METAL ABSTRACTION PEPTIDE WITH SUPEROXIDE DISMUTASE ACTIVITY

CROSS REFERENCE

[0001] This application claims the benefit of U.S Provisional Application No. 61/654,547, filed on June 1, 2012, the contents of which is incorporated by reference herein in its entirety.

BACKGROUND OF THE INVENTION

[0002] Peptide tags that can be encoded in the genetic material of an organism for recombinant expression of proteins have been utilized for purification and identification of protein products. The advantage of a peptide tag is that the tag is covalently attached to the protein of interest without the need for additional chemical steps to label the protein. Peptide -based tags have been developed to allow for detecting a tagged protein in cell culture assays or cell lysates using antibodies that recognize the peptide tag.

[0003] While these technologies might be useful in in-situ or in-vitro assays, the applications to in-vivo analysis remain limited. Moreover, such peptide tags have limited or no functionality outside of protein purification or identification.

SUMMARY OF THE INVENTION

[0004] In some embodiments, the invention provides a method of treating a defect in superoxide dismutase in a subject in need thereof, the method comprising administering to the subject a therapeutically-effective amount of: i) a peptide comprising a sequence XCiC ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, and further wherein C _\ and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid; and ii) a metal bound to the peptide.

[0005] In some embodiments, the invention provides a method of reducing pain in a subject in need thereof, the method comprising administering to the subject a therapeutically-effective amount of:

i) a peptide comprising a sequence XCiC ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, and further wherein C _\ and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid; and ii) a metal bound to the peptide.

[0006] In some embodiments, the invention provides a method of reducing inflammation in a subject in need thereof, the method comprising administering to the subject a therapeutically- effective amount of: i) a peptide comprising a sequence XCiC ₂ , wherein X is any natural or non- natural amino acid or amino acid analog, and further wherein Ci and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid; and ii) a metal bound to the peptide.

[0007] In some embodiments, the invention provides a method of increasing in-vivo half-life of a therapeutic polypeptide, the method comprising: i) providing a therapeutic polypeptide with an amino terminus, wherein the amino terminus has a sequence XC ₁ C ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, and further wherein C _\ and C ₂ are each

individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid; ii) forming a complex between a metal and the therapeutic polypeptide under conditions suitable for chiral inversion of C ₂ ; and iii) separating the metal from the therapeutic polypeptide with chirally inverted C ₂ ,

wherein the in-vivo half-life of the therapeutic polypeptide is increased.

[0008] In some embodiments, the invention provides a method of performing a chemical reaction, the method comprising contacting: i) a peptide comprising a sequence XCiC ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, wherein Ci and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid, and wherein a metal is bound to the peptide; and ii) chemical starting materials, whereupon the chemical starting materials are combined into a product.

INCORPORATION BY REFERENCE

[0009] All publications, patents, and patent applications mentioned in this specification are herein incorporated by reference to the same extent as if each individual publication, patent, or patent application was specifically and individually indicated to be incorporated by reference.

BRIEF DESCRIPTION OF THE DRAWINGS

[0010] FIGURE 1 panel A shows a possible binding arrangement for a polypeptide with metal. Panel B, shows a possible binding arrangement for a polypeptide with nickel showing the structure of Ni-GGNCC (SEQ ID NO. 1) with bisamide coordination.

[0011] FIGURE 2 shows electronic absorption spectra showing the formation of 0.75 mM LLL- Ni ⁿ -NCC under 0 ₂ -free conditions in pH 7.3 50 mM potassium phosphate buffer. The spectra include LLL-NCC without metal (bottom trace), Ni-NCC shortly following addition of N1SO ₄ to LLL-NCC (middle trace), and LLL-Ni ⁿ -NCC incubated for ten hours (upper trace). Inset:

absorption intensity at 21 550 cm ^"1 as a function of time.

