Cross Reference to Related Applications

This application claims priority to U.S. Application Serial No. 62/639,541, filed on March 7, 2018. The disclosure of the prior application is considered part of (and is incorporated by reference in) the disclosure of this application.

Sequence Listing

The instant application contains a Sequence Listing which has been submitted electronically in ASCII format and is hereby incorporated by reference in its entirety. Said ASCII copy, created on February 11, 2019, is named PU66536 WO Seq Listing.txt and is 11,606 bytes in size.

Field of the Invention

The present invention relates to the field of protein purification using a superantigen such as Protein A, Protein G, or Protein L immobilized to a solid support. In particular, the invention relates to wash buffer components and methods of using the wash buffers to remove host cell impurities during wash steps, minimizing loss of the desired protein product.

Background of the Invention

Host cell protein (HCP) impurities - classified by the FDA as "process-related" impurities - must be removed to sufficiently low levels in biopharmaceutical downstream processing. Adequate clearance of HCPs can be particularly challenging for some monoclonal antibody (mAb) products during typical downstream processing. The majority of mAb downstream processes utilize a "platform" approach; the typical mAb downstream platform consists of protein A affinity chromatography capture, followed by one to three non-affinity polishing steps. The Protein A affinity capture step is the workhorse of the platform and provides the large majority of HCP clearance. The subsequent polishing steps are generally ion-exchange, hydrophobic interaction and/or multimodal chromatography.

For many mAb products, the HCP concentration is sufficiently low after the first polishing chromatography step. However, there are mAbs for which a second polishing chromatography step is implemented specifically to remove additional HCPs; this can require significant process development effort and results in greater process complexity. Previous studies have identified a sub-population of HCP impurities that have an attractive interaction with the mAb product molecule (Levy et al, (2014) BiotechnoL Bioeng. 111(5):904-912; Aboulaich et al, (2014) BiotechnoL Prog. 30(5):1114-1124). The majority of HCPs that evade clearance through the Protein A step are due to product-association rather than co-elution or adsorption to the Protein A ligand or base matrix. The population of difficult-to-remove HCPs is relatively small - compared to the diverse population of HCPs present in cell culture - and similar for different mAb products.

Although the population of difficult HCP impurities is largely identical for all mAb products, varying degrees of HCP-mAb interactions can significantly impact the total HCP clearance across the Protein A step; very minor changes to the amino acid sequence of mAb products can impact HCP-mAb interactions in the Protein A and polishing steps. The population of HCPs loaded onto the Protein A column, which has an obvious impact on the potential for HCP-mAb association, can be affected by cell age, harvest methodology and conditions, and small differences have been observed between different host cell lines. In addition to product- association, for most Protein A resins there is a low level of HCP impurities that bind to the base matrix and co-elute with the product. Controlled pore glass resins have much higher levels of HCP bound to the base matrix.

One particular wash additive, sodium caprylate, has previously been identified as one of the most successful for disrupting HCP-mAb associations and resulting in low HCP concentrations in the Protein A eluate. Sodium caprylate (also known as sodium octanoate) is an eight-carbon saturated fatty acid found to be non-toxic in mice with a critical micelle concentration of approximately 360 mM. Previous studies have used 50 mM sodium caprylate (Aboulaich et al, (2014) BiotechnoL Prog. 30(5) : 1114-1124), 40 mM sodium caprylate with varying NaCI and pH (Chollangi etal, (2015) BiotechnoL Bioeng. 112(ll):2292-2304), and up to 80 mM sodium caprylate (Herzer et _< ?/., (2015) BiotechnoL Bioeng. 112(7): 1417-1428), for improving HCP clearance, and 50 mM sodium caprylate at high pH with NaCI for both total HCP clearance and removal of a proteolytic HCP impurity (Bee et aL, (2015) BiotechnoL Prog. 31(5):1360-1369). Patent applications have previously been filed for Protein A washes containing up to 100 mM sodium caprylate (W02014/141150; WO2014/186350). Additionally, caprylic acid has been used for precipitation of host cell protein impurities in non chromatographic processes before and after the Protein A capture step (Brodsky etaL, (2012) BiotechnoL Bioeng. 109(10): 2589-2598; Zheng et aL, (2015) BiotechnoL Prog. 31(6):1515- 1525; Herzer etaL, (2015) BiotechnoL Bioeng. 112(7): 1417-1428).

There is a need in the art to provide improved methods of purifying proteins, such as IgGl antibodies, from host cell proteins.

Summary of the Invention

In some aspects, the disclosure provides a method of purifying a recombinant polypeptide from a Host Cell Protein (HCP), wherein the amino acid sequence of the recombinant polypeptide comprises a cathepsin L cleavage site (e.g., that comprises the amino acid sequence DKTHTCPP (SEQ ID NO:50)); the method comprising: (a) applying a solution comprising the recombinant polypeptide and HCP to a superantigen chromatography solid support, (b) washing the superantigen chromatography solid support with a wash buffer comprising greater than about 50 mM caprylate and greater than about 0.5 M arginine; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support, e.g., thereby preparing an eluate.

In some embodiments, the caprylate is sodium caprylate.

In some embodiments, the wash buffer comprises about 75 mM to about 300 mM caprylate (e.g., about 75 mM to about 250 mM, about 75 mM to about 200 mM, about 100 mM to about 250 mM, about 75 mM, about 100 mM, about 150 mM, about 200 mM, about 250 mM, or about 300 mM caprylate).

In some embodiments, the wash buffer comprises about 100 mM to about 200 mM caprylate (e.g., about 100 mM, about 150 mM, or about 200 mM caprylate).

In some embodiments, the wash buffer comprises about 0.7 M to about 1.5 M arginine (e.g., about 0.8 M to about 1.4 M, about 0.8 M to about 1.3 M, about 0.9 M to about 1.2 M, about 0.7 M, about 0.75 M, about 1 M, about 1.1 M or about 1.5 M arginine).

In some embodiments, the wash buffer comprises about 0.75 M to about 1.5 M arginine.

In some embodiments, the wash buffer further comprises about 0.5 M to about 1 M lysine (e.g., about 0.75 M lysine).

In some embodiments, the wash buffer comprises about 1.1 M arginine.

In some embodiments, the wash buffer comprises about 150 mM caprylate. In some embodiments, the wash buffer comprises about 150 mM sodium caprylate.

In some embodiments, the wash buffer comprises about 1.1 M arginine and about 150 mM caprylate. In some embodiments, the wash buffer comprises about 1.1 M arginine and about 150 mM sodium caprylate.

In some embodiments, the wash buffer comprises acetic acid, e.g., about 1 mM to about 500 mM, about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 25 mM to about 60 mM, or about 30 mM to about 50 mM acetic acid. In one embodiment, the wash buffer comprises about 45 mM acetic acid.

In some embodiments, the wash buffer comprises Tris base, e.g., about 1 mM to about 500 mM. about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 35 mM to about 60 mM, or about 45 mM to about 65 mM Tris base. In one embodiment, the wash buffer comprises about 55 mM Tris base. In one embodiment, the wash buffer comprises about 56.5 mM Tris base.

In some embodiments, the wash buffer comprises about 56.5mM Tris base, about 45mM Acetic Acid, about 150mM Sodium Caprylate, and about 1.1M Arginine. In some embodiments, the pH of the wash buffer is pH 7.5. In some embodiments, the eluted recombinant polypeptide contains less than about 2% fragmented recombinant polypeptide.

In some embodiments, the HCP is derived from a mammalian cell.

In some embodiments, the HCP is cathepsin L.

In some embodiments, the purification of the recombinant polypeptide from cathepsin L is measured by a reduced cathepsin L activity in the eluate of step (c).

In some embodiments, the pH of the wash buffer is between pH 7 to pH 9; pH 7 to pH 8; or pH 7.5 to pH 8.5. In some embodiments, the pH of the wash buffer is pH 7.5.

In some embodiments, the recombinant polypeptide is a monoclonal antibody (mAb). In some embodiments, the mAb is an IgGl .

In some embodiments, the recombinant polypeptide is an anti-OX40 antigen binding polypeptide.

In some embodiments, the recombinant polypeptide comprises: a heavy chain variable region CDR1 comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence set forth in SEQ ID NO:l; a heavy chain variable region CDR2 comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:2; and/or a heavy chain variable region CDR3 comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:3.

In some embodiments, the recombinant polypeptide comprises a light chain variable region CDR1 comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:7; a light chain variable region CDR2 comprising an amino acid sequence with at least at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:8; and/or a light chain variable region CDR3 comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:9.

In some embodiments, the recombinant polypeptide comprises: (a) a heavy chain variable region CDR1 comprising the amino acid sequence of SEQ ID NO:l; (b) a heavy chain variable region CDR2 comprising the amino acid sequence of SEQ ID NO:2; (c) a heavy chain variable region CDR3 comprising the amino acid sequence of SEQ ID NO:3; (d) a light chain variable region CDR1 comprising the amino acid sequence of SEQ ID NO:7; (e) a light chain variable region CDR2 comprising the amino acid sequence of SEQ ID NO:8; and (f) a light chain variable region CDR3 comprising the amino acid sequence of SEQ ID NO:9. In some embodiments, the recombinant polypeptide comprises a light chain variable region ("VL") comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:ll.

In some embodiments, the recombinant polypeptide comprises a heavy chain variable region ("VH") comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:5.

In some embodiments, the recombinant polypeptide comprises a light chain variable region ("VL") comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO: 11 and comprises a heavy chain variable region ("VH") comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:5.

In some embodiments, the recombinant polypeptide comprises a heavy chain variable region comprising the amino acid sequence set forth in SEQ ID NO:5 and a light chain variable region comprising the amino acid sequence set forth in SEQ ID NO:ll.

In some embodiments, the recombinant polypeptide comprises a heavy chain comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:48 and a light chain comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:49.

In some embodiments, the recombinant polypeptide comprises a heavy chain comprising the amino acid sequence as set forth in SEQ ID NO:48 and a light chain comprising an amino acid sequence as set forth in SEQ ID NO:49.

In some embodiments, the wash buffer does not contain sodium chloride.

In some embodiments, the superantigen is selected from the group consisting of Protein A, Protein G, and Protein L.

In some embodiments, the superantigen is Protein A.

In some embodiments, after step (c) the amount of HCP is less than about 200 ng HCP/mg product.

In some embodiments, the method further comprises (d) applying the eluate to a cationic exchange chromatography column and (e) eluting the anti-OX40 antigen binding polypeptide from the cationic exchange chromatography column, thereby preparing a second eluate. In some embodiments, the rate of fragmentation of the anti-OX40 antigen binding protein in the second eluate is reduced by 0.5-, 1-, 2-, 3-, 4-, or 5-fold, e.g, as compared to the rate of fragmentation observed in a second eluate with a wash buffer that contains caprylate (e.g., 100 mM caprylate) and no arginine used in a step (b) (e.g., as measured over ten days at 25C storage, as described herein).

In some aspects, the disclosure provides a method of purifying a recombinant polypeptide from a Host Cell Protein (HCP), wherein the amino acid sequence of the recombinant polypeptide comprises a cathepsin L cleavage site, DKTHTCPP (SEQ ID NO:50); the method comprising: (a) applying a solution comprising the recombinant polypeptide and HCP to a superantigen chromatography solid support; (bl) washing the superantigen chromatography solid support with a wash buffer comprising greater than about 50mM caprylate; (b2) washing the superantigen chromatography solid support with a wash buffer comprising greater than about 0.5 M arginine; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support, e.g., thereby preparing an eluate.

In some embodiments, the caprylate is sodium caprylate.

In some embodiments, the wash buffer comprises about 75 mM to about 300 mM caprylate (e.g., about 75 mM to about 250 mM, about 75 mM to about 200 mM, about 100 mM to about 250 mM, about 75 mM, about 100 mM, about 150 mM, about 200 mM, about 250 mM, or about 300 mM caprylate).

In some embodiments, the wash buffer comprises about 100 mM to about 200 mM caprylate (e.g., about 100 mM, about 150 mM, or about 200 mM caprylate).

In some embodiments, the wash buffer comprises about 0.7 M to about 1.5 M arginine (e.g., about 0.8 M to about 1.4 M, about 0.8 M to about 1.3 M, about 0.9 M to about 1.2 M, about 0.7 M, about 0.75 M, about 1 M, about 1.1 M or about 1.5 M arginine).

In some embodiments, the wash buffer comprises about 0.75 M to about 1.5 M arginine.

In some embodiments, the wash buffer further comprises about 0.5 M to about 1 M lysine (e.g., about 0.75 M lysine).

In some embodiments, the wash buffer comprises about 1.1 M arginine.

In some embodiments, the wash buffer comprises about 150 mM caprylate. In some embodiments, the wash buffer comprises about 150 mM sodium caprylate.

In some embodiments, the wash buffer comprises about 1.1 M arginine and about 150 mM caprylate. In some embodiments, the wash buffer comprises about 1.1 M arginine and about 150 mM sodium caprylate.

In some embodiments, the wash buffer comprises acetic acid, e.g., about 1 mM to about 500 mM, about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 25 mM to about 60 mM, or about 30 mM to about 50 mM acetic acid. In one embodiment, the wash buffer comprises about 45 mM acetic acid. In some embodiments, the wash buffer comprises Tris base, e.g., about 1 mM to about 500 mM. about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 35 mM to about 60 mM, or about 45 mM to about 65 mM Tris base. In one embodiment, the wash buffer comprises about 55 mM Tris base. In one embodiment, the wash buffer comprises about 56.5 mM Tris base.

In some embodiments, the wash buffer comprises about 56.5mM Tris base, about 45mM Acetic Acid, about 150mM Sodium Caprylate, and about 1.1M Arginine. In some embodiments, the pH of the wash buffer is pH 7.5.

In some embodiments, the eluted recombinant polypeptide contains less than about 2% fragmented recombinant polypeptide.

In some embodiments, the HCP is derived from a mammalian cell.

In some embodiments, the HCP is cathepsin L.

In some embodiments, the purification of the recombinant polypeptide from cathepsin L is measured by a reduced cathepsin L activity in the eluate of step (c).

In some embodiments, the superantigen is selected from the group consisting of Protein A, Protein G, and Protein L.

In some embodiments, the superantigen is Protein A.

In some embodiments, the pH of the wash buffer is between pH 7 to pH 9; pH 7 to pH 8; or pH 7.5 to pH 8.5. In some embodiments, the pH of the wash buffer is pH 7.5.

In some embodiments, the recombinant polypeptide is a monoclonal antibody (mAb). In some embodiments, the mAb is an IgGl .

In some embodiments, the recombinant polypeptide is an anti-OX40 antigen binding polypeptide.

In some aspects, the disclosure provides a method of purifying a recombinant polypeptide from a Host Cell Protein (HCP), wherein the amino acid sequence of the recombinant polypeptide comprises a cathepsin L cleavage site, DKTHTCPP (SEQ ID NO:50); the method comprising: (a) applying a solution comprising the recombinant polypeptide and HCP to a superantigen chromatography solid support; (bl) washing the superantigen chromatography solid support with a wash buffer comprising greater than about 0.5 M arginine; (b2) washing the superantigen chromatography solid support with a wash buffer comprising greater than about 50mM caprylate; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support, e.g., thereby preparing an eluate.

In some embodiments, the caprylate is sodium caprylate.

In some embodiments, the wash buffer comprises about 75 mM to about 300 mM caprylate (e.g., about 75 mM to about 250 mM, about 75 mM to about 200 mM, about 100 mM to about 250 mM, about 75 mM, about 100 mM, about 150 mM, about 200 mM, about 250 mM, or about 300 mM caprylate).

In some embodiments, the wash buffer comprises about 100 mM to about 200 mM caprylate (e.g., about 100 mM, about 150 mM, or about 200 mM caprylate).

In some embodiments, the wash buffer comprises about 0.7 M to about 1.5 M arginine (e.g., about 0.8 M to about 1.4 M, about 0.8 M to about 1.3 M, about 0.9 M to about 1.2 M, about 0.7 M, about 0.75 M, about 1 M, about 1.1 M or about 1.5 M arginine).

In some embodiments, the wash buffer comprises about 0.75 M to about 1.5 M arginine.

