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Edbk 325885
The term “undruggable” is used to describe a protein that is not pharmacologically capable of being targeted;
overview
recently, however, substantial efforts have been made to turn these proteins into “druggable” targets. Thus,
“difficult to drug” or “yet to be drugged” are perhaps more appropriate terms. In cancer, a number of elusive
targets fall into this category, including transcription factors such as STAT3, TP53, and MYC. Pharmaco-
logically targeting these intractable proteins is now a key challenge of modern drug development, requiring
innovation and the development of new technologies. In this article, we discuss some of the recent technologic
and pharmacologic advances that have underpinned the erosion of the concept of undruggability. We describe
recent successes in drugging the undruggable RAS (KRAS G12C and HRAS), and discuss the advances that
have led to the validation of further targets previously believed to be undruggable, such as HIF-2α, BCL-2,
MDM2, and MLL. Finally, we look to the future and describe important advances that are likely to have a major
impact on targeting undruggable targets, such as the advent of proteolysis-targeting chimeras and protein-
protein modulators, which are leading to considerable excitement surrounding the development of cancer
targets.
Sotorasib is one such small-molecule inhibitor, and its use utilizing endogenous biologic mechanisms, such as the
has resulted in confirmed objective response rates (com- ubiquitin-proteasome degradation system: the therapeutic
plete or partial response) of 32.2% in patients with KRAS effect is produced by modulating protein levels of the target.
G12C non–small cell lung cancer, as well as disease control PROTEOLYSIS-TARGETING CHIMERAS
rates (objective response or stable disease) of 88.1% in
non–small cell lung cancer and 73.8% in colorectal can- PROTACs are one class of bifunctional small molecules.
cer.6 Consequently, several additional compounds are in They simultaneously bind to a target protein and an
clinical development. E3 ubiquitin ligase, thereby causing ubiquitylation and
degradation of the target protein (Fig. 1).9 The ability of
In the case of HRAS, the breakthrough came from the PROTACs to degrade proteins, regardless of their function,
observation of the exquisite dependency of HRAS on far- makes this approach highly attractive, especially for those
nesyl transferase for prenylation, a critical step that is targets for which compounds can be developed that bind to
necessary for RAS to bind to the inner layer of the cell a given target without inhibiting its activity. Degradation of
membrane and function (other members of the RAS family the target protein by PROTACs is also suitable for targets
have redundant pathways). Tipifarnib, a farnesyl transferase that overcome the effect of an inhibitor by overexpression,
inhibitor, has been granted fast track designation by the which is often seen in cancer. As such, targeted protein
U.S. Food and Drug Administration for the treatment of degradation offers tremendous promise. In fact, PROTACs
patients with HRAS-mutant head and neck squamous cell have a number of advantages; because of their unique
carcinomas. Early clinical trials are showing an overall re- mechanism of action, a PROTAC molecule is capable of
sponse rate of 50.0% (95% CI, 26.0–74.0) and a median catalyzing the degradation of multiple molecules of the
duration of response of 14.7 months (95% CI, 2.1–not protein of interest. Consequently, compared with small-
reported) in patients with these diseases.7 molecule inhibitors, PROTACs may require significantly
Another recent success story related to the use of modern lower concentrations to elicit a desired pharmacologic ef-
crystallography and structure-based design is the targeting fect. PROTACs also have the potential to target so-called
of HIF-2α. von Hippel-Lindau disease and many clear cell undruggable proteins, such as transcription factors. For
renal cell carcinomas have inactivating mutations in VHL, example, STAT3 is a key factor for cell survival, proliferation,
resulting in constitutive activation of the HIF-2α transcrip- angiogenesis, metastasis, and chemotherapy resistance;
tion factor. The finding of a large cavity within the HIF-2α thus, blocking STAT3 activity is an attractive strategy that
PAS-B domain permitted the development of molecules has been pursued for many years, with little success.10
(e.g., PT2399, PT2385, and PT2977, later known as MK- However, PROTACs targeting STAT have been recently
6482) that bind to the allosteric site and block its di- reported,11,12 opening new possibilities.
