Patent Application
20200224176
The present disclosure relates generally to the field of treating nicotine addiction or nicotine poisoning. Described are nicotine-degrading enzyme variants that exhibit increased nicotine-degrading activity and/or decreased immunogenicity relative to the wild-type NicA2 enzyme, compositions comprising them, and methods using them.
The following discussion is provided to aid the reader in understanding the disclosure and is not admitted to describe or constitute prior art thereto.
Smoking is a global healthcare problem. The World Health Organization estimates that there are 1.3 billion smokers worldwide today and nearly five million tobacco-related deaths each year. If current smoking patterns continue, smoking will cause some 10 million deaths each year by 2020. According to the U.S. Center for Disease Control (CDC), tobacco use is the single leading preventable cause of death in the U.S., responsible for approximately 438,000 deaths each year. In addition, it is estimated that smoking results in an annual health-related economic cost of approximately $157 billion. The CDC estimates that, among the 45 million adult smokers in the U.S., 70% want to quit, but less than five percent of those who try to quit remain smoke-free after 12 months.
One reason it is difficult to quit smoking is addiction to the nicotine in cigarettes and other tobacco products. Nicotine is a small molecule that upon inhalation into the body quickly passes into the bloodstream and subsequently reaches the brain by crossing the blood-brain barrier. Once in the brain, the nicotine binds to nicotinic receptors, which results in the release of stimulants, such as dopamine, activating the reward system and providing the smoker with a positive and pleasurable re-enforcing experience, which leads to addiction.
In addition to the detrimental health effects associated with smoking and other tobacco use, nicotine poisoning, which results from ingestion or inhalation of too much nicotine, is another nicotine-related health problem. The LD50 of nicotine is 50 mg/kg for rats and 3 mg/kg for mice. A dose as low as 30-60 mg (0.5-1.0 mg/kg) may be lethal for adult humans, while children may become ill following ingestion of one cigarette, and ingestion of more than this may cause a child to become severely ill. On the other hand, some evidence suggests that a lethal dose may be as high as 500 mg or more (1.0-7.1 mg/kg) for a human adult. In either case, acute nicotine poisoning usually occurs in children who accidentally chew on nicotine gum or patches or ingest the “e-liquid” of electronic cigarettes. In rare instances, children have also been known to become ill after ingesting cigarettes. There are several hundred cases of acute nicotine poisoning reported every month in the United States alone.
Typically, initial treatment of nicotine poisoning may include the administration of activated charcoal to try to reduce gastrointestinal absorption, while additional treatment may address the symptoms that result from nicotine poisoning.
The use of the wild-type NicA2 enzyme for smoking cessation has been proposed (see, e.g., Xue et al., J. Am. Chem. Soc. 137: 10136-39 (2015)). Nevertheless, there remains a need for additional agents, compositions and methods for treating nicotine addiction, as well as for agents, compositions, and methods for treating nicotine poisoning.
Described herein are nicotine-degrading enzyme variants that exhibit increased nicotine-degrading activity and/or decreased immunogenicity relative to the wild-type NicA2 enzyme, compositions comprising them, and methods using them.
In some embodiments, the nicotine-degrading enzyme variant comprises an amino acid sequence that is a variant of the amino acid sequence of the wild-type NicA2 enzyme set forth in SEQ ID NO: 1, wherein the variant sequence has at least one substitution, addition, or deletion relative to SEQ ID NO: 1 that increases the nicotine-degrading activity and/or decreases the immunogenicity of the variant relative to the wild-type NicA2 enzyme.
In some embodiments, the variant exhibits increased nicotine-degrading activity relative to the wild-type NicA2 enzyme. In some embodiments, the variant of the wild-type NicA2 sequence comprises the substitution AF104L, G106S, A107H, A107P, 107R, A107K, A107T, F355C, F355V, W427Q, W427E, W427S, W427M, W427H, W427L, W427R, R91A, R91Q, R91F, R91G, R91T, R91L, R91S, R91N, T250G, T250L, T250R, T250V, T250P, K340P, K340I, K340V, K340D, K340E, Q366K, Q366E, Q366V, Q366L, Q366I, Q366Y, T381P, T381I, T381V, T381Q, T381N, T381L, T381M, N462L, N462Y, N462S, N462F, N462G, N462E, N462A, N462M, I463F, I463Y, I463A, I463V, I463L, L217Q, L217G, L217E, L217I, L217C, or L217S, or any two or more thereof at different positions. In some embodiments, the variant sequence comprises an amino acid sequence selected from any one of SEQ ID NOs: 5-56. In some embodiments, the nicotine-degrading activity of the variant is at least 200%, at least 300%, or at least 400% of the nicotine-degrading activity of the wild-type NicA2 enzyme. In some embodiments, the variant sequence comprises at least one, at least two, or at least three substitution(s) at amino acid positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1. In some embodiments, the variant may have a deletion of 1-52 amino acids at the N-terminus of the peptide. For example, a variant derived from SEQ ID NO:1 may comprise a deletion of 5, 10, 15, 20, 25, 30, 35, 40, 45, 50, 51, or 52 amino acids from the N-terminus of the peptide. In some embodiments, the variant additionally or alternatively may have a deletion of 1 or more amino acids from the C-terminus of the peptide, such as a deletion of the C-terminal residue.
Additionally or alternatively, in some embodiments, the NicA2 variant exhibits reduced immunogenicity relative to the wild-type NicA2 enzyme. In some embodiments, the immunogenicity relative to the wild-type NicA2 enzyme is reduced by 75% or more. In some embodiments, the variant sequence comprises at least one substitution, addition, or deletion in an immunogenic T-cell epitope within a region selected from amino acids 10-32, 68-94, 189-225, 248-285, 296-327, 336-391, or 435-459 of SEQ ID NO: 1. In some embodiments, the variant sequence comprises at least one substitution, addition, or deletion in an immunogenic T-cell epitope selected from amino acids 16-24, 73-81, 258-266, 302-310, 373-381, or 447-455 of SEQ ID NO: 1. In some embodiments, the variant sequence comprises at least one substitution, addition, or deletion at a position selected from (a) amino acid residues 74, 77, 78, or 80 of SEQ ID NO: 1; (b) amino acid residues 262, 263, 264, or 266 of SEQ ID NO: 1; (c) amino acid residues 303, 304, 306, or 310 of SEQ ID NO: 1; (d) amino acid residues 374, 377, 378, 382, or 383 of SEQ ID NO: 1; and/or (e) amino acid residues 450, 451, 452, or 457 of SEQ ID NO: 1. In some embodiments, the variant sequence comprises at least one substitution or substation combination selected from those listed for Epitope B in Table 3. Additionally or alternatively, in some embodiments, the variant sequence comprises at least one substitution or substation combination selected from those listed for Epitope 1 in Table 3. Additionally or alternatively, in some embodiments, the variant sequence comprises at least one substitution or substation combination selected from those listed for Epitope 2 in Table 3. Additionally or alternatively, in some embodiments, the variant sequence comprises at least one substitution or substation combination selected from those listed for Epitope 3 in Table 3. Additionally or alternatively, in some embodiments, the variant sequence comprises at least one substitution or substation combination selected from those listed for Epitope 4 in Table 3. In some embodiments, the variant comprises at least one substitution or substation combination selected from (a) I262T; (b) I262S; (c) I262A; (d) I262T and A264L; and/or (e) I262T and N263R.
Additionally or alternatively, in some embodiments, the variant may further comprise at least one substitution at amino acid positions 74, 77, 78, 80, 262-266, 303, 304, 306, 310, 374, 377, 378, 382, 383, 450-452, or 457. For example, the variant may comprise a substitution at amino acid position 262 or 263, or the variant may comprise substitutions at amino acid positions 262 and 263. In some embodiments, the substitution may be I262A, I262T, and/or N263R. For example, in some embodiments, the variant sequence comprises an amino acid sequence of SEQ ID NO: 62 or 63.
In some embodiments, the nicotine-degrading enzyme variant comprises an amino acid sequence that is a variant of the amino acid sequence of the wild-type NOX enzyme set forth in SEQ ID NO: 57, wherein the variant sequence has at least one substitution, addition, or deletion relative to SEQ ID NO: 57 that increases the nicotine-degrading activity and/or decreases the immunogenicity of the variant relative to the wild-type NOX enzyme or the wild-type NicA2 enzyme.
In some embodiments, the variant of the wild-type NOX sequence comprises the substitution at position 423 of SEQ ID NO: 57. For example, the variant sequence may comprise the substitution W423A, W423S, W423E, or W423H. In some embodiments, the variant sequence comprises an amino acid sequence selected from any one of SEQ ID NOs: 58-61. In some embodiments, the nicotine-degrading activity of the NOX variant is at least 200% of the nicotine-degrading activity of the wild-type NicA2 enzyme. In some embodiments, the nicotine-degrading activity of the NOX variant is at least 200% of the nicotine-degrading activity of the wild-type NOX enzyme.
Additionally or alternatively, in some embodiments, the NOX variant exhibits reduced immunogenicity relative to the wild-type NOX enzyme or the wild-type NicA2 enzyme. In some embodiments, the immunogenicity relative to the wild-type NOX or NicA2 enzymes is reduced by 75% or more.
Additionally or alternatively, in some embodiments, the variant further comprises a deletion of at least amino acids 1-38 of SEQ ID NOs: 1 or 57, or of amino acids 1-50 of SEQ ID NOs: 1 or 57, or amino acids 1-51 of SEQ ID NOs: 1 or 57, or amino acids 1-52 of SEQ ID NOs: 1 or 57. In some embodiments, the variant may further comprises a His-tag, such as a His-tag comprising the amino acid sequence of SEQ ID NO: 139. Additionally or alternatively, in some embodiments, the variant comprises a deletion of one or more C-terminal amino acids, such as a deletion of the residue corresponding to S482 of the wild-type sequence.
In any of the embodiments, the variant may be a long-acting variant, such as wherein the variant is conjugated to an albumin-binding peptide, an albumin-binding protein domain, human serum albumin, or an inert polypeptide, such as recombinant PEG (XTEN®), a homo-amino acid polymer (HAP), a proline-alanine serine polymer (PAS), or an elastin-like peptide (ELP). In specific embodiments, the long-acting variant is conjugated to polyethylene glycol (i.e., the variant is PEGylated).
In some embodiments, there are provided pharmaceutical compositions comprising a nicotine-degrading enzyme variant described herein and a pharmaceutically acceptable carrier. In some embodiments, the composition is formulated for injection or infusion. In some embodiments the composition is formulated for oral administration.
In some embodiments, there are provided methods of treating nicotine addiction or facilitating smoking cessation, comprising administering to a mammalian subject in need thereof a therapeutically effective amount of a nicotine-degrading enzyme variant or composition as described herein. In some embodiments, the mammalian subject is a human subject. In some embodiments, the nicotine addiction is associated with the ingestion of a nicotine product selected from tobacco products and electronic cigarettes.
In some embodiments, there are provided methods of treating nicotine poisoning, comprising administering to a mammalian subject in need thereof a therapeutically effective amount of a nicotine-degrading enzyme variant or composition as described herein. In some embodiments, the mammalian subject is a human subject, or, more specifically, a human child. In some embodiments, the nicotine poisoning is associated with the consumption of a nicotine product selected from tobacco products and electronic cigarettes.
Also provided are nicotine-degrading enzyme variants and compositions as described herein for use in treating nicotine addiction or facilitating smoking cessation.
Also provided are uses of nicotine-degrading enzyme variants and compositions as described herein in the manufacture of a medicament for the treatment of nicotine addiction or facilitation of smoking cessation.
The foregoing general description and following detailed description are exemplary and explanatory and are intended to provide further explanation of the invention.