[0012] FIGURE 3 shows single-energy time profile of electronic absorption spectra of 0.75 mM LLL-Ni ⁿ -NCC prepared 0 ₂ -free (dark) and 0 ₂ -exposed (light) in pH 7.3 potassium phosphate buffer. [0013] FIGURE 4 panel A shows CD spectra of 0.75 niM LLL-Ni ⁿ -NCC in pH 7.3 potassium phosphate buffer exposed to air (top) and purged with Ar (bottom). Spectra shown with a dark black line were obtained at the time the absorption spectra were at maximum intensity, indicating maximum LLL-Ni ⁿ -NCC complex formation (t = 10 minutes for 0 ₂ -exposed and t = 150 minutes for 0 ₂ -free LLL-Ni ⁿ -NCC). Spectra shown using a solid gray line were collected at t = 590 minutes, and intermediate spectra obtained every ten minutes between these two times are represented as grey dotted traces. Panel B shows CD signal at single energies for 0.75 mM LLL-

Ni ⁿ -NCC incubated in 0 ₂ -free (black) and 0 ₂ -exposed (gray) pH 7.3 potassium phosphate buffer.

Error bars represent +/- one standard deviation from an average of three trials.

[0014] FIGURE 5 shows CD spectra of 0.75 mM LLL-Ni ⁿ -NCC generated 0 ₂ -free and incubated

300 minutes to achieve maximum formation of LLL-Ni ⁿ -NCC, then treated with 0 ₂ . The spectrum shown with a solid black line was collected at t = 300 minutes to allow for maximum complex formation, and then the sample was injected with 0 ₂ . The gray spectrum was collected after 800 total minutes of incubation (600 minutes of 0 ₂ exposure). Intermediate spectra obtained every ten minutes between these two times are represented as black dotted traces.

[0015] FIGURE 6 panel A shows CD spectra of LLL-Ni ⁿ -NCC in potassium phosphate buffer at pH 7.3 (bottom), pH 8.0 (middle), and pH 8.3 (top). The spectra shown with a black line were collected - 15 seconds after mixing, gray spectra were acquired after 600 minutes of incubation, and intermediate spectra obtained every ten minutes between the two time points are represented as black dotted traces. Panel B CD signal (mdeg) at designated single energies for pH 7.3 (gray) and pH 8.3 (black) potassium phosphate solutions. Error bars represent +/- one standard deviation from an average of three trials.

[0016] FIGURE 7 shows CD spectra of DLD-Ni ⁿ -NCC generated in pH 7.3 potassium phosphate buffer and prepared in the absence (bottom) and presence (top) of 0 ₂ . Spectra were collected at t = 0 minutes (black), t = 600 minutes (gray), and every ten minutes in between (dotted black traces).

[0017] FIGURE 8 shows single-energy time profile of electronic absorption spectra of DLD-Ni ¹¹ - NCC prepared 0 ₂ -free (black) and 0 ₂ -exposed (gray) in pH 7.3 potassium phosphate buffer.

[0018] FIGURE 9 shows CD spectra of DLL-Ni ⁿ -NCC generated in pH 7.3 potassium phosphate buffer and prepared in the absence (bottom) and presence (top) of 0 ₂ . Spectra were collected at t = 0 minutes (black), t = 600 minutes (gray), and every ten minutes in between (dotted black traces).

[0019] FIGURE 10 shows CD spectra of LLD-Ni ⁿ -NCC generated in pH 7.3 potassium

phosphate buffer and prepared in the absence (bottom) and presence (top) of 0 ₂ . Spectra were collected at t = 0 minutes (black), t = 600 minutes (gray), and every ten minutes in between

(dotted black traces).

[0020] FIGURE 11 shows CD spectra of 0 ₂ -free LLL-Ni ⁿ -NCC collected for 600 minutes in pH 7.3 potassium phosphate buffer. Spectra include those for the sample at approximately two minutes after complex formation (light), after 300 minutes of incubation to represent maximum complex formation (dark), and after 600 minutes (medium). Spectra collected every ten minutes between the red and blue spectra are represented as black dotted lines and those collected between the blue and green spectra are shown as grey dotted lines.

[0021] FIGURE 12 shows ESI-MS spectrum of Ni-NCC incubated with excess acetaldehyde. The major ions include 339.13 m/z (NCC) and 425.11 m/z (NCC + 2 acetaldehydes). The peak at 368.43 m/z is also found in samples without peptide and is therefore just due to the matrix and not the reaction of the aldehyde with the metal peptide complex.

[0022] FIGURE 13 shows CD spectra of 0 ₂ -free LLL-Ni ⁿ -NCC collected for 600 minutes in pH 9.0 potassium phosphate. CD spectra of Ni-NCC in pH 9.0 potassium phosphate, prepared 0 ₂ free. Spectra were collected after ~ 2 minutes (dark), following 600 minutes incubation (light), and every ten minutes in between (dotted black lines).

