Second-Generation Protein Drugs

Second-Generation Protein Drugs

By Dr Jeffrey C.Way

The first biotech revolution was catalysed in the late 1970s with the development of recombinant DNA technology. This revolution generated numerous billion-dollar protein drugs such as erythropoietin and the interferons.

Now that the patents on these drugs are expiring, will second generation proteins, the children of the biotech revolution, dominate the protein drug market?

The world of protein pharmaceuticals has seen two revolutions. The first began in the mid-1970s with the simultaneous development of recombinant DNA and monoclonal antibody technologies. The second revolution began with genomics, the sequencing of the human genome and the formation of hundreds of biotech companies.

Genomics promises to have a profound impact on the world of marketed drugs, but this impact may be spread over a long timespan. Outside the genomics spotlight, a number of biotech companies are pursuing second-generation protein drugs.

By analogy with second-generation small molecule drugs, this approach may be less risky and more conducive to predictable timelines, with better risk/reward ratios than genomic approaches to finding novel drugs. This article will focus on technologies and companies that enhance existing protein drugs, primarily through the improvement of protein pharmacokinetics and biodistribution.

Like small molecule drugs, proteins can be improved. However, unlike small drugs, strategies for improving proteins can often be generalised to a large number of proteins. As a result, numerous biotech companies have been formed around general, patentable strategies for enhancing protein pharmacokinetics and biodistribution.

Unlike small molecules, proteins are the products of natural selection and their metabolism is often quite well understood. Hence, naturally occurring proteins are usually already optimised for binding to their targets, and improvement of protein pharmacokinetics and distribution is largely a matter of rational drug design.

Figure 1 Therapeutic proteins in vivo are usually either excreted through the kidney into the urine or are degraded by proteases

Increasing serum half-life

Many protein drugs rapidly disappear from the body. Proteins with a molecular weight of less than about 50,000 Daltons are cleared through the kidneys and excreted in the urine. When low-molecular weight cytokines such as interleukin-2 (IL-2), interferon-α (IFNα) and interferon-ß (IFNß) are injected intravenously, these proteins have a serum half-life of about five hours or less. Therapeutic proteins may also be degraded by proteases, either before or after internalisation by cells.

Chemical modification with large, inert groups and fusion to a second protein are two methods to extend a protein’s serum half-life. These modifications increase the effective molecular weight of a therapeutic protein over the renal threshold of 50,000 Daltons. In some genetically engineered fusion proteins, the fusion partner does not simply increase mass, but also actively prevents degradation by proteases.

PEGylation is a well-established strategy for extending the serum half-life of proteins. Polyethylene glycols (PEG) are non-reactive polymers that can be chemically attached to therapeutic proteins. Enzon, Shearwater and Valentis are three companies whose success has been based on PEGylation technology.

Enzon, Inc was one of the first companies to exploit PEGylation technology, developing two niche products: a PEGylated adenosine deaminase (Adagen) for treating the genetic deficiency of adenosine deaminase; and Oncospar, a PEGylated L-asparaginase for treatment of acute lymphoblastic leukemia. These products demonstrated the utility of basic PEGylation technology, leading to Enzon’s relationship with Schering-Plough and the development of PEG-Intron, a PEGylated interferon- α (IFNα).

PEG-Intron has a serum half-life about five times longer than IFNα. This extended serum half-life has enabled Schering-Plough to develop a weekly dosing schedule, in contrast to the three-times-perweek schedule for non-PEGylated IFNα.

Similarly, Shearwater generated Pegasys, using a branched derivative of polyethylene glycol attached to IFNα, and has formed a partnership with Roche to sell this product. PEG-Intron was approved in January 2001, while Pegasys was approved in October 2002 and consequently Schering-Plough has a larger share of the hepatitis C market. The race between the Schering-Plough and Roche products illustrates how improvements in a protein drug are useful to carve out large shares of significant markets.