Described herein are nicotine-degrading enzyme variants that exhibit increased nicotine-degrading activity and/or decreased immunogenicity relative to the wild-type NicA2 or NOX enzymes, compositions comprising them, and methods using them, including methods for treating nicotine addiction and methods for facilitating nicotine cessation (e.g., smoking cessation) in a subject in need thereof.
As used herein, the singular forms “a”, “an” and “the” are used interchangeably and intended to include the plural forms as well and fall within each meaning, unless the context clearly indicates otherwise. Also, as used herein, “and/or” refers to and encompasses any and all possible permutations and combinations of one or more of the listed items.
As used herein, the term “about” will be understood by persons of ordinary skill in the art and will vary to some extent depending upon the context in which it is used. If there are uses of the term which are not clear to persons of ordinary skill in the art given the context in which it is used, “about” will mean up to plus or minus 10% of the particular term.
As used herein, the phrases “therapeutically effective amount” and “therapeutic level” mean a nicotine-degrading enzyme dosage or plasma concentration in a subject that provides the specific pharmacological effect for which the nicotine-degrading enzyme is administered to a subject in need of such treatment, i.e. to degrade nicotine in the subject, and/or treat nicotine addiction and/or facilitate smoking cessation and/or treat nicotine poisoning. It is emphasized that a therapeutically effective amount or therapeutic level of a nicotine-degrading enzyme will not always be effective in treating the nicotine addiction or facilitate smoking cessation of a given subject, even though such dosage is deemed to be a therapeutically effective amount by those of skill in the art. For convenience only, exemplary amounts are provided below.
Those skilled in the art can adjust such amounts in accordance with standard practices as needed to treat a specific subject. The therapeutically effective amount may vary based on the route of administration and dosage form, the age and weight of the subject, and/or the subject's condition, including the degree of nicotine addiction, amount of nicotine generally consumed/ingested by the subject, and/or the subject's plasma levels of nicotine at the time of treatment and/or the amount of nicotine localized in the brain at the time of treatment.
The terms “treatment” or “treating” as used herein with reference to nicotine addiction or smoking cessation refer to one or more of: reducing, ameliorating or eliminating one or more symptoms or effects of nicotine withdrawal; reducing the number of cigarettes or the amount of nicotine consumed by a subject; and/or reducing the subject's plasma levels of nicotine and/or reducing the amount of nicotine localized in specific tissues of the subject (e.g., brain/central nervous system, heart and vasculature, etc.).
The terms “treatment” or “treating” as used herein with reference to nicotine poisoning refer to reducing, ameliorating or eliminating one or more symptoms or effects of nicotine and/or reducing the subject's plasma levels of nicotine and/or reducing the amount of nicotine localized in specific tissues of the subject (e.g., brain/central nervous system, heart and vasculature, etc.).
The terms “individual,” “subject,” and “patient” are used interchangeably herein, and refer to any individual mammal subject, e.g., bovine, canine, feline, equine, or human.
In accordance with FDA guidance, as used herein, “child” refers to a human subject from 0 through about 19 years of age. A child can be a subject that begins a course of treatment prior to turning about 19 years of age, even if the subject continues treatment beyond 19 years of age.
Nicotine is a nitrogen-containing chemical made by several types of plants including tobacco and other members of the nightshade family. When humans, mammals and most other types of animals are exposed to nicotine, it increases their heart rate, heart muscle oxygen consumption rate, and heart stroke volume. The consumption of nicotine is also linked to raised alertness, euphoria, and a sensation of being relaxed. However, nicotine is highly addictive.
By binding to nicotinic acetylcholine receptors in the brain, nicotine elicits its psychoactive effects and increases the levels of several neurotransmitters in various brain structures. Nicotine has a higher affinity for nicotinic receptors in the brain than those in skeletal muscle, though at toxic doses it can induce contractions and respiratory paralysis. Nicotine's selectivity is thought to be due to a particular amino acid difference on these receptor subtypes. The structure of nicotine is shown in Formula I below.
People who regularly consume nicotine and then suddenly stop experience withdrawal symptoms, which may include cravings, a sense of emptiness, anxiety, depression, moodiness, irritability, and inattentiveness. The American Heart Association says that nicotine (from smoking tobacco) is one of the hardest substances to quit—at least as hard as heroin.
Nicotine poisoning can occur when an individual consumes loose tobacco, cigarettes, nicotine gum, patches, or the “e-liquid” of electronic cigarettes (e.g., the nicotine-containing liquid that is used in electronic cigarettes and other vaporizing devices) or other products containing tobacco or tobacco extracts, or other products, supplies or intermediates containing nicotine. Indeed, a recent study showed that the incidence of nicotine poisoning from exposure to e-cigarettes increased 1492.9% between January 2012 and April 2015 (Kamboj et al. P
Nicotine poisoning can produce neurological symptoms (convulsions, coma, depression, confusion, fainting, headache), cardiovascular symptoms (rapid heartbeat, high blood pressure), respiratory symptoms (difficulty breathing, rapid breathing), gastrointestinal symptoms (increased salivation, abdominal cramps, vomiting), and musculoskeletal symptoms (Muscular twitching, weakness), as well as death.
Described herein are nicotine-degrading enzyme variants comprising an amino acid sequence that is a variant of the amino acid sequence of the wild-type NicA2 or NOX enzyme set forth in SEQ ID NO: 1 or SEQ ID NO: 57, respectively, wherein the variant sequence has at least one substitution, addition, or deletion relative to SEQ ID NO: 1 or SEQ ID NO: 57 that increases the nicotine-degrading activity and/or decreases the immunogenicity of the variant relative to the wild-type NicA2 or NOX enzyme, respectively.
NicA2 (nicotine oxidoreductase; PPS_4081; GenBank accession number: AEJ14620.1), was isolated from Pseudomonas putida strain S16. See, e.g., Tang et al., P
NOX (nicotine amine oxidase; GenBank accession number: AGH68979.1) has been isolated from Pseudomonas sp. HZN6 (See, e.g., Qiu et al., Appl. Environ. Microbiol. 78, 2154-2160 (2012); Qiu et al., Appl. Environ. Microbiol. 79, 2164-2171 (2013)). NOX is closely related to NicA2, with an amino acid identity of 83%. NOX was reported to have a catalytic activity like NicA2, degrading nicotine to N-methylmyosmine.
The present disclosure provides variants of wild-type NicA2 and NOX with improved activity and/or decreased immunogenicity. In some embodiments, the disclosed variants may have an amino acid identity that is about 80, about 85, about 90, about 95, about 96, about 97, about 98, or about 99 percent of wild-type NicA2 or NOX. In some embodiments, the disclosed variants may share about 80, about 85, about 90, about 95, about 96, about 97, about 98, or about 99 percent homology with wild-type NicA2 or NOX. For instance, in some embodiments, the disclosed variants may comprise the amino acids residues conserved between NicA2 and NOX.
The amino acid sequence of wild-type NicA2, wild-type NOX, and exemplary variants thereof are set forth in Table 1 below. The disclosed variants were produced with a linker and His-tag (GGGGSGSGHHHHHH, SEQ ID NO: 139) at the C-terminal end, which was subsequently removed. The His-tag was used to assist in purification of the variants, but other means or methods of purification that do not require a His-tag may also be used.
Residues highlighted in grey were identified as MHCII epitopes as disclosed in Example 2.
As noted above the nicotine-degrading enzyme variants may exhibit increased nicotine-degrading activity and/or decreased immunogenicity relative to the wild-type NicA2 enzyme. The variants may comprise one or more mutations to the amino acid sequence of wild-type NicA2, including one or more deletions, additions, or substitutions. A substitution mutation may be “conservative” or “non-conservative.” “Conservative” refers to a substitution within the same family of amino acids, while “non-conservative” refers to substitutions across families of amino acids. Families of amino acids and “conservative” and “non-conservative” substitutions relative thereto are known in the art. For example, the naturally occurring amino acids may be divided into the following four families and conservative substitutions will take place within those families, while non-conservative substitutions will take place across different families.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations in an active site of the wild-type NicA2 enzyme relevant to its nicotine-degrading activity, such as a mutation at one or more positions selected from any one of amino acid residues 90-93, 95, 102-109, 113, 116, 130, 132, 138, 155, 159, 210, 213-215, 217-220, 234, 245, 246, 248-251, 253, 254, 258, 334, 336, 339-342, 353, 355, 363-367, 378-382, 415-418, 423-429, 459-463, 465, or 466 of SEQ ID NO:1, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions in positions listed in Table 2 and shown on the structure in
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations to the wild-type NOX enzyme relevant to its nicotine-degrading activity, such as a mutation at amino acid residue 423 of SEQ ID NO: 57, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. For instance, in some embodiments, the variant may comprise the substitution W423A, W423 S, W423E, or W423H.
In some embodiments, at least one mutation that increases the nicotine-degrading activity or increases the catalytic activity of the enzyme is introduced into the variant, allowing the variant to more rapidly and/or more efficiently break-down nicotine. In some embodiments, such a mutation may improve various measures of enzymatic performance, including but not limited to, increasing kcat, lowering KM, increasing kcat/KM and/or increasing Vmax. Thus, in some embodiments, a variant may comprise 1, 2, 3, 4, 5, 6, 7, 8, 9, or 10 or more mutations in an active site of the wild-type NicA2 or wild-type NOX enzymes and/or in the aromatic cage, and exhibit increased nicotine-degrading activity as measured by increased kcat, lowered KM, increased kcat/KM, and/or increased Vmax, relative to the wild-type NicA2 enzyme.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations in the aromatic cage of the wild-type NicA2 enzyme formed by the tryptophan at position 427 and the asparagine at position 462 of SEQ ID NO:1, such as a mutation at one or more of these positions, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, a mutation that increases the nicotine-degrading activity is at one or more of positions 427 or 462 of SEQ ID NO:1, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 427 or 462 of SEQ ID NO:1.
In some embodiments, the mutation at position 427 is the substitution W427Q, where the tryptophan (W) at position 427 of SEQ ID NO:1 (in the aromatic cage) is substituted with glutamine (Q). The variant having the amino acid sequence of SEQ ID NO:5 is an example of this type of variant. This is a non-conservative substitution in which a non-polar, aromatic amino acid is replaced with a polar, uncharged amino acid. Generally, a non-conservative substitution to an active site of an enzyme would be expected to render the enzyme dysfunctional or inoperative, yet, surprisingly, this variant exhibits significantly increased enzyme-degrading activity as compared to the wild-type NicA2 enzyme.
In some embodiments, the mutation at position 427 is the substitution W427E, where the tryptophan (W) at position 427 of SEQ ID NO:1 is substituted with glutamic acid (E). The variant having the amino acid sequence of SEQ ID NO:6 is an example of this type of variant. In some embodiments, the mutation is the substitution W427S, where the tryptophan (W) at position 427 of SEQ ID NO:1 is substituted with serine (S). The variant having the amino acid sequence of SEQ ID NO:7 is an example of this type of variant. In some embodiments, the mutation is the substitution W427M, where the tryptophan (W) at position 427 of SEQ ID NO:1 is substituted with methionine (M). The variant having the amino acid sequence of SEQ ID NO:8 is an example of this type of variant. In some embodiments, the mutation is the substitution W427R, where the tryptophan (W) at position 427 of SEQ ID NO:1 is substituted with arginine (R). The variant having the amino acid sequence of SEQ ID NO:135 is an example of this type of variant. In some embodiments, the mutation is the substitution W427H, where the tryptophan (W) at position 427 of SEQ ID NO:1 is substituted with histidine (H). The variant having the amino acid sequence of SEQ ID NO:137 is an example of this type of variant. In some embodiments, the mutation is the substitution W427M, where the tryptophan (W) at position 427 of SEQ ID NO:1 is substituted with leucine (L). The variant having the amino acid sequence of SEQ ID NO:138 is an example of this type of variant.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations including a mutation in the arginine (R) at position 91 of SEQ ID NO:1, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, a mutation that increases the nicotine-degrading activity is at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1.
