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Title: Synthetic bifunctional molecules containing a
drug moiety and presenter protein ligand
United States Patent: 6,372,712
Inventors: Briesewitz; Roger (Mountain View, CA); Crabtree;
Gerald R. (Woodside, CA); Wandless; Thomas (Menlo Park, CA); Ray; Gregory
Thomas (Stanford, CA); Vogel; Kurt William (Palo Alto, CA)
Assignee: The Board of Trustees of the Leland Stanford Jr.
University (Palo Alto, CA); The Howard Hughes Medical Institute (Chevy
Chase, MD)
Appl. No.: 316932
Filed: May 21, 1999
Abstract
Bifunctional molecules and methods for their use in the production of
binary complexes in a host are provided. The bifunctional molecule is a
conjugate of a drug moiety and a presenter protein ligand. The molecular
weight of the bifunctional molecule is preferably less than about 5000
daltons, and the drug moiety may have a molecular weight of from about 50
to 2000 daltons. The drug moiety and presenter protein ligand may be
covalently linked directly or through a linking group. The drug moiety
binds to a drug target such as a protein and the presenter protein ligand
binds to a presenter protein that is not the drug target such as
extracellular or intracellular protein. Presenter proteins include
peptidyl prolyl isomerase (FKBP), Heat Shock Protein 90 (Hsp90), steroid
hormone receptors, cytoskeletal proteins, albumin and vitamin receptors.
When the presenter protein is FKBP, ligands include FK506, rapamycin and
cyclosporin A which may have an introduced functional group such as
hydroxyl, amino, carboxyl, aldehyde, carbonate, carbamate, azide, thiol or
ester for attaching the drug moiety. In the methods of use, an effective
amount of the bifunctional molecule is administered to the host. The
bifunctional molecule binds to the presenter protein to produce a binary
complex such that the drug exhibits at least one of improved affinity,
specificity or selectivity as compared to the corresponding free drug. The
methods and bifunctional molecules find use in a variety of therapeutic
applications.
DESCRIPTION OF THE SPECIFIC EMBODIMENTS
Bifunctional molecules, synthesis and screening methods, and methods for
their use in the production of at least binary complexes in a host are
provided. The bifunctional molecules have a drug moiety covalently linked
to a presenter protein ligand, either directly or through a linking group.
In the subject methods, an effective amount of the bifunctional molecule
is administered to the host. Upon administration, the bifunctional
molecule binds to the presenter protein to produce the binary complex. The
binary complex has an enlarged target binding surface area as compared to
the free drug such that at least one of enhanced affinity, specificity or
selectivity are observed as compared to the free drug. In a first
embodiment in which increased affinity is observed, the binary complex
binds to the target to form a tripartite complex characterized by the
presence of presenter-target binding interactions as well as drug-target
binding interactions. The subject methods and compositions find use in a
variety of therapeutic applications. In further describing the subject
invention, the bifunctional molecules and methods for their production
will be described first, followed by a discussion of applications in which
the bifunctional molecules find use.
Before the subject invention is described further, it is to be understood
that the invention is not limited to the particular embodiments of the
invention described below, as variations of the particular embodiments may
be made and still fall within the scope of the appended claims. It is also
to be understood that the terminology employed is for the purpose of
describing particular embodiments, and is not intended to be limiting.
Instead, the scope of the present invention will be established by the
appended claims.
In this specification and the appended claims, the singular forms
"a," "an," and "the" include plural
reference unless the context clearly dictates otherwise. Unless defined
otherwise, all technical and scientific terms used herein have the same
meaning as commonly understood to one of ordinary skill in the art to
which this invention belongs.