[0023] FIGURE 14 panel A shows ESI-MS of the nickel-bound tripeptide acquired at pH 10, where the mass indicates that nickel is bound to the peptide. Panel B, shows ESI-MS spectrum after dropping the pH of the sample to 5, showing that nickel has been released from the peptide.

[0024] FIGURE 15 shows that in different buffer systems, Ni-NCC has different CD spectral features.

[0025] FIGURE 16 shows an aging progression of Ni-NCC in phosphate.

[0026] FIGURE 17 panel A shows electronic absorption spectra of freshly prepared and aged Ni- NCC in 50 mM phosphate buffer at pH 7.4. Panel B shows CD spectra of the same samples. Individual Gaussian curves (...) and their sums (— ) obtained from fits of the CD data are displayed.

[0027] FIGURE 18 shows CD spectra of Ni-NCC aged in phosphate buffer vs. DLD-Ni-NCC.

[0028] FIGURE 19 shows CD spectra depicting the aging progression of various chiral versions of the Ni-NCC complex.

[0029] FIGURE 20 shows CD spectra of aging Ni-NCC in pH 7.4 potassium phosphate buffer exposed to air (top) and purged with Ar (bottom). Darker spectra were obtained at the time the absorption spectra were at maximum intensity, indicating maximum LLL -Ni-NCC complex formation (t = 10 minutes for 0 ₂ exposed and t = 300 minutes for 0 ₂ -free), lighter spectra were collected at t = 590 minutes, and intermediate spectra obtained every ten minutes between these two times are represented as black dotted lines. [0030] FIGURE 21 shows CD spectra of Ni-NCC generated 0 ₂ -free and incubated 120 minutes to form LLL -Ni-NCC complex, then injected with 0 ₂ (top), Ni-NCC generated 0 ₂ -exposed

(middle), and Ni-NCC generated 0 ₂ -free (bottom). Darker spectra were obtained at t = 10 minutes for the 0 ₂ -exposed sample and t = 130 minutes for the sample prepared 0 ₂ -free and the sample formed 0 ₂ -free, then injected with 0 ₂ . The lighter spectra were collected after t = 600 minutes for all three samples. Intermediate spectra obtained every ten minutes between these two times are represented as black dotted lines.

[0031] FIGURE 22 shows a plot of the change in intensity of the CD signal at 19 200 cm ^"1 as a function of exposure to oxygen in air.

[0032] FIGURE 23 shows a plot of the change in intensity of the CD signal at 19 200 cm ^"1 verses the amount of SOD (superoxide dismutase) activity as a function of exposure to oxygen in air.

[0033] FIGURE 24 shows the CD spectra of Ni-pentapeptides in 50 mM potassium phosphate at pH 7.4. The spectral features are similar with different peptides, while intensity differences are present.

[0034] FIGURE 25 panel A shows Gaussian deconvo luted absorption spectra of Ni-GGNCC (SEQ ID NO. 1). Panel B shows CD spectra of Ni-GGNCC (SEQ ID NO. 1).

[0035] FIGURE 26 shows CD spectra of NCC in longer sequences, including GGNCC (SEQ ID NO. 1), GGNCCGGK (SEQ ID NO. 2), and PRL-1, which each contain the NCC sequence. All samples were scanned 24 hours after metal incorporation to match the time frame under which PRL-1 data were collected.

[0036] FIGURE 27 shows minimal changes of aging for the spectral features of Ni-GGNCC (SEQ ID NO. 1) within a given buffer system of 50 mM potassium phosphate at pH 7.4.

[0037] FIGURE 28 panel A shows CD profiles of several chiral forms of GGNCC (SEQ ID NO. 1) in phosphate buffer. Panel B shows CD profiles of several chiral forms of GGNCC (SEQ ID NO. 1) in phosphate buffer, normalized at 22,000 cm ^"1 .

[0038] FIGURE 29 shows NMR spectra of Ni-exposed GGNCC (SEQ ID NO. 1) compared to each D-containing form. Differences in splitting patterns between 2.6 and 3.0 ppm correspond to the different chiralities of the respective pentapeptides.