merization with the HIF-1α/2α transcriptional dimerization PROTACs can be used to overcome drug resistance re-
partner ARNT/HIF-1β. Treatment of 61 patients with VHL- sulting from mutations of a protein of interest, such as
associated clear cell renal cell carcinoma using MK-6482 PROTACs targeting mutated forms of BCR-ABL,13 receptor
(NCT03401788) showed a confirmed response rate of tyrosine kinases,14 estrogen receptor-α,15 and Bruton ty-
27.9%, as well as 13.1% unconfirmed responses at the time rosine kinase.16 PROTACs can overcome resistance to
of reporting (86.9% of patients experienced some decrease small-molecule inhibitors resulting from target upregulation
in the size of their target lesions).8 This was the first story of by degrading the target; one such example is androgen
successful drug development against a transcription factor. receptor degraders, which have recently overcome re-
sistance developed to the androgen receptor antagonist
Some other programs are aiming to develop multispecific
enzalutamide during prostate cancer treatment.17
drugs. These compounds work through two or more
chemical entities (one effector and one target), with several Although the field of PROTAC research is still relatively
drug-target binding interfaces that work sequentially or new, these rapid exciting clinical developments, such as
concurrently. This multispecificity allows limiting drug ac- PROTAC-mediated targeting of androgen receptors, dem-
tivity to a specific location or anchors the target close to an onstrate proof of principle, proving that this approach is
endogenous effector, allowing the effector to modulate the broadly applicable. Numerous proteins are now reported to
target. Some of them are antibody/peptide-based, such as have been degraded in this manner, including Bruton ty-
heteroduplex immunoglobulin G, bispecific CD3 engagers, rosine kinase, BCR-Abl, FKBP12, BRD9, and CDK6.18
or antibody-toxin, antibody-drug, or antibody-cytokine fu- One of the most exciting and compelling aspects of
sion proteins. Others are small molecules called “match- unlocking the vast potential of protein degraders is the
makers,” which pull two entities together (the effector and opportunity to bring the wide variety of the historically
target), such that one (the effector) acts upon the other (the undruggable proteome into play for therapeutic benefit. In
target). These act as chemical inducers of degradation spite of these promising prospects, there are challenges in
utilizing PROTAC molecules, such as attaining suitable also typically large, larger than that of the receptor-ligand
physicochemical properties; adequate absorption, distri- contact area,26,27 and is highly hydrophobic.24,26 In addition,
bution, metabolism, and excretion properties for oral dosing; the amino acid residues involved in PPIs result in high-
and/or even achieving adequate central nervous system affinity binding between the proteins, making it more
exposure.18 Therefore, overcoming some of these phar- challenging for small molecular compounds to inhibit.28
macologic obstacles will undoubtedly be essential in paving Compared with traditional drug target enzymes or re-
the way for the broader therapeutic potential of PROTAC ceptors, PPIs also lack endogenous ligands,28 and com-
molecules. pared with traditional small-molecule drugs, drugs acting on
Small Molecules Modulating Protein-Protein Interactions PPIs have a higher molecular weight (. 400 daltons).
Critical biologic processes, such as DNA replication, tran- In spite of these obstacles, progress is being made. In recent
scription, translation, and transmembrane signal trans- years, some PPI modulators have entered clinical studies;
duction, rely on functional specific proteins that are some have been approved for marketing, indicating that the
regulated through protein complexes and controlled via modulators targeting PPIs may have broad prospects. In
PPIs19,20; aberrant PPIs are associated with many human comparison with peptides targeting PPIs, small-molecular
cancers.21 In contrast with small molecules targeting inhibitors of PPIs are increasingly appealing, because these
protein-ligand interactions (found in enzymes, ion channels, drugs tend to have lower research costs, oral preparations,
or receptors), targeting PPIs, previously regarded as and better tumor microenvironment penetration.