Though not wishing to be bound by any particular theory, the subject
invention provides a means for improving at least one of the affinity or
specificity or selectivity of a small molecule drug for its desired target
by enlarging the target binding surface area of the drug moiety as
compared to the free drug. Enhanced affinity, specificity or selectivity
of the drug is accomplished by presenting it to its drug target as a
binary complex made up of a bifunctional molecule of the drug and
presenter protein ligand bound to a presenter protein. Interactions
between the presenter protein and the drug target, such as favorable
interactions, neutral interactions or repulsive interactions, in
combination with interactions between the drug moiety and its target,
result in a modulation of the overall binding profile of the drug moiety
for its various targets, as compared to a free drug control. As such, by
administering a small molecule drug as a bifunctional molecule according
to the subject invention, one can achieve improved results as compared to
the results obtainable by administration of the small molecule drug by
itself.
Bifunctional Molecule
A critical element of the subject invention is the bifunctional molecule.
The bifunctional molecule is a non-naturally occurring or synthetic
compound. The bifunctional molecule is further characterized in that the
presenter protein ligand and the drug moiety are different, such that the
bifunctional molecule may be viewed as a heterodimeric compound produced
by the joining of two different moieties. In many embodiments, the
presenter protein ligand and the drug moiety are chosen such that the
corresponding drug target and presenter protein do not naturally associate
with each other to produce a biological effect. In many preferred
embodiments, the bifunctional molecules are capable of simultaneously
binding two distinct compounds, i.e. a target and a presenter protein, to
form a tripartite complex. The bifunctional molecule has a drug moiety
bonded to a ligand for a presenter protein, either directly or through a
linking group. The molecular weight of the bifunctional molecule is
generally at least about 100 D, usually at least about 400 D and more
usually at least about 500 D, and may be as great as 2000 D or greater,
but usually does not exceed about 5000 D.
The bifunctional molecule is further characterized in that the drug moiety
has improved activity as compared to free drug. By improved activity is
meant that the drug moiety has a more desirable effect with respect to the
condition being treated, as compared to the corresponding free drug from
which the drug moiety of the bifunctional molecule is derived. In many
embodiments, the bifunctional molecule is characterized by having improved
affinity for its target as compared to its corresponding drug, i.e. a
control. The magnitude of enhanced affinity and/or specificity will be at
least about 2 fold, usually at least about 5 fold and in many embodiments
at least 10 fold. In many embodiments, the affinity of the bifunctional
molecule for its target will be at least about 10-4 M, usually
at least about 10-6 M. Additionally and/or alternatively, the
bifunctional molecule exhibits improved specificity for its target as
compared to a free drug control. Additionally and/or alternatively, the
bifunctional molecule exhibits improved selectively for its target as
compared to a free drug control.
Bifunctional molecules are generally described by the formula:
Z--L--X
wherein
X is a drug moiety;
L is bond or linking group; and
Z is a ligand for an endogenous presenter protein; with the proviso that X
and Z are different.
Drug Moiety: X
The drug moiety X may be any molecule, as well as binding portion or
fragment thereof, that is capable of modulating a biological process in a
living host, either by itself or in the context of the presenter protein/bifunctional
molecule binary complex. Generally, X is a small organic molecule that is
capable of binding to the target of interest. As the drug moiety of the
bifunctional molecule is a small molecule, it generally has a molecular
weight of at least about 50 D, usually at least about 100 D, where the
molecular weight may be as high as 500 D or higher, but will usually not
exceed about 2000 D.
The drug moiety is capable of interacting with a target in the host into
which the bifunctional molecule is administered during practice of the
subject methods. The target may be a number of different types of
naturally occurring structures, where targets of interest include both
intracellular and extracellular targets, where such targets may be
proteins, phospholipids, nucleic acids and the like, where proteins are of
particular interest. Specific proteinaceous targets of interest include,
without limitation, enzymes, e.g. kinases, phosphatases, reductases,
cyclooxygenases, proteases and the like, targets comprising domains
involved in protein-protein interactions, such as the SH2, SH3, PTB and
PDZ domains, structural proteins, e.g. actin, tubulin, etc., membrane
receptors, immunoglobulins, e.g. IgE, cell adhesion receptors, such as
integrins, etc, ion channels, transmembrane pumps, transcription factors,
signaling proteins, and the like.