Products from the first phase of the recombinant DNA/biotech revolution are now going off-patent, so a number of similar confrontations are brewing. For example, the interferon-ß for the multiple sclerosis market currently has three competitors: Betaseron from Berlex, Avonex from Biogen and Rebif from Serono. Betaseron is a form of IFNß made from bacteria, but the Avonex and Rebif products are both made from mammalian cells and are essentially identical. Biogen has investigated a PEGylated version of IFNß (1).

Figure 2 Modification of protein drugs to extend serum half-life

Fusion proteins that extend serum half-life

An alternative strategy to PEGylation is to genetically link a therapeutic protein to a fusion partner to increase its mass beyond the renal threshold. This approach has been used extensively with two fusion partners: serum albumin and the Fc region of immunoglobulin G.

Human serum albumin fusion proteins (2) were developed by Principia Pharmaceuticals, a transient biotech company that was spun out of Centeon and subsequently acquired by Human Genome Sciences (HGS) in a stock swap valued at $120 million. This was a logical move for HGS, which has presumably identified thousands of secreted proteins in the human genome and can now construct albumin fusion proteins.

Interestingly, the most advanced product that HGS has generated with this strategy is a fusion between albumin and IFNα (‘Albuferon’). This speaks to the relative ease of marketing an improved version of an established protein drug, rather than identifying and developing a novel drug through genomics research.

The antibody Fc region has been used to construct fusion proteins with improved properties. Genentech (3) generated X-Fc proteins, in which a therapeutic protein ‘X’ replaces the Fab portion of an antibody, while Lo et al (4) generated Fc-X fusion proteins. Both classes of fusion proteins show extended serum half-lives, but differ in other ways. For example, X-Fc proteins have antibodylike effector properties that can be used to kill cells to which ‘X’ binds (5), but Fc-X proteins do not. Fc- X proteins (‘X’ at the C-terminus of the Fc) are generally produced in mammalian cells at much higher levels than the corresponding X-Fc proteins or X alone.

Enbrel: an X-Fc protein

Tumour necrosis factor (TNF) is a potent inflammatory protein that plays a key role in many inflammatory and autoimmune disorders, such as rheumatoid arthritis and Crohn’s disease. The protein drug Enbrel is an X-Fc fusion between the extracellular domain of the TNF receptor (sTNFR) and an Fc region (Figure 3).

Figure 3 Enbrel, a fusion of hte extracellular region of the TNF receptor to an Fc region

In this case, the Fc region serves two functions: prolonging the sTNFR half-life and also dimerising the sTNF-R. TNF normally binds to at least two TNF receptors, so the dimeric sTNF-R in Enbrel has a higher affinity than a monomeric form. Enbrel is comparable to the anti-TNF antibody Remicade in treating TNFmediated diseases.

Recycling systems for albumin and the antibody Fc region

Albumin and the Fc portion of IgG have the added advantage that they are recognised by specific protein recycling systems that pump proteins out of cells. This is useful because a major site of protein degradation is within cells. For example, when signalling proteins such as IFNα, IFNß, erythropoietin and interleukin-2 bind to their cell-surface receptors, they are internalised by the cell and degraded.

This degradation can be a major elimination pathway for a therapeutic protein. However, when such proteins are fused to albumin or Fc, these fusion proteins have a significant chance of being released intact from cells. These processes further lengthen the pharmacokinetic half-life of albumin and Fc fusion proteins beyond the effects of increased size.

The uptake of albumin, antibodies and therapeutic proteins are all examples of ‘receptor-mediated endocytosis’. In this process, internalised proteins are sent to a subcellular compartment termed the endosome. Unless a recycling receptor inter-venes, proteins in the endosome are then sent to the lysosome and degraded.

Antigen-antibody complexes form when an antibody binds to a second molecule (the antigen). The complexes are then taken up by cells such as macrophages, which digest the antigen but recycle the antibody to work again. The recycling process is mediated by the Fc ‘protection’ receptor (FcRp), which specifically identifies antibodies within cells and transports them out (Figure 4).

Figure 4 Receptor mediated endocytosis leads to destruction of protein drugs

This ‘protection’ receptor turns out to be identical to the neonatal Fc receptor, which is expressed in the intestine. In this context, FcRp transports antibodies in breast milk across the wall of the intestine and into an infant’s circulation.