In some embodiments, the wash buffer further comprises about 0.5 M to about 1 M lysine (e.g., about 0.75 M lysine).

In some embodiments, the wash buffer comprises about 1.1 M arginine.

In some embodiments, the wash buffer comprises about 150 mM caprylate. In some embodiments, the wash buffer comprises about 150 mM sodium caprylate.

In some embodiments, the wash buffer comprises about 1.1 M arginine and about 150 mM caprylate. In some embodiments, the wash buffer comprises about 1.1 M arginine and about 150 mM sodium caprylate.

In some embodiments, the wash buffer comprises acetic acid, e.g., about 1 mM to about 500 mM, about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 25 mM to about 60 mM, or about 30 mM to about 50 mM acetic acid. In one embodiment, the wash buffer comprises about 45 mM acetic acid.

In some embodiments, the wash buffer comprises Tris base, e.g., about 1 mM to about 500 mM. about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 35 mM to about 60 mM, or about 45 mM to about 65 mM Tris base. In one embodiment, the wash buffer comprises about 55 mM Tris base. In one embodiment, the wash buffer comprises about 56.5 mM Tris base.

In some embodiments, the wash buffer comprises about 56.5mM Tris base, about 45mM Acetic Acid, about 150mM Sodium Caprylate, and about 1.1M Arginine. In some embodiments, the pH of the wash buffer is pH 7.5.

In some embodiments, the eluted recombinant polypeptide contains less than about 2% fragmented recombinant polypeptide.

In some embodiments, the HCP is derived from a mammalian cell.

In some embodiments, the HCP is cathepsin L.

In some embodiments, the purification of the recombinant polypeptide from cathepsin L is measured by a reduced cathepsin L activity in the eluate of step (c).

In some embodiments, the superantigen is selected from the group consisting of Protein A, Protein G, and Protein L. In some embodiments, the superantigen is Protein A.

In some embodiments, the pH of the wash buffer is between pH 7 to pH 9; pH 7 to pH 8; or pH 7.5 to pH 8.5. In some embodiments, the pH of the wash buffer is pH 7.5.

In some embodiments, the recombinant polypeptide is a monoclonal antibody (mAb). In some embodiments, the mAb is an IgGl .

In some embodiments, the recombinant polypeptide is an anti-OX40 antigen binding polypeptide.

In some aspects, the disclosure provides a method of purifying a recombinant polypeptide from cathepsin L, wherein the amino acid sequence of the recombinant polypeptide comprises a cathepsin L cleavage site, DKTHTCPP (SEQ ID NO: 50); the method comprising: (a) applying a solution comprising the recombinant polypeptide and cathepsin L to a superantigen chromatography solid support, (b) washing the superantigen chromatography solid support with a wash buffer comprising about 150 mM caprylate and about 1.1 M arginine; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support, e.g., thereby preparing an eluate.

In some embodiments, the caprylate is sodium caprylate.

In some embodiments, the pH of the wash buffer is between pH 7 to pH 9; pH 7 to pH 8; or pH 7.5 to pH 8.5. In some embodiments, the pH of the wash buffer is pH 7.5.

In some embodiments, the recombinant polypeptide is an anti-OX40 antigen binding polypeptide.

In some embodiments, the wash buffer comprises acetic acid, e.g., about 1 mM to about 500 mM, about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 25 mM to about 60 mM, or about 30 mM to about 50 mM acetic acid. In one embodiment, the wash buffer comprises about 45 mM acetic acid.

In some embodiments, the wash buffer comprises Tris base, e.g., about 1 mM to about 500 mM. about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 35 mM to about 60 mM, or about 45 mM to about 65 mM Tris base. In one embodiment, the wash buffer comprises about 55 mM Tris base. In one embodiment, the wash buffer comprises about 56.5 mM Tris base.

In some embodiments, the wash buffer comprises about 56.5mM Tris base, about 45mM Acetic Acid, about 150mM Sodium Caprylate, and about 1.1M Arginine. In some embodiments, the pH of the wash buffer is pH 7.5.

In some embodiments, the superantigen is selected from the group consisting of Protein A, Protein G, and Protein L.

In some embodiments, the superantigen is Protein A. In some aspects, the disclosure provides a method of purifying a recombinant polypeptide from a Host Cell Protein (HCP), wherein the amino acid sequence of the recombinant polypeptide comprises a cathepsin L cleavage site, DKTHTCPP (SEQ ID NO:50); the method comprising: (a) applying a solution comprising the recombinant polypeptide and HCP to a superantigen chromatography solid support; (b) washing the superantigen chromatography solid support with a wash buffer comprising caprylate at a concentration greater than about 250 mM; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support, e.g., thereby preparing an eluate.

In some embodiments, the recombinant polypeptide is an anti-OX40 antigen binding polypeptide.

In some embodiments, the superantigen is selected from the group consisting of Protein A, Protein G, and Protein L.

In some embodiments, the superantigen is Protein A.

In some aspects, the disclosure provides a method of purifying an anti-OX40 antigen binding polypeptide from a Host Cell Protein (HCP), the method comprising : (a) applying a solution comprising the anti-OX40 antigen binding polypeptide and HCP to a superantigen chromatography solid support, (b) washing the superantigen chromatography solid support with a wash buffer comprising greater than about 50 mM caprylate and greater than about 0.5 M arginine; and (c) eluting the anti-OX40 antigen binding polypeptide from the superantigen chromatography solid support, e.g., thereby preparing an eluate.

In some embodiments, the caprylate is sodium caprylate.

In some embodiments, the wash buffer comprises about 75 mM to about 300 mM caprylate (e.g., about 75 mM to about 250 mM, about 75 mM to about 200 mM, about 100 mM to about 250 mM, about 75 mM, about 100 mM, about 150 mM, about 200 mM, about 250 mM, or about 300 mM caprylate).

In some embodiments, the wash buffer comprises about 100 mM to about 200 mM caprylate (e.g., about 100 mM, about 150 mM, or about 200 mM caprylate).

In some embodiments, the wash buffer comprises about 0.7 M to about 1.5 M arginine (e.g., about 0.8 M to about 1.4 M, about 0.8 M to about 1.3 M, about 0.9 M to about 1.2 M, about 0.7 M, about 0.75 M, about 1.0 M, about 1.1 M or about 1.5 M arginine).

In some embodiments, the wash buffer comprises about 0.75 M to about 1.5 M arginine.

In some embodiments, the wash buffer further comprises about 0.5 M to about 1 M lysine (e.g., about 0.75 M lysine).

In some embodiments, the wash buffer comprises about 1.1 M arginine. In some embodiments, the wash buffer comprises about 150 mM caprylate. In some embodiments, the wash buffer comprises about 150 mM sodium caprylate.

In some embodiments, the wash buffer comprises about 1.1 M arginine and about 150 mM caprylate. In some embodiments, the wash buffer comprises about 1.1 M arginine and about 150 mM sodium caprylate.

In some embodiments, the wash buffer comprises acetic acid, e.g., about 1 mM to about 500 mM, about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 25 mM to about 60 mM, or about 30 mM to about 50 mM acetic acid. In one embodiment, the wash buffer comprises about 45 mM acetic acid.

In some embodiments, the wash buffer comprises Tris base, e.g., about 1 mM to about 500 mM. about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 35 mM to about 60 mM, or about 45 mM to about 65 mM Tris base. In one embodiment, the wash buffer comprises about 55 mM Tris base. In one embodiment, the wash buffer comprises about 56.5 mM Tris base.

In some embodiments, the wash buffer comprises about 56.5mM Tris base, about 45mM Acetic Acid, about 150mM Sodium Caprylate, and about 1.1M Arginine. In some embodiments, the pH of the wash buffer is pH 7.5.

In some embodiments, the eluted anti-OX40 antigen binding polypeptide contains less than about 2% fragmented anti-OX40 antigen binding polypeptide.

In some embodiments, the HCP is derived from a mammalian cell.

In some embodiments, the HCP is cathepsin L.

In some embodiments, the purification of the anti-OX40 antigen binding polypeptide from cathepsin L is measured by a reduced cathepsin L activity in the eluate of step (c).

In some embodiments, the pH of the wash buffer is between pH 7 to pH 9; pH 7 to pH 8; or pH 7.5 to pH 8.5. In some embodiments, the pH of the wash buffer is pH 7.5.

In some embodiments, the anti-OX40 antigen binding polypeptide is a monoclonal antibody (mAb). In some embodiments, the mAb is an IgGl.

In some embodiments, the anti-OX40 antigen binding polypeptide comprises: a heavy chain variable region CDR1 comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence set forth in SEQ ID NO:l; a heavy chain variable region CDR2 comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:2; and/or a heavy chain variable region CDR3 comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:3. In some embodiments, the anti-OX40 antigen binding polypeptide comprises a light chain variable region CDR1 comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:7; a light chain variable region CDR2 comprising an amino acid sequence with at least at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:8; and/or a light chain variable region CDR3 comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:9.

In some embodiments, the anti-OX40 antigen binding polypeptide comprises: (a) a heavy chain variable region CDR1 comprising the amino acid sequence of SEQ ID NO:l; (b) a heavy chain variable region CDR2 comprising the amino acid sequence of SEQ ID NO:2; (c) a heavy chain variable region CDR3 comprising the amino acid sequence of SEQ ID NO:3; (d) a light chain variable region CDR1 comprising the amino acid sequence of SEQ ID NO:7; (e) a light chain variable region CDR2 comprising the amino acid sequence of SEQ ID NO:8; and (f) a light chain variable region CDR3 comprising the amino acid sequence of SEQ ID NO:9.

In some embodiments, the anti-OX40 antigen binding polypeptide comprises a light chain variable region ("VL") comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:ll.

In some embodiments, the anti-OX40 antigen binding polypeptide comprises a heavy chain variable region ("VH") comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:5.

In some embodiments, the anti-OX40 antigen binding polypeptide comprises a light chain variable region ("VL") comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO: 11 and comprises a heavy chain variable region ("VH") comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:5.

In some embodiments, the anti-OX40 antigen binding polypeptide comprises a heavy chain variable region comprising the amino acid sequence set forth in SEQ ID NO:5 and a light chain variable region comprising the amino acid sequence set forth in SEQ ID NO:ll.

In some embodiments, the anti-OX40 antigen binding polypeptide comprises a heavy chain comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:48 and a light chain comprising an amino acid sequence with at least 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or 100% sequence identity to the amino acid sequence as set forth in SEQ ID NO:49.

In some embodiments, the anti-OX40 antigen binding polypeptide comprises a heavy chain comprising the amino acid sequence as set forth in SEQ ID NO:48 and a light chain comprising an amino acid sequence as set forth in SEQ ID NO:49.

In some embodiments, the wash buffer does not contain sodium chloride.

In some embodiments, the superantigen is selected from the group consisting of Protein A, Protein G, and Protein L.

In some embodiments, the superantigen is Protein A.

In some embodiments, after step (c) the amount of HCP is less than about 200 ng HCP/mg product.

In some embodiments, the method further comprises (d) applying the eluate to a cationic exchange chromatography column and (e) eluting the anti-OX40 antigen binding polypeptide from the cationic exchange chromatography column, thereby preparing a second eluate. In some embodiments, the rate of fragmentation of the anti-OX40 antigen binding protein in the second eluate is reduced by 0.5-, 1-, 2-, 3-, 4-, or 5-fold, e.g, as compared to the rate of fragmentation observed in a second eluate with a wash buffer that contains caprylate (e.g., 100 mM caprylate) and no arginine used in a step (b) (e.g., as measured over ten days at 25C storage, as described herein).

In some aspects, the disclosure provides a method of purifying an anti-OX40 antigen binding polypeptide from a Host Cell Protein (HCP), the method comprising : (a) applying a solution comprising the anti-OX40 antigen binding polypeptide and HCP to a superantigen chromatography solid support; (bl) washing the superantigen chromatography solid support with a wash buffer comprising greater than about 50mM caprylate; (b2) washing the superantigen chromatography solid support with a wash buffer comprising greater than about 0.5 M arginine; and (c) eluting the anti-OX40 antigen binding polypeptide from the superantigen chromatography solid support, e.g., thereby preparing an eluate.

In some embodiments, the caprylate is sodium caprylate.

In some embodiments, the wash buffer comprises about 75 mM to about 300 mM caprylate (e.g., about 75 mM to about 250 mM, about 75 mM to about 200 mM, about 100 mM to about 250 mM, about 75 mM, about 100 mM, about 150 mM, about 200 mM, about 250 mM, or about 300 mM caprylate).

In some embodiments, the wash buffer comprises about 100 mM to about 200 mM caprylate (e.g., about 100 mM, about 150 mM, or about 200 mM caprylate). In some embodiments, the wash buffer comprises about 0.7 M to about 1.5 M arginine (e.g., about 0.8 M to about 1.4 M, about 0.8 M to about 1.3 M, about 0.9 M to about 1.2 M, about 0.7 M, about 0.75 M, about 1 M, about 1.1 M or about 1.5 M arginine).

In some embodiments, the wash buffer comprises about 0.75 M to about 1.5 M arginine.

In some embodiments, the wash buffer further comprises about 0.5 M to about 1 M lysine (e.g., about 0.75 M lysine).

In some embodiments, the wash buffer comprises about 1.1 M arginine.

In some embodiments, the wash buffer comprises about 150 mM caprylate. In some embodiments, the wash buffer comprises about 150 mM sodium caprylate.

In some embodiments, the wash buffer comprises about 1.1 M arginine and about 150 mM caprylate. In some embodiments, the wash buffer comprises about 1.1 M arginine and about 150 mM sodium caprylate.

In some embodiments, the wash buffer comprises acetic acid, e.g., about 1 mM to about 500 mM, about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 25 mM to about 60 mM, or about 30 mM to about 50 mM acetic acid. In one embodiment, the wash buffer comprises about 45 mM acetic acid.

In some embodiments, the wash buffer comprises Tris base, e.g., about 1 mM to about 500 mM. about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 35 mM to about 60 mM, or about 45 mM to about 65 mM Tris base. In one embodiment, the wash buffer comprises about 55 mM Tris base. In one embodiment, the wash buffer comprises about 56.5 mM Tris base.

In some embodiments, the wash buffer comprises about 56.5mM Tris base, about 45mM Acetic Acid, about 150mM Sodium Caprylate, and about 1.1M Arginine. In some embodiments, the pH of the wash buffer is pH 7.5.

In some embodiments, the eluted recombinant polypeptide contains less than about 2% fragmented recombinant polypeptide.

In some embodiments, the HCP is derived from a mammalian cell.

In some embodiments, the HCP is cathepsin L.

In some embodiments, the purification of the recombinant polypeptide from cathepsin L is measured by a reduced cathepsin L activity in the eluate of step (c).

In some embodiments, the superantigen is selected from the group consisting of Protein A, Protein G, and Protein L.

In some embodiments, the superantigen is Protein A.

In some embodiments, the pH of the wash buffer is between pH 7 to pH 9; pH 7 to pH 8; or pH 7.5 to pH 8.5. In some embodiments, the pH of the wash buffer is pH 7.5. In some aspects, the disclosure provides a method of purifying an anti-OX40 antigen binding polypeptide from a Host Cell Protein (HCP), the method comprising : (a) applying a solution comprising the anti-OX40 antigen binding polypeptide and HCP to a superantigen chromatography solid support; (bl) washing the superantigen chromatography solid support with a wash buffer comprising greater than about 0.5 M arginine; (b2) washing the superantigen chromatography solid support with a wash buffer comprising greater than about 50mM caprylate; and (c) eluting the anti-OX40 antigen binding polypeptide from the superantigen chromatography solid support, e.g., thereby preparing an eluate.

In some embodiments, the caprylate is sodium caprylate.

In some embodiments, the wash buffer comprises about 75 mM to about 300 mM caprylate (e.g., about 75 mM to about 250 mM, about 75 mM to about 200 mM, about 100 mM to about 250 mM, about 75 mM, about 100 mM, about 150 mM, about 200 mM, about 250 mM, or about 300 mM caprylate).

In some embodiments, the wash buffer comprises about 100 mM to about 200 mM caprylate (e.g., about 100 mM, about 150 mM, or about 200 mM caprylate).

