected and quantified by a device.

19. The method of claim 18 , wherein the first and second light chain polypeptides are labeled with a different tag comprising different detectable moiety and said device is capable of detecting and quantifying the detectable moiety on at least one of said first and second light chain polypeptide.

20. The method of claim 19 , wherein said device is capable of high throughput.

21. The method of claims 3 , wherein said coexpressing step is in a host cell which is a bacterial cell, a yeast cell, or a mammalian cell.

22. The method of claim 21 , wherein said mammalian cell is at least one of COS, CHO, BHK, HEK-293, NSO, 3T3 cells and derivatives thereof.

23. The method of claim 3 , wherein at least one of said heavy and light chain polypeptides comprises a tag selected from 6×His, FLAG, HA, c-myc, s-FLAG, SBP, V5 and ABD.

24. The method of claim 3 , wherein (c) comprises quantifying pairing between H1, L1, and L2 detected on a surface that captures heavy chain-paired polypeptide products, wherein said method comprises ELISA, SPR, biomolecular fluorescence complementation, Fluorescence-Activated Cell Sorting (FACS), Dissociation-Enhanced Lanthanide Fluorescent Immunoassay, fluorescence polarization/anisotropy (FP), fluorescent/Foerster resonance energy transfer (FRET, TR-FRET, HTRF), Bead-based proximity assay, or a combination thereof.

25. The method of claim 24 , wherein the surface captures the heavy chain-paired polypeptide products from an environment that is a complex molecular mixture, a cell supernatant, cytoplasm of a host cell, or a combination thereof.

26. The method of claim 24 , wherein the competition assay data is transmitted to a general purpose computer and wherein outputting of the data comprises storing the results on a data carrier.

27. The method of claim 26 , optionally comprising analyzing the competition assay data.

28. The method of claim 27 , further comprising building a LCCA library of paired heavy chain polypeptides and light chain polypeptides, based on analysis of the competition assay data.

29. The method of claim 3 , comprising determining a relative pairing propensity of L1 to pair with H1compared with the relative pairing propensity of L2 to pair with H1.

30. The method of claim 29 , further comprising selecting an H1L1pair that produces a high relative amount of H1L1 species over H1L2 species.

31. The method of claim 30 , comprising comparing the ratios of H1L1 and H1L2 according to the following calculations

Assignees

• Zymeworks Inc
• Nat Res Council Canada

Inventors

• Ohrn Anders
• Corper Adam Louis
• Ng Gordon Yiu Kon
• Samiotakis Antonios
• Chou Yang-Chieh
• Baardsnes Jason
• O'Connor-Mccourt Maureen

Classifications

• C12N15/1055 Primary

  Protein x Protein interaction, e.g. two hybrid selection · CPC title

• G01N21/6486

  Measuring fluorescence of biological material, e.g. DNA, RNA, cells (G01N21/6428 takes precedence) · CPC title

• C07K16/468

  Immunoglobulins having two or more different antigen binding sites, e.g. multifunctional antibodies · CPC title

• C07K2317/55

  Fab or Fab' · CPC title

• A61K39/00

  Medicinal preparations containing antigens or antibodies (materials for immunoassay G01N33/53) · CPC title