[0039] FIGURE 30 panel A shows superimposed NMR spectra of GGNCC (SEQ ID NO. 1) and nickel-exposed GGNCC (SEQ ID NO. 1). Panel B shows stacked NMR spectra of GGNCC (SEQ ID NO. 1) and nickel-exposed GGNCC (SEQ ID NO. 1). Peaks correspond to the ¹ H on the CH ₂ on the Asn and Cys side chains.

[0040] FIGURE 31 shows photopolymerization of hydroxy ethyl methacrylic acid (HEMA) initiated using a UV light source for 40 seconds. Addition of the Ni-GGNCC (SEQ ID NO. 1) complex alters the rate of polymerization. DESCRIPTION

[0041] The present disclosure generally relates to metal abstraction peptide tags (MAP tags) and to methods of preparing and using such tags for a variety of uses.

DEFINITIONS

[0042] As used herein, the abbreviations for the natural L-enantiomeric amino acids are conventional and are as follows: alanine (A, Ala); arginine (R, Arg); asparagine (N, Asn);

aspartic acid (D, Asp); cysteine (C, Cys); glutamic acid (E, Glu); glutamine (Q, Gin); glycine (G, Gly); histidine (H, His); isoleucine (I, He); leucine (L, Leu); lysine (K, Lys); methionine (M, Met); phenylalanine (F, Phe); proline (P, Pro); serine (S, Ser); threonine (T, Thr); tryptophan (W, Trp); tyrosine (Y, Tyr); valine (V, Val). Typically, X can indicate any amino acid. However, in some embodiments, X can be asparagine (N), glutamine (Q), histidine (H), lysine (K), or arginine (R).

[0043] When an amino acid sequence is represented as a series of three-letter or one-letter amino acid abbreviations, it will be understood that the left-hand direction is the amino terminal direction and the right-hand direction is the carboxy terminal direction, in accordance with standard usage and convention.

[0044] The term "metal" as used herein refers to metals in elemental form, metal atoms, and metal ions interchangeably.

[0045] The terms "purification", "separation", "extraction" and "isolation" are used

interchangeably to refer to the process of separating a target polypeptide from other components in a polypeptide-containing sample.

[0046] "Operably linked" refers to a linkage in which the regulatory DNA sequences and the DNA sequence to be expressed are connected in such a way as to permit transcription and ultimately translation.

[0047] The term "host cell" refers to those cells capable of growth in culture and capable of hosting nucleic acids encoding the protein-based constructs described herein.

[0048] The term "X% sequence similarity" is not intended to be limited to sequences having a X% sequence similarity over their entire length, but rather includes sequence similarity over a portion of the length of the polynucleotide or polypeptide.

METAL ABSTRACTION PEPTIDE (MAP)

[0049] The present disclosure generally relates to tripeptide motifs and methods of using such motifs. These metal abstraction peptides (MAPs) have the ability to bind to metals, which makes them useful for a variety of applications. In particular, the tripeptides of the present disclosure have applications in site-specific modulation of peptides or proteins to which they are linked. End uses of the modulated proteins can include imaging, research, therapeutics, pharmaceuticals, chemotherapy, chelation therapy, and metal sequestering.

[0050] The present disclosure provides a tripeptide having the sequence XCiC ₂ ; wherein X is any natural or non-natural amino acid or amino acid analog such that XCiC ₂ is capable of binding a metal. In various embodiments, the tripeptide is capable of binding metal in a square planar orientation or square pyramidal orientation or both. In various embodiments, Ci and C ₂ are the same or different; and Ci and C ₂ individually are chosen from a cysteine and a cysteine-like non-natural amino acid or amino acid analog. In various embodiments, Ci and C ₂ are each individually chosen from sulfur-containing alpha or beta amino acids.

[0051] The present disclosure also provides a tripeptide having the sequence XCiC ₂ and a bound metal; wherein the metal is complexed with or bound to the tripeptide. In various embodiments, X is any natural or non-natural amino acid or amino acid analog such that XCiC ₂ and the bound metal are in a square planar orientation or square pyramidal orientation or both; and wherein Ci and C ₂ are the same or different; and wherein Ci and C ₂ individually are chosen from a cysteine and a cysteine-like non-natural amino acid or amino acid analog. In various embodiments, Ci and C ₂ are each individually chosen from sulfur-containing alpha or beta amino acids.