In some embodiments, the wash buffer comprises about 0.7 M to about 1.5 M arginine (e.g., about 0.8 M to about 1.4 M, about 0.8 M to about 1.3 M, about 0.9 M to about 1.2 M, about 0.7 M, about 0.75 M, about 1 M, about 1.1 M or about 1.5 M arginine).

In some embodiments, the wash buffer comprises about 0.75 M to about 1.5 M arginine.

In some embodiments, the wash buffer further comprises about 0.5 M to about 1 M lysine (e.g., about 0.75 M lysine).

In some embodiments, the wash buffer comprises about 1.1 M arginine.

In some embodiments, the wash buffer comprises about 150 mM caprylate. In some embodiments, the wash buffer comprises about 150 mM sodium caprylate.

In some embodiments, the wash buffer comprises about 1.1 M arginine and about 150 mM caprylate. In some embodiments, the wash buffer comprises about 1.1 M arginine and about 150 mM sodium caprylate.

In some embodiments, the wash buffer comprises acetic acid, e.g., about 1 mM to about 500 mM, about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 25 mM to about 60 mM, or about 30 mM to about 50 mM acetic acid. In one embodiment, the wash buffer comprises about 45 mM acetic acid.

In some embodiments, the wash buffer comprises Tris base, e.g., about 1 mM to about 500 mM. about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 35 mM to about 60 mM, or about 45 mM to about 65 mM Tris base. In one embodiment, the wash buffer comprises about 55 mM Tris base. In one embodiment, the wash buffer comprises about 56.5 mM Tris base. In some embodiments, the wash buffer comprises about 56.5mM Tris base, about 45mM Acetic Acid, about 150mM Sodium Caprylate, and about 1.1M Arginine. In some embodiments, the pH of the wash buffer is pH 7.5.

In some embodiments, the eluted recombinant polypeptide contains less than about 2% fragmented recombinant polypeptide.

In some embodiments, the HCP is derived from a mammalian cell.

In some embodiments, the HCP is cathepsin L.

In some embodiments, the purification of the recombinant polypeptide from cathepsin L is measured by a reduced cathepsin L activity in the eluate of step (c).

In some embodiments, the superantigen is selected from the group consisting of Protein A, Protein G, and Protein L.

In some embodiments, the superantigen is Protein A.

In some embodiments, the pH of the wash buffer is between pH 7 to pH 9; pH 7 to pH 8; or pH 7.5 to pH 8.5. In some embodiments, the pH of the wash buffer is pH 7.5.

In some aspects, the disclosure provides a method of purifying an anti-OX40 antigen binding polypeptide from cathepsin L, the method comprising: (a) applying a solution comprising the anti-OX40 antigen binding polypeptide and cathepsin L to a superantigen chromatography solid support, (b) washing the superantigen chromatography solid support with a wash buffer comprising about 150 mM caprylate and about 1.1 M arginine; and (c) eluting the anti-OX40 antigen binding polypeptide from the superantigen chromatography solid support, e.g., thereby preparing an eluate. In some embodiments, the wash buffer comprises Tris base. In some embodiments, the wash buffer comprises acetic acid.

In some embodiments, the wash buffer comprises about 56.5mM Tris base, about 45mM Acetic Acid, about 150mM Sodium Caprylate, and about 1.1M Arginine. In some embodiments, the pH of the wash buffer is pH 7.5.

In some embodiments, the caprylate is sodium caprylate.

In some embodiments, the purification of the recombinant polypeptide from cathepsin L is measured by a reduced cathepsin L activity in the eluate of step (c).

In some embodiments, the superantigen is selected from the group consisting of Protein A, Protein G, and Protein L.

In some embodiments, the superantigen is Protein A.

In some embodiments, the pH of the wash buffer is between pH 7 to pH 9; pH 7 to pH 8; or pH 7.5 to pH 8.5. In some embodiments, the pH of the wash buffer is pH 7.5.

In some aspects, the disclosure provides a method of purifying an anti-OX40 antigen binding polypeptide from a Host Cell Protein (HCP), the method comprising : (a) applying a solution comprising the anti-OX40 antigen binding polypeptide and HCP to a superantigen chromatography solid support; (b) washing the superantigen chromatography solid support with a wash buffer comprising caprylate at a concentration greater than about 250 mM; and (c) eluting the anti-OX40 antigen binding polypeptide from the superantigen chromatography solid support, e.g., thereby preparing an eluate.

In some embodiments, the caprylate is sodium caprylate.

In some embodiments, the superantigen is selected from the group consisting of Protein A, Protein G, and Protein L.

In some embodiments, the superantigen is Protein A.

In some embodiments, the pH of the wash buffer is between pH 7 to pH 9; pH 7 to pH 8; or pH 7.5 to pH 8.5. In some embodiments, the pH of the wash buffer is pH 7.5.

In some aspects, the disclosure provides a buffer (e.g., a wash buffer, e.g., for a wash step for superantigen (e.g., Protein A) chromatography) comprising greater than about 50 mM caprylate and greater than about 0.5 M arginine. The wash buffer can be used in methods provided herein.

In some embodiments, the caprylate is sodium caprylate.

In some embodiments, the buffer (e.g., wash buffer) comprises about 75 mM to about 300 mM caprylate (e.g., about 75 mM to about 250 mM, about 75 mM to about 200 mM, about 100 mM to about 250 mM, about 75 mM, about 100 mM, about 150 mM, about 200 mM, about 250 mM, or about 300 mM caprylate).

In some embodiments, the buffer (e.g., wash buffer) comprises about 100 mM to about 200 mM caprylate (e.g., about 100 mM, about 150 mM, or about 200 mM caprylate).

In some embodiments, the buffer (e.g., wash buffer) comprises about 0.7 M to about 1.5 M arginine (e.g., about 0.8 M to about 1.4 M, about 0.8 M to about 1.3 M, about 0.9 M to about 1.2 M, about 0.7 M, about 0.75 M, about 1.0 M, about 1.1 M or about 1.5 M arginine).

In some embodiments, the buffer (e.g., wash buffer) comprises about 0.75 M to about 1.5 M arginine.

In some embodiments, the buffer (e.g., wash buffer) further comprises about 0.5 M to about 1 M lysine (e.g., about 0.75 M lysine).

In some embodiments, the buffer (e.g., wash buffer) comprises about 1.1 M arginine.

In some embodiments, the buffer (e.g., wash buffer) comprises about 150 mM caprylate. In some embodiments, the buffer (e.g., wash buffer) comprises about 150 mM sodium caprylate.

In some embodiments, the buffer (e.g., wash buffer) comprises about 1.1 M arginine and about 150 mM caprylate. In some embodiments, the buffer (e.g., wash buffer) comprises about 1.1 M arginine and about 150 mM sodium caprylate. In some embodiments, the pH of the wash buffer is between pH 7 to pH 9; pH 7 to pH 8; or pH 7.5 to pH 8.5. In some embodiments, the pH of the wash buffer is pH 7.5.

In some embodiments, the wash buffer comprises acetic acid, e.g., about 1 mM to about 500 mM, about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 25 mM to about 60 mM, or about 30 mM to about 50 mM acetic acid. In one embodiment, the wash buffer comprises about 45 mM acetic acid.

In some embodiments, the wash buffer comprises Tris base, e.g., about 1 mM to about 500 mM. about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 35 mM to about 60 mM, or about 45 mM to about 65 mM Tris base. In one embodiment, the wash buffer comprises about 55 mM Tris base. In one embodiment, the wash buffer comprises about 56.5 mM Tris base.

In some embodiments, the buffer (e.g., wash buffer) comprises about 56.5mM Tris base, about 45mM Acetic Acid, about 150mM Sodium Caprylate, and about 1.1M Arginine. In some embodiments, the pH of the wash buffer is pH 7.5.

In some aspects, the disclosure provides a Protein A wash buffer comprising : about 56.5mM Tris base, about 45mM Acetic Acid, about 150mM Sodium Caprylate, and about 1.1M Arginine. In some embodiments, the pH of the Protein A wash buffer is pH 7.5. The Protein A wash buffer can be used in methods provided herein.

Brief Description of the Figures

Figure 1: Percent yield (triangles,▲) and HCP concentration (squares,■) in protein A eluate using mAbl as a model with varying concentrations of sodium caprylate in the wash.

Figure 2: Percent of loaded mAbl in elution, strip, and wash fractions for 5 concentrations of sodium caprylate in the wash buffer.

Figure 3: Langmuir isotherm fits for mAbl adsorption the MabSelect SuRe resin in solutions of different sodium caprylate concentration.

Figure 4: Protein A eluate HCP concentration for 5 mAbs with 100 mM and 250 mM sodium caprylate wash buffers.

Figure 5: Protein A eluate HCP concentration for mAb2 with wash buffers containing different concentrations of sodium caprylate and arginine at varying pH. Note: all wash buffers contain 300 mM sodium acetate.

Figure 6: Protein A eluate HCP concentration for two different mAbl feed streams with wash buffers containing different concentrations of sodium caprylate and arginine at varying pH. Note: all wash buffers contain 300 mM sodium acetate. Figure 7: Cathepsin L activities in mAt>3 protein A eluates for washes containing sodium caprylate and arginine or lysine.

Figure 8: Percent antibody fragmentation for monoclonal antibody process intermediates.

Figure 9: HCP concentration with caprylate only versus caprylate plus arginine wash buffers.

Figure 10: Percent antibody fragmentation for monoclonal antibody bulk drug substance held at 25C for up to 10 days.

Figure 11: Cathepsin L activity measured post-CEX polishing after a protein A process with the specified wash. Solid bars were small scale studies, cross-hatched bar is large scale study.

Detailed Description

It is to be understood that this invention is not limited to particular methods, reagents, compounds, compositions, or biological systems, which can, of course, vary. It is also to be understood that the terminology used herein is for the purpose of describing particular embodiments only, and is not intended to be limiting. As used in this specification and the appended claims, the singular forms "a", "an", and "the" include plural referents unless the content clearly dictates otherwise. Thus, for example, reference to "a polypeptide" includes a combination of two or more polypeptides, and the like.

The term "comprising" encompasses "including" or "consisting" e.g., a composition "comprising" X may consist exclusively of X or may include something additional e.g., X + Y. The term "consisting essentially of" limits the scope of the feature to the specified materials or steps and those that do not materially affect the basic characteristic(s) of the claimed feature. The term "consisting of" excludes the presence of any additional component(s).

"About" as used herein when referring to a measurable value such as an amount, a temporal duration, and the like, is meant to encompass variations of ±20% or ±10%, including ±5%, ±1%, and ±0.1% from the specified value, as such variations are appropriate to perform the disclosed methods.

Unless defined otherwise, all technical and scientific terms used herein have the same meaning as commonly understood by one of ordinary skill in the art to which the invention pertains. Although any methods and materials similar or equivalent to those described herein can be used in the practice for testing of the present invention, the preferred materials and methods are described herein. In describing and claiming the present invention, the following terminology will be used.

"Polypeptide," "peptide" and "protein" are used interchangeably herein to refer to a polymer of amino acid residues. A polypeptide can be of natural (tissue-derived) origins, recombinant or natural expression from prokaryotic or eukaryotic cellular preparations, or produced chemically via synthetic methods. The terms apply to amino acid polymers in which one or more amino acid residue is an artificial chemical mimetic of a corresponding naturally occurring amino acid, as well as to naturally occurring amino acid polymers and non-naturally occurring amino acid polymers. Amino acid mimetics refers to chemical compounds that have a structure that is different from the general chemical structure of an amino acid, but that functions in a manner similar to a naturally occurring amino acid. Non-natural residues are well described in the scientific and patent literature; a few exemplary non-natural compositions useful as mimetics of natural amino acid residues and guidelines are described below. Mimetics of aromatic amino acids can be generated by replacing by, e.g., D- or L-naphylalanine; D- or L-phenylglycine; D- or L-2 thieneylalanine; D- or L-l, -2,3-, or 4-pyreneylalanine; D- or L-3 thieneylalanine; D- or L-(2-pyridinyl)-alanine; D- or L-(3-pyridinyl)-alanine; D- or L-(2- pyrazinyl)-alanine; D- or L-(4-isopropyl)-phenylglycine: D-(trifluoromethyl)-phenylglycine; D- (trifluoromethyl)-phenylalanine: D-p-fluoro-phenylalanine; D- or L-p-biphenylphenylalanine; K- or L-p-methoxy-biphenylphenylalanine: D- or L-2-indole(alkyl)alanines; and, D- or L- alkylainines, where alkyl can be substituted or unsubstituted methyl, ethyl, propyl, hexyl, butyl, pentyl, isopropyl, iso-butyl, sec-isotyl, iso-pentyl, or a non-acidic amino acids. Aromatic rings of a non-natural amino acid include, e.g., thiazolyl, thiophenyl, pyrazolyl, benzimidazolyl, naphthyl, furanyl, pyrrolyl, and pyridyl aromatic rings.

"Peptide" as used herein includes peptides which are conservative variations of those peptides specifically exemplified herein. "Conservative variation" as used herein denotes the replacement of an amino acid residue by another, biologically similar residue. Examples of conservative variations include, but are not limited to, the substitution of one hydrophobic residue such as isoleucine, valine, leucine, alanine, cysteine, glycine, phenylalanine, proline, tryptophan, tyrosine, norleucine or methionine for another, or the substitution of one polar residue for another, such as the substitution of arginine for lysine, glutamic for aspartic acids, or glutamine for asparagine, and the like. Neutral hydrophilic amino acids which can be substituted for one another include asparagine, glutamine, serine and threonine.

"Conservative variation" also includes the use of a substituted amino acid in place of an unsubstituted parent amino acid provided that antibodies raised to the substituted polypeptide also immunoreact with the unsubstituted polypeptide. Such conservative substitutions are within the definition of the classes of the proteins described herein.

"Cationic" as used herein refers to any peptide that possesses a net positive charge at pH 7.4. The biological activity of the peptides can be determined by standard methods known to those of skill in the art and described herein.

"Recombinant" when used with reference to a protein (or polypeptide) indicates that the protein has been modified by the introduction of a heterologous nucleic acid or protein or the alteration of a native nucleic acid or protein, e.g., to allow for expression in a heterologous cell type.

As used herein a "therapeutic protein" refers to any protein and/or polypeptide that can be administered to a mammal to elicit a biological or medical response of a tissue, system, animal or human that is being sought, for instance, by a researcher or clinician. A therapeutic protein may elicit more than one biological or medical response. Furthermore, the term "therapeutically effective amount" means any amount which, as compared to a corresponding subject who has not received such amount, results in, but is not limited to, healing, prevention, or amelioration of a disease, disorder, or side effect, or a decrease in the rate of advancement of a disease or disorder. The term also includes within its scope amounts effective to enhance normal physiological function as well as amounts effective to cause a physiological function in a patient which enhances or aids in the therapeutic effect of a second pharmaceutical agent.

All "amino acid" residues identified herein are in the natural L-configu ration. In keeping with standard polypeptide nomenclature, abbreviations for amino acid residues are as shown in the following table.

Table 1: Amino acid abbreviations.

It should be noted that all amino acid residue sequences are represented herein by formulae whose left to right orientation is in the conventional direction of amino-terminus to carboxy-terminus. Purification methods

In one aspect, the present invention is directed to a method of purifying a recombinant polypeptide (e.g., a recombinant polypeptide that contains a cleavage site for cathepsin L, such as DKTHTCPP (SEQ ID NO:50)) from a Host Cell Protein (HCP), the method comprising: (a) applying a solution comprising the recombinant polypeptide and HCP to a superantigen chromatography solid support; (b) washing the superantigen chromatography solid support with a wash buffer comprising caprylate and arginine; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support.

In one aspect, the present invention is directed to a method of purifying a recombinant polypeptide (e.g., a recombinant polypeptide that contains a cleavage site for cathepsin L, such as DKTHTCPP (SEQ ID NO:50)) from a Host Cell Protein (HCP), the method comprising: (a) applying a solution comprising the recombinant polypeptide and HCP to a superantigen chromatography solid support; (b) washing the superantigen chromatography solid support with a wash buffer comprising greater than about 50 mM caprylate and greater than about 0.5 M arginine; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support.