In some embodiments, the mutation at position 91 is the substitution R91A, where the arginine (R) at position 91 of SEQ ID NO:1 is substituted with alanine (A). The variant having the amino acid sequence of SEQ ID NO:9 is an example of this type of variant. In some embodiments, the mutation at position 91 is the substitution R91Q, where the arginine (R) at position 91 of SEQ ID NO:1 is substituted with glutamine (Q). The variants having the amino acid sequences of SEQ ID NOs:10 and 129 are examples of this type of variant. In some embodiments, the mutation at position 91 is the substitution R91F, where the arginine (R) at position 91 of SEQ ID NO:1 is substituted with phenylalanine (F). The variant having the amino acid sequence of SEQ ID NO:11 is an example of this type of variant. In some embodiments, the mutation at position 91 is the substitution R91G, where the arginine (R) at position 91 of SEQ ID NO:1 is substituted with glycine (G). The variant having the amino acid sequence of SEQ ID NO:12 is an example of this type of variant. In some embodiments, the mutation at position 91 is the substitution R91T, where the arginine (R) at position 91 of SEQ ID NO:1 is substituted with threonine (T). The variant having the amino acid sequence of SEQ ID NO:13 is an example of this type of variant. In some embodiments, the mutation at position 91 is the substitution R91L, where the arginine (R) at position 91 of SEQ ID NO:1 is substituted with leucine (L). The variant having the amino acid sequence of SEQ ID NO:14 is an example of this type of variant. In some embodiments, the mutation at position 91 is the substitution R91S, where the arginine (R) at position 91 of SEQ ID NO:1 is substituted with serine (S). The variant having the amino acid sequence of SEQ ID NO:15 is an example of this type of variant. In some embodiments, the mutation at position 91 is the substitution R91N, where the arginine (R) at position 91 of SEQ ID NO:1 is substituted with asparagine (N). The variant having the amino acid sequence of SEQ ID NO:16 is an example of this type of variant.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations including a mutation in the threonine (T) at position 250 of SEQ ID NO:1, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, a mutation that increases the nicotine-degrading activity is at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1.
In some embodiments, the mutation at position 250 is the substitution T250G, where the threonine (T) at position 250 of SEQ ID NO:1 is substituted with glycine (G). The variant having the amino acid sequence of SEQ ID NO:17 is an example of this type of variant. In some embodiments, the mutation at position 250 is the substitution T250L, where the threonine (T) at position 250 of SEQ ID NO:1 is substituted with leucine (L). The variant having the amino acid sequence of SEQ ID NO:18 is an example of this type of variant. In some embodiments, the mutation at position 250 is the substitution T250R, where the threonine (T) at position 250 of SEQ ID NO:1 is substituted with arginine (R). The variant having the amino acid sequence of SEQ ID NO:19 is an example of this type of variant. In some embodiments, the mutation at position 250 is the substitution T250V, where the threonine (T) at position 250 of SEQ ID NO:1 is substituted with valine (V). The variant having the amino acid sequence of SEQ ID NO:20 is an example of this type of variant. In some embodiments, the mutation at position 250 is the substitution T250P, where the threonine (T) at position 250 of SEQ ID NO:1 is substituted with proline (P). The variant having the amino acid sequence of SEQ ID NO:136 is an example of this type of variant.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations including a mutation in the lysine (K) at position 340 of SEQ ID NO:1, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, a mutation that increases the nicotine-degrading activity is at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1.
In some embodiments, the mutation at position 340 is the substitution K340P, where the lysine (K) at position 340 of SEQ ID NO:1 is substituted with proline (P). The variant having the amino acid sequence of SEQ ID NO:21 is an example of this type of variant. In some embodiments, the mutation at position 340 is the substitution K340I, where the lysine (K) at position 340 of SEQ ID NO:1 is substituted with isoleucine (I). The variant having the amino acid sequence of SEQ ID NO:22 is an example of this type of variant. In some embodiments, the mutation at position 340 is the substitution K340V, where the lysine (K) at position 340 of SEQ ID NO:1 is substituted with valine (V). The variant having the amino acid sequence of SEQ ID NO:23 is an example of this type of variant. In some embodiments, the mutation at position 340 is the substitution K340D, where the lysine (K) at position 340 of SEQ ID NO:1 is substituted with aspartic acid (D). The variant having the amino acid sequence of SEQ ID NO:24 is an example of this type of variant. In some embodiments, the mutation at position 340 is the substitution K340E, where the lysine (K) at position 340 of SEQ ID NO:1 is substituted with glutamic acid (E). The variant having the amino acid sequence of SEQ ID NO:25 is an example of this type of variant.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations including a mutation in the glutamine (Q) at position 366 of SEQ ID NO:1, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, a mutation that increases the nicotine-degrading activity is at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1.
In some embodiments, the mutation at position 366 is the substitution Q366K, where the glutamine (Q) at position 366 of SEQ ID NO:1 is substituted with lysine (K). The variants having the amino acid sequences of SEQ ID NOs:26 and 130 are examples of this type of variant. In some embodiments, the mutation at position 366 is the substitution Q366E, where the glutamine (Q) at position 366 of SEQ ID NO:1 is substituted with glutamic acid (E). The variant having the amino acid sequence of SEQ ID NO:27 is an example of this type of variant. In some embodiments, the mutation at position 366 is the substitution Q366V, where the glutamine (Q) at position 366 of SEQ ID NO:1 is substituted with valine (V). The variant having the amino acid sequence of SEQ ID NO:28 is an example of this type of variant. In some embodiments, the mutation at position 366 is the substitution Q366L, where the glutamine (Q) at position 366 of SEQ ID NO:1 is substituted with leucine (L). The variant having the amino acid sequence of SEQ ID NO:29 is an example of this type of variant. In some embodiments, the mutation at position 366 is the substitution Q366I, where the glutamine (Q) at position 366 of SEQ ID NO:1 is substituted with isoleucine (I). The variant having the amino acid sequence of SEQ ID NO:30 is an example of this type of variant. In some embodiments, the mutation at position 366 is the substitution Q366Y, where the glutamine (Q) at position 366 of SEQ ID NO:1 is substituted with tyrosine (Y). The variant having the amino acid sequence of SEQ ID NO:31 is an example of this type of variant.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations including a mutation in the threonine (T) at position 381 of SEQ ID NO:1, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, a mutation that increases the nicotine-degrading activity is at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1.
In some embodiments, the mutation at position 381 is the substitution T381P, where the threonine (T) at position 381 of SEQ ID NO:1 is substituted with proline (P). The variant having the amino acid sequence of SEQ ID NO:32 is an example of this type of variant. In some embodiments, the mutation at position 381 is the substitution T381I, where the threonine (T) at position 381 of SEQ ID NO:1 is substituted with isoleucine (I). The variant having the amino acid sequence of SEQ ID NO:33 is an example of this type of variant. In some embodiments, the mutation at position 381 is the substitution T381V, where the threonine (T) at position 381 of SEQ ID NO:1 is substituted with valine (V). The variants having the amino acid sequences of SEQ ID NOs:34 and 131 are examples of this type of variant. In some embodiments, the mutation at position 381 is the substitution T381Q, where the threonine (T) at position 381 of SEQ ID NO:1 is substituted with glutamine (Q). The variant having the amino acid sequence of SEQ ID NO:35 is an example of this type of variant. In some embodiments, the mutation at position 381 is the substitution T381N, where the threonine (T) at position 381 of SEQ ID NO:1 is substituted with asparagine (N). The variant having the amino acid sequence of SEQ ID NO:36 is an example of this type of variant. In some embodiments, the mutation at position 381 is the substitution T381L, where the threonine (T) at position 381 of SEQ ID NO:1 is substituted with leucine (L). The variant having the amino acid sequence of SEQ ID NO:37 is an example of this type of variant. In some embodiments, the mutation at position 381 is the substitution T381M, where the threonine (T) at position 381 of SEQ ID NO:1 is substituted with methionine (M). The variant having the amino acid sequence of SEQ ID NO:38 is an example of this type of variant.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations including a mutation in the asparagine (N) at position 462 of SEQ ID NO:1, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, a mutation that increases the nicotine-degrading activity is at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1.
In some embodiments, the mutation at position 462 is the substitution N462L, where the asparagine (N) at position 462 of SEQ ID NO:1 is substituted with leucine (L). The variants having the amino acid sequences of SEQ ID NOs: 39 and 132 are examples of this type of variant. In some embodiments, the mutation at position 462 is the substitution N462Y, where the asparagine (N) at position 462 of SEQ ID NO:1 is substituted with tyrosine (Y). The variants having the amino acid sequences of SEQ ID NOs:40 and 133 are examples of this type of variant. In some embodiments, the mutation at position 462 is the substitution N462S, where the asparagine (N) at position 462 of SEQ ID NO:1 is substituted with serine (S). The variant having the amino acid sequence of SEQ ID NO:41 is an example of this type of variant. In some embodiments, the mutation at position 462 is the substitution N462F, where the asparagine (N) at position 462 of SEQ ID NO:1 is substituted with phenylalanine (F). The variants having the amino acid sequences of SEQ ID NOs:42 and 137 are examples of this type of variant. In some embodiments, the mutation at position 462 is the substitution N462G, where the asparagine (N) at position 462 of SEQ ID NO:1 is substituted with glycine (G). The variant having the amino acid sequence of SEQ ID NO:43 is an example of this type of variant. In some embodiments, the mutation at position 462 is the substitution N462E, where the asparagine (N) at position 462 of SEQ ID NO:1 is substituted with glutamic acid (E). The variant having the amino acid sequence of SEQ ID NO:44 is an example of this type of variant. In some embodiments, the mutation at position 462 is the substitution N462A, where the asparagine (N) at position 462 of SEQ ID NO:1 is substituted with alanine (A). The variant having the amino acid sequence of SEQ ID NO:45 is an example of this type of variant. In some embodiments, the mutation at position 462 is the substitution N462M, where the asparagine (N) at position 462 of SEQ ID NO:1 is substituted with methionine (M). The variant having the amino acid sequence of SEQ ID NO:138 is an example of this type of variant.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations including a mutation in the isoleucine (I) at position 463 of SEQ ID NO:1, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, a mutation that increases the nicotine-degrading activity is at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1.
In some embodiments, the mutation at position 463 is the substitution I463F, where the isoleucine (I) at position 463 of SEQ ID NO:1 is substituted with phenylalanine (F). The variant having the amino acid sequence of SEQ ID NO:46 is an example of this type of variant. In some embodiments, the mutation at position 463 is the substitution I463Y, where the isoleucine (I) at position 463 of SEQ ID NO:1 is substituted with tyrosine (Y). The variant having the amino acid sequence of SEQ ID NO:47 is an example of this type of variant. In some embodiments, the mutation at position 463 is the substitution I463A, where the isoleucine (I) at position 463 of SEQ ID NO:1 is substituted with alanine (A). The variant having the amino acid sequence of SEQ ID NO:48 is an example of this type of variant. In some embodiments, the mutation at position 463 is the substitution I463V, where the isoleucine (I) at position 463 of SEQ ID NO:1 is substituted with valine (V). The variant having the amino acid sequence of SEQ ID NO:49 is an example of this type of variant. In some embodiments, the mutation at position 463 is the substitution I463L, where the isoleucine (I) at position 463 of SEQ ID NO:1 is substituted with leucine (L). The variant having the amino acid sequence of SEQ ID NO:50 is an example of this type of variant.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations including a mutation in the leucine (L) at position 217 of SEQ ID NO:1, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, a mutation that increases the nicotine-degrading activity is at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 91, 217, 250, 340, 366, 381, 427, 462, or 463 of SEQ ID NO:1.