undruggable targets, is a more challenging and novel Inhibitors of MDM2/p53 interaction (small molecules,
therapeutic approach.22 peptides) p53 regulates the cell cycle and functions as
Designing a small molecule to bind to a PPI interface has a tumor suppressor. Almost 50% of human cancers have
proven to be difficult for a number of reasons. First, the alterations in the TP53 gene, which results in the in-
unique interface structure is a challenge for drug design: activation of p53 function or loss of p53 expression.29 The
compared with the binding pockets of conventional protein MDM2 protein is the p53 E3 ubiquitin ligase that, under
targets, the interface of PPIs tends to be flat and contains cellular stress conditions, ubiquitinates p53 and facilitates
few pockets, making it difficult for small-molecule com- p53 nuclear export and inhibition of transcription activity
pounds to bind.23-25 The interface area of the interaction is or ubiquitin-dependent proteasomal degradation of p53.
Utilizing small molecules or peptides to block the p53/ with CDKN2A (cyclin-dependent kinase inhibitor). MTAP-
MDM2 interaction is one way to restore the p53 pathway in null cancer cells seem to have a dependency on PRMT5 (a
wild-type p53 tumors, thereby preventing the inactivation of methyltransferase); therefore, inhibition of PRMT5 could be
p53. Nutlins are the most well-characterized small mole- exploited for cancer treatment. In fact, PRMT5 inhibitors are
cules that disrupt this p53-MDM2 interaction, binding to the in clinical development.38 Based on this hypothesis, MTAP/
N-terminal pocket of MDM2 and stabilizing p53, which CDKN2A-null tumors could be sensitive to PRMT5 inhibitors
helps to retain tumor-suppressive functionality. There is while normal cells are spared, offering a wide therapeutic
extensive in vitro and in vivo evidence to demonstrate that window. Other examples of this paradigm include the 1p36
nutlins increase p53 levels and apoptosis, as well as de- deletion (which includes tumor-suppressor genes, such as
crease tumorigenicity.30 CAMTA1, mir34A, or KIF1B), the passengers enolase 1 or 6-
Building on this momentum, the nutlin derivative RG7112 phosphogluconate dehydrogenase, and the therapeutic
has advanced to clinical trials for leukemia and sarcomas inhibition of enolase 2 or components of the nonoxidative
along with a number of other small molecules with similar pentose phosphate shunt.39
mechanisms of action that are currently in phase I clinical Another way to modulate an undruggable protein with small
trials, including SAR405838, CGM097, HDM201, DS- molecules is to modulate its transcription levels: either in-
3032, MK-8242, and AMG232.31-33 Thus, there is consid- directly, by targeting chromatin regulation, or directly, by the
erable clinical interest and activity focused on inhibiting targeting of transcription factors or RNA that regulates its
p53-protein interactions using small molecules. Another expression. There are ongoing drug-discovery efforts fo-
target being modulated by the use of PPI is the interaction of cusing on small-molecule drugs targeting transcription
MLL1 and menin. Once the crystal structure of menin was factors, such as P53, MYC, and STAT3. These transcription
available, the binding site with MLL became clear; currently, factors, which are frequently altered in cancer, form protein
drugs such as KO-539 show promising clinical activity in complexes that are directed to specific sites on DNA and
refractory acute myeloid leukemia.34 regulate oncogenic events. Small molecules interacting with
Other Approaches Using Small Molecules MYC, STAT3, or P53 are in development. These agents
mostly aim to prevent the formation of these multiprotein
An indirect approach to targeting challenging and difficult complexes, rather than to disrupt the transcription factor–
targets is the search for “synthetic”35,36 and “collateral”37 DNA interaction.2
lethality scenarios. In synthetic lethality, cancer-specific
mutations that impair the function of one gene (e.g., Targeting chromatin regulation, the main goal of epige-
BRCA1) can be exploited with pharmacologic inhibition of netics, has also seen tremendous development with the