The drug moiety of the bifunctional compound will include one or more
functional groups necessary for structural interaction with the target,
e.g. groups necessary for hydrophobic, hydrophilic, electrostatic or even
covalent interactions, depending on the particular drug and its intended
target. Where the target is a protein, the drug moiety will include
functional groups necessary for structural interaction with proteins, such
as hydrogen bonding, hydrophobic-hydrophobic interactions, electrostatic
interactions, etc., and will typically include at least an amine, amide,
sulfhydryl, carbonyl, hydroxyl or carboxyl group, preferably at least two
of the functional chemical groups. As described in greater detail below,
the drug moiety will also comprise a region that may be modified and/or
participate in covalent linkage to the other components of the
bifunctional molecule, such as the presenter protein ligand or linker,
without substantially adversely affecting the moiety's ability to bind to
its target.
The drug moieties often comprise cyclical carbon or heterocyclic
structures and/or aromatic or polyaromatic structures substituted with one
or more of the above functional groups. Also of interest as drug moieties
are structures found among biomolecules, including peptides, saccharides,
fatty acids, steroids, purines, pyrimidines, derivatives, structural
analogs or combinations thereof. Such compounds may be screened to
identify those of interest, where a variety of different screening
protocols are known in the art.
The drug moiety of the bifunctional molecule may be derived from a
naturally occurring or synthetic compound that may be obtained from a wide
variety of sources, including libraries of synthetic or natural compounds.
For example, numerous means are available for random and directed
synthesis of a wide variety of organic compounds and biomolecules,
including the preparation of randomized oligonucleotides and oligopeptides.
Alternatively, libraries of natural compounds in the form of bacterial,
fungal, plant and animal extracts are available or readily produced.
Additionally, natural or synthetically produced libraries and compounds
are readily modified through conventional chemical, physical and
biochemical means, and may be used to produce combinatorial libraries.
Known pharmacological agents may be subjected to directed or random
chemical modifications, such as acylation, alkylation, esterification,
amidification, etc. to produce structural analogs.
As such, the drug moiety may be obtained from a library of naturally
occurring or synthetic molecules, including a library of compounds
produced through combinatorial means, i.e. a compound diversity
combinatorial library. When obtained from such libraries, the drug moiety
employed will have demonstrated some desirable activity in an appropriate
screening assay for the activity. Combinatorial libraries, as well as
methods for the production and screening, are known in the art and
described in: U.S. Pat. Nos. 5,741,713; 5,734,018; 5,731,423; 5,721,099;
5,708,153; 5,698,673; 5,688,997; 5,688,696; 5,684,711; 5,641,862;
5,639,603; 5,593,853; 5,574,656; 5,571,698; 5,565,324; 5,549,974;
5,545,568; 5,541,061; 5,525,735; 5,463,564; 5,440,016; 5,438,119;
5,223,409, the disclosures of which are herein incorporated by reference.
The drug moiety of the bifunctional molecule may be the whole compound or
a binding fragment or portion thereof that retains its affinity and
specificity for the target of interest while having a linkage site for
covalent bonding to the presenter protein ligand or linker.
Presenter Protein Ligand: Z
Z is a ligand for a presenter protein present in the host into which the
bifunctional molecule is to be administered. The presenter protein ligand
of the subject bifunctional molecules binds to a specific presenter
protein present in the host. The binding interaction between the presenter
protein and the presenter protein ligand is non-covalent, such that no
covalent bonds are produced between the bifunctional molecule and the
presenter protein upon binding of the two entities. The presenter protein
ligand is small, where the size of the presenter protein ligand does not
exceed about 4950 daltons, usually does not exceed about 4925 daltons and
more usually does not exceed about 4900 daltons, where the size of the
presenter protein ligand is generally at least about 50 daltons and more
usually at least about 100 daltons. The presenter protein ligand, in the
context of the bifunctional molecule, has substantially no pharmacological
activity at its effective concentration beyond binding to the presenter
protein, i.e. it does not directly cause a presenter protein-mediated
pharmacological event to occur upon binding at its effective concentration
to the presenter protein, where a presenter protein-mediated
pharmacological event is a pharmacologically relevant event which is
directly modulated by the presenter protein in the absence of the subject
bifunctional molecules. As used herein, pharmacological event is an event
that is distinct from a biochemical event (e.g. inhibition a prolyl
isomerase activity) or a biological event (e.g. inducement of a cell to
express new genes).