In one aspect, the present invention is directed to a method of purifying a recombinant polypeptide (e.g., a recombinant polypeptide that contains a cleavage site for cathepsin L, such as DKTHTCPP (SEQ ID NO:50)) from a Host Cell Protein (HCP), the method comprising: (a) applying a solution comprising the recombinant polypeptide and HCP to a superantigen chromatography solid support; (b) washing the superantigen chromatography solid support with a wash buffer comprising caprylate at a concentration greater than 250 mM; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support.

In one aspect, the present invention is directed to a method of purifying a recombinant polypeptide (e.g., a recombinant polypeptide that contains a cleavage site for cathepsin L, such as DKTHTCPP (SEQ ID NO:50)) from a Host Cell Protein (HCP), the method comprising: (a) applying a solution comprising the recombinant polypeptide and HCP to a superantigen chromatography solid support, (b) washing the superantigen chromatography solid support with a wash buffer comprising about 150mM to about 850mM caprylate; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support.

In another aspect, the present invention is directed to a method of purifying a recombinant polypeptide (e.g., a recombinant polypeptide that contains a cleavage site for cathepsin L, such as DKTHTCPP (SEQ ID NO: 50)) from a Host Cell Protein (HCP), the method comprising: (a) applying a solution comprising the recombinant polypeptide and HCP to a superantigen chromatography solid support; (bl) washing the superantigen chromatography solid support with a first wash buffer comprising caprylate; (b2) washing the superantigen chromatography solid support with a second wash buffer comprising arginine; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support.

In another aspect, the present invention is directed to a method of purifying a recombinant polypeptide (e.g., a recombinant polypeptide that contains a cleavage site for cathepsin L, such as DKTHTCPP (SEQ ID NO: 50)) from a Host Cell Protein (HCP), the method comprising: (a) applying a solution comprising the recombinant polypeptide and HCP to a superantigen chromatography solid support; (bl) washing the superantigen chromatography solid support with a first wash buffer comprising arginine; (b2) washing the superantigen chromatography solid support with a second wash buffer comprising caprylate; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support.

After applying (or loading) the solution to the superantigen chromatography solid support in step (a), the recombinant polypeptide will be adsorbed to the superantigen immobilized on the solid support. The HCP impurity can then be removed by contacting the immobilized superantigen containing the adsorbed recombinant polypeptide with a wash buffer as described herein.

"Superantigen" refers to generic ligands that interact with members of the immunoglobulin superfamily at a site that is distinct from the target ligand-binding sites of these proteins. Staphylococcal enterotoxins are examples of superantigens which interact with T-cell receptors. Superantigens that bind antibodies include, but are not limited to, Protein G, which binds the IgG constant region (Bjorck and Kronvall (1984) J. Immunol., 133:969); Protein A which binds the IgG constant region and VH domains (Forsgren and Sjoquist, (1966) J. Immunol., 97:822); and Protein L which binds VL domains (Bjorck, (1988) J. Immunol., 140:1194). Therefore, in one embodiment, the superantigen is selected from the group consisting of Protein A, Protein G, and Protein L. In one embodiment, the superantigen is Protein A.

When used herein, the term "Protein A" encompasses Protein A recovered from a native source thereof {e.g., the cell wall of Staphylococcus aureus), Protein A produced synthetically {e.g., by peptide synthesis or by recombinant techniques), and variants thereof which retain the ability to bind proteins which have a CH2/CH3 region. Protein A can be purchased commercially, for example from Repligen or Pharmacia.

As used herein, "affinity chromatography" is a chromatographic method that makes use of the specific, reversible interactions between biomolecules rather than general properties of the biomolecule such as isoelectric point, hydrophobicity, or size, to effect chromatographic separation. "Protein A affinity chromatography" or "Protein A chromatography" refers to a specific affinity chromatographic method that makes use of the affinity of the IgG binding domains of Protein A for the Fc portion of an immunoglobulin molecule. This Fc portion comprises human or animal immunoglobulin constant domains CH2 and CH3 or immunoglobulin domains substantially similar to these. In practice, Protein A chromatography involves using Protein A immobilized to a solid support. See Gagnon, Protein A Affinity Chromatography, Purification Tools for Monoclonal Antibodies, pp. 155-198, Validated Biosystems, (1996). Protein G and Protein L may also be used for affinity chromatography. The solid support is a non- aqueous matrix onto which Protein A adheres (for example, a column, resin, matrix, bead, gel, etc). Such supports include agarose, sepharose, glass, silica, polystyrene, collodion charcoal, sand, polymethacrylate, cross-linked poly(styrene-divinylbenzene), and agarose with dextran surface extender and any other suitable material. Such materials are well known in the art. Any suitable method can be used to affix the superantigen to the solid support. Methods for affixing proteins to suitable solid supports are well known in the art. See e.g., Ostrove, in Guide to Protein Purification, Methods in Enzymology, (1990) 182: 357-371. Such solid supports, with and without immobilized Protein A or Protein L, are readily available from many commercial sources such as Vector Laboratory (Burlingame, Calif.), Santa Cruz Biotechnology (Santa Cruz, Calif.), BioRad (Hercules, Calif.), Amersham Biosciences (part of GE Healthcare, Uppsala, Sweden) and Millipore (Billerica, Mass.).

The method described herein may comprise one or more further purification steps, such as one or more further chromatography steps. In one embodiment, the one or more further chromatography steps are selected from the group consisting of: anion exchange chromatography, cation exchange chromatography and mixed-mode chromatography, in particular anion exchange chromatography.

In one embodiment, the method additionally comprises filtering the eluate produced by step (c) of the methods described herein.

In one embodiment, the method further comprises the following steps after step (c): (d) titrating the solution containing the recovered protein to about pH 3.5 with 30 mM acetic acid, 100 mM HCI; (e) allowing the solution of step (d) to remain at about pH 3.5 for about 30 to about 60 minutes; and (f) adjusting the pH of the solution of step (e) to about pH 7.5 with 1 M Tris. In one embodiment, the method further comprises filtering the solution produced by step (f).

In one embodiment, the amount of recombinant protein applied to the column in step (a) (i.e., the load ratio) is 35 mg/ml or less, such as 30 mg/ml or less, 20 mg/ml or less, 15 mg/ml or less or 10 mg/ml or less. It will be understood that "load ratio" refers to milligrams (mg) of protein (e.g., monoclonal antibody) per millilitre (ml) of resin.

Wash Buffers

A "buffer" is a buffered solution that resists changes in pH by the action of its acid-base conjugate components. An "equilibration buffer" refers to a solution used to prepare the solid phase for chromatography. A "loading buffer" refers to a solution used to load the mixture of the protein and impurities onto the solid phase ( i.e chromatography matrix). The equilibration and loading buffers can be the same. A "wash buffer" refers to a solution used to remove remaining impurities from the solid phase after loading is completed. The "elution buffer" is used to remove the target protein from the chromatography matrix.

A "salt" is a compound formed by the interaction of an acid and a base.

In one aspect of the invention, the wash buffer comprises an aliphatic carboxylate. The aliphatic carboxylate can be either straight chained or branched. In certain embodiments, the aliphatic carboxylate is an aliphatic carboxylic acid or salt thereof, or the source of the aliphatic carboxylate is an aliphatic carboxylic acid or salt thereof. In certain embodiments, the aliphatic carboxylate is straight chained and selected from the group consisting of methanoic (formic) acid, ethanoic (acetic) acid, propanoic (propionic) acid, butanoic (butyric) acid, pentanoic (valeric) acid, hexanoic (caproic) acid, heptanoic (enanthic) acid, octanoic (caprylic) acid, nonanoic (pelargonic) acid, decanoic (capric) acid, undecanoic (undecylic) acid, dodecanoic (lauric) acid, tridecanoic (tridecylic) acid, tetradecanoic (myristic) acid, pentadecanoic acid, hexadecanoic (palmitic) acid, heptadecanoic (margaric) acid, octadecanoic (stearic) acid, and icosanoic (arachididic) acid or any salts thereof. Accordingly, the aliphatic carboxylate can comprise a carbon backbone of 1-20 carbons in length. In one embodiment, the aliphatic carboxylate comprises a 6-12 carbon backbone. In one embodiment, the aliphatic carboxylate is selected from the group consisting of caproate, heptanoate, caprylate, decanoate, and dodecanoate. In a further embodiment, the aliphatic carboxylate is caprylate.

In one embodiment, the source of the aliphatic carboxylate is selected from the group consisting of an aliphatic carboxylic acid, a sodium salt of an aliphatic carboxylic acid, a potassium salt of an aliphatic carboxylic acid, and an ammonium salt of an aliphatic carboxylic acid. In one embodiment, the source of the aliphatic carboxylate is a sodium salt of an aliphatic carboxylic acid. In a further embodiment, the wash buffer comprises sodium caprylate, sodium decanoate, or sodium dodecanoate, in particular sodium caprylate.

In one embodiment, the wash buffer comprises greater than about 50 mM caprylate. In one embodiment, the wash buffer comprises greater than about 200 mM caprylate. In one embodiment, the wash buffer comprises greater than about 250 mM caprylate. In a further embodiment, the wash buffer comprises at least about 50 mM caprylate, such as at least about 75 mM, about 100 mM, about 150 mM, about 200 mM, about 250 mM or about 300 mM caprylate. In one embodiment, the wash buffer comprises less than about 850 mM caprylate, such as less than about 800 mM, about 750 mM, about 700 mM, about 650 mM, about 600 mM, about 550 mM, about 500 mM, about 450 mM, about 400 mM, about 350 mM, about 300 mM caprylate. In another embodiment, the wash buffer comprises about 100 mM, about 125 mM, about 150 mM, about 175 mM, about 200 mM, or about 250 mM caprylate. In one embodiment, the wash buffer comprises greater than about 50 mM sodium caprylate. In one embodiment, the wash buffer comprises greater than about 200 mM sodium caprylate. In one embodiment, the wash buffer comprises greater than about 250 mM sodium caprylate. In a further embodiment, the wash buffer comprises at least about 50 mM sodium caprylate, such as at least about 75 mM, about 100 mM, about 150 mM, about 200 mM, about 250 mM or about 300 mM sodium caprylate. In one embodiment, the wash buffer comprises less than about 850 mM sodium caprylate, such as less than about 800 mM, about 750 mM, about 700 mM, about 650 mM, about 600 mM, about 550 mM, about 500 mM, about 450 mM, about 400 mM, about 350 mM, about 300 mM sodium caprylate. In another embodiment, the wash buffer comprises about 100 mM, about 125 mM, about 150 mM, about 175 mM, about 200 mM, or about 250 mM sodium caprylate.

In one embodiment, the wash buffer comprises about 50 mM to about 750 mM caprylate; about 50 mM to about 500 mM caprylate; about 75 mM to about 400 mM caprylate; about 75 mM to about 350 mM caprylate; about 75 mM to about 300 mM caprylate; about 75 mM to about 200 mM caprylate; greater than about 250 mM to about 750 mM caprylate; greater than about 250 mM to about 500 mM caprylate; greater than about 250 mM to about 400 mM caprylate; greater than about 250 mM to about 350 mM caprylate; or greater than about 250 mM to about 300 mM caprylate.

In one embodiment, the wash buffer comprises about 50 mM to about 750 mM sodium caprylate; about 50 mM to about 500 mM sodium caprylate; about 75 mM to about 400 mM sodium caprylate; about 75 mM to about 350 mM sodium caprylate; about 75 mM to about 300 mM sodium caprylate; about 75 mM to about 200 mM sodium caprylate; greater than about 250 mM to about 750 mM sodium caprylate; greater than about 250 mM to about 500 mM sodium caprylate; greater than about 250 mM to about 400 mM sodium caprylate; greater than about 250 mM to about 350 mM sodium caprylate; or greater than about 250 mM to about 300 mM sodium caprylate.

In one embodiment, the wash buffer comprises an organic acid, an alkaline metal or ammonium salt of the conjugate base of the organic acid, and an organic base. In one embodiment, the wash buffer is made without the addition of NaCI.

In one embodiment, the conjugate base of the organic acid is the sodium, potassium, or ammonium salt of the conjugate base of the organic acid. In one embodiment, the organic acid is acetic acid and the conjugate base of acetic acid is the sodium salt ( i.e sodium acetate).

In one embodiment, the wash buffer additionally comprises about 1 mM to about 500 mM, about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 25 mM to about 60 mM, or about 30 mM to about 50 mM acetic acid. In one embodiment, the wash buffer comprises about 45 mM acetic acid. In one embodiment, the wash buffer additionally comprises about 1 mM to about 500 mM. about 10 mM to about 400 mM, about 10 mM to about 300 mM, about 10 mM to about 200 mM, about 10 mM to about 100 mM, about 35 mM to about 60 mM, or about 45 mM to about 65 mM Tris base. In one embodiment, the wash buffer comprises about 55 mM Tris base. In one embodiment, the wash buffer comprises about 56.5 mM Tris base.

In one embodiment, the wash buffer additionally comprises about 1 mM to about 500 mM sodium acetate. In one embodiment, the wash buffer comprises about 300 mM sodium acetate.

In one embodiment, the pH of the wash buffer is between about pH 7 to about pH 9; for example, from about pH 7.5 to about pH 8.5 or from about pH 7.0 to about pH 8.0. In some embodiments, the pH is about 7.5.

In one embodiment, the wash buffer comprises about 0.25 M to about 1.5 M arginine. In a further embodiment, the wash buffer comprises about 0.25 M to about 2 M arginine. In a further embodiment, the wash buffer comprises about 0.5 M to about 2 M arginine. In yet another embodiment, the wash buffer comprises about 0.75 M to about 1.5 M arginine. In a further embodiment, the wash buffer comprises about 1 M, about 1.1 M, about 1.2 M, about 1.3 M, about 1.4 M, about 1.5 M, about 1.6 M, about 1.7 M, about 1.8 M, about 1.9 M, or about 2 M arginine. In one embodiment, the wash buffer comprises about 0.5 M to about 2 M arginine, in particular about 0.75 M to about 2 M arginine. In a further embodiment, the wash buffer comprises greater than about 1 M arginine. In an embodiment, the wash buffer comprises about 1.1 M arginine.

It will be understood that references to "arginine" not only refer to the natural amino acids, but also encompass arginine derivatives or salts thereof, such as arginine HCI, acetyl arginine, agmatine, arginic acid, N-alpha-butyroyl-L-arginine, or N-alpha-pyvaloyl arginine.

Alternatively, arginine could be included in the initial wash buffer (/ ^' e., used simultaneously). Therefore, in one aspect, the invention provides a method of purifying a recombinant polypeptide from a Host Cell Protein (HCP), the method comprising: (a) applying a solution comprising the recombinant polypeptide and HCP to a superantigen chromatography solid support, (b) washing the superantigen chromatography solid support with a wash buffer comprising about 100 mM to about 850 mM caprylate and about 0.25 M to about 1.5 M arginine; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support. As shown in the Examples provided herein, superantigen chromatography washes comprising a combination of caprylate and arginine had an unexpected synergistic effect of improved host cell protein clearance, in particular for removing cathepsin L which is a particularly difficult host cell protein to remove during the purification of certain recombinant polypeptides. In one embodiment, the wash buffer comprises about 100 mM to about 750 mM caprylate; about 100 mM to about 500 mM caprylate; about 100 mM to about 400 mM caprylate; about 100 mM to about 350 mM caprylate; or about 100 mM to about 300 mM caprylate; and/or about 0.25 M to about 2 M arginine, about 0.5 M to about 1.5 M arginine, about 0.7 M to about 1.5 M arginine, about 0.5 M to about 1 M arginine, or about 0.5 M to about 1.1 M arginine. E.g., the wash buffer can contain about 0.7 M, about 0.75 M, about 1.0 M, about 1.1 M or about 1.5 M arginine.

In one embodiment, the wash buffer comprises about 100 mM to about 750 mM sodium caprylate; about 100 mM to about 500 mM sodium caprylate; about 100 mM to about 400 mM sodium caprylate; about 100 mM to about 350 mM sodium caprylate; about 100 mM to about 200 mM sodium caprylate or about 100 mM to about 300 mM sodium caprylate; and/or about 0.25 M to about 2 M arginine; about 0.5 M to about 1.5 M arginine; about 0.5 M to about 1 M arginine; or about 0.5 M to about 1.1 M arginine.