In some embodiments, the mutation at position 217 is the substitution L217Q, where the leucine (L) at position 217 of SEQ ID NO:1 is substituted with glutamine (Q). The variant having the amino acid sequence of SEQ ID NO:51 is an example of this type of variant. In some embodiments, the mutation at position 217 is the substitution L217G, where the leucine (L) at position 217 of SEQ ID NO:1 is substituted with glycine (G). The variant having the amino acid sequence of SEQ ID NO:52 is an example of this type of variant. In some embodiments, the mutation at position 217 is the substitution L217E, where the leucine (L) at position 217 of SEQ ID NO:1 is substituted with glutamic acid (E). The variant having the amino acid sequence of SEQ ID NO:53 is an example of this type of variant. In some embodiments, the mutation at position 217 is the substitution L217I, where the leucine (L) at position 217 of SEQ ID NO:1 is substituted with isoleucine (I). The variant having the amino acid sequence of SEQ ID NO:54 is an example of this type of variant. In some embodiments, the mutation at position 217 is the substitution L217C, where the leucine (L) at position 217 of SEQ ID NO:1 is substituted with cysteine (C). The variant having the amino acid sequence of SEQ ID NO:55 is an example of this type of variant. In some embodiments, the mutation at position 217 is the substitution L217S, where the leucine (L) at position 217 of SEQ ID NO:1 is substituted with serine (S). The variant having the amino acid sequence of SEQ ID NO:56 is an example of this type of variant.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations including a mutation in the alanine (A) at position 107 of SEQ ID NO:1, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, a mutation that increases the nicotine-degrading activity is at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1.
In some embodiments, the mutation at position 107 is the substitution A107R, where the alanine (A) at position 107 of SEQ ID NO:1 is substituted with arginine (R). The variants having the amino acid sequences of SEQ ID NOs:124 or 134 are examples of this type of variant. In some embodiments, the mutation at position 107 is the substitution A107K, where the alanine (A) at position 107 of SEQ ID NO:1 is substituted with lysine (K). The variant having the amino acid sequence of SEQ ID NO:125 is an example of this type of variant. In some embodiments, the mutation at position 107 is the substitution A107T, where the alanine (A) at position 107 of SEQ ID NO:1 is substituted with tyrosine (T). The variant having the amino acid sequence of SEQ ID NO:126 is an example of this type of variant. In some embodiments, the mutation at position 107 is the substitution A107H, where the alanine (A) at position 107 of SEQ ID NO:1 is substituted with histidine (H). The variant having the amino acid sequence of SEQ ID NO:142 is an example of this type of variant. In some embodiments, the mutation at position 107 is the substitution A107P, where the alanine (A) at position 107 of SEQ ID NO:1 is substituted with proline (P). The variant having the amino acid sequence of SEQ ID NO:143 is an example of this type of variant.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations including a mutation in the phenylalanine (F) at position 355 of SEQ ID NO:1, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, a mutation that increases the nicotine-degrading activity is at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1.
In some embodiments, the mutation at position 355 is the substitution F355C, where the phenylalanine (F) at position 355 of SEQ ID NO:1 is substituted with cysteine (C). The variant having the amino acid sequence of SEQ ID NO:127 is an example of this type of variant. In some embodiments, the mutation at position 355 is the substitution F355V, where the phenylalanine (F) at position 355 of SEQ ID NO:1 is substituted with valine (V). The variant having the amino acid sequence of SEQ ID NO:128 is an example of this type of variant.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations including a mutation in the phenylalanine (F) at position 104 of SEQ ID NO:1, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, a mutation that increases the nicotine-degrading activity is at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1.
In some embodiments, the mutation at position 104 is the substitution F104L, where the phenylalanine (F) at position 104 of SEQ ID NO:1 is substituted with leucine (L). The variant having the amino acid sequence of SEQ ID NO:140 is an example of this type of variant.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations including a mutation in the glycine (G) at position 106 of SEQ ID NO:1, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, a mutation that increases the nicotine-degrading activity is at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 91, 104, 106, 107, 217, 250, 340, 355, 366, 381, 427, 462, or 463 of SEQ ID NO:1.
In some embodiments, the mutation at position 106 is the substitution G106S where the glycine (G) at position 106 of SEQ ID NO:1 is substituted with serine (S). The variant having the amino acid sequence of SEQ ID NO:141 is an example of this type of variant.
In some embodiments, the nicotine-degrading enzyme variants comprise one, two, or three or more mutations to SEQ ID NO:1. For instance, in some embodiment, the nicotine-degrading enzyme may comprise a mutation in the tryptophan (W) at position 427 of SEQ ID NO:1, a mutation in the isoleucine (I) at position 262, and a mutation in the asparagine (N) at position 263, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, at least one mutation that increases the nicotine-degrading activity is at one, two, or three or more of positions 107, 355, 262, 263, 217, 91, 463, 381, 366, 340, 250, 427, or 462 of SEQ ID NO:1, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 107, 355, 262, 263, 217, 91, 463, 381, 366, 340, 250, 427, or 462 of SEQ ID NO:1.
In some embodiments, the mutation is a bi-substitution of W427Q and I262A, such as where the tryptophan (W) at position 427 of SEQ ID NO:1 is substituted with glutamine (Q) and the isoleucine (I) at position 262 of SEQ ID NO:1 is substituted with alanine (A). The variant having the amino acid sequence of SEQ ID NO:62 is an example of this type of variant. In some embodiments, the mutation is a bi-substitution of W427H and N462F, such as where the tryptophan (W) at position 427 of SEQ ID NO:1 is substituted with histidine (H) and the asparagine (N) at position 462 of SEQ ID NO:1 is substituted with phenylalanine (F). The variant having the amino acid sequence of SEQ ID NO:137 is an example of this type of variant. In some embodiments, the mutation is a bi-substitution of W427L and N462M, such as where the tryptophan (W) at position 427 of SEQ ID NO:1 is substituted with leucine (L) and the asparagine (N) at position 462 of SEQ ID NO:1 is substituted with methionine (M). The variant having the amino acid sequence of SEQ ID NO:138 is an example of this type of variant. In some embodiments, the mutation is a tri-substitution of W427Q, I262T, and N263R, such as where the tryptophan (W) at position 427 of SEQ ID NO:1 is substituted with glutamine (Q), the isoleucine (I) at position 262 of SEQ ID NO:1 is substituted with threonine (T), and the asparagine (N) at position 263 of SEQ ID NO:1 is substituted with arginine (R). The variant having the amino acid sequence of SEQ ID NO:63 is an example of this type of variant.
In some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations including a mutation in the tryptophan (W) at position 423 of SEQ ID NO:57, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions. Thus, in some embodiments, a mutation that increases the nicotine-degrading activity is at one or more of positions including 423 of SEQ ID NO:57, such as a conservative substitution, non-conservative substitution, addition, or deletion at one or more of positions 423 of SEQ ID NO:57.
In some embodiments, the mutation at position 423 is the substitution W423A, where the tryptophan (W) at position 423 of SEQ ID NO:57 is substituted with alanine (A). The variant having the amino acid sequence of SEQ ID NO:58 is an example of this type of variant. In some embodiments, the mutation at position 423 is the substitution W423S, where the tryptophan (W) at position 423 of SEQ ID NO:57 is substituted with serine (S). The variant having the amino acid sequence of SEQ ID NO:59 is an example of this type of variant. In some embodiments, the mutation at position 423 is the substitution W423E, where the tryptophan (W) at position 423 of SEQ ID NO:57 is substituted with glutamic acid (E). The variant having the amino acid sequence of SEQ ID NO:60 is an example of this type of variant. In some embodiments, the mutation at position 423 is the substitution W423H, where the tryptophan (W) at position 423 of SEQ ID NO:57 is substituted with histidine (H). The variant having the amino acid sequence of SEQ ID NO:61 is an example of this type of variant.
Additionally or alternatively, in some embodiments, the nicotine-degrading enzyme variants comprise one or more mutations within an immunogenic T-cell epitope, such as one or more mutations within an immunogenic T-cell epitope within a region selected from positions 10-32, 68-94, 189-225, 248-285, 296-327, 336-391, or 435-459 of SEQ ID NO:1, such as one or more mutations within an immunogenic T-cell epitope selected from positions 16-24, 73-81, 258-266, 302-310, 373-381, or 447-455 of SEQ ID NO:1, such as one or more conservative substitutions, non-conservative substitutions, additions, or deletions in one or more of these regions. Thus, in some embodiments, a variant may comprise 1, 2, 3, 4, 5, 6, 7, 8, 9, or 10 or more mutations in 1, 2, 3, 4, 5, 6, or 7, immunogenic T-cells epitopes. In some embodiments, such variants exhibit reduced immunogenicity when administered to a mammalian subject.
In some embodiments, the nicotine-degrading enzymes variants comprise a mutation in an immunogenic T-cell epitope at one or more positions selected from 74, 77, 78, 80, 262-266, 303, 304, 306, 310, 374, 377, 378, 382, 383, 450-452, or 457 of SEQ ID NO:1, including all permutations and combinations thereof. For example, a variant may include any one or more of the mutations set forth below, including one or more of the exemplary mutations in Epitope B, one or more of the exemplary mutations in Epitope 1, one or more of the exemplary mutations in Epitope 2, one or more of the exemplary mutations in Epitope 3, and/or one or more of the exemplary mutations in Epitope 4. For instance, in some embodiments, the nicotine-degrading enzyme may have an amino acid substitution at position 262 and/or 263 of SEQ ID NO:1, such as an I262A substitution or I262T/N263R substitutions.
Additionally or alternatively, in some embodiments, the nicotine-degrading enzyme variants comprise an N-terminal deletion of from 1 to 52 amino acid residues of SEQ ID NO:1 or SEQ ID NO:57. For example, in some embodiments a variant comprises an N-terminal deletion of amino acid residues 1-16, 1-25, 1-38, 1-50, 1-51, or 1-52 of SEQ ID NO:1 or SEQ ID NO:57. Thus, the disclosed variants may comprise an N-terminal deletion of 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, or 52 consecutive amino acids.
In some embodiments, the disclosed variants may additionally or alternatively comprise a deletion at the C-terminus of the peptide. For example, the disclosed variants may comprise a deletion of one or more amino acids at the C-terminus of the peptide. For example, in a NicA2 variant, the amino acid corresponding to S482 of the wild-type sequence may be deleted.
In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the wild-type NicA2 enzyme (SEQ ID NO:1), or to an N-terminal deletion variant thereof having a deletion of up to 52 N-terminal amino acid residues of SEQ ID NO:1.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:5. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:5.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:6. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:6.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:7. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:7.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:8. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:8.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:9. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:9.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:10. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:10.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:11. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:11.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:12. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:12.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:13. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:13.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:14. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:14.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:15. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:15.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:16. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:16.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:17. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:17.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:18. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:18.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:19. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:19.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:20. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:20.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:21. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:21.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:22. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:22.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:23. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:23.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:24. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:24.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:25. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:25.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:26. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:26.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:27. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:27.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:28. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:28.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:29. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:29.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:30. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:30.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:31. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:31.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:32. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:32.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:33. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:33.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:34. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:34.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:35. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:35.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:36. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:36.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:37. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:37.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:38. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:38.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:39. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:39.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:40. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:40.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:41. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:41.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:42. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:42.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:43. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:43.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:44. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:44.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:45. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:45.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:46. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:46.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:47. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:47.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:48. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:48.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:49. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:49.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:50. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:50.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:51. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:51.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:52. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:52.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:53. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:53.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:54. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:54.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:55. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:55.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:56. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:56.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:57. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:57.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:58. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:58.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:59. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:59.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:60. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:60.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:61. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:61.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:62. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:62.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:63. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:63.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:124. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:124.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:125. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:125.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:126. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:126.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:127. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:127.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:128. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:128.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:129. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:129.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:130. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:130.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:131. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:131.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:132. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:132.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:133. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:133.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:134. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:134.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:135. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:135.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:136. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:136.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:137. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:137.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:138. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:138.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:140. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:140.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:141. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:141.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:142. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:142.