The presenter protein to which the ligand of the bifunctional molecule
binds may be any protein that is present in the host at the time the
bifunctional molecule is introduced to the host, i.e. the presenter
protein will be endogenous to the host. The presenter protein may or may
not have one or more modified residues, e.g. residues that are
glycosylated, such that the presenter protein may or may not be a
glycoprotein. Furthermore, the presenter protein that is recruited by the
bifunctional molecule may or may not be part of a complex or structure of
a plurality of biological molecules, e.g. lipids, where such complexes or
structures may include lipoproteins, lipid bilayers, and the like.
However, in many embodiments, the presenter protein that is recruited by
the presenter protein ligand of the bifunctional molecule will be by
itself, i.e. will not be part of a larger structure of a plurality of
biological molecules. Though the presenter protein may be a protein that
is not native to the host but has been introduced at some time prior to
introduction of the bifunctional molecule, e.g. through prior
administration of the protein or a nucleic acid composition encoding the
same, such as through gene therapy, the presenter protein will, in many
embodiments, be a protein that is native to and naturally expressed by at
least some of the host's cells, i.e. a naturally occurring protein in the
host. The presenter protein is a protein that is present in the region of
host occupied by the drug target. As such, where the drug target is an
intracellular drug target, the presenter protein will be an intracellular
protein present in the cell comprising the target, typically expressed in
the cell comprising the target, i.e. the presenter protein and target are
co-expressed in the same cell. Likewise, where the drug target is an
extracellular drug target, the presenter protein will be an extracellular
protein that is found in the vicinity of the target.
Although not a requirement in certain embodiments, in many preferred
embodiments the presenter protein is one that is present in the host in
sufficient quantities such that, upon binding of at least a portion of
presenter protein present in the host to the bifunctional molecule,
adverse pharmacological effects do not occur. In other words, the
presenter protein in these preferred embodiments is one in which its
native and desirable biological activity, if any, is not diminished by an
unacceptable amount following binding of the portion of the presenter
protein population to the bifunctional molecule. The amount of diminished
activity of the presenter protein that is acceptable in a given situation
is determined with respect to the condition being treated in view of the
benefits of treatment versus the reduction of overall presenter protein
activity, if any. In certain situations, a large decrease in overall
presenter protein activity may be acceptable, e.g. where the presenter
protein activity aggravates the condition being treated.
Specific presenter proteins of interest include intracellular and
extracellular proteins. Intracellular proteins of interest include:
peptidyl-prolyl isomerases, e.g. FKBPs and cyclophilins; ubiquitously
expressed molecular chaperones, e.g. Heat Shock Protein 90 (Hsp90);
steroid hormone receptors, e.g. estrogen receptors, glucocorticoid
receptors, androgen receptors; retinoic acid binding protein, cytoskeletal
proteins, such as tubulin and actin; etc.
Of particular interest as intracellular presenter proteins are cis-trans
peptidyl-prolyl isomerases which interact with many proteins because of
their chaperonin/isomerase activity, e.g. FKBPs and cyclophilins.
Peptidyl-prolyl isomerases of interest include FKBPs. A number of
different FKBPs are known in the art, and include those described in:
Sabatini et al., Mol. Neurobiol. (October 1997) 15:223-239; Marks, Physiol.
Rev. (July 1996) 76:631-649; Kay, Biochem J. (March, 1996) 314: 361-385;
Braun et al., FASEB J. (January 1995) 9:63-72; Fruman et al, FASEB J.
(April 1994) 8:391-400; and Hacker et al., Mol. Microbiol. (November 1993)
10: 445-456. FKBPs of interest include FKBP 12, FKBP 52, FKBP 14.6
(described in U.S. Pat. No. 5,525,523, the disclosure of which is herein
incorporated by reference); FKBP 12.6 (described in U.S. Pat. No.