Aranesp: less is more

Amgen’s second-generation erythropoietin, Aranesp, uses a surprising trick to enhance the lifetime of the drug in the body. A major elimination route of erythropoietin (Epo) from the body is through binding to Epo receptors on the numerous red blood cell precursors in the bone marrow. Aranesp is a derivatised Epo with a reduced affinity for the Epo receptor. Paradoxically, Aranesp is more active in vivo. Because Aranesp binds to its receptor more slowly, it disappears more slowly and has improved pharmacokinetic properties (6).

Erythropoietin is a glycoprotein with three Nlinked glycosylation sites and one O-linked glycosylation site. The N-linked glycosyl moieties are essentially large trees of sugar molecules that end in a negatively-charged sialic acid. The association of Epo to its receptor is partly driven by the positively charged amino acids on the binding face of Epo, and the negative charges on the receptor. The negatively-charged sialic acids create a negative electrostatic field around Epo, reducing the on-rate of binding to the receptor because of electrostatic repulsion.

Amgen’s Aranesp is a genetically engineered form of Epo that has two additional N-linked glycosylation sites. Compared to normal Epo, the resulting protein is even more negatively charged, has an even slower rate of receptor binding, is less biochemically active and has a longer pharmacokinetic half-life. Aranesp can be administered once per week instead of three times per week for Epo, resulting in significant patient convenience.

Figure 5 Aranesp is a derivative of erythropoietin with additional negatively charges oligosaccharides

Control of distribution in engineered proteins

The organ-specific distribution of small molecules is generally a matter of chance rather than choice. In contrast, engineered proteins can often be targeted to a specific tissue by fusion to antibody variable domains or by fusion to another tissue-specific protein. Tumour-specific antibodies have been used to target anti-tumour agents such as radioactive atoms, Pseudomonas exotoxin, RNAse I, and cytokines (these approaches are reviewed in Carter (7) and Huston and George (8)).

Potency and side-effects are key issues in choosing a molecule that will be delivered by an antibody to a tumour site. The absolute number of antibody binding sites on a tumour cell surface simply is not adequate to deliver enough of a typical chemotherapy agent, so the focus has shifted to targeting extremely potent molecules that may have unacceptable side effects without targeting.

Radioactive antibody conjugates (Figure 6b):

Rituxan is a monoclonal antibody used for treating B cell lymphoma. Zevalin and Bexxar are similar to Rituxan but have been chemically modified to contain 131I and 90Y, respectively. Once they bind to a tumour cell, nearby cells are specifically irradiated and killed through a bystander effect. The conjugated isotopes ideally have a short decay path length and a half-life comparable to the residence time of the antibody at the tumour site, so that most of the decay events irradiate the tumour.

Antibodies fused to cytotoxic proteins:

On a molecule- by-molecule basis, proteins are generally much more potent than small molecules. For example, Pseudomonas exotoxin (PE) catalytically modifies and inactivates eukaryotic ribosomes. A few internalised PE molecules can kill a mammalian cell. The enzyme RNAse digests RNA, so a small amount of RNAse in the cell cytoplasm can also be lethal. Both of these proteins can kill normal as well as cancer cells and are most effective and specific when targeted.

Ira Pastan and his co-workers have pioneered the use of targeted PE (Figure 6c). In one of the most advanced versions, PE is fused to a singlechain Fv, which consists of the variable domains from an antibody heavy and light chain connected by an artificial peptide linker; this minimal antibody combining site is then fused to PE.

Similarly, Suzanna Rybak and her colleagues have investigated human eosinophil RNAse as an anticancer agent (Figure 6d). This protein can be internalised by cells, somehow crossing the cell membrane and ending up in the cytoplasm, where it can degrade mRNAs, tRNAs and so on. Rybak and her co-workers have fused RNAse to the Fab portion of a tumour-specific antibody, creating a molecule with an improved therapeutic index. Versions of the PE and RNAse fusion proteins have been tested in small clinical trials.