In some embodiments, a nicotine-degrading enzyme variant as described herein is or comprises SEQ ID NO:143. In some embodiments, a nicotine-degrading enzyme variant as described herein has at least about 80%, about 81%, about 82%, about 83%, about 84%, about 85%, about 86%, about 87%, about 88%, about 89%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% sequence identity with the variant sequence of SEQ ID NO:143.
In some embodiments, a variant as described herein exhibits increased nicotine-degrading activity relative to the wild-type NicA2 or NOX enzymes, such that its activity is at least about 110%, about 120%, about 130%, about 140%, about 150%, about 160%, about 170%, about 180%, about 190%, about 200%, about 210%, about 220%, about 230%, about 240%, about 250%, about 260%, about 270%, about 280%, about 290%, about 300%, about 310%, about 320%, about 330%, about 340%, about 350%, about 360%, about 370%, about 380%, about 390%, about 400%, about 410%, about 420%, about 430%, about 440%, about 450%, about 460%, about 470%, about 480%, about 490%, about 500%, about 550%, about 600%, about 650%, about 700%, about 750%, about 800%, about 850%, about 900%, about 950%, about 1000%, about 1100%, about 1200%, about 1300%, about 1400%, about 1500%, about 1600%, about 1700%, about 1800%, about 1900%, about 2000%, about 2250%, about 2500%, about 2750%, about 3000%, about 3250%, about 3500%, about 3750%, about 4000%, about 4250%, about 4500%, about 4750%, or about 5000% or more than that of the wild-type NicA2 or NOX enzymes, as determined by an assay such as an AMPLEX® Red assay (Thermo Fisher Scientific).
In some embodiments, a variant as described herein exhibits increased nicotine-degrading activity relative to the wild-type NicA2 or NOX enzymes, such that its activity is at least about 110%, about 120%, about 130%, about 140%, about 150%, about 160%, about 170%, about 180%, about 190%, about 200%, about 210%, about 220%, about 230%, about 240%, about 250%, about 260%, about 270%, about 280%, about 290%, about 300%, about 310%, about 320%, about 330%, about 340%, about 350%, about 360%, about 370%, about 380%, about 390%, about 400%, about 410%, about 420%, about 430%, about 440%, about 450%, about 460%, about 470%, about 480%, about 490%, about 500%, about 550%, about 600%, about 650%, about 700%, about 750%, about 800%, about 850%, about 900%, about 950%, about 1000%, about 1100%, about 1200%, about 1300%, about 1400%, about 1500%, about 1600%, about 1700%, about 1800%, about 1900%, about 2000%, about 2250%, about 2500%, about 2750%, about 3000%, about 3250%, about 3500%, about 3750%, about 4000%, about 4250%, about 4500%, about 4750%, or about 5000% or more than that of the wild-type NicA2 or NOX enzymes as determined by an assay where residual nicotine concentrations are measured using Gas Chromatography (GC; Hieda et al.: Immunization of rats reduces nicotine distribution to brain. Psychopharmacology, 143, 150-157, 1999) after incubation with a fixed concentration of enzyme in either buffer or rat serum at 37° C. and quenching activity at fixed time points by mixing with MeOH.
In some embodiments, a variant as described herein exhibits decreased immunogenicity in a mammalian subject relative to wild-type NicA2 or NOX, such that it is at least about 5%, about 10%, about 15%, about 20%, about 25%, about 30%, about 35%, about 40%, about 45%, about 50%, about 55%, about 60%, about 65%, about 70%, about 75%, about 80%, about 85%, about 90%, about 95%, or about 100% less immunogenic than the wild-type NicA2 or NOX enzymes. Unless otherwise specified, “decreased immunogenicity” as compared to the wild-type NicA2 or NOX enzymes as used herein refers decreased immunogenicity as shown by one or more of in silico approaches, in vitro assays, in vivo studies (e.g., using transgenic animals), ex vivo studies using human T-cells, or clinical studies with human subjects.
The nicotine-degrading enzyme variants disclosed herein can be formulated into pharmaceutical compositions suitable for administration to the target subject (i.e., a human or other mammal) via a predetermined route of administration, as discussed in more detail below.
Pharmaceutical compositions may include one or more variants as described herein and a pharmaceutically acceptable carrier or diluent.
The compositions may be formulated for intravenous, subcutaneous, intraperitoneal, intramuscular, oral, nasal, pulmonary, ocular, vaginal, or rectal administration. In some embodiments, the compositions are formulated for intravenous, subcutaneous, intraperitoneal, or intramuscular administration, such as in a solution, suspension, emulsion, liposome formulation, etc. The pharmaceutical compositions can be formulated to be an immediate-release composition, sustained-release composition, delayed-release composition, etc., using techniques known in the art
Pharmaceutically acceptable carriers for various dosage forms are known in the art. For example, excipients, lubricants, binders, and disintegrants for solid preparations are known; solvents, solubilizing agents, suspending agents, isotonicity agents, buffers, and soothing agents for liquid preparations are known. In some embodiments, the pharmaceutical compositions include one or more additional components, such as one or more preservatives, antioxidants, colorants, sweetening/flavoring agents, adsorbing agents, wetting agents and the like.
In some embodiments, the composition is formulated for administration by injection or infusion. In some embodiments, the composition is formulated for oral administration.
In some embodiments, the nicotine-degrading enzyme variant is a long-acting variant that has been modified in order to extend its half-life in vivo (after administration). Various techniques are known in the art for extending the circulating half-life of peptides. For example, in some embodiments the variant is conjugated to polyethylene glycol (PEG) or a similar polymer that prolongs half-life. As discussed in more detail in Example 3 below, conjugating PEG to the disclosed nicotine-degrading enzyme variants can improve the pharmacokinetic properties of the variant. In some embodiments PEGylation has one or more effects selected from masking one or more immunogenic epitopes of the variant, decreasing variant-specific antibody titers, and attenuating T-cell proliferation and/or cytokine responses. Additionally or alternatively, in some embodiments, conjugating the variants to PEG does not decrease the enzymatic activity of the nicotine-degrading enzyme variants, or does not significantly decrease the enzymatic activity, or does not eliminate the enzymatic activity.
The PEG chain length and architecture (i.e. linear vs. branched) may be selected and varied to impact, impart, or promote different properties, as illustrated in the examples below. PEG can be conjugated to the variants by methods known for conjugating PEG to proteins, including those illustrated in the examples below. Any of the variants described herein can be PEGylated, including variants defined by or comprising any of SEQ ID NOs: 2-56, 58-63, or 124-134. For the purposes of conjugating PEG to the disclosed enzyme variants, the size or length of the PEG polymers can vary. For example, linear PEG conjugated to the disclosed enzyme variants may be in the range of 1-50 kDa, 5-40 kDa, or 10-20 kDa, such as 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 25, 30, 35, 40, 45, or 50 kDa. Additionally, the PEG polymers may be branched, with size in the range of 20-80 kDa, such as 20, 40, 60 or 80 kDa.
In some embodiments, the variant is fused to an albumin-binding peptide, an albumin-binding protein domain, human serum albumin, or an inert polypeptide. Exemplary inert polypeptides that have been used to increase the circulating half-life of peptides include, but are not limited to, XTEN® (also known as recombinant PEG or “rPEG”), a homo-amino acid polymer (HAP; HAPylation), a proline-alanine serine polymer (PAS; PASylation), or an elastin-like peptide (ELP; ELPylation). As used herein, “fused to” includes genetic fusion, directly or through a linker, resulting in a single polypeptide containing multiple domains, unless otherwise specified.
As noted above, the variants described herein are useful in methods of treating nicotine addiction and/or facilitating smoking cessation (or the cessation of use of other tobacco products) or preventing relapse of smoking (or consumption of other tobacco products) in a mammalian subject in need thereof. (For convenience, in the discussion that follows, these methods are referred to collectively as treating nicotine addiction or facilitating smoking cessation.) In some embodiments, the subject is a human subject addicted to nicotine or desiring to quit smoking or maintain abstinence from smoking or consumption of other nicotine products, or prevent relapse of smoking or consumption of other nicotine products.
The methods generally involve administering a therapeutically effective amount of a nicotine-degrading enzyme variant as described herein (or a pharmaceutical composition comprising the same) to the subject. However, in some embodiments, the methods comprise administering a nucleic acid encoding the nicotine-degrading enzyme variant in a construct that expresses the variant in vivo. For example, in such embodiments, the nucleic acid can be provided in a suitable vector, such as an adeno-associated virus (AAV) gene transfer vector. Other exemplary vectors that are suitable for use in such methods are known in the art. See, e.g., Lukashev and Zamyatnin, Biochem., 81(7): 700-8 (2016)). Exemplary vectors may include one or more enhancers (e.g., a cytomegalovirus (CMV) enhancer), promoters (e.g., chicken β-actin promoter), and/or other elements enhancing the properties of the expression cassette. Methods of making suitable vectors and general methods of using expression vectors in vivo are known in the art. See, e.g., (see Hicks et al., Sci. Transl. Med., 4(140): 140ra87 (2012)).
In some embodiments, a subject in need of treatment for nicotine addiction or facilitation of smoking cessation is a human subject who consumes nicotine products, such as smoking tobacco, chewing tobacco, electronic cigarettes, and/or other nicotine delivery devices. Such a subject may or may not be physically addicted to nicotine and/or psychologically addicted to consuming nicotine products. Typical subjects in need of smoking cessation treatment smoke or use tobacco or other nicotine products daily, such as smoking at least 1 cigarette a day, or more, such as at least about 5, at least about 10, at least about 15, at least about 20, or more, cigarettes per day, including fewer than 10, 10-20, 20-30, 30-40, or 40 or more (or the equivalent use of other tobacco or nicotine products).
In some embodiments, a therapeutically effective amount of a nicotine-degrading enzyme variant is an amount effective to reduce plasma levels of nicotine, to reduce levels of nicotine localized in the brain, or both.
Nicotine exerts many of its significant effects after it crosses the blood brain barrier. In some embodiments, the methods and uses described herein reduce or prevent nicotine from crossing the blood-brain-barrier. Thus, in some embodiments, administration of a nicotine-degrading enzyme variant as described herein degrades nicotine circulating in the bloodstream of the subject, thereby reducing or preventing the nicotine from crossing the blood-brain-barrier. Thus, in some embodiments, the methods described herein reduce or prevent the physiological and psychological effects of nicotine that originate in the brain. Because the subject will experience a lessening or cessation of these effects, he/she will lose the desire to consume nicotine products. Additionally or alternatively, the disclosed nicotine-degrading enzyme variants may exert an effect by affecting the ability of nicotine to stimulate the peripheral nervous system.