In one embodiment, the wash buffer comprises about 0.5 M to about 2 M arginine and about 50 mM to about 750 mM sodium caprylate; about 0.5 M to about 1.5 M arginine and about 50 mM to about 500 mM sodium caprylate; or about 0.5 M to about 1.5 M arginine and about 50 mM to about 250 mM sodium caprylate.

In one embodiment, the wash buffer further comprises about 0.5 M to about 1 M lysine, such as about 0.75 M lysine. In this embodiment, the lysine is included in the initial wash buffer i.e., used simultaneously). In an alternative embodiment, the lysine is included in a separate wash buffer i.e., used sequentially). As shown in the Examples provided herein, the addition of lysine was shown to successfully reduce the elution volume.

Recombinant polypeptides

A cleavage site for cathepsin L (DKTHTCPP (SEQ ID NO: 50)) is present in IgGl antibodies, e.g., in the hinge region of IgGl antibodies. The methods provided herein are useful in the purification of an IgGl antibody, and/or the purification of an antibody fragment, an Fc containing polypeptide, and/or a fusion protein that contains a cathepsin L cleavage site (such as DKTHTCPP (SEQ ID NO:50)) and/or contains an IgGl hinge region.

The methods provided herein are useful in the purification of an antigen binding polypeptide (ABP) that contains a cleavage site for cathepsin L, such as DKTHTCPP (SEQ ID NO:50).

The methods provided herein are useful in the purification of a recombinant polypeptide that contains a cleavage site for cathepsin L, such as DKTHTCPP (SEQ ID NO:50).

In one embodiment, the polypeptide is an antigen binding polypeptide (ABP), e.g., that contains a cleavage site for cathepsin L, such as DKTHTCPP (SEQ ID NO:50). In one embodiment, the antigen binding polypeptide is selected from the group consisting of an antibody, antibody fragment, immunoglobulin single variable domain (dAb), mAbdAb, Fab, F(ab')2, Fv, disulphide linked Fv, scFv, closed conformation multispecific antibody, disulphide- linked scFv, diabody or a soluble receptor. In a further embodiment, the antigen binding protein is an antibody, for example a monoclonal antibody (mAb). The terms recombinant polypeptide, product molecule, and mAb are used herein interchangeably. The antibody may be, for example, a chimeric, humanized or domain antibody. The antigen binding polypeptide can contain a cathepsin L cleavage site; the antigen binding polypeptide can contain a cathepsin L cleavage site that comprises the amino acid sequence DKTFITCPP (SEQ ID NO:50).

The terms Fv, Fc, Fd, Fab, or F(ab)2 are used with their standard meanings (see, e.g., Flarlow etaL, Antibodies A Laboratory Manual, Cold Spring Flarbor Laboratory, (1988)).

A "chimeric antibody" refers to a type of engineered antibody which contains a naturally-occurring variable region (light chain and heavy chains) derived from a donor antibody in association with light and heavy chain constant regions derived from an acceptor antibody.

A "humanized antibody" refers to a type of engineered antibody having its CDRs derived from a non-human donor immunoglobulin, the remaining immunoglobulin-derived parts of the molecule being derived from one (or more) human immunoglobulin(s). In addition, framework support residues may be altered to preserve binding affinity (see, e.g., Queen et at., (1989) Proc. Natl. Acad. Sci. USA, 86:10029-10032, Hodgson et ai, (1991) Bio/Technology, 9:421). A suitable human acceptor antibody may be one selected from a conventional database, e.g., the KABAT®. database, Los Alamos database, and Swiss Protein database, by homology to the nucleotide and amino acid sequences of the donor antibody. A human antibody characterized by a homology to the framework regions of the donor antibody (on an amino acid basis) may be suitable to provide a heavy chain constant region and/or a heavy chain variable framework region for insertion of the donor CDRs. A suitable acceptor antibody capable of donating light chain constant or variable framework regions may be selected in a similar manner. It should be noted that the acceptor antibody heavy and light chains are not required to originate from the same acceptor antibody. The prior art describes several ways of producing such humanized anti bod ies-see for example EP-A-0239400 and EP-A-054951.

The term "donor antibody" refers to an antibody (monoclonal, and/or recombinant) which contributes the amino acid sequences of its variable regions, CDRs, or other functional fragments or analogs thereof to a first immunoglobulin partner, so as to provide the altered immunoglobulin coding region and resulting expressed altered antibody with the antigenic specificity and neutralizing activity characteristic of the donor antibody. The term "acceptor antibody" refers to an antibody (monoclonal and/or recombinant) heterologous to the donor antibody, which contributes all (or any portion, but in some embodiments all) of the amino acid sequences encoding its heavy and/or light chain framework regions and/or its heavy and/or light chain constant regions to the first immunoglobulin partner. In certain embodiments, a human antibody is the acceptor antibody.

"CDRs" are defined as the complementarity determining region amino acid sequences of an antibody which are the hypervariable regions of immunoglobulin heavy and light chains. See, e.g., Kabat et al, Sequences of Proteins of Immunological Interest, 4th Ed., U. S. Department of Health and Human Services, National Institutes of Health (1987). There are three heavy chain and three light chain CDRs (or CDR regions) in the variable portion of an immunoglobulin. Thus, "CDRs" as used herein refers to all three heavy chain CDRs, or all three light chain CDRs (or both all heavy and all light chain CDRs, if appropriate). The structure and protein folding of the antibody may mean that other residues are considered part of the antigen binding region and would be understood to be so by a skilled person (see for example Chothia etaL, (1989) Nature 342:877-883).

As used herein the term "domain" refers to a folded protein structure which has tertiary structure independent of the rest of the protein. Generally, domains are responsible for discrete functional properties of proteins and in many cases may be added, removed or transferred to other proteins without loss of function of the remainder of the protein and/or of the domain. An "antibody single variable domain" is a folded polypeptide domain comprising sequences characteristic of antibody variable domains. It therefore includes complete antibody variable domains and modified variable domains, for example, in which one or more loops have been replaced by sequences which are not characteristic of antibody variable domains, or antibody variable domains which have been truncated or comprise N- or C-terminal extensions, as well as folded fragments of variable domains which retain at least the binding activity and specificity of the full-length domain.

The phrase "immunoglobulin single variable domain" refers to an antibody variable domain (e.g., VH or VL) that specifically binds an antigen or epitope independently of a different V region or domain. An immunoglobulin single variable domain can be present in a format e.g., homo- or hetero-multimer) with other, different variable regions or variable domains where the other regions or domains are not required for antigen binding by the single immunoglobulin variable domain (i.e., where the immunoglobulin single variable domain binds antigen independently of the additional variable domains). A "domain antibody" or "dAb" is the same as an "immunoglobulin single variable domain" which is capable of binding to an antigen as the term is used herein. An immunoglobulin single variable domain may be a human antibody variable domain, but also includes single antibody variable domains from other species such as rodent (for example, as disclosed in WO 00/29004), nurse shark and Camelid VHH dAbs (nanobodies). Camelid VHH are immunoglobulin single variable domain polypeptides that are derived from species including camel, llama, alpaca, dromedary, and guanaco, which produce heavy chain antibodies naturally devoid of light chains. Such VHH domains may be humanized according to standard techniques available in the art, and such domains are still considered to be "domain antibodies" according to the invention. As used herein VH includes camelid VHH domains. NARV are another type of immunoglobulin single variable domain which were identified in cartilaginous fish including the nurse shark. These domains are also known as Novel Antigen Receptor variable region (commonly abbreviated to V(NAR) or NARV). For further details see Moi. Immunol. (2006) 44, 656-665 and US2005/0043519.

The terms "mAbdAb" and "dAbmAb" are used herein to refer to antigen-binding polypeptides comprising a monoclonal antibody and at least one single domain antibody. The two terms can be used interchangeably, and are intended to have the same meaning as used herein.

Often, purification of recombinant polypeptides from host cell proteins results in fragmentation of the recombinant polypeptide. Applicants have discovered that when the purification methods described herein are utilized, the amount of recombinant polypeptide fragmentation is significantly reduced. In one embodiment, the eluted recombinant polypeptide contains less than about 10%, about 9%, about 8%, about 7%, about 6%, about 5%, about 4%, about 3%, about 2%, or about 1% fragmented recombinant polypeptide. In another embodiment, the recombinant polypeptide is an antibody (e.g., an IgGl antibody) and the eluted antibody contains less than about 10%, about 9%, about 8%, about 7%, about 6%, about 5%, about 4%, about 3%, about 2%, or about 1% fragmented antibody.

Anti-OX40 IgGl antigen binding polypeptides (ABPs)

Antigen binding polypeptides, such as antibodies, that bind human 0X40 (also referred to as OX-40 or 0X40 receptor or OX40R) are provided herein (i.e., an anti-OX40 antigen binding polypeptide or an anti-human 0X40 receptor (hOX-40R) antigen binding polypeptide, sometimes referred to herein as an "anti-OX40 antigen binding polypeptide", such as an anti- 0X40 antibody or an anti-human 0X40 receptor (hOX-40R) antibody, sometimes referred to herein as an "anti-OX40 antibody"). These antigen binding polypeptides are useful in the treatment or prevention of acute or chronic diseases or conditions whose pathology involves 0X40 signalling, such as cancer. In one aspect, an antigen binding polypeptide, or isolated human antibody or functional fragment of such protein or antibody, that binds to human OX40R and is effective as a cancer treatment or treatment against disease is described. Any of the antigen binding proteins, such as antibodies, disclosed herein may be used as a medicament. The anti-OX40 antigen binding polypeptides, such as antibodies, can be agonist antibodies, e.g., agonists of 0X40 (i.e., of 0X40 receptor).

The isolated antigen binding polypeptides as described herein bind to 0X40, and may bind to 0X40 encoded from the following genes: NCBI Accession Number NP_003317, GenPept Accession Number P23510, or genes having 90 percent homology or 90 percent identity thereto. The isolated antibody provided herein may further bind to 0X40 (0X40 receptor) having one of the following Gen Bank Accession Numbers: AAB39944, CAE11757, or AAI05071.

An anti-OX40 antigen binding polypeptide (e.g., an IgGl antibody) may contain a cleavage site for cathepsin L (such as DKTHTCPP (SEQ ID NO:50)), e.g., in the hinge region of an anti-OX40 IgGl antibody. The methods provided herein are useful in the purification of an anti-OX40 antigen binding polypeptide, such as an antibody (e.g., an IgGl antibody), and/or the purification of an anti-OX40 antibody fragment, e.g, that may contain this cleavage site and/or contain an IgGl hinge region. Examples of anti-OX40 IgGl antigen binding polypeptides are provided herein.

Antigen binding polypeptides that bind and/or modulate 0X40 (OX-40 receptor) are known in the art. Exemplary anti-OX40 antigen binding polypeptides are disclosed, for example in PCT Publication No. WO2013/028231 (PCT/US2012/024570), international filing date 9 February 2012, and WO2012/027328 (PCT/US2011/048752), international filing date 23 August 2011, each of which is incorporated by reference in its entirety herein (To the extent any definitions conflict, this instant application controls).

In one embodiment, the anti-OX40 antigen binding polypeptide is ANTIBODY 106-222 (HC of SEQ ID NO: 48 and LC of SEQ ID NO:49). In another embodiment, the antigen binding polypeptide comprises the CDRs (SEQ ID NOS:l-3 and 7-9) of ANTIBODY 106-222, or CDRs with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the CDR sequences thereof. In a further embodiment, the antigen binding polypeptide comprises a VH (SEQ ID NO:5), a VL (SEQ ID NO:ll), or both of ANTIBODY 106- 222 (i.e. humanized 106-222), or a VH or a VL with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the VH or VL sequences thereof.

In one embodiment, the anti-OX40 antigen binding polypeptide is MEDI6383; MEDI0562; MOXR0916 (RG7888); BMS986178; or INCAGN01949. In another embodiment, the antigen binding polypeptide comprises the CDRs of MEDI6469; MEDI6383; MEDI0562; MOXR0916 (RG7888); BMS986178; or INCAGN01949, or CDRs with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the CDR sequences thereof. In a further embodiment, the antigen binding polypeptide comprises a VH, a VL, or both of MEDI6469; MEDI6383; MEDI0562; MOXR0916 (RG7888); BMS986178; or INCAGN01949, or a VH or a VL with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the VH or VL sequences thereof.

In one embodiment, the anti-OX40 antigen binding polypeptide is MEDI6383. In another embodiment, the antigen binding polypeptide comprises the CDRs of MEDI6383, or CDRs with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the CDR sequences thereof. In a further embodiment, the antigen binding polypeptide comprises a VH, a VL, or both of MEDI6383, or a VH or a VL with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the VH or VL sequences thereof.

In one embodiment, the anti-OX40 antigen binding polypeptide is MEDI0562. In another embodiment, the antigen binding polypeptide comprises the CDRs of MEDI0562, or CDRs with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the CDR sequences thereof. In a further embodiment, the antigen binding polypeptide comprises a VH, a VL, or both of MEDI0562, or a VH or a VL with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the VH or VL sequences thereof.

In one embodiment, the anti-OX40 antigen binding protein is MOXR0916 (RG7888). In another embodiment, the antigen binding polypeptide comprises the CDRs of MOXR0916 (RG7888), or CDRs with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the CDR sequences thereof. In a further embodiment, the antigen binding polypeptide comprises a VH, a VL, or both of MOXR0916 (RG7888), or a VH or a VL with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the VH or VL sequences thereof.

In one embodiment, the anti-OX40 antigen binding polypeptide is BMS986178. In another embodiment, the antigen binding polypeptide comprises the CDRs of BMS986178, or CDRs with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the CDR sequences thereof. In a further embodiment, the antigen binding polypeptide comprises a VH, a VL, or both of BMS986178, or a VH or a VL with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the VH or VL sequences thereof.

In one embodiment, the anti-OX40 antigen binding polypeptide is INCAGN01949. In another embodiment, the antigen binding polypeptide comprises the CDRs of INCAGN01949, or CDRs with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the CDR sequences thereof. In a further embodiment, the antigen binding polypeptide comprises a VH, a VL, or both of INCAGN01949, or a VH or a VL with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the VH or VL sequences thereof.

In one embodiment, the anti-OX40 antigen binding polypeptide is one disclosed in WO2015/153513. In another embodiment, the antigen binding polypeptide comprises the CDRs of an antibody disclosed in WO2015/153513, or CDRs with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the disclosed CDR sequences. In a further embodiment, the antigen binding polypeptide comprises a VH, a VL, or both of an antibody disclosed in WO2015/153513, or a VH or a VL with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the disclosed VH or VL sequences.

In one embodiment, the anti-OX40 antigen binding polypeptide is one disclosed in W02013/038191. In another embodiment, the antibody comprises the CDRs of an antigen binding polypeptide disclosed in W02013/038191, or CDRs with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the disclosed CDR sequences. In a further embodiment, the antigen binding polypeptide comprises a VH, a VL, or both of an antibody disclosed in W02013/038191, or a VH or a VL with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the disclosed VH or VL sequences.

In one embodiment, the anti-OX40 antigen binding polypeptide is one disclosed in WO2012/027328 (PCT/US2011/048752), international filing date 23 August 2011. In another embodiment, the antigen binding polypeptide comprises the CDRs of an antibody disclosed in WO2012/027328 (PCT/US2011/048752), international filing date 23 August 2011, or CDRs with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the disclosed CDR sequences. In a further embodiment, the antigen binding polypeptide comprises a VH, a VL, or both of an antibody disclosed in WO2012/027328 (PCT/US2011/048752), international filing date 23 August 2011, or a VH or a VL with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the disclosed VH or VL sequences.

In another embodiment, the anti-OX40 antigen binding polypeptide is one disclosed in WO2013/028231 (PCT/US2012/024570), international filing date 9 February 2012. In another embodiment, the antigen binding polypeptide comprises the CDRs of an antibody disclosed in WO2013/028231 (PCT/US2012/024570), international filing date 9 February 2012, or CDRs with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the disclosed CDR sequences. In a further embodiment, the antigen binding polypeptide comprises a VH, a VL, or both of an antibody disclosed in WO2013/028231 (PCT/US2012/024570), international filing date 9 February 2012, or a VH or a VL with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the disclosed VH or VL sequences.