[0052] In addition, the present disclosure provides methods comprising complexing with a metal a tripeptide having the sequence XCiC ₂ to form a metal-XCiC ₂ complex; wherein X is any natural or non-natural amino acid or amino acid analog such that metal-XCiC ₂ complex has a square planar orientation or square pyramidal orientation or both; and wherein Ci and C ₂ are the same or different; and wherein Ci and C ₂ individually are chosen from a cysteine and a cysteine- like non-natural amino acid or amino acid analog. In various embodiments, Ci and C ₂ are each individually chosen from sulfur-containing alpha or beta amino acids.

[0053] The X in the MAP sequence can be any natural or non-natural amino acid. In some specific embodiments, X in the MAP sequence can be methionine (M), glycine (G), or asparagine (N). When an amino acid sequence is represented as a series of three-letter or one- letter amino acid abbreviations, it will be understood that the left-hand direction is the amino terminal direction and the right-hand direction is the carboxy terminal direction, in accordance with standard usage and convention. Generally, the present disclosure is related to short, novel peptide motifs that strongly bind with a select metal, referred to as metal abstraction peptides (MAP(s)). As such, these MAPs can be used, among other things, to extract the select metal from a composition. The MAPs of the present disclosure are three amino acids in length, and can be included in longer polypeptides and proteins at the N-terminus, C-terminus, or any position in between. In various embodiments, however, it can be advantageous for the MAP to be present in a polypeptide or protein configuration that presents the MAP for binding with a metal, such as being present in an external loop. The MAP can also be covalently attached to a polypeptide or protein through a linker, such as at the N-terminus, C-terminus, or through a side-chain from the polypeptide or protein. For example, such linkers can include amide bonds, or esters. The MAP also can be attached to a non-peptide entity. Non-peptide entities include without limitation carbohydrates, glycoproteins, and/or covalent linkers, including polyethylene glycol.

Additionally, more than one MAP can be present on a particular molecule. In various embodiments, one or more MAPs can be covalently linked to an antibody. In various

embodiments, the metal abstraction peptide (MAP) is a tripeptide capable of complexation with metal ions, as described in U.S. Patent Publication 2010/0221839.

[0054] A peptide of the invention can be administered to a subject. A plurality of animals can be subjects of the invention, an animal can be, for example, a human, dog, a cat, a horse, a cow, or a pig can be subjects of the invention. In some embodiments, a subject is a human. A subject can be of any age, including, for example, elderly adults, adults, adolescents, pre-adolescents, children, toddlers, and infants.

[0055] Chemical Structure/Peptide Sequence.

[0056] The MAPs of the present disclosure generally comprise at least three contiguous amino acid residues capable of binding a metal. The MAP tags of the present disclosure generally have a sequence represented by XCiC ₂ , in which C _\ and C ₂ can be the same or different and can be a cysteine, or a cysteine-like non-natural amino acid, or a cysteine-like amino acid analog. For example, Ci and/or C ₂ can be a sulfur-containing alpha- or beta-amino acid. In various embodiments, X is selected from N, Q, H, K, and R. In various embodiments, XCiC ₂ are L- amino acids. In various embodiments, XCiC ₂ are L-amino acids, where X is selected from N, Q, H, K, and R. In various embodiments, X is achiral, for example, X is glycine.

[0057] In certain embodiments, the MAP tag can be attached to another molecule. For example, the MAP tag can be attached to a non-peptide entity like a carbohydrate. For example, the carbohydrate can be a component in a glycoprotein. Alternatively, the carbohydrate can be hyaluronic acid or chondroitin. The attachment can be covalent, and can be affected through a linker. In various embodiments, the MAP is attached to an antibody for targeted delivery.