The specific amount of a nicotine-degrading enzyme that is administered may depend on one or more of the age and/or weight of the subject, the amount of nicotine routinely consumed (e.g., smoked, chewed. or inhaled), and/or the level of nicotine in the subject's brain or plasma at the time of treatment. In some embodiments, a variant is administered at a dose of from about 0.01 to about 20 mg/kg, about 0.1 mg/kg to about 18 mg/kg, about 1 mg/kg to about 16 mg/kg, about 2 mg/kg to about 14 mg/kg, or about 5 mg/kg to about 10 mg/kg. In some embodiments, a variant is administered at a dose of about 0.01 mg/kg, about 0.02 mg/kg, about 0.03 mg/kg, about 0.04 mg/kg, about 0.05 mg/kg, about 0.06 mg/kg, about 0.07 mg/kg, about 0.08 mg/kg, about 0.09 mg/kg, about 0.1 mg/kg, about 0.2 mg/kg, about 0.3, about 0.4 mg/kg, about 0.5 mg/kg, about 0.6 mg/kg, about 0.7 mg/kg, about 0.8 mg/kg, about 0.9 mg/kg, about 1 mg/kg, about 1.5 mg/kg, about 2 mg/kg, about 2.5 mg/kg, about 3 mg/kg, about 3.5 mg/kg, about 4 mg/kg, about 4.5 mg/kg, about 5 mg/kg, about 5.5 mg/kg, about 6 mg/kg, about 6.5 mg/kg, about 7 mg/kg, about 7.5 mg/kg, about 8 mg/kg, about 8/5 mg/kg, about 9 mg/kg, about 9.5 mg/kg, about 10 mg/kg, about 10.5 mg/kg, about 12 mg/kg, about 12.5 mg/kg, about 13 mg/kg, about 13.5 mg/kg, about 14 mg/kg, about 14.5 mg/kg, about 15 mg/kg, about 15.5 mg/kg, about 16 mg/kg, about 16.5 mg/kg, about 17 mg/kg, about 17.5 mg/kg, about 18 mg/kg, about 18.5 mg/kg, about 19 mg/kg, about 19.5 mg/kg, or about 20 mg/kg. In some embodiments, a variant is administered at a dose of about 0.5 mg, about 1 mg, about 2.5 mg, about 5 mg, about 10 mg, about 15 mg, about 20 mg, about 25 mg, about 50 mg, about 75 mg, about 100 mg, about 150 mg, about 200 mg, about 250 mg, about 300 mg, about 350 mg, about 400 mg, about 450 mg, about 500 mg, about 550 mg, about 600, about 650 mg, about 700 mg, about 750 mg, about 800 mg, about 850 mg, about 900 mg, about 950 mg, about 1000 mg, about 1050 mg, about 1100 mg, about 1150 mg, about 1200 mg, about 1250 mg, about 1300 mg, about 1350 mg, about 1400 mg, about 1450 mg, about 1500 mg, about 1550 mg, about 1600 mg, about 1650 mg, about 1700 mg, about 1750 mg, about 1800 mg, about 1850 mg, about 1900 mg, about 1950 mg, about 2000 mg, about 2050 mg, about 2100, about 2150 mg, about 2200 mg, about 2250 mg, about 2300 mg, about 2350 mg, about 2400 mg, about 2450 mg, or about 2500 mg. When more than one variant is administered, the total amount of variants administered may be in accordance with the foregoing guidance.
In some embodiments, the methods comprise administering a single dose of a nicotine-degrading enzyme variant(s) (or composition comprising the same). In some embodiments, the method comprises administering repeated doses, such as for a predetermined period of time of until the symptoms or effects of nicotine addiction are reduced, ameliorated, or eliminated or until the subject has ceased smoking or otherwise consuming nicotine. In some embodiments, treatment is repeated with additional doses of the variant(s) if signs/symptoms/effects persist or if the subject continues to have nicotine cravings or experiences them anew.
In some embodiments, the methods comprise administering a nicotine-degrading enzyme variant(s) (or composition comprising the same) three or more times a day, twice a day, or once a day. In some embodiments, the methods comprise administering a nicotine-degrading enzyme variant(s) (or composition comprising the same) once every other day, three times a week, twice a week, once a week, once every other week, once every three weeks, once a month, or less frequently. In such embodiments, the nicotine-degrading enzyme variant may be a long-acting nicotine-degrading enzyme variant as described above.
In some embodiments, treatment may continue for 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, or 21 or more days; 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, or 18 or weeks months; or 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, or 12 or more months; or 1, 2, or 3 or more years or until the subject no long experiences nicotine cravings or other nicotine withdrawal symptoms, or has ceased smoking or using other tobacco products.
The disclosed nicotine-degrading enzyme variants may be used to treat nicotine poisoning, nicotine overdose, or nicotine toxicity. For convenience, these methods are referred to herein collecting as treating nicotine poisoning. In some aspects, the methods of treating nicotine poisoning described herein comprise administering to a mammalian subject in need thereof a nicotine-degrading enzyme variant as disclosed herein, or a pharmaceutical composition comprising the same. In some embodiments, the methods comprise administering a nicotine-degrading enzyme variant to a subject that has ingested or consumed a toxic amount of nicotine. In some embodiments, the methods may comprise administering both a nicotine-degrading enzyme variant and another compound that is useful for treating nicotine poisoning, such as activated charcoal or another agent. In such embodiments, the enzyme variant and the second compound (e.g., activated charcoal) can be administered sequentially or simultaneously, from the same or different compositions. Thus, the treatment may include administering activated charcoal and/or other supportive treatments to address the symptoms and/or effects of nicotine poisoning.
In some embodiments, the therapeutically effective amount of the nicotine-degrading enzyme variant is effective to reduce, ameliorate, or eliminate one or more symptoms or effects of nicotine poisoning or overdose. The specific amount administered may depend on one or more of the age and/or weight of the subject, the amount of nicotine believed to have been ingested, and/or the subject's plasma level of nicotine at the time of treatment, and/or the subject's brain level of nicotine at the time of treatment. In some embodiments, the subject that is being treated for nicotine poisoning is an adult, while in some embodiments, the subject is a child (i.e., less than 19 years of age). In some embodiments, a therapeutically effective amount of a nicotine-degrading enzyme variant is an amount effective to reduce plasma levels of nicotine, and/or to reduce the amount of nicotine localized in specific tissues of the subject (e.g., brain/central nervous system, heart and vasculature, etc.). In specific embodiments, a therapeutically effective amount of a nicotine-degrading enzyme variant is an amount effective to reduce plasma levels of nicotine, to reduce levels of nicotine localized in the brain, or both.
The specific amount of a nicotine-degrading enzyme that is administered may depend on one or more of the age and/or weight of the subject, the amount of nicotine that was acutely consumed, and/or the level of nicotine in the subject's brain or plasma at the time of treatment. In some embodiments, a variant is administered at a dose of from about 0.01 to about 20 mg/kg, about 0.1 mg/kg to about 18 mg/kg, about 1 mg/kg to about 16 mg/kg, about 2 mg/kg to about 14 mg/kg, or about 5 mg/kg to about 10 mg/kg. In some embodiments, a variant is administered at a dose of about 0.01 mg/kg, about 0.02 mg/kg, about 0.03 mg/kg, about 0.04 mg/kg, about 0.05 mg/kg, about 0.06 mg/kg, about 0.07 mg/kg, about 0.08 mg/kg, about 0.09 mg/kg, about 0.1 mg/kg, about 0.2 mg/kg, about 0.3, about 0.4 mg/kg, about 0.5 mg/kg, about 0.6 mg/kg, about 0.7 mg/kg, about 0.8 mg/kg, about 0.9 mg/kg, about 1 mg/kg, about 1.5 mg/kg, about 2 mg/kg, about 2.5 mg/kg, about 3 mg/kg, about 3.5 mg/kg, about 4 mg/kg, about 4.5 mg/kg, about 5 mg/kg, about 5.5 mg/kg, about 6 mg/kg, about 6.5 mg/kg, about 7 mg/kg, about 7.5 mg/kg, about 8 mg/kg, about 8/5 mg/kg, about 9 mg/kg, about 9.5 mg/kg, about 10 mg/kg, about 10.5 mg/kg, about 12 mg/kg, about 12.5 mg/kg, about 13 mg/kg, about 13.5 mg/kg, about 14 mg/kg, about 14.5 mg/kg, about 15 mg/kg, about 15.5 mg/kg, about 16 mg/kg, about 16.5 mg/kg, about 17 mg/kg, about 17.5 mg/kg, about 18 mg/kg, about 18.5 mg/kg, about 19 mg/kg, about 19.5 mg/kg, or about 20 mg/kg. In some embodiments, a variant is administered at a dose of about 0.5 mg, about 1 mg, about 2.5 mg, about 5 mg, about 10 mg, about 15 mg, about 20 mg, about 25 mg, about 50 mg, about 75 mg, about 100 mg, about 150 mg, about 200 mg, about 250 mg, about 300 mg, about 350 mg, about 400 mg, about 450 mg, about 500 mg, about 550 mg, about 600, about 650 mg, about 700 mg, about 750 mg, about 800 mg, about 850 mg, about 900 mg, about 950 mg, about 1000 mg, about 1050 mg, about 1100 mg, about 1150 mg, about 1200 mg, about 1250 mg, about 1300 mg, about 1350 mg, about 1400 mg, about 1450 mg, about 1500 mg, about 1550 mg, about 1600 mg, about 1650 mg, about 1700 mg, about 1750 mg, about 1800 mg, about 1850 mg, about 1900 mg, about 1950 mg, about 2000 mg, about 2050 mg, about 2100, about 2150 mg, about 2200 mg, about 2250 mg, about 2300 mg, about 2350 mg, about 2400 mg, about 2450 mg, or about 2500 mg. When more than one variant is administered, the total amount of variants administered may be in accordance with the foregoing guidance.
Because nicotine poisoning is associated with vomiting, a non-oral route of administration may be used. Moreover, intravenous administration may be more effective than intraperitoneal administration. Thus, in some embodiments of methods of treating nicotine poisoning, a nicotine-degrading enzyme variant(s) (or composition comprising the same) is administered intravenously.
In some embodiments, the methods comprise administering a single dose of a nicotine-degrading enzyme variant(s) (or composition comprising the same). In some embodiments, the method comprises administering repeated doses, such as for a predetermined period of time or until the symptoms or effects of nicotine poisoning or toxicity are reduced, ameliorated, or eliminated or until the subject has ceased smoking or otherwise consuming nicotine. In some embodiments, treatment is repeated with additional doses of the variant(s) if signs/symptoms/effects persist.
In some embodiments, treatment may continue for one or more days following overdose, such as for 1-3 days, or 1-5 days, or for 1, 2, 3, 4, or 5 days following overdose. In some embodiments, treatment may continue until the subject no long experiences any symptoms of nicotine poisoning or toxicity or until the levels of nicotine in the subject's plasma and/or brain have decreased to a sufficiently safe level. In some embodiments, the nicotine-degrading enzyme variant may be a long-acting nicotine-degrading enzyme variant as described above.
One skilled in the art will readily appreciate that the present disclosure is well adapted to carry out the objects and obtain the ends and advantages mentioned, as well as those inherent therein. Modifications therein and other uses will occur to those skilled in the art. These modifications are encompassed within the spirit of the disclosure. The following examples are given to illustrate the present invention. It should be understood, however, that the invention is not limited to the specific conditions or details of these examples.
A synthetic gene (custom DNA synthesis by GeneArt/Invitrogen), codon optimized for E. coli expression of wild-type (wt) NicA2 amino acid sequence (GenBank accession number: AEJ14620.1) with a C-terminal His6-tag was cloned into the NdeI-XhoI sites of pET-22b(+) (Novagen), and the expression plasmid transformed into E. coli BL21(DE3). The predicted wild-type NicA2 amino acid sequence as expressed from this construct is shown in Table 1 (SEQ ID NO:1).