In one embodiment, the anti-OX40 antigen binding polypeptide comprises the CDRs of the 106-222 antibody, e.g., CDRH1, CDRH2, and CDRH3 having the amino acid sequence as set forth in SEQ ID NOS:l, 2, and 3, and e.g., CDRL1, CDRL2, and CDRL3 having the sequences as set forth in SEQ ID NOS:7, 8, and 9 respectively. In one embodiment, the antigen binding polypeptide comprises the CDRs of the 106-222, Hul06 or Hul06-222 antibody as disclosed in WO2012/027328 (PCT/US2011/048752), international filing date 23 August 2011. As described herein, ANTIBODY 106-222 is a humanized monoclonal antibody that binds to human 0X40 as disclosed in WO2012/027328 and described herein as an antibody comprising CDRH1, CDRH2, and CDRH3 having the amino acid sequence as set forth in SEQ ID NOS:l, 2, and 3, and e.g., CDRL1, CDRL2, and CDRL3 having the sequences as set forth in SEQ ID NOS:7, 8, and 9, respectively and an antibody comprising VH having an amino acid sequence as set forth in SEQ ID NO:5 and a VL having an amino acid sequence as set forth in SEQ ID NO:ll.

In a further embodiment, the anti-OX40 antigen binding polypeptide comprises the VH and VL regions set forth in SEQ ID NO:4 and a VL having an amino acid sequence as set forth in SEQ ID NO:10 in WO2012/027328. In another embodiment, the antigen binding polypeptide comprises a VH having an amino acid sequence as set forth in SEQ ID NO:5, and a VL having an amino acid sequence as set forth in SEQ ID NO: 11 in WO2012/027328. In a further embodiment, the anti-OX40 antigen binding polypeptide comprises the VH and VL regions of the 106-222 antibody or the Hu 106 antibody as disclosed in WO2012/027328 (PCT/US2011/048752), international filing date 23 August 2011. In a further embodiment, the anti-OX40 antigen binding polypeptide is Hul06-222 or Hul06, e.g., as disclosed in WO2012/027328 (PCT/US2011/048752), international filing date 23 August 2011. In a further embodiment, the antigen binding polypeptide comprises CDRs or VH or VL or antibody sequences with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the sequences in this paragraph.

In another embodiment, the anti-OX40 antigen binding polypeptide comprises the CDRs of the 119-122 antibody, e.g., CDRH1, CDRH2, and CDRH3 having the amino acid sequence as set forth in SEQ ID NOs:13, 14, and 15 respectively in WO2012/027328. In another embodiment, the anti-OX40 antigen binding polypeptide comprises the CDRs of the murine 119-122 or Hull9 or Hull9-222 antibody as disclosed in WO2012/027328 (PCT/US2011/048752), international filing date 23 August 2011. In a further embodiment, the anti-OX40 antigen binding polypeptide comprises a VH having an amino acid sequence as set forth in SEQ ID NO:16, and a VL having the amino acid sequence as set forth in SEQ ID NO:22 in WO2012/027328. In another embodiment, the anti-OX40 antibody comprises a VH having an amino acid sequence as set forth in SEQ ID NO: 17 and a VL having the amino acid sequence as set forth in SEQ ID NO:23 in WO2012/027328. In a further embodiment, the anti-OX40 antigen binding polypeptide comprises the VH and VL regions of the murine 119-122 or Hull9 or Hull9-222 antibody as disclosed in WO2012/027328 (PCT/US2011/048752), international filing date 23 August 2011. In a further embodiment, the antigen binding polypeptide is Hu 119 or Hull9-222 antibody, e.g., as disclosed in WO2012/027328 (PCT/US2011/048752), international filing date 23 August 2011. In a further embodiment, the antigen binding polypeptide comprises CDRs or VH or VL or antibody sequences with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the sequences in this paragraph.

In another embodiment, the anti-OX40 antigen binding polypeptide comprises the CDRs of the 119-43-1 antibody as disclosed in WO2013/028231 (PCT/US2012/024570), international filing date 9 February 2012. In a further embodiment, the anti-OX40 antigen binding polypeptide comprises one of the VH and one of the VL regions of the 119-43-1 antibody. In a further embodiment, the anti-OX40 antigen binding polypeptide comprises the VH and VL regions of the 119-43-1 antibody as disclosed in WO2013/028231 (PCT/US2012/024570), international filing date 9 February 2012. In a further embodiment, the anti-OX40 antigen binding polypeptide is 119-43-1 chimeric. In further embodiments, any one of the anti-OX40 antigen binding polypeptides described in this paragraph are humanized. In further embodiments, any one of the any one of the antigen binding polypeptides described in this paragraph are engineered to make a humanized antibody. In a further embodiment, the anti- 0X40 antigen binding polypeptide comprises CDRs or VH or VL or antibody sequences with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the sequences in this paragraph.

In another embodiment, further embodiment, any mouse or chimeric sequences of any anti-OX40 antigen binding polypeptide are engineered to make a humanized antibody.

In one embodiment, the anti-OX40 antigen binding polypeptide comprises: (a) a heavy chain variable region CDR1 comprising the amino acid sequence of SEQ ID NO:l; (b) a heavy chain variable region CDR2 comprising the amino acid sequence of SEQ ID NO:2; (c) a heavy chain variable region CDR3 comprising the amino acid sequence of SEQ ID NO:3; (d) a light chain variable region CDR1 comprising the amino acid sequence of SEQ ID NO:7; (e) a light chain variable region CDR2 comprising the amino acid sequence of SEQ ID NO:8; and (f) a light chain variable region CDR3 comprising the amino acid sequence of SEQ ID NO:9.

In another embodiment, the anti-OX40 antigen binding polypeptide of a combination of the invention, or a method or use thereof, comprises: a heavy chain variable region CDR1 comprising the amino acid sequence of SEQ ID NO: l; a heavy chain variable region CDR2 comprising the amino acid sequence of SEQ ID NO:2; and/or a heavy chain variable region CDR3 comprising the amino acid sequence of SEQ ID NO:3, or a heavy chain variable region CDR having 90 percent identity thereto.

In another embodiment, the anti-OX40 antigen binding polypeptide comprises: a light chain variable region CDR1 comprising the amino acid sequence of SEQ ID NO:7; a light chain variable region CDR2 comprising the amino acid sequence of SEQ ID NO:8 and/or a light chain variable region CDR3 comprising the amino acid sequence of SEQ ID NO:9, or a heavy chain variable region having 90 percent identity thereto. In another embodiment, the anti-OX40 antigen binding polypeptide comprises: a light chain variable region ("VL") comprising the amino acid sequence of SEQ ID NO: 11, or an amino acid sequence with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the amino acid sequence of SEQ ID NO:ll. In another embodiment, the anti-OX40 antibody comprises a heavy chain variable region ("VH") comprising the amino acid sequence of SEQ ID NO:5, or an amino acid sequence with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the amino acid sequence of SEQ ID NO:5. In another embodiment, the anti-OX40 antibody comprises a variable heavy sequence of SEQ ID NO:5 and a variable light sequence of SEQ ID NO:ll, or a sequence having 90 (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) percent sequence identity thereto.

Further provided are monoclonal antibodies (e.g., IgGl antibodies or antibodies that may contain a cathepsin L cleavage site of SED ID NO:50) comprising a light chain variable region comprising the amino acid sequence of SEQ ID NO: 11, or an amino acid sequence with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the amino acid sequences of SEQ ID NO: 11, and a heavy chain variable region comprising the amino acid sequence of SEQ ID NO: 5, or an amino acid sequence with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the amino acid sequence of SEQ ID NO:5.

In one embodiment, the monoclonal antibodies (e.g., IgGl antibodies or antibodies that may contain a cathepsin L cleavage site of SED ID NO:50) comprise a light chain comprising the amino acid sequence of SEQ ID NO:49, or an amino acid sequence with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the amino acid sequence of SEQ ID NO:49. Further provided are monoclonal antibodies comprising a heavy chain comprising the amino acid sequence of SEQ ID NO:48, or an amino acid sequence with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the amino acid sequence of SEQ ID NO:48.

Further provided are monoclonal antibodies (e.g., IgGl antibodies or antibodies that may contain a cathepsin L cleavage site of SED ID NO: 50) comprising a light chain comprising the amino acid sequence of SEQ ID NO:49, or an amino acid sequence with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the amino acid sequence of SEQ ID NO:49, and a heavy chain comprising the amino acid sequence of SEQ ID NO:48, or an amino acid sequence with at least 90% (e.g., 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99%, or 100%) sequence identity to the amino acid sequence of SEQ ID NO:48. Heavy Chain of ANTIBODY 106-222:

QVQLVQSGSELKKPGASVKVSCKASGYTFTDYSMHWVRQAPGQGLKWMGWINTETGEPTY A DDFKGRFVFSLDTSVSTAYLQISSLKAEDTAVYYCANPYYDYVSYYAMDYWGQGTTVTVS SASTKGPSV FPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSW TVPSSSLGTQ TYICNVNHKPSNTKVDKKVEPKSCDKTHTCPPCPAPELLGGPSVFLFPPKPKDTLMISRT PEVTCVWDVS HEDPEVKFNWYVDGVEVHNAKTKPREEQYNSTYRWSVLTVLHQDWLNGKEYKCKVSNKAL PAPIEKTI SKAKGQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPP VLDSDGSFFL YSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLSPGK (SEQ ID NO:48)

Light Chain of ANTIBODY 106-222:

DIQMTQSPSSLSASVGDRVTITCKASQDVSTAVAWYQQKPGKAPKLLIYSASYLYTGVPS RFSG SGSGTDFTFTISSLQPEDIATYYCQQHYSTPRTFGQGTKLEIKRTVAAPSVFIFPPSDEQ LKSGTASWCLL NNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEV THQGLSSPV TKSFNRGEC (SEQ ID NO:49)

Heavy Chain Variable Region of ANTIBODY 106-222:

QVQLVQSGSELKKPGASVKVSCKASGYTFTDYSMHWVRQAPGQGLKWMGWINTETGEPTY A DDFKGRFVFSLDTSVSTAYLQISSLKAEDTAVYYCANPYYDYVSYYAMDYWGQGTTVTVS S (SEQ ID NO:5)

Light Chain Variable Region of ANTIBODY 106-222:

DIQMTQSPSSLSASVGDRVTITCKASQDVSTAVAWYQQKPGKAPKLLIYSASYLYTGVPS RFSG SGSGTDFTFTISSLQPEDIATYYCQQHYSTPRTFGQGTKLEIK (SEQ ID NO:l l)

CDR sequences of ANTIBODY 106-222:

HC CDR1 : Asp Tyr Ser Met His (SEQ ID NO: l)

HC CDR2: Trp He Asn Thr Glu Thr Gly Glu Pro Thr Tyr Ala Asp Asp Phe Lys Gly (SEQ ID NO:2)

HC CDR3 : Pro Tyr Tyr Asp Tyr Val Ser Tyr Tyr Ala Met Asp Tyr (SEQ ID NO:3)

LC CDR1 : Lys Ala Ser Gin Asp Val Ser Thr Ala Val Ala (SEQ ID NO:7)

LC CDR2 : Ser Ala Ser Tyr Leu Tyr Thr (SEQ ID NO:8)

LC CDR3: Gin Gin His Tyr Ser Thr Pro Arg Thr (SEQ ID NO:9)

For nucleotide and amino acid sequences, the term "identical" or "identity" indicates the degree of identity between two nucleic acid or two amino acid sequences when optimally aligned and compared with appropriate insertions or deletions. The percent sequence identity between two sequences is a function of the number of identical positions shared by the sequences (i.e., % identity = number of identical positions/total number of positions multiplied by 100), taking into account the number of gaps, and the length of each gap, which need to be introduced for optimal alignment of the two sequences. The comparison of sequences and determination of percent identity between two sequences can be accomplished using a mathematical algorithm, as described below.

Percent identity between a query nucleic acid sequence and a subject nucleic acid sequence is the "Identities" value, expressed as a percentage, which is calculated by the BLASTN algorithm when a subject nucleic acid sequence has 100% query coverage with a query nucleic acid sequence after a pair-wise BLASTN alignment is performed. Such pair-wise BLASTN alignments between a query nucleic acid sequence and a subject nucleic acid sequence are performed by using the default settings of the BLASTN algorithm available on the National Center for Biotechnology Institute's website with the filter for low complexity regions turned off. Importantly, a query nucleic acid sequence may be described by a nucleic acid sequence identified in one or more claims herein.

Percent identity between a query amino acid sequence and a subject amino acid sequence is the "Identities" value, expressed as a percentage, which is calculated by the BLASTP algorithm when a subject amino acid sequence has 100% query coverage with a query amino acid sequence after a pair-wise BLASTP alignment is performed. Such pair-wise BLASTP alignments between a query amino acid sequence and a subject amino acid sequence are performed by using the default settings of the BLASTP algorithm available on the National Center for Biotechnology Institute's website with the filter for low complexity regions turned off. Importantly, a query amino acid sequence may be described by an amino acid sequence identified in one or more claims herein.

In any embodiment herein, the ABP may have any one or all CDRs, VH, VL, heavy chain (HC), light chain (LC), with 99, 98, 97, 96, 95, 94, 93, 92, 91, or 90, or 85, or 80, or 75, or 70 percent identity to the sequence shown or referenced, e.g., as defined by a SEQ ID NO disclosed herein.

With respect to an antibody, the percent identity can be over the entire VL or LC sequence, or the percent identity can be confined to the non-CDR regions (e.g., framework regions) while the sequences that correspond to CDRs have 100% identity to the disclosed CDRs within the VL or LC.

With respect to an antibody, the percent identity can be over the entire VH or HC sequence, or the percent identity can be confined to the non-CDR regions (e.g., framework regions) while the sequences that correspond to CDRs have 100% identity to the disclosed CDRs within the VH or HC. Host cell proteins

"Impurity" refers to any foreign or undesirable molecule that is present in the load sample prior to superantigen chromatography or following superantigen chromatography in the eluate. There may be "process impurities" present. These are impurities that are present as a result of the process in which the protein (polypeptide) of interest is produced. For example, these include host cell protein (HCP), RNA, and DNA. "HCP" refers to a protein, not related to the protein of interest (e.g., recombinant polypeptide), produced by the host cell during cell culture or fermentation, including an intracellular and/or secreted protein. An example of a host cell protein is a protease, which can cause damage to the protein of interest if still present during and after purification. For example, if a protease remains in the sample comprising the protein of interest, it can create product-related substances or impurities which were not originally present. The presence of proteases can cause decay, e.g., fragmentation, of the protein of interest over time during the purification process, and/or in the final formulation.

In one embodiment, the host cell proteins are produced/derived from a mammalian cell or a bacterial cell, e.g., in which the protein of interest is produced/expressed. In a further embodiment, the mammalian cell is selected from a human or rodent (such as a hamster or mouse) cell. In a further embodiment, the mammalian cell is a human cell and the human cell is a HEK cell. In a further embodiment, the mammalian cell is a hamster cell and the hamster cell is a CFIO cell. In a further embodiment, the mammalian cell is a mouse cell and the mouse cell is a NS0 cell.

In certain embodiments, the host cell is selected from the group consisting of: CFIO cells, NS0 cells, Sp2/0 cells, COS cells, K562 cells, BFHK cells, PER.C6 cells, and FHEK cells {i.e., the host cell proteins are derived from these host cells). Alternatively, the host cell may be a bacterial cell selected from the group consisting of E co/i { for example, W3110, BL21), B. subtiHs and/or other suitable bacteria; or a eukaryotic cell, such as a fungal or yeast cell e.g., Pichia pastoris, Aspergillus sp., Saccharomyces cerevisiae, Schizosaccharomyces pombe, Neurospora crassa ).

The "solution" may be a cell culture medium, for example a cell culture feedstream. The feedstream may be filtered. The solution may be a Clarified Unprocessed Broth (CUB) (or clarified fermentation broth/supernatant). The CUB is also known as a cell culture supernatant with any cells and/or cellular debris removed by clarification. The solution may be a lysed preparation of cells expressing the protein {e.g., solution is a lysate).