5,457,182 the disclosure of which is herein incorporated by reference);
FKBP 13 (described in U.S. Pat. No. 5,498,597, the disclosure of which is
herein incorporated by reference); and HCB (described in U.S. Pat. No.
5,196,352 the disclosure of which is herein incorporated by reference);
where FKBP 12 and FKBP 52 are of particular interest as intracellular
presenter proteins.
Also of specific interest as presenter proteins are cyclophilins. A number
of cyclophilins are known in the art and are described in Trandinh et al.,
FASEB J. (December 1992) 6: 3410-3420; Harding et al., Transplantation
(August 1988) 46: 29S-35S. Specific cyclophilins of interest as
intracellular presenter proteins include cyclophilin A, B, C, D, E, and
the like, where cyclophilin A is of particular interest.
Instead of being an intracellular protein, the endogenous presenter
protein may be an extracellular or serum protein. Serum presenter proteins
of particular interest are those that are relatively abundant in the serum
of the host and meet the above criteria for suitable endogenous presenter
proteins. By relatively abundant is meant that the concentration of the
serum presenter protein is at least about 1 ng/ml, usually at least about
10 .mu.g/ml and more usually at least about 15 .mu.g/ml. Specific serum
proteins of interest as presenter proteins include: albumin, Vitamin A
binding proteins and Vitamin D binding proteins, .beta.-2 macroglobulin,
with albumin being a particularly preferred presenter protein.
The Z moiety of the subject bifunctional molecules will therefore be
chosen in view of the endogenous presenter protein that is to be recruited
to produce the at least binary and, in some embodiments, tripartite
complex. As such, the Z moiety may be a number of different ligands,
depending on the particular endogenous presenter protein to which it is
intended to bind. In many preferred embodiments, the Z moiety has an
affinity for its presenter protein of at least about 10-4 M,
usually at least about 10-6 molar and more usually at least
about 10-8 M, where in many embodiments the Z moiety has an
affinity for its presenter protein of between about 10-9 and 10-12
M. The Z moiety portion of the bifunctional molecule should also be
specific for the presenter protein in the context of its binding activity
when present in the bifunctional molecule, in that it does not
significantly bind or substantially affect non-presenter proteins when it
is present in the bifunctional molecule.
Representative ligands capable of serving as the Z moiety of the
bifunctional molecule include ligands for intracellular proteins, such as:
peptidyl-prolyl isomerase ligands, e.g. FK506, rapamycin, cyclosporin A
and the like; Hsp90 ligands, e.g. geldanamycin; steroid hormone receptor
ligands, e.g. naturally occurring steroid hormones, such as estrogen,
progestin, testosterone, and the like, as well as synthetic derivatives
and mimetics thereof, particularly those which bind with high specificity
and affinity but do not activate their respective receptors; small
molecules that bind to cytoskeletal proteins, e.g. antimitotic agents,
such as taxanes, colchicine, colcemid, nocadozole, vinblastine, and
vincristine, actin binding agents, such as cytochalasin, latrunculin,
phalloidin, and the like.
As mentioned above, the preferred intracellular presenter proteins are
members of the peptidyl-prolyl isomerase family, particularly the FKBP and
cyclophilin subsets of this family. Where peptidyl-prolyl isomerase
presenter proteins are employed, the bifunctional molecule/peptidyl-prolyl
isomerase complex will preferably not substantially bind to the natural
peptidyl-prolyl isomerase/ligand target calcineurin so as to result in
significant immunosuppression. A variety of ligands are known that bind to
FKBPs and may be used in the subject invention. The ligands should
specifically bind to an FKBP and have an affinity for the FKBP that is
between about 10-6 and 10-10 M. Of interest are both
naturally occurring FKBP ligands, including FK506 and rapamycin. Also of
interest are synthetic FKBP ligands, including those described in U.S.
Pat. Nos.: 5,665,774; 5,622,970; 5,516,797; 5,614,547; and 5,403,833, the
disclosures of which are herein incorporated by reference.