another key component of the pathway (e.g., inhibiting expansion of technologies that allow analysis of the epi-
PARP with olaparib), which would lead to the death of genome and drug discovery now aiming for new targets,
cancer cells with the genetic mutation but spare normal such as EZH2, LSD1, PRMT inhibitors, and others. How-
cells that lack the genetic vulnerability. In addition to the ever, the field of epigenetics drug development is beyond
approval of many PARP inhibitors for the management of the scope of this review and can be found elsewhere.40
BRCA1/2 ovarian and breast cancers, current clinical trials There is a conventional view that it is not possible to bind
are exploring this paradigm by using these agents in tumors RNAs with small molecules because they present unrelated
with alterations in other DNA-repair enzymes, such as structures and complex pockets for druggability (RNA
PALB2, ATM, and RAD51. Synthetic lethality is also ob- interference–based therapeutics are discussed in the next
served in tumors bearing mutations in the SWI/SNF chro- section). However, it has since been discovered that RNA
matin remodeling complexes (e.g., SMARCA2, SMARCA4, molecules actually adopt secondary and tertiary structures
ARID1A, and ARID1B); tazemetostat, an EZH2 inhibitor, that could be attractive targets for small molecules. In fact,
has recently been approved by the U.S. Food and Drug many drugs, including several antibiotics (e.g., amino-
Administration for the management of malignant rhabdoid glycosides) bind bacterial RNA in the ribosomes. This field
tumors, a disease driven by SMARCA4 mutations. changed in 2020, when the U.S. Food and Drug Admin-
The term “collateral lethality” is preferred to synthetic le- istration approved risdiplam, an SMN2-splicing modifier, to
thality when a “passenger” gene mutation (alteration not treat spinal muscular atrophy. This is the first drug designed
playing an active role in tumor progression) is lost along with specifically against a particular messenger RNA (it modifies
an adjacent oncogenic or “driver” alteration (in our case, an the splicing of SMN2 messenger RNA, resulting in an in-
undruggable tumor-suppressor gene). Using the lack of crease in the concentration of the functional SMN protein
function of passenger-deleted genes for a therapeutic ad- in vivo).41 The development of anticancer small molecules
vantage could exploit cancer-selective vulnerabilities. Such that specifically bind RNA, although still in its early stages,
is the case with MTAP, a gene that is frequently codeleted aims to design similar small-molecule RNA modulators that
bind RNA molecules and change protein synthesis by leveraged for this approach include those arising from
modifying RNA processing (RNA splicing) or impeding cancer mutations (e.g., in otherwise undruggable proteins),
protein production.42 known as neoantigens, and tumor-associated antigens,
which result from overexpressed genes. This principle,
NEW BIOLOGICS CAN ALSO ENABLE THE IMPOSSIBLE
which is the basis for modern cell therapy (e.g., CAR T cells,
Despite efforts to modulate RNA and protein expression with engineered TCR therapy) is now also being replicated by
small molecules, described above, biologic molecules, such different types of peptides (TCR “mimetics”)43: TCR-like
as antisense technologies, have remained the most com- antibodies and TCR fusion proteins. These TCR mimetics
monly deployed method to target disease-associated RNAs. are advantageous in that they can have more drug-like
First-generation oligonucleotide structures had poor cell properties and avoid some of the limitations of traditional
permeability and distribution and triggered immunoreac- cell therapies (e.g., prolonged and expensive production
tivity; as a result of their poor pharmacology, their devel- times, cost). In addition to CD19, which was the first target
opment languished for years. Now, these initial problems of for leukemias (tisagenlecleucel, the first CAR T-cell therapy
RNA therapeutics have been addressed with improvements was approved for acute lymphoblastic leukemia in 201744),