Process impurities also include components used to grow the cells or to ensure expression of the protein of interest, for example, solvents {e.g., methanol used to culture yeast cells), antibiotics, methotrexate (MTX), media components, flocculants, etc. Also included are molecules that are part of the superantigen solid phase that leach into the sample during prior steps, for example, Protein A, Protein G, or Protein L. Impurities also include "product-related variants" which include proteins that retain their activity but are different in their structure, and proteins that have lost their activity because of their difference in structure. These product-related variants include, for example, high molecular weight species (HMWs), low molecular weight species (LMWs), aggregated proteins, prescursors, degraded proteins, misfolded proteins, underdisulfide-bonded proteins, fragments, and deamidated species.

The presence of any one of these impurities in the eluate can be measured to establish whether the wash step has been successful. For example, Applicants have shown a reduction in the level of HCP, expressed as ng HCP per mg product (see the Examples). Alternatively, the HCP detected can be expressed as "parts per million" or "ppm", which is equivalent to ng/mg, or "ppb" ("parts per billion"), which is equivalent to pg/mg.

In one embodiment, after step (c) the amount of HCP is less than about 200 ng HCP/mg product ( i.e ., ng/mg); less than about 150 ng/mg; less than about 100 ng/mg; less than about 50 ng/mg; or less than about 20 ng/mg. This refers to the total amount of host cell proteins (e.g., not necessarily of one particular HCP), e.g., as measured by ELISA, OCTET, or other methods to determine the level of one or more of the impurities, e.g., by non-specific ELISA for total HCP, e.g., as provided in the Examples.

A reduction may also be shown when compared to a control wash step without arginine and/or an aliphatic carboxylate (for example, caprylate), and/or when compared to the solution e.g., clarified unprocessed broth) prior to purification.

In one embodiment, after step (c) the relative reduction factor of HCP -compared to a previously published 100 mM caprylate wash {e.g., see W02014/141150) - is about 2-fold to about 50-fold. Therefore, in one embodiment, after step (c) the relative reduction factor of HCP compared to a wash buffer consisting essentially of 100 mM caprylate is about 2-fold to about 50-fold. In a further embodiment, the relative reduction factor is at least about 2-fold, 5-fold, 10-fold, 15-fold, 20-fold, 25-fold, 30-fold, 35-fold, 40-fold, 45-fold or 50-fold. For the avoidance of doubt, reference to "a wash buffer consisting essentially of 100 mM caprylate" does not exclude the presence of additional components that do not materially affect the basic characteristics of the 100 mM caprylate wash, e.g., buffering salts and/or sodium acetate.

In one embodiment, the recovery of the protein of interest from the eluate is 100%, 99%, 98%, 97%, 96%, 95%, 90%, 85%, 80%, 70%, 60%, 50% or less, including any discrete value within the range of 100% to 50% or any sub-range defined by any pair of discrete values within this range, following the wash step of the invention. In one embodiment, the recovery of the protein of interest from the eluate is more than 70%, such as more than 75%, 80%, 85%, 90% 95% or 99%. Percent (%) recovery in the eluate is calculated by determining the amount of protein of interest in the eluate as a percentage of the amount of protein of interest applied to the column according to the following formula: Percentage Recovery = Amount of product in the eluate ÷ amount of product applied to the column X 100

The amount of impurities (i.e., total amount of host cell proteins) present in the eluate may be determined by ELISA, OCTET, or other methods to determine the level of one or more of the impurities described above. In the Examples described herein, an ELISA method is used to determine the level of total HCP in a sample.

Cathepsin L (also referred to as cathepsin LI) protease is produced during CHO cell culture and it can potentially degrade antibodies, such as an anti-OX40 IgGl antibody (also referred to as mAb3 herein) product molecule (see Examples). Therefore, in one embodiment, the recombinant polypeptide is an antibody, such as an IgG antibody, in particular an IgGl antibody.

In one embodiment, the host cell protein is cathepsin L. In one embodiment, the purification of the recombinant polypeptide from cathepsin L can be measured by a reduced cathepsin L activity (for example with PromoKine PK-CA577-K142) in the eluate of step (c).

In one embodiment, by using a wash buffer that contains caprylate plus arginine in step (b), cathepsin L activity in the eluate of step (c) is reduced about 2.5-, about 5-, or about 10-fold as compared to the cathepsin L activity when a wash buffer that contains caprylate (e.g., 100 mM caprylate) (and no arginine) is used in step (b), e.g., as measured by a method described herein, for example with PromoKine PK-CA577-K142.

In one embodiment, the purification of the recombinant polypeptide from cathepsin L can be measured by a reduced cathepsin L activity (for example with PromoKine PK-CA577- K142) in the eluate after a polishing step (e.g., a cation exchange chromatography (CEX) polishing step) that is performed after step (c). In some embodiments, by using a wash buffer that contains caprylate plus arginine in step (b), cathepsin L activity is reduced about 2.5-, about 5-, or about 10-fold in the eluate after the polishing step (e.g., CEX) performed after step (c), as compared to the cathepsin L activity after the polishing step (e.g., CEX) performed after step (c) when a wash buffer that contains caprylate (e.g., 100 mM caprylate) (and no arginine) is used in step (b), e.g., as measured by a method described herein, for example with PromoKine PK-CA577-K142.

In one aspect of the invention, there is provided a method of purifying a recombinant polypeptide (e.g., a recombinant polypeptide that contains a cleavage site for cathepsin L, such as DKTHTCPP (SEQ ID NO:50)) from cathepsin L, the method comprising: (a) applying a solution comprising the recombinant polypeptide and cathepsin L to a superantigen chromatography solid support, (b) washing the superantigen chromatography solid support with a wash buffer comprising about 150 mM to about 850 mM caprylate; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support. In another aspect of the invention, there is provided a method of purifying a recombinant polypeptide (e.g., a recombinant polypeptide that contains a cleavage site for cathepsin L, such as DKTHTCPP (SEQ ID NO:50)) from cathepsin L, the method comprising : (a) applying a solution comprising the recombinant polypeptide and cathepsin L to a superantigen chromatography solid support, (b) washing the superantigen chromatography solid support with a wash buffer comprising about 55 mM to about 850 mM caprylate and about 0.25 M to about 1.5 M arginine; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support.

In another aspect of the invention, there is provided a method of purifying a recombinant polypeptide (e.g., a recombinant polypeptide that contains a cleavage site for cathepsin L, such as DKTHTCPP (SEQ ID NO:50)) from cathepsin L, the method comprising : (a) applying a solution comprising the recombinant polypeptide and cathepsin L to a superantigen chromatography solid support, (b) washing the superantigen chromatography solid support with a wash buffer comprising about 150 mM caprylate and about 1.1 M arginine; and (c) eluting the recombinant polypeptide from the superantigen chromatography solid support.

In one aspect of the invention, there is provided a purified recombinant polypeptide (e.g., a recombinant polypeptide that contains a cleavage site for cathepsin L, such as DKTHTCPP (SEQ ID NO:50)) obtained by any one of the purification methods defined herein.

Polysorbate degradation

Polysorbates, such as polysorbate 20 and polysorbate 80 are non-ionic surfactants widely used to stabilize protein pharmaceuticals in the final formulation product. Polysorbates can be degraded by residual enzymes in the pharmaceutical product, which may impact the ultimate shelf-life of the product. Without being bound by theory, the methods described herein reduce the amount of degraded polysorbate by reducing the amount of residual host cell proteins in the final product. In one embodiment, the amount of degraded polysorbate is less than about 50%, about 40%, about 30%, about 20%, about 10%, about 5%, about 4%, about 3%, about 2%, or about 1%.

Cathepsin L cleavage site

An amino acid sequence recognized and cleaved by cathepsin L is: DKTH/TCPP (SEQ ID NO:50) (with "/" indicating the site of cleavage).

The methods provided herein are useful in the purification of recombinant polypeptides that contain a cleavage site for cathepsin L, such as DKTHTCPP (SEQ ID NO: 50).

A cleavage site for cathepsin L (DKTHTCPP (SEQ ID NO: 50)) is present in IgGl antibodies, e.g., in the hinge region of IgGl antibodies. The methods provided herein are useful in the purification of an antibody (e.g., an IgGl antibody) that contains this cleavage site and/or contains an IgGl hinge region, and/or the purification of an antibody fragment that contains this cleavage site and/or contains an IgGl hinge region. The methods provided herein are useful in the purification of an antigen binding polypeptide (ABP) that contains this cleavage site and/or contains an IgGl hinge region.

A cleavage site for cathepsin L (DKTHTCPP (SEQ ID NO: 50)) is present in certain anti- 0X40 antibodies (e.g., IgGl antibodies) , e.g., in the hinge region of anti-OX40 IgGl antibodies. The methods provided herein are useful in the purification of an anti-OX40 antibody (e.g., IgGl antibody) that may contain a cathepsin L cleavage site and/or contain an IgGl hinge region, and/or the purification of an anti-OX40 antibody fragment that may contain a cathepsin L cleavage site and/or contain an IgGl hinge region. Examples of anti-OX40 IgGl antibodies are provided herein.

A cleavage site for cathepsin L (DKTHTCPP (SEQ ID NO:50)) may be present in an antibody fragment (e.g., modified antibody fragments), an Fc containing polypeptide, a fusion protein, and/or in a linker introduced into a polypeptide, e.g., a linker introduced into a fusion protein. See e.g., PCI ^" published application no. WO 2007/062037; published patent application no. EP 3194585; US2007-0059301; US 2007-0014802; US 2012-0207753; US 2013-0202596; and US 2016-0146806. The methods provided herein are useful in the purification of such a polypeptide, and/or the purification of such a polypeptide that contains cleavage site for cathepsin L (such as DKTHTCPP (SEQ ID NO:50)).

The invention will now be described with reference to the following, non-limiting examples.

Examples

EXAMPLE 1: Screening and optimization of pH and sodium caprylate concentration in Protein A wash

Introduction

In the work described herein, the Protein A wash was optimized to achieve sufficient HCP removal with a two-column process (Protein A followed by anion exchange) or three- column process (Protein A followed by anion exchange and cation exchange) for mAb products. Existing platform processes frequently require a second polishing step to achieve the required HCP level. The strategy for wash optimization was to improve HCP clearance by disrupting HCP- mAb interactions. Various wash additives and wash pHs were screened and then optimized for total HCP removal across the Protein A process. Materials and Methods

Sodium n-octanoate, glacial acetic acid, sodium acetate, sodium hydroxide, benzyl alcohol and trizma base were purchased from Sigma-Aldrich Chemical Co. (St. Louis, MO). Solutions were made using water which was further purified using a Millipore Milli-Q® system. Any pH adjustment was done using either 3 M tris base or 3 M acetic acid.

Chinese Hamster Ovary (CHO) Cell Culture for mAb Production

Clarified unfiltered broth (CUB) contained one of several GSK mAb products such as mAbl (IgGl, pi = 8.7, MW = 149 kDa), mAb2 (IgGl, pi = 8.3, MW = 149 kDa), mAb3 (IgGl, pi = 7.9, MW = 149 kDa), mAb4 (IgGl, pi = 8.6, MW = 148 kDa), or mAb5 (IgG4, pi = 7.1, MW = 145 kDa). Similar methods were used to produce and harvest all mAbs used in this study. For example, to prepare mAb3, the antibody is prepared by seeding the production bioreactor with the mAb expressing GS-CHO cell-line at a target initial viable cell density of 0.7 x 10 ^L 6 cells/mL and viability >95%. The production process is operated as a batch culture for up to 17 days. The production culture is controlled at 37°C and pH 6.95 target set-point, and fed glucose as required to maintain glucose concentration > 2 g/L. At the end of the production process, the mAb containing cell culture is clarified through depth filtration followed by 0.2 pM sterile filtration. For example, mAbl was prepared by seeding 2 liter reactors with mAbl- expressing DG44 cells at a viable cell count of 1.23-1.24 MM/mL and a viability of ~93.8%. The culture was then maintained at ~34°C, pH ~6.9, and 6 g/L of glucose for 16 days. The agitation rate was maintained at ~300 rpm. Following culturing, the unclarified cell and mAb containing culture fluid was batch-centrifuged at 10,000g for 20 minutes. The culture fluid was then vacuum-filtered through a 0.45 pM and a 0.2 pM SFCA filter from Nalgene.

Protein A Purification

MabSelect SuRe™ (MSS) Protein A resin from GE Healthcare was packed in a 0.5 cm diameter column to a final bed height of 25 cm. The resin was flow-packed, after gravity settling, in 0.4 M NaCI at a linear flowrate of 475 cm/hr for 2 hours using an AKTA Avant 25. The packing quality was assessed with a 100 pL injection of 2M NaCI to confirm the asymmetry was 1.0 +/- 0.2 and at least 1000 plates per meter. All Protein A experiments used a load ratio of 35 mg mAb/mL resin and all process flow rates were equivalent to a linear velocity of 300 cm/hr. The Protein A chromatography method and buffers are described in Table 2. CV= column volume. Table 2: Operating Conditions for Protein A Chromatography (W02014/141150).

Wash Optimization

Previous studies have shown that many difficult-to-remove HCP impurities are directly associated with mAbs (Levy etal, (2014) Biotechnoi. Bioeng. 111(5):904-912; Aboulaich etal, (2014) Biotechnoi. Prog. 30(5): 1114-1124); solution conditions that disrupt the HCP-mAb interactions are likely to provide improved HCP clearance during the Protein A wash step and in this work various wash solutions were screened and optimized for this purpose. Specifically, wash solutions containing different concentrations of sodium caprylate at varying pH were used following sample load to clear HCP from the Protein A-adsorbed mAb prior to elution. In order to evaluate and quantify each wash's effectiveness of HCP removal, an in-house HCP ELISA was developed as described in the ELISA methods section below. Sodium caprylate was previously found to provide robust HCP clearance when used in a Protein A wash. However, previous studies were limited to sodium caprylate concentrations below 100 mM and pH 7.5; an initial scoping study was followed by a spherical central composite design study to characterize the behavior of sodium caprylate Protein A washes across ranges of concentration and pH. These designs are shown in Tables 3 and 4 below. Statistical modeling was completed according to the statistical analysis methods section below. Analysis

Protein A Yield

Protein A yield was determined by measuring mAb concentration in the eluate using a Nanodrop 2000c (Thermo Scientific). Three Nanodrop readings for each eluate sample were averaged to determine protein concentration; total mAb content in the Protein A eluate was calculated by multiplying mAb concentration by eluate volume (determined from chromatogram). The mAb concentration in the load was determined using a POROS® A 20 pM Column on an Agilent 1100 series HPLC. The raw data for each CUB sample on analytical Protein A was compared to a standard with known concentration for each particular mAb to calculate a titer. Total load volume was multiplied by the measured titer to calculate a total mass of mAb loaded, and yield was calculated by dividing total mAb in eluate by total mAb in the load.

Host Cell Protein (HCP) Concentration Measurement: HCP ELISA

Host cell protein analysis using HCP ELISA was developed in-house to quantify the total amount of immunogenic HCP in CHO-derived product samples (Mihara etal, (2015) J. Pharm. Sci. 104: 3991-3996). This HCP ELISA was developed using custom goat anti-CHO HCP polyclonal antibodies and an in-house produced HCP reference standard for multi-product use across CHO-derived products.

Statistical Analysis

To analyze wash performance in terms of HCP clearance and yield, a scoping experiment and central composite design study were performed. The factors were both scaled to the -1, 1 unit scale and a general linear model was fitted to the data. A separate model was fit to each response. Once the final model was selected, model assumptions on the residual were assessed and a transformation was performed as appropriate. All model terms were assessed against a 5% significance level and backwards elimination was performed, starting with the full model, including all quadratic factor terms.

MabSeiect SuRe Equilibrium Isotherm Measurement

MabSelect SuRe™ resin was buffer exchanged into DI water to generate a ~50% slurry. The slurry was added to a ResiQuot, dried with a house vacuum line, and 20.8 pL resin plugs were dispensed into a 96-deep well plate. In a separate 96-well plate, protein solutions were generated between 0 and 10 mg/mL with 100, 250 and 500 mM sodium caprylate. The protein concentration was measured for each solution followed by the addition of 1 mL to each resin plug. The resin-protein mixture was equilibrated overnight with agitation. The resin was removed by filtration directly into a UV 96-well plate, and the final concentration was measured. Adsorbed protein concentration, q, was calculated with the following equation:

Results and Discussion

The results presented in this section demonstrate that a high concentration of sodium caprylate (>100 mM) removes significantly more host cell protein (HCP) during Protein A chromatography than previously published sodium caprylate-based Protein A wash buffers. This was demonstrated using several mAbs with relatively high HCP levels as a model and was confirmed by statistical experimental design; the CUB (Protein A load) for the mAbs tested had HCP concentrations between 10 ⁶ and 10 ⁷ ng/mg.