Also of interest are cyclophilin ligands, where such ligands should
specifically bind to cyclophilin with an affinity that is between about 10-6
and 10-9 M. A variety of ligands that bind to cyclophilins are
also known, where such ligands include the naturally occurring
cyclosporins, such as cyclosporin A, as well as synthetic derivatives and
mimetics thereof, including those described in U.S. Pat. Nos.: 5,401,649;
5,318,901; 5,236,899; 5,227,467; 5,214,130; 5,122,511; 5,116,816;
5,089,390; 5,079,341; 5,017,597; 4,940,719; 4,914,188; 4,885,276;
4,798,823; 4,771,122; 4,703,033; 4,554,351; 4,396,542; 4,289,851;
4,288,431; 4,220,610 and 4,210,581, the disclosures of which are herein
incorporated by reference.
Representative ligands for use as the Z moiety in the bifunctional
molecule also include ligands that bind to extracellular presenter
proteins. Such ligands should specifically bind to their respective
presenter protein with an affinity of at least about 10-4 M.
Ligands of interest for use in binding to extracellular presenter proteins
include: albumin ligands, such as arachidonate, bilirubin, hemin, aspirin,
ibuprofen, para-amino salicylic acid, myristylate, plamitate, linoleate,
warfarin etc.; Vitamin A and derivatives thereof, Vitamin D and
derivatives thereof, and the like.
Linking Moiety: L
The Z and X moieties of the bifunctional molecule are joined together
through linking moiety L, where L may be either a bond or a linking group.
Where linking groups are employed, such groups are chosen to provide for
covalent attachment of the drug and ligand moieties through the linking
group, as well as the desired structural relationship of the bifunctional
molecule with respect to its intended presenter protein. Linking groups of
interest may vary widely depending on the nature of the drug and ligand
moieties. The linking group, when present, should preferably be
biologically inert. Appropriate linkers can readily be identified using
the affinity, specificity or selectivity assays described supra. A variety
of linking groups are known to those of skill in the art and find use in
the subject bifunctional molecules. The linker groups should be
sufficiently small so as to provide a bifunctional molecule having the
overall size characteristics as described above, the size of the linker
group, when present, is generally at least about 50 daltons, usually at
least about 100 daltons and may be as large as 1000 daltons or larger, but
generally will not exceed about 500 daltons and usually will not exceed
about 300 daltons. Generally, such linkers will comprise a spacer group
terminated at either end with a reactive functionality capable of
covalently bonding to the drug or ligand moieties. Spacer groups of
interest possibly include aliphatic and unsaturated hydrocarbon chains,
spacers containing heteroatoms such as oxygen (ethers such as polyethylene
glycol) or nitrogen (polyamines), peptides, carbohydrates, cyclic or
acyclic systems that may possibly contain heteroatoms. Spacer groups may
also be comprised of ligands that bind to metals such that the presence of
a metal ion coordinates two or more ligands to form a complex. Specific
spacer elements include: 1,4-diaminohexane, xylylenediamine, terephthalic
acid, 3,6-dioxaoctanedioic acid, ethylenediamine-N,N-diacetic acid,
1,1'-ethylenebis(5-oxo-3-pyrrolidinecarboxylic acid),
4,4'-ethylenedipiperidine. Potential reactive functionalities include
nucleophilic functional groups (amines, alcohols, thiols, hydrazides),
electrophilic functional groups (aldehydes, esters, vinyl ketones,
epoxides, isocyanates, maleimides), functional groups capable of
cycloaddition reactions, forming disulfide bonds, or binding to metals.