[0058] In some embodiments, the MAP tag can comprise a sequence as follows: NCiC ₂ ; Z\- NC _! C ₂ -Z ₂ ; Zi- CiCz; NdC ₂ -Z ₂ ; Qdd; Z Qd -Z,; Z Qd ; QdC ₂ -Z ₂ ; Hdd; Z HC iC ₂ -Z ₂ ; Zi-HCi ; HCiC ₂ -Z ₂ ; CiC ₂ ; Zi- KC iC ₂ -Z ₂ ; Zi-KCi ; KCiC ₂ -Z ₂ ; RCiC ₂ ; Zi- RCiC ₂ -Z ₂ ; Zi-RCiC ₂ ; or RCiC ₂ -Z ₂ . Zi can be any amino acid or any sequence of amino acids, and Z ₂ can be any amino acid or sequence of amino acids that is equivalent or not equivalent to

Z _\ . Non-natural and amino acids analogues can be included as Z _\ and Z ₂ . In various

embodiments, Zi and Z ₂ are both natural amino acids or sequences of natural amino acids. In various embodiments, XC ₁ C ₂ are L-amino acids, where X is selected from N, Q, H, K, and R. In various embodiments, XCiC ₂ are L-amino acids, where X is selected from N, Q, H, K, and R, and Zi and Z ₂ are both sequences of natural amino acids. In various embodiments, X is achiral, for example, X is glycine. In some embodiments, the peptide is a sequence of three amino acids, for example, XC ₁ C ₂ , XCC, or NCC, and the N-terminus of the peptide is a free amine. In some embodiments, the free amine binds a metal more strongly than does an amide of the N-terminal amine.

[0059] In some embodiments, a MAP tag of the present disclosure can be encoded in line with a gene or nucleotide sequence that provides for targeted delivery of the MAP tag, either before MAP tag complexation with a metal or after complexation with a metal. This can be

accomplished using genes, peptides, or other motifs known to be useful for targeting. For example, MAP tags can be incorporated within an antibody, growth factors, peptides, and the like. Additionally, it can be incorporated into a peptide or protein using any synthetic or biosynthetic method for peptide or protein production. In various embodiments, one or more MAPs are covalently linked to an antibody via a non-natural linker. In various embodiments, one or more MAPs are covalently linked to an antibody via a polyether linker, such as polyethylene glycol or polypropylene glycol.

[0060] In some uses, the MAP tag spontaneously reacts with a metal to form a peptide-metal complex. Metal-MAP complexes can form in solution or via transmetallation or any other process.

[0061] Metal Binding.

[0062] Metal binding by MAP tags according to the invention can be accomplished using atoms in very close proximity, and as such, extreme conditions are required to release the metal.

Thermal and chemical denaturation of the MAP tag and the material to which it is covalently linked permits slow release of the metal. For example, use of extreme conditions (e.g. boiling temperature, denaturants, chelators) can lead to slow release of the metal over a period of time (e.g., several to many hours).

[0063] In certain embodiments, the MAP tags of the present disclosure, alone or when incorporated into a polypeptide, protein, glycoprotein, or antibody, can complex with a metal to form a MAP tag-metal complex having a square planar and/or square pyramidal geometry. The metal can complex with the MAP tag through 2N:2S coordination. In various embodiments, the metal-MAP complex can have an additional coordination site for complexation of an additional ligand to the metal, or for an additional site for chemical reactivity with the metal.

[0064] In general, the MAP tags of the present disclosure can bind, referring to IUPAC Group:

Group 3 metals, such as Y; Group 4 metals such as Ti, Zr, Hf; Group 5 metals, such as V; Group

6 metals, such as Cr, Mo, W; Group 7 metals such as Mn, Tc, Re; Group 8 metals, such as Fe and

Ru; Group 9 metals, such as Co, Rh, Ir; Group 10 metals such as Ni, Pd, Pt; Group 11 metals, such as Cu, Ag, Au; Group 12 metals, such as Zn, Cd, Hg; Group 13 metals, such as Al, Ga, In,

Tl; Group 14 metals, such as Sn and Pb; and Group 15 metals, such as Bi. In certain

embodiments, the MAP tag binds to lanthanides or actinides, such as U. In various embodiments, the MAP binds with alkaline earth metals, such as Mg, Ca, Ba, Ra. The MAP tag can bind and form a MAP tag-metal complex with Zn, Ni, Cu, Co, Pt, Pd, Au, Ag, Pb, and Fe. In various embodiments, the metal is Ni. In various embodiments, the metal Ni converts between Ni ¹¹ and

Ni ^m , and/or vice versa.