in trigger design, sequence selection (to avoid unintended in solid tumors, initial research with cell therapy and TCR
off-target RNA interference effects), chemical formulation mimetics initially focused on tumor-associated antigens,
(to avoid degradation by endonucleases and exonucleases), such as GP100, MAGEA4, NYESO1, and PRAME; the first
and delivery mechanisms (lipid nanoparticles and others), generation of studies is ongoing. Theoretically, neoantigen-
enabling a second generation of drugs. Consequently, in specific CAR T cells or TCR mimetics (antibodies or soluble
2018, the U.S. Food and Drug Administration approved TCRs) that are specific for the peptide–major histocom-
patisiran, a small interfering RNA for the treatment of he- patibility complex could be a promising strategy to tackle
reditary transthyretin amyloidosis with polyneuropathy. repetitive mutated variants in undruggables, such as fusion
Since then, two more drugs of this kind, lumasiran and peptides in sarcoma (breakpoint-specific neoantigens have
givosiran, have been approved. Patisiran, which primarily been predicted and validated, in part, for EWSR1-FLI1,
acts on the liver, is not a metabolically stabilized small PAX3-FOXO1, and SS18-SSX1)45,46 or KRAS in pancreatic
interfering RNA, but it uses a lipid nanoparticle delivery cancer.47
formulation. More recently, small interfering RNA thera-
The clinical proof of concept for cell therapy came from
peutics have been metabolically stabilized to improve their
targeting CD19.48 For TCR mimetics, this has likely been
stability.
achieved with the recently presented data on tebentafusp
However, not all RNA transcripts transmit a message for (IMCgp100) that showed clinical benefit, including target
protein coding and translation, but there is a diverse range of lesion reduction.49 Tebentafusp is a solution of soluble TCRs
noncoding RNA molecules (e.g., long noncoding RNAs, stabilized by a disulfide bond and fused to an anti-CD3 scFv
microRNAs, small nuclear and small nucleolar RNAs) with (a so-called “ImmTAC molecule”). Early data from a phase II
broad roles in modulating gene expression, including trial in patients with HLA-A*0201+ gp100+ metastatic uveal
cancer deregulation. Because of recent developments in melanoma showed that, although the overall response rate
the field, RNA therapeutics are not limited to antisense by response evaluation criteria in solid tumors was low (5%),
oligonucleotides; investigators are exploring small in- it was accompanied by a reduction in target lesion in 44% of
terfering RNA, microRNA, messenger RNA, RNA aptamers, patients. The median overall survival was 16.8 months
short activating RNA, and single guide RNA for CRISPR/ (95% CI, 12.9–21.3), which seems promising compared
Cas9 systems as potential therapeutic platforms. Some of with historical controls.50
these novel RNA therapeutics are also aiming for some
undruggable targets that are relevant in cancer, such as CONCLUSION
EWS/FLI1 (Ewing sarcoma), KRAS G12D (pancreatic can- There is considerable excitement surrounding the devel-
cer), miR-155 (lymphoma and leukemias), and miR-16 opment of cancer targets considered undruggable, with
(malignant pleural mesothelioma and non–small cell lung classic classes of agents, including transcription factors,
cancer). such as STAT3, TP53, MYC. Others, like RAS (KRAS G12C
One final approach using biologics to target complicated and HRAS), HIF-2α, BCL-2, MDM2, and MLL, are now
intracellular targets involves the TCR-HLA (human leuko- validated druggable targets.
cyte antigen) system. The target, processed in the immu- Because of the possibility that many other pharmacologic
noproteasome, is broken into different peptides that are barriers might be overcome by the new entities described
presented by the tumor cell’s HLA system to the immune here, the concept of undruggable is being challenged, and
system via the TCR; this interaction activates the immune some now consider it an inappropriate or démodé term. In
system against the tumor cell. Antigens that can be the presence of novel molecular entities that promise to
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