Specific examples include primary and secondary amines, hydroxamic acids,
N-hydroxysuccinimidyl esters, N-hydroxysuccinimidyl carbonates,
oxycarbonylimidazoles, nitrophenylesters, trifluoroethyl esters, glycidyl
ethers, vinylsulfones, and maleimides. Specific linker groups that may
find use in the subject bifunctional molecules include heterofunctional
compounds, such as azidobenzoyl hydrazide,
N-[4-(p-azidosalicylamino)butyl]-3'-[2'-pyridyldithio]propionamid),
bis-sulfosuccinimidyl suberate, dimethyladipimidate,
disuccinimidyltartrate, N- -maleimidobutyryloxysuccinimide ester, N-hydroxy
sulfosuccinimidyl-4-azidobenzoate, N-succinimidyl
[4-azidophenyl]-1,3'-dithiopropionate, N-succinimidyl
[4-iodoacetyl]aminobenzoate, glutaraldehyde, and succinimidyl
4-[N-maleimidomethyl]cyclohexane-1-carboxylate,
3-(2-pyridyldithio)propionic acid N-hydroxysuccinimide ester (SPDP),
4-(N-maleimidomethyl)-cyclohexane-1-carboxylic acid N-hydroxysuccinimide
ester (SMCC), and the like.
Methods of Making Bifunctional Molecules
The bifunctional molecules of the subject invention may be prepared using
any convenient methodology. In many embodiments of the subject invention,
the invention is used to improve one or more aspects of an identified and
at least partially characterized small molecule drug. Generally, a small
molecule drug of interest but lacking in some of the desired biological
activities, such as affinity, specificity or selectivity, is first
identified. The drug may be a previously identified biologically active
agent or compound having the desired target binding activity, or one that
has been newly discovered using one or more drug discovery techniques. The
bifunctional molecule is then generally produced from the drug using a
rational or combinatorial approach.
In a rational approach, the bifunctional molecules are constructed from
their individual components, e.g. ligand, linker and drug. The components
can be covalently bonded to one another through functional groups, as is
known in the art, where such functional groups may be present on the
components or introduced onto the components using one or more steps, e.g.
oxidation reactions, reduction reactions, cleavage reactions and the like.
Functional groups that may be used in covalently bonding the components
together to produce the bifunctional molecule include: hydroxy, sulfhydryl,
amino, and the like. The particular portion of the different components
that are modified to provide for covalent linkage will be chosen so as not
to substantially adversely interfere with that components desired binding
activity, e.g. for the drug moiety, a region that does not affect the
target binding activity will be modified, such that a sufficient amount of
the desired drug activity is preserved. Where necessary and/or desired,
certain moieties on the components may be protected using blocking groups,
as is known in the art, see, e.g. Green & Wuts, Protective Groups in
Organic Synthesis (John Wiley & Sons) (1991).
The above component approach to production of the bifunctional molecule is
best suited for situations where the crystal structures of the presenter
protein, ligand, drug and target are known, such that molecular modeling
can be used to determine the optimal linker size, if any, to be employed
to join the different components.
Alternatively, the bifunctional molecule can be produced using
combinatorial methods to produce large libraries of potential bifunctional
molecules which may then be screened for identification of a bifunctional
molecule with the desired binding affinity and/or specificity. Methods for
producing and screening combinatorial libraries of molecules include: U.S.
Pat. Nos. 5,741,713; 5,734,018; 5,731,423; 5,721,099; 5,708,153;
5,698,673; 5,688,997; 5,688,696; 5,684,711; 5,641,862; 5,639,603;
5,593,853; 5,574,656; 5,571,698; 5,565,324; 5,549,974; 5,545,568;
5,541,061; 5,525,735; 5,463,564; 5,440,016; 5,438,119; 5,223,409, the
disclosures of which are herein incorporated by reference.
Alternatively, the bifunctional molecule may be produced using medicinal
chemistry and known structure-activity relationships for the presenter
protein ligand and the drug. In particular, this approach will provide
insight as to where to join the two moieties to the linker.
Claim 1 of 15 Claims
What is claimed is:
1. A synthetic bifunctional molecule of less than about 5000 daltons
consisting of a drug moiety and a presenter protein ligand joined thereto,
wherein said drug moiety binds to a drug target and said presenter protein
ligand binds to a presenter protein that is not said drug target and said
drug moiety exhibits at least one of enhanced affinity, specificity or
selectivity for its target as compared to a corresponding free drug
control.
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