[0065] In some embodiments, a MAP tag is capable of binding metals with high affinity. A MAP tag can also be capable of abstracting a metal from various compositions ranging from fluids to solids. Consequently, the ability of MAP tags to abstract the metal, rather than share

coordination, make them amenable for use in separating a specific metal from another composition. In some embodiments, the MAP tags are capable of sequestering a metal ion from compositions by complexing with the metal and then abstracting or removing the metal from a component in the composition, such as a chelating agent (e.g., NTA) or a solid support conjugated with, for example, IDA or NTA. As such, the MAP tag is a metal abstraction peptide (MAP) tag. In various embodiments, binding is best accomplished using a partial chelator as opposed to a chelator that coordinates at all available binding sites on the metal. In various embodiments, chelators like EDTA that coordinate Ni and Cu at all available binding sites on the metal proceed much more slowly.

[0066] A MAP tag can bind to metal in a plurality of ratios. In some embodiments, a MAP tag can bind to metal in a ratio of about 1 : about 1; about 1 : about 2; about 1 : about 3; about 1 : about 4; about 1 : about 5; about 1 : about 6; about 1 : about 7; about 1 : about 8; about 1 : about 9; or about 1 : about 10. In some embodiments, a MAP tag can bind to metal in a ratio of about 10: about 1; about 9: about 1; about 8: about 1; about 7: about 1; about 6: about 1; about 5: about 1; about 4: about 1; about 3: about 1; or about 2: about 1. In some embodiments, the ratio is 1 : 1.

[0067] Peptide Structures.

[0068] Stabilization of the three-dimensional structure of a protein can involve interactions between amino acids located near one another and/or far apart along the primary sequence of a protein. A peptide comprising a sequence XC ₁ C ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, and further wherein Ci and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid can be comprised in the primary structure of a peptide.

[0069] The secondary structure of a peptide comprising a sequence XC ₁ C ₂ can be folded into an a-helix, a β-sheet, a β-turn, a β-strand, or a combination thereof. A peptide comprising a sequence XCiC ₂ can be functional when folded into a secondary structure comprising a-helixes and/or β-sheets.

[0070] In some embodiments, the functionality of the peptide comprising a sequence XCiC ₂ can provide a method of treating a defect in superoxide dismutase in a subject in need thereof. In some embodiments, the functionality of the peptide comprising a sequence XCiC ₂ can provide a method of reducing pain in a subject in need thereof. In some embodiments, the functionality of the peptide comprising a sequence XCiC ₂ can provide a method of reducing inflammation in a subject in need thereof. In some embodiments, the functionality of the peptide comprising a sequence XCiC ₂ can provide a method of increasing in-vivo half-life of a therapeutic polypeptide. In some embodiments, the functionality of the peptide comprising a sequence XCiC ₂ can provide a method of performing a chemical reaction.

[0071] A peptide comprising a sequence XCiC ₂ can be folded into a tertiary structure. Folding of the peptide into a tertiary structure can involve a plurality of molecular interactions. Non- limiting examples of molecular interactions that can influence the folding of a peptide

comprising a sequence XCiC ₂ into a tertiary structure can include: a) hydrogen bonds; b) Van der Waals interactions; c) ionic bonds; d) disulfide bonds; e) hydrophobic interactions; and f) aromatic interactions. In some embodiments, a plurality of factors can influence the folding of a peptide comprising sequence XCiC ₂ into a tertiary structure. Non-limiting examples of factors that can influence the folding of a peptide comprising a sequence XCiC ₂ into a tertiary structure can include: a) pH; b) hydrophobicity of the environment surrounding the peptide; c)

hydrophilicity of the environment surrounding the peptide; and d) interactions with additional molecules.

[0072] In some embodiments, a peptide comprising a sequence XCiC ₂ adopts a tertiary structure under physiological conditions, wherein a basic amino acid located at least 17 amino acids away from Ci by amino acid sequence is located within 20 angstroms in space from C _\ .

[0073] In some embodiments, a peptide comprising a sequence XCiC ₂ adopts a tertiary structure, wherein the sequence XCiC ₂ is available for binding metal. In some embodiments, a peptide comprising a sequence XCiC ₂ adopts a tertiary structure, wherein the sequence XCiC ₂ is not available for binding metal. In some embodiments, denaturing conditions can expose a XCiC ₂ sequence comprised in a peptide and render the sequence available for binding metal. [0074] Peptide lengths.