The primary goal of this work was to assess the impact of sodium caprylate concentration and pH of the wash buffer on HCP clearance across the Protein A chromatography step. The main objectives were two-fold. The first was to understand the impact on HCP across the full working range of sodium caprylate concentration and pH. A scoping design was used to explore the entire range of both parameters (Table 3); the maximum sodium caprylate concentration was 1 M, and the pH range was 7-9. The second objective was to optimize sodium caprylate concentration and pH for HCP clearance, while maintaining acceptable step yield. A spherical Central Composite Design (CCD, Table 4) was used for this optimization. Both the scoping and CCD studies used mAbl as a model mAb. The findings from these initial studies were tested on additional mAbs. The results from both the scoping and the CCD are presented below.

Table 3: Scoping study design to explore sodium caprylate concentrations up to 1 M and pH from 7.0 to 9.0 in the Protein A wash.

Table 4: Spherical central composite experimental design to optimize the sodium caprylate concentration and pH in the Protein A wash.

The results obtained from the CCD study are presented in Table 5. Overall, the pH of the Protein A wash buffer had minimal impact on HCP clearance. Washes containing 500 mM or 750 mM sodium caprylate had nearly identical HCP levels across the entire pH range tested. Statistical Analysis was performed as described in the Methods section. Briefly, separate models were fit to each response (yield and HCP), and the model terms were assessed against 5% significance using an F-test. The F-test confirmed that the wash pH did not have a statistically significant effect on HCP concentration. Similar analysis also confirmed that pH was not a significant factor for percent yield.

Table 5: Results of central composite design for sodium caprylate concentration and pH of Protein A wash solutions (tested with mAbl).

Statistical analysis of CCD results confirmed that sodium caprylate concentration is a significant factor - with both linear and quadratic terms - for both HCP clearance and percent yield. HCP concentration (ng/mg) was reduced by two orders of magnitude when sodium caprylate concentration was increased from 0 to 1 M (Figure 1 - Percent yield (triangles,▲) and HCP concentration (squares,■)). However, as sodium caprylate concentration increases beyond 250 mM, yield drops from above 90% to 70% (Figure 1). This large decrease in step yield above 250 mM sodium caprylate could be due to the formation of caprylate micelles. The caprylate critical micelle concentration (CMC) in the Protein A wash buffer was experimentally determined to be 340 mM. When the concentration of sodium caprylate was increased from 250 mM to 500 mM there was a 15% decrease in yield and only a 2.8% decrease in HCP. This may indicate that the free form of sodium caprylate is the active form for HCP removal, while any concentration above the CMC shows diminishing returns because the caprylate micelles cause yield loss.

EXAMPLE 2: Investigation of yield loss and potential mitigation strategies

The decrease in percent yield above the CMC suggests that caprylate micelles - rather than the free form of caprylate - could reduce yield across the Protein A step. To determine the nature of the yield loss, mAb concentration was measured in the eluate, strip, and wash fractions for Protein A processes with varying sodium caprylate washes (Figure 2). This result demonstrates that the yield loss at high sodium caprylate concentration was due to desorption during the wash step.

To further characterize the yield loss during high sodium caprylate washes, equilibrium binding isotherms were measured to determine the mAb capacity loss at high sodium caprylate concentrations (Figure 3). The previously published caprylate wash - containing 100 mM sodium caprylate - had a maximum binding capacity of 57 g/L when fit with the Langmuir isotherm. The adsorption isotherm was similar at 250 mM sodium caprylate, but at 500 mM sodium caprylate the Langmuir isotherm was a poor fit. This result confirms that high concentration sodium caprylate washes decrease the binding capacity of the Protein A resin and cause a yield loss.

After determining the source of yield loss, methods for reducing yield loss were investigated. The two strategies that were investigated were decreased wash volume and decreased load ratio. The 250 mM sodium caprylate wash was tested at 4, 6, and 8 CVs. Decreasing the wash length from 8 to 4 CVs only provided a 2% increase in yield (Table 6), and the HCP concentration only increased from 31.0 to 35.8 ng/mg. This indicated that high sodium caprylate washes can achieve acceptable HCP levels with smaller volumes than tested during initial scoping and CCD studies, and it also demonstrated that smaller wash volumes do not compensate for decreased binding capacity with high sodium caprylate concentrations. Table 6: HCP concentration and Protein A step yield for different volumes of a 250 mM sodium caprylate wash using mAbl as a model.

Decreased load ratio during Protein A capture was also investigated as a mitigation for yield loss during high concentration sodium caprylate washes (Table 7). When the load ratio was decreased from 30 mg/ml to 10 mg/ml, yield increased by 4.7% and 7.7% for 250 mM and 500 mM sodium caprylate washes, respectively. Load ratio had minimal impact on HCP concentration in the Protein A eluate.

Table 7: HCP concentration and Protein A step yield for varying Protein A load ratios with both 250 mM and 500 mM sodium caprylate washes using mAbl as a model.

EXAMPLE 3: Performance of improved wash with additional mAbs

The preceding Protein A wash optimization studies were completed using only mAbl as the model product. The CCD study confirmed that pH was not a significant factor for HCP removal. The statistical analysis and subsequent yield investigations indicated that sodium caprylate concentration was optimal up to 400 mM. To confirm the improved HCP removal of the 250 mM sodium caprylate wash over the previously developed 100 mM sodium caprylate wash, additional mAbs were studied in this section. The HCP concentration in the Protein A eluate for five mAbs was compared for washes containing either 100 or 250 mM sodium caprylate (Figure 4). One mAb (mAb3) was sourced from two separate upstream processes: a high-cell density process with higher levels of HCP and a standard process that is comparable to the other molecules studied.

With the exception of mAb2, all mAbs tested here had less than 100 ng/mg HCP in the Protein A eluate when using the 250 mM sodium caprylate wash. In most cases, the HCP concentration was improved by approximately an order of magnitude simply by increasing sodium caprylate concentration in the wash. Additionally, these mAbs had acceptable step yield and product quality with the elevated sodium caprylate concentration.

EXAMPLE 4: Addition of arginine to sodium caprylate- based Protein A washes

Arginine - an amino acid - has very different physical and chemical properties compared to sodium caprylate, a fatty acid. It was hypothesized that the structural differences between these two additives could lead to orthogonal HCP removal mechanisms, i.e., mixtures of arginine and caprylate could have better HCP removal than a wash containing only a single component. The following studies were completed to assess both the total HCP removal and specific HCP removal for caprylate/arginine mixtures.

Total HCP clearance with caprylate/arginine Protein A wash buffer

Protein A wash buffers containing combinations of sodium caprylate and arginine were tested with mAbl and mAb2. The results for mAb2 are presented in Figure 5. Protein A wash buffers containing only 100 mM sodium caprylate or 750 mM arginine resulted in HCP concentrations between 700 and 1300 ng/mg. Increasing the sodium caprylate concentration to 250 mM resulted in a large improvement for HCP clearance - consistent with "high sodium caprylate" results discussed hereinbefore. A wash containing 250 mM sodium caprylate at pH 8.5 resulted in 273 ng/mg HCP in the Protein A eluate. The addition of arginine to the caprylate- based Protein A wash further improved the HCP removal: 250 mM sodium caprylate with 750 mM arginine at either pH 7.5 or 8.5 resulted in HCP concentrations of 209 and 144 ng/mg, respectively.

A similar caprylate/arginine study was completed with mAbl. mAbl was sourced from two separate upstream processes: a "standard" fed-batch bioreactor and high cell density process. The high cell density process resulted in higher product titers and HCP concentration. It was included in this study as a "worst case" feed material. The results are presented in

Figure 6.

Overall, the mAbl results are similar to the mAb2 findings presented in Figure 5. For both the standard mAbl feed stream and the high density material, there was improved HCP clearance by increasing sodium caprylate from 100 to 250 mM. Additionally, 500 mM arginine had better HCP clearance than either sodium caprylate-only wash. However, washing with both sodium caprylate and arginine - either as a mixture or by applying sequential washes - showed improved HCP clearance over either component individually. The best performance was a wash containing 250 mM sodium caprylate and 750 mM arginine at pH 8.5. This combination of high sodium caprylate and arginine produced Protein A eluates of 113 and 67 ng/mg for high density and standard mAbl, respectively.

EXAMPLE 5: Caprylate/arginine wash for Cathepsin L activity reduction

Protein A washes containing sodium caprylate and arginine were tested with mAb3 for cathepsin L clearance capability. Cathepsin L protease is produced during CHO cell culture and it can potentially degrade the mAb3 product molecule. It has been demonstrated that cathepsin L is not removed from mAb3 during the Protein A process. Washes containing 100 mM sodium caprylate, 250 mM sodium caprylate, 100 mM sodium caprylate with 1000 mM arginine, and 100 mM sodium caprylate with 750 mM lysine were tested.

Washes containing 250 mM sodium caprylate for this specific product resulted in unexpected Protein A elution behavior: the low pH elution - normally completed in ~2 column volumes - was extended over 10 column volumes. Additionally, the mAb3 protein A eluate had very high aggregate (measured by SEC) when the 250 mM sodium caprylate wash was tested. This behavior was not observed with any other products tested with high sodium caprylate washes.

Protein A washes containing arginine or lysine did not have the extended elution behavior that was observed with the 250 mM sodium caprylate alone. Cathepsin L activities measured in the Protein A eluates for three different washes (100 mM caprylate ("platform msss eluate"); 250 mM caprylate, 1M arginine ("cap/arg msss eluate"); 250 mM caprylate, 750 mM lysine ("cap/lys msss eluate")) are reported in Figure 7; the Protein A elution volumes are listed in Table 8. The measured activity was significantly decreased with the 100 mM sodium caprylate, 1000 mM arginine wash, and a subsequent stability study demonstrated that fragmentation was decreased for material prepared using this wash compared with the 100 mM sodium caprylate wash. The addition of 750 mM lysine, rather than arginine, successfully decreased the large elution volume, but did not significantly decrease cathepsin L activity. The combination of sodium caprylate and 1000 mM arginine provides improved cathepsin L and total HCP clearance while maintaining a reasonable elution volume and acceptable product quality attributes. Table 8: Protein A eluate volume for mAb3 with different wash solutions.

Example 6: Caprylate/Arginine Protein A wash to remove HCP

Protein A washes containing sodium caprylate and arginine were tested with mAt>3 for HCP clearance capability. The wash buffer concentrations and resulting HCP concentrations are outlined in Table 9 below. The arginine/caprylate wash was compared to caprylate-only washes for mAb3.

The 150 mM caprylate wash provides significantly higher HCP clearance than the 100 mM caprylate wash. The combination of 1.1 M arginine and 150 mM caprylate further improves HCP clearance by a significant factor. The improved clearance of HCP during the Protein A step enabled the removal of the final polishing chromatography step that was required in the caprylate-only process.

Table 9

Example 7: Decrease in mAb3 fragmentation

Protein A purification of mAb3 with washes containing sodium caprylate and arginine were tested for antibody fragmentation during purification. Data (Figures 8-10) were generated including 3 batches of wash buffer containing 100 mM caprylate wash, and 2 batches of wash buffer containing 150 mM caprylate plus 1.1 M arginine.

Figure 8 shows percent antibody fragmentation (measured with SEC HPLC) throughout the entire downstream process. Figure 9 demonstrates HCP concentration through the process. The caprylate/arginine batches have no significant antibody fragmentation formation during the process, whereas the caprylate-only batches have significant antibody fragmentation generation after the third polishing step, a bind-and-elute cation-exchange chromatography (CEX) step (not required with caprylate/arginine wash).

In addition, the stability of Bulk Drug Substance produced by both processes (caprylate- only and caprylate +arginine) was compared. Bulk drug substance from the caprylate+arginine process did not generate antibody fragmentation within 10 days at 25 degrees Celsius; Bulk Drug Substance from the caprylate-only process generates significant antibody fragmentation during the 10 days at 25 degrees Celsius (Figure 10).

The combination of caprylate and arginine in the wash buffer significantly decreases the generation of antibody fragmentation throughout the downstream process due to improved clearance of cathepsin L.

Example 8: mAb3 (anti-OX40) Protein A wash robustness study

MAb3 is ANTIBODY 106-222.

The Protein A wash buffer for mAb3 contains 150 mM sodium caprylate and 1.1 M arginine at pH 7.5. For the results provided in this example, the wash buffer also contained 300 mM sodium acetate. (In subsequent purifications, sodium acetate was not included in the wash buffer). This wash buffer was optimized to provide maximum HCP clearance and to remove cathepsin L.

If present, cathepsin L, an HCP impurity, causes fragmentation of mAb3 following polishing step 2 (bind-and-elute CEX chromatography); polishing step 1 involves anion exchange chromatography. A 2-factor full factorial DOE with 3 center points was completed to demonstrate the performance of the caprylate-arginine wash across a range of caprylate and arginine concentrations.

The HCP concentration measured in each Protein A eluate, and the post-CEX SEC %Fragment, is presented in Table 10 below. Statistical analysis concluded that caprylate concentration, arginine concentration, and caprylate*arginine concentration all have statistically significant effects (p-value < 0.05) on HCP concentration. In the range tested, caprylate concentration is negatively correlated with HCP concentration; both arginine and arginine*caprylate are positively correlated with HCP concentration.

In the range tested, caprylate and arginine concentrations have no statistically significant effect on post-CEX SEC %Fragment. The results indicate that all washes tested removed cathepsin L to acceptable levels for the mAb3 process. Table 10

Example 9: Cathepsin L activity after a CEX polishing step

An additional study was completed to measure the cathepsin L activity after the CEX polishing step. In this study, mAt>3 was purified using Protein A affinity chromatography with three different wash buffers: (1) 100 mM sodium caprylate, (2) 1.1M arginine, 150 mM sodium caprylate, 300 mM sodium acetate, and (3) 1.1M arginine, 150 mM sodium caprylate. After Protein A purification, mAb3 was further purified by bind-and-elute cation exchange chromatography (CEX). Cathepsin L activity was measured in the CEX eluate. All three Protein A wash buffers were tested using small scale Protein A purifications, and the buffer containing arginine, caprylate, and sodium acetate was also tested with a large-scale process.

The cathepsin L activity of the CEX eluates is summarized in Figure 11. The caprylate/arginine Protein A wash (with or without sodium acetate), at small or large scale, reduces post-CEX Cathepsin L activity by 4-5 fold compared to the 100 mM sodium caprylate wash. As demonstrated in Figure 10, this reduced activity leads to reduced fragmentation of mAb3 and an increased shelf life stability of drug substance.

Conclusions

The HCP clearance across the Protein A step was optimized by modifying the wash buffer to minimize HCP-mAb interactions. Initial screening studies concluded that pH of the Protein A wash buffer - varied from 7 to 9 - does not significantly impact HCP clearance or step yield. Sodium caprylate concentration has a strong effect on both step yield and HCP removal. At very high sodium caprylate concentrations (above the CMC) the HCP clearance is optimal, but step yield is very low. This study found that utilizing a Protein A wash containing 250 mM sodium caprylate offers a large improvement of HCP clearance compared to previously used 100 mM sodium caprylate washes, while maintaining an acceptable step yield. This study also found that Protein A washes containing a combination of 250 mM sodium caprylate and 500-1000 mM arginine have greater HCP clearance compared to washes containing only sodium caprylate. Protein A washes containing sodium caprylate and arginine were found to successfully remove cathepsin L from mAt>3.

Example 10: An exemplary Protein A wash buffer

An exemplary protein A wash buffer is as follows:

56.5mM Tris, 45mM Acetic Acid 150mM Sodium Caprylate, 1.1M Arginine, pH 7.5

It will be understood that the embodiments described herein may be applied to all aspects of the invention. Furthermore, all publications, including but not limited to patents and patent applications, cited in this specification are herein incorporated by reference as though fully set forth.