A heterogeneity in size was identified by SDS-PAGE of protein expressed from the construct encoding SEQ ID NO: 1 and purified by Immobilized Metal Affinity Chromatography (IMAC) using Cobalt TALON™ His-Tag Purification Resin (Clontech) according to the manufacturers protocol (
In an effort to eliminate any non-essential bacterial sequence (including a specific in silico predicted T-cell epitope sequence at positions 16-24 of SEQ ID NO:1), to reduce immunogenic risk, as well as to eliminate the putative N-terminal cleavage site and the associated product heterogeneity, a deletion construct was made removing the first 50 N-terminal residues (NicA2Δ50; SEQ ID NO:2).
It was believed that this region could potentially be deleted without compromising catalytically activity; consequently NicA2Δ50 (SEQ ID NO: 2) was expressed in E. coli and purified as described above. As seen in
Analysis of enzymatic activity on purified protein was conducted using an Amplex Red assay (Reszka, et al., Effects of peroxidase substrates on the Amplex red/peroxidase assay: Antioxidant properties of anthracyclines, A
The Amplex Red assay revealed that the purified NicA2Δ50 protein showed a 23% reduction in activity relative to wild-type NicA2 (
Thus, it was decided to design and identify NicA2Δ50 variants that would exhibit nicotine-degrading activity at least equivalent to the wild-type. NOX variants were identified for further testing as well.
The NicA2 protein was visualized using Discovery Studio 4.5 (Dassault Systemes, BIOVIA Corp., San Diego Calif.) to determine active site residues. Based on inspection of the structure, location of FAD and reporting of putative critical active site residues (Tararina et al, 2016), a presumed active site cavity was defined. All residues making up the exposed surface of this cavity, including both side chains and backbone atoms, were classified as shell one residues (Table 2). Based on the defined shell one residues, residues similarly in direct contact with shell one were defined as shell two (Table 2). Residue locations were confirmed by manual inspection of the structure.
A synthetic double-stranded DNA fragment:
was digested with restriction enzymes ClaI and BamHI and the fragment cloned into the corresponding unique sites in the expression plasmid used for expression of NicA2Δ50.
The resulting library had an NNK randomization of shell one codon W427 (Table 2) resulting in a 32-member library (at the DNA/codon level) encoding variants with all possible 20 amino acids in said position. The library was transformed into BL21 Gold(DE3), and single colonies were picked and grown overnight in a 96 well plate in LB media containing Carbenicillin (100 μg/ml). Overnight LB cultures were diluted into a new 96-deep well plate containing 475 μl of auto-inducing Magic Media (Invitrogen)+Carbenicillin (100 μg/ml), and grown for 18h at room temperature with vigorous shaking. Bacteria were harvested in the plate by centrifugation at 4000 rpm for 15 minutes, and pellets frozen at −80° C. Pellets were lysed by dissolving in 100 μl of room temperature Bug Buster HT Reagent (Novagen) containing 1 KU of r-Lysozyme (Novagen) per 1 ml, and incubating on a shaking platform for 20 min at room temperature. Cleared lysates were prepared by diluting 1:1 (vol.:vol.) with Bug Buster HT Reagent and removing insoluble cell debris by centrifugation at 4400 rpm for 20 min at 4° C. 25 μl of cleared lysates were transferred to a new 96 well plate and diluted 1:1 (vol.:vol.) in 2% milk in PBS. Diluted lysates were transferred to the assay plate (black 96-well half area high binding plate (Corning) coated o/n at 4° C. with 5 μg/ml of anti-His Tag antibody (R&D Systems) in PBS; 50 μl per well; then blocked with 4% milk (in PBS) for 2h at RT) and incubated at room temperature gently shaking for 3 h to ensure saturation of the immobilized anti-His mAb with the molar excess of expressed His-tagged enzyme. This step essentially results in normalizing any differences in concentration afforded by differences in growth, induction conditions, intrinsic expression levels, etc., and ensures a consistent amount of enzyme is assayed for activity in each well in the subsequent steps. This also ablates the need for quantification of enzyme in individual wells to precisely measure and compare activity of variants. Plate was washed 6× with PBST and 1× with Amplex Red Reagent Buffer (Thermo) to remove unbound material. Enzyme assay was conducted by adding 50 μl of Amplex Red Solution including 10 μM S-Nicotine (as described above) to each well and monitoring development of fluorescence over time.
From one 96 well assay plate, the ten variants with the highest assay activities (all enhanced compared to values from included colonies expressing wild-type NicA2) were isolated from the master plate with overnight LB culture, and plasmid DNA was prepared and sequenced. Sequencing revealed sequence changes relative to NicA2Δ50 (SEQ ID NO:2) affording single mutations of W427 to Q, E, S, and M, resulting in SEQ ID NOs: 5, 6, 7, and 8, respectively. Additionally, further variants with mutations at positions 91, 217, 463, 381, 366, 340, 250, 427, or 462 of SEQ ID NO:1 were also designed and screened, as well as variants of NOX with mutations at position 423 of SEQ ID NO:57. A list of the activities of the identified variants in the Amplex Red screening assay (average for 8 individual colonies of each variant re-assayed as described above) is shown in Table 5.
The variant NicA2Δ50W427Q (SEQ ID NO:5) was expressed and purified as described above. An activity assay was conducted in parallel with purified wild-type NicA2 and NicA2Δ50 using the Amplex Red assay as described above. As shown in
A Protein BLAST homology search using NicA2 as query sequence yielded NOX, Nicotine amine oxidase from Pseudomonas sp. HZN6 (Qiu et al., Appl. Environ. Microbiol. 78, 2154-2160 (2012); Qiu et al., Appl. Environ. Microbiol. 79, 2164-2171 (2013)) as the closest relative, with an identity of 83%. A synthetic gene (custom synthesis by GeneArt/Invitrogen) codon optimized for E. coli expression of wild-type (wt) NOX amino acid sequence (GenBank accession number: AGH68979.1) with a C-terminal His6-tag was cloned into the NdeI-XhoI sites of pET-22b(+), and the expression plasmid transformed into E. coli BL21(DE3). The predicted wild-type NOX amino acid sequence as expressed from this construct is shown in Table 1 (SEQ ID NO:57. NOX was purified and assayed in the Amplex Red activity assay. The enzyme did indeed display activity consistent with nicotine degradation and H2O2 formation, albeit at a 20% decreased activity relative to wt NicA2 (Table 5). Identifying improved NicA2 variants carrying mutations in W427 prompted the generation and screening of an NNK randomization library of the homologous W423 position of NOX. The library was generated using the QuikChange Site-Directed Mutagenesis Kit (Agilent), the DNA template encoding NOX in the pET22 expression vector described above, and the NNK primer NOX-W423NNK (Table 6, SEQ ID NO:65) as per the kit instructions. After plating transformations and incubation overnight at 37° C., 8 random colonies were sequenced for library QC, and remainder colonies scraped off the agar plates and pooled for DNA miniprep. This DNA was then transformed into the BL21 (DE3) expression strain, and individual clones screened as described for the NicA2Δ50W427NNK library above. Screening this library identified 4 variants with between 2- and 4.5-fold improved activity over wt NicA2: NOXW423A, S, E, and H (Table 5). Interestingly, given all these variants have an increased activity compared to wt NicA2, these could potentially be equally good starting points for biotherapeutic development, and beneficial mutations identified in NicA2 (e.g. all mutations disclosed in Table 5) may also be advantageous in the homologous positions in the NOX backbone.
Given the successful identification of improved variants in NicA2 position W427, similar “NNK libraries” in the NicA2Δ50 backbone were generated for other active site (shell one) positions: R91, T250, K340, Q366, T381, N462, I463F, as well as second shell residue L217. These later libraries were generated using the QUIKCHANGE™ Site-Directed Mutagenesis Kit (Agilent), a DNA template encoding NicA2Δ50 in the pET22 expression vector, and the NNK primers listed in Table 6, SEQ ID NO's 66-73, respectively, as per the kit instructions. As indicated in Table 5, screening of these libraries as described above led to identification of variants that had a range of 1- to 6.5-fold improvement in activity over wild-type NicA2 (SEQ ID NO's:5-56), in spite of carrying the A50 N-terminal deletion. Interestingly, even though L217 is a second shell residue (Table 3), 6 substitutions conferring 1.7- to 2.8-fold increased activity over wild-type were identified in this position (Table 5).
To cover additional active site positions listed in Table 2, a custom Comprehensive Saturation Mutagenesis (CSM) library was supplied by Revolve Biotechnologies, Inc. (Firnberg et al., PLoS One, 7:e52031 (2012)), probing all single amino acid (aa) substitutions (one mutation per variant) in the following positions of full-length NicA2: PHE104, GLY105, GLY106, ALA107, TRP108, TYR214, TYR218, GLU249, PHE355, TRP364, TRP417, ALA426, and ALA461.
Screening of this library in the Amplex Red screening assay as described earlier lead to identification of improved variants NicA2A107R, NicA2A107K, NicA2A107T and NicA2F355C (Table 5; SEQ ID NO's 124-127).
In order to more efficiently screen through larger library sizes, a Fluorescence-Activated Cell Sorting (FACS) sorting protocol was implemented. Libraries containing NicA2 variants were cloned into the vector pET22b and transformed into the E. coli BL21(DE3) strain. Cells were inoculated in LB+100 μg/mL Ampicillin and grown at 37° C. until the OD600 reached 0.6-0.8. Expression was induced with 1 mM IPTG and the cultures were moved to 18° C. and expressed overnight. The next day, cells were washed in 5×PBS+1 mM EDTA to permeabilize the cells to nicotine before resuspending in the same buffer containing 5 μM Dihydrorhodamine 123 (DHR123), a redox sensitive dye that becomes fluorescent upon reaction with the hydrogen peroxide released by NicA2, and 5 mM nicotine. The cell suspension was transferred to a clean, sterile flask and incubated at room temperature while shaking. After 2 hours, cells were washed with 5×PBS+1 mM EDTA and sorted by FACS using the FITC channel to quantify DHR123 fluorescence. Recovered cells were re-grown in LB+100 μg/mL Ampicillin, and the protocol was repeated as needed.
Sequencing of clones from outputs resulting from one round of sorting of the CSM library enriched for putative NicA2 activity yielded the variants NicA2W427R, NicA2T250P, NicA2W427H; N462F, and NicA2W427L; N462M (SEQ ID NOs: 135-138, respectively).
Based on the results of improved variants NicA2Δ50R91Q, NicA2Δ50Q366K, NicA2Δ50T381V and NicA2Δ50N462Y, the same mutations were introduced into full-length NicA2, (resulting in NicA2R91Q, NicA2Q366K, NicA2T381V and NicA2N462Y with SEQ ID NOs: 129, 130, 131, 133, respectively), and activity assessed in the Amplex Red assay as previously described. As shown in Table 5, all these exemplary mutations provided activity enhancement in the full-length enzyme. Correspondingly, the high activity of the NicA2A107R variant (SEQ ID NO: 124) was retained in the NicA2Δ50A107R variant (SEQ ID NO: 134). Consequently, it is expected that all mutations listed in Table 5 will improve activity in the context of both full-length NicA2 and a deletion variant such as NicA2Δ50, NicA2Δ25, NicA2Δ38, or any similar deletion up to and including at least the first 50 N-terminal residues of NicA2, or any N- or C-terminal deletion variant provided this has an enzymatic activity of at least 20% of full-length wt NicA2.