Antibody-cytokine fusions:

Cytokines are potent proteins that can direct an immune response against a tumour. The cytokines interleukin-2 (IL- 2) and interferon-α (IFNα) have been approved for treatment of certain uncommon cancers, but both molecules cause significant side-effects. IL-2, for example, causes fever and generally reproduces the sensation of fighting off a bad infection. Another cytokine, IL-12, has been tested in clinical trials and has potential anticancer activity, but IL-12 doses are limited by its side-effects.

Several groups have constructed targeted versions of IL-2. Gillies and his colleagues at EMD Lexigen Pharmaceuticals have tested whole-antibody fusions to IL-2 and also IL-12 (‘immunocytokines’ Figure 6e) in a wide variety of animal models (9,10). Neri and co-workers have studied single- chain Fv fusions to IL-2, targeted to tumourspecific blood vessels (Figure 6f) (11). The Epstein group has pursued cytokine proteins using antibodies targeted to necrotic tumour-associated tissue (12). Morrison and her colleagues have focused on fusion proteins using IgG3, an antibody with a particularly long, flexible hinge (13).

Cytokines are particularly attractive anti-tumour agents that benefit greatly from targeting. By their nature, cytokines act locally: typically, a cytokine will be produced at a site of infection as a ‘cry for help’ that stimulates immune cells in the immediate area. Fusion proteins that target cytokines to tumours significantly reduce cytokine-related sideeffects, and may mimic the localised production of cytokines.

Two different whole-antibody-IL2 fusion proteins have been studied in Phase I safety trials. These proteins show moderate side-effects that appear to derive entirely from the IL-2 portion of the molecule and do not show organ-specific effects that might result from an undesired concentration of IL-2 activity.

A key advantage of antibody-targeted radiation and cytokines is that they can act on neighbouring tumour cells. A major problem in cancer treatment is that cancer cells have a high mutation rate and evolve rapidly in response to drug treatment.

For example, treatment of a cancer with an antibody fused to Pseudomonas exotoxin or RNAse would select cancer cells that no longer express the tumour-specific target protein. However, a short path-length radioactive decay will kill cells in a general area, even if they no longer have the tumour-specific surface marker. Similarly, cytokines bound to the surface of one tumour cell will stimulate the immune system to attack all of the tumour cells in the vicinity.

Figure 6 Targeted anti-tumour agents that have been clinically studies

Future improvements in protein drugs

Protein drugs lend themselves to a novel type of ‘rational drug design’ in which a desired property can be added to a protein simply by fusing it to a second protein. This has been used to improve pharmacokinetics and biodistribution, but could also be used to address a fundamental problem with proteins: the need for injection. There are a number of specific protein transport systems in the human intestine.

Two biotech companies, Arizeke Pharmaceuticals (San Diego, CA) and Syntonics Pharmaceuticals (Waltham, MA), are trying to engineer and formulate proteins to take advantage of these protein transport systems, so that proteins can be taken in pill form.

Other key developments are the expression of protein drugs in plants such as corn and tobacco (which could reduce the cost of producing an antibody drug by 10-fold) and the systematic reduction of immunogenicity (14). When combined with the ease of engineering proteins, these scientific advances may lead to a revolution in pharmaceutical development in which protein and small molecule drugs achieve parity in the marketplace.

I would like to acknowledge the contributions of the workers at EMD Lexigen Research Center Corp, including Lieu Anh Nguyen, Business Manager; Dr Gordon Webster, Scientist; Dr Pascal Stein, Scientist; Dr Jim Huston, Vice-President of New Technologies; and Dr Stephen Gillies, President of EMD Lexigen Research Center.


This article originally featured in the DDW Winter 2002 Issue

Dr Jeffrey Way is Director of Intellectual Property at EMD Lexigen Research Center, an affiliate of Merck KgaA that is focused on second generation protein drugs. Dr Way has extensive experience in the biotechnology sector, including fundraising, strategic planning, patent strategies and R&D project management. Dr Way currently manages preclinical R&D for second-generation proteins. Before joining Lexigen Dr Way was an assistant professor at Rutgers University, where he studied development of the nervous system. He holds both a PhD and BA in Biochemistry and Molecular Biology from Harvard University.

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