[0075] A peptide comprising a sequence XCiC ₂ can be incorporated into peptides of various sizes. A peptide comprising a sequence XCiC ₂ can be about 3 amino acids, about 4 amino acids, about 5 amino acids, about 6 amino acids, about 7 amino acids, about 8 amino acids, about 9 amino acids, about 10 amino acids, about 11 amino acids, about 12 amino acids, about 13 amino acids, about 14 amino acids, about 15 amino acids, about 16 amino acids, about 17 amino acids, about 18 amino acids, about 19 amino acids, about 20 amino acids, no more than 20 amino acids, no more than 25 amino acids, no more than 30 amino acids, no more than 35 amino acids, no more than 40 amino acids, no more than 45 amino acids, no more than 50 amino acids, no more than 55 amino acids, no more than 60 amino acids, no more than 65 amino acids, no more than 70 amino acids, no more than 75 amino acids, no more than 80 amino acids, no more than 85 amino acids, no more than 90 amino acids, no more than 95 amino acids, no more than 100 amino acids, no more than 110 amino acids, no more than 120 amino acids, no more than 130 amino acids, no more than 140 amino acids, no more than 150 amino acids, no more than 160 amino acids, no more than 170 amino acids, no more than 180 amino acids, no more than 190 amino acids, no more than 200 amino acids, no more than 225 amino acids, no more than 250 amino acids, no more than 275 amino acids, no more than 300 amino acids, no more than 325 amino acids, no more than 350 amino acids, no more than 375 amino acids, no more than 400 amino acids, no more than 425 amino acids, no more than 450 amino acids, no more than 475 amino acids, and no more than 500 amino acids. In some embodiments a peptide comprising a sequence XCiC ₂ is no more than 500 amino acids.

SITE-SPECIFIC CHIRAL INVERSION OF AMINO ACIDS

[0076] In various embodiments, the present disclosure relates to MAP(s) that demonstrate chiral inversion and/or have antioxidant activity, as well as methods of generating and using the same.

[0077] D-amino acids that have been observed in proteins and peptides often impart significant differences in biological function to the chiral peptide and protein variants; while some can act as inhibitors, others can act as activators. The introduction of a D-amino acid often alters the structure of the peptide or protein, which can in turn influence the biological activity of the parent peptide. Conversely, chiral mutagenesis of proteins has been shown to stabilize certain proteins, including insulin. Generally, naturally occurring, biosynthetic peptides and proteins that contain D amino acids are first generated entirely from L-amino acids, and the inversion occurs as a post-translational modification.

[0078] In various embodiments of the invention, the metal-tripeptide (MAP) complex undergoes chiral inversion in a site-specific manner. This modification is distinctive, as site-specific chiral inversion is not often observed in proteins. The structural change that occurs in this complex can be both site and structurally specific and can occur substantially more rapidly than random background. Moreover, random chiral changes often require highly elevated temperature to occur and result in an approximately equal mixture of both chiral forms, rather than a single form. In various embodiments of the invention, the chiral inversion by the MAP- based chemistry results in a substantially homogeneous single form. For example, chiral inversion by the MAP -based chemistry can result in a mixture with greater than about 70%, greater than about 80%, greater than about 90%, greater than about 95%, or greater than about 99% enrichment in one D-amino acid over the corresponding L-amino acid.

[0079] In one embodiment, the present disclosure provides methods for site-specific chiral inversion of amino acids. Such methods can proceed at reactions occurring at room temperature and near neutral pH in aqueous solution over the course of hours. In general, the amino acids comprise at least three contiguous L-enantiomeric (L) amino acid residues capable of binding a metal, or at least three contiguous amino acids including an achiral amino acid and two L- enantiomeric amino acids. In various embodiments, MAP tags affecting or participating in site- specific chiral inversion generally have a sequence represented by XC ₁ C ₂ , in which Ci and C ₂ can be the same or different and can be a cysteine, or a cysteine-like non-natural amino acid (e.g., a sulfur containing alpha- or beta-amino acid), and in which C ₂ also can be histidine, or a histidine- like non-natural amino acid, and in which X can be any natural or non-natural amino acid or amino acid analog. In some embodiments, the peptide tag formed is capable of binding a metal in square planar and/or pyramidal geometry.

[0080] A particular molecule or complex of interest can comprise one or more of the amino acids represented by XCiC ₂