Specific variants carrying mutations in multiple residues chosen from Table 5 can be generated by site-specific mutagenesis, and libraries consisting of multiple mutations in multiple positions chosen from Table 5 can be generated and screened as described above. These efforts could allow for the identification of variants with mutations in several positions in the same molecule with enzymatic activities higher than any of the individual single mutations listed in Table 5.
Having shown with the variants having SEQ ID NOs 2-4 that it is possible to delete the first epitope with only moderate effect on activity, and that this decrease in activity could be mitigated or overcome by mutations listed in Table 5, multiple other epitopes were investigated further.
Structure coordinates for the NicA2 protein were examined on Discovery Studio 4.5 (Dassault Systemes, BIOVIA Corp., San Diego Calif.) to determine immunogenic epitopes. Regions of the NicA2 sequence flagged as potential epitopes via T cell epitope scanning against the WIC allele DRB1*0401 (Immune Epitope Database and Analysis Resource, IEDB, iedb.org) were evaluated using a predictive site saturation mutagenesis protocol implemented in Discovery Studio to evaluate mutational energies. Favorably-scoring mutations in each previously defined region were cross-referenced with new rounds of IEDB T cell epitope predictions against WIC allele DRB1*0401 to find alterations that reduced predicted immunogenicity. The final selection of possible mutations was confirmed by visualization and manual evaluation of the probable structural changes in Discovery Studio. Table 3 sets forth exemplary mutations in the immunogenic T-cell epitopes that were predicted to decrease immunogenicity (based on in silico scoring as described above) while substantially retaining nicotine-degrading activity and stability.
Ten variants based on the mutations for Epitope 1 were generated by cloning the synthetic double-stranded DNA fragments (SEQ ID NOs: 74-83, Table 7) digested with restriction enzymes EcoRI and SacII into the corresponding unique sites in the expression plasmid used for expression of wild-type NicA2 (SEQ ID NO:1). The nucleic acid sequences of other exemplary epitope variants are shown in SEQ ID NOs: 84-113, as discussed in further detail below.
The ligations for the individual constructs were transformed in parallel into BL21 Gold(DE3), and 8 single colonies from each transformation were picked and grown overnight in a 96 well plate in LB media containing Carbenicillin (100 μg/ml). Screening of the 8 individual clones of each variant was performed as described above for screening of the W427NNK library, and the assay values reported as an average after eliminating potential rare outliers (never more than 1 of 8 clones total; typically resulting from clones without an insert or mutations within the cloned synthetic DNA) as seen in
Variants based on mutations in four other epitopes set forth in Table 3 were prepared and assessed as described above. For Epitope B, variants were generated by cloning the synthetic double-stranded DNA fragments (SEQ ID NOs 84-93, Table 7) digested with restriction enzymes NdeI and EcoRI; for Epitope 2 DNA fragments (SEQ ID NOs 94-103, Table 7) digested with SacII-ClaI; for Epitope 3 DNA fragments (SEQ ID Nos 102-113, Table 7) cut with SacII-ClaI; and for Epitope 4 DNA fragments (SEQ ID Nos 114-123, Table 7) cut with ClaI-XhoI, into the corresponding unique sites in the expression plasmid used for expression of wild-type NicA2 (SEQ ID NO:1). 8 random colonies from each ligation and transformation were tested as described above. As seen in
Two variants were generated combining deletion of the first epitope within the TAT leader sequence, mutating Epitope 1 using variants identified in
An in silico search of NicA2 MHCII epitopes was performed based on the 8 most common HLA-DR alleles (Cantoret et al., PNAS 108: 1272-1277 (2011); DRB1*0101, DRB1*1501, DRB1*1301, DRB1*1101, DRB1*0801, DRB1*0701, DRB1*0401, and DRB1*0301). The search was done using the immune epitope database (Vita et al., Nucleic acids research, 43: D405-D412 (2015)) and percentile consensus rank method to assess the predicted immunogenic potential of NicA2. The percentile consensus score for each overlapping 15-mer NicA2 peptide was averaged across all the 8 HLA-DR alleles. The immunogenic potential of NicA2 was then determined by selecting all NicA2 sequences that were >1 standard deviation in tighter predicted binding to MHCII as compared to the overall averaged binding score. This method revealed eight contiguous sequences across 45% of the NicA2 sequence reflective of residues 10-32, 68-94, 189-225, 248-285, 296-327, 336-391 and 435-459 of SEQ ID NO:1 (highlighted in grey in Table 1) that are predicted to be broadly immunogenic.
A more narrow search using only the DRB1*0401 allele was performed in silico. This search yielded the six highest ranked immunogenic T-cell epitopes underlined in SEQ ID NO:1 of Table 1.
Experiments were undertaken to develop protocols for conjugating polyethylene glycol (PEG) to NicA2 and other nicotine-degrading enzymes, such as NOX and the disclosed NOX variants, and to determine the effect of PEGylation on activity and half-life.
SDS-PAGE analysis indicated that the degree of PEGylation increases as the molar excess of PEGylation reagent and PEG chain length increases. Random PEGylation of wild-type (wt) NicA2 was performed at a protein concentration of 5 mg/mL and using 10 or 20 kDa NHS-PEG reagent (Sunbright® ME-100TS or ME-200TS; NOF America Corporation) at 7- or 20-fold molar excess in 100 mM Na3PO4, pH 7.6 on ice for >2 hours. Elimination of unconjugated PEG reagent was performed using Amicon Ultra-15 centrifugal filter units with a 50 kDa cutoff. Samples corresponding to 2 μg protein were loaded on an SDS-PAGE gel run in MOPS running buffer, and stained using SimplyBlue SafeStain (Invitrogen). As seen in
In order to determine whether PEGylation could enhance the pharmacokinetic (PK) properties of NicA2, serum concentrations were determined as a function of time after intravenous (i.v.) dosing in rats (5 mg/mL; N=4; 2M+2F). The data from these experiments are shown in
Additional experiments were performed to determine whether PEGylation masks epitopes on NicA2. Serial dilutions in PBS of unPEGylated or PEGylated preparations of NicA2 were tested in the same sandwich ELISA assay used for measurement of serum concentrations in the PK experiment described above (
PEGylation was shown to decrease titers of NicA2-specific antibodies in a transgenic HLA-DR4 mouse model of immunogenicity. In particular, the reduction of NicA2-specific antibody titers 10 days after subcutaneous (s.c.) injection in Freunds Incomplete Adjuvant in human DR4 transgenic mice (N=6; 3M+3F; Taconic Biosciences) was studied. This mouse model carries a hybrid MEW class II molecule with the antigen binding domains of human HLA-DRA and HLA-DRB*0401 (representative of the DR4 supertype) and does not express endogenous mouse MEW class II molecules. Titer was defined as serum dilution to achieve OD450=0.5 in ELISA using NicA2 coated plates, and detection by goat a-mouse IgG-y-HRP. The lowest serum dilution tested was 50-fold (Limit Of Detection (LOD); indicated by a dashed line in
It was also observed that PEGylation attenuates the human T-cell proliferation response and cytokine TNFγ release mediated by exposure to NicA2, as shown in
It also was shown that PEGylated enzymes retained full nicotine degrading activity in serum, as shown in
To confirm that activity was improved not only in assay buffer and at the high (10 μM) nicotine concentration of the Amplex Red assay (discussed in Example 1; see, e.g., Tables 4 and 5), but also in serum concentrations more relevant to those encountered in a typical smoker, an exemplary representative variant from the Amplex Red assay (NicA2A107R) was assessed in an assay utilizing serum rather than a buffer solution (the same assay used to produce the data shown in
Briefly, NicA2A107R was added to a final concentration of 0.075 mg/ml into rat serum containing 40/ng/ml of S-(−)-nicotine (250 nM). As seen in
The maximum sub-lethal dose of nicotine in balb/c mice was determined to be 2 mg/kg intraperitoneally. The effects of nicotine were dose dependent, and included sedation, straub tail, tremors, tachypnea, back arching, rapid movements of the legs, wild running, loss of righting response, and clonic/tonic seizures. In this experiment, wild-type NicA2 was used as a proof of concept to show that the disclosed enzyme variants are capable of treating nicotine poisoning or toxicity.
Seven to eight week old balb/c mice (N=5 for each group) were pretreated with 775 mg/kg of wtNicA2 or a negative control (both i.v.) 15 minutes prior to administration of nicotine at the sub-lethal dose of 2 mg/kg. Over the course of 5 minutes, the mice were monitored for seizures and phenotypic indications of nicotine poisoning or toxicity and scored according to the rubric in Table 8, in which a score of less than 3 indicates that there was no seizure. Sensitivity to seizure was computed by determining the percentage of animals that had a score of 4 or 5.
As shown in Table 9 below, all untreated mice had severe seizures, while none of the mice pretreated with NicA2 had seizures. Accordingly, these results indicate that the disclosed nicotine-degrading enzyme variants can be used to treat nicotine poisoning.
Similar experiments in a rat seizure model (using a challenge dose of nicotine of 4 mg/kg i.p. since rats are more tolerant of nicotine than mice) using lower doses of wtNicA2 (70 mg/kg and 140 mg/kg) were not effective. Thus, the dose of enzyme may be important to providing effective treatment.
The 775 mg/kg dose used successfully in the mouse experiment is not a practical dose for humans. However, as shown above, nicotine-degrading enzyme variants described herein have greater nicotine-degrading activity than the wild-type enzyme. Thus, it is believed that the enzyme variants disclosed herein will be effective against nicotine poisoning at doses suitable for use in humans.
This example illustrates methods of using a variant as described herein to treat nicotine addiction and/or facilitate smoking cessation in a human adult.
An adult human subject who regularly smokes cigarettes but wishes to quit is administered a therapeutically effective amount of a pharmaceutical compositions comprising a nicotine-degrading enzyme variant (e.g., NicA2Δ50W427Q; SEQ ID NO: 5, or a long-acting version thereof) orally or by intravenous or subcutaneous injection. The subject is evaluated for levels of nicotine circulating in plasma, as well as for the presence and/or severity of signs and symptoms associated with nicotine withdrawal, such as headache, irritability, anxiety, and sleeplessness, as well as the number of cigarettes smoked in a given day. The subject is treated with repeated administrations until levels of nicotine circulating in plasma reach a target (reduced) level, and/or until one or more signs/symptoms of nicotine withdrawal are reduced, ameliorated, or eliminated, and/or until the subject has reduced the level of consumption of nicotine products (e.g., is smoking fewer cigarettes per day), and/or until the subject has ceased consumption of nicotine products (e.g., has quit smoking).
This example illustrates methods using nicotine-degrading enzyme variants in the treatment of nicotine poisoning in a pediatric patient.
A child known to have or suspected of having ingested nicotine is administered a therapeutically effective amount of a pharmaceutical composition comprising a nicotine-degrading enzyme variant, by intravenous, intramuscular, or subcutaneous injection. The child is evaluated for the presence and/or severity of signs and symptoms associated with nicotine poisoning, including, but not limited to, seizures, coma, shortness of breath, and increased heart rate, and the child is treated until one or more signs/symptoms is reduced, ameliorated, or eliminated. Optionally, another dose of the pharmaceutical composition is administered if signs/symptoms persist and/or if nicotine plasma/brain levels remain elevated.
This application claims priority under 35 U.S.C. § 119(e) to U.S. Provisional Application 62/454,331 filed Feb. 3, 2017, and U.S. Provisional Application 62/535,507 filed Jul. 21, 2017, the entire contents of which are incorporated herein by reference.
| Filing Document | Filing Date | Country | Kind |
|---|---|---|---|
| PCT/US2018/016664 | 2/2/2018 | WO | 00 |
| Number | Date | Country | |
|---|---|---|---|
| 62454331 | Feb 2017 | US | |
| 62535507 | Jul 2017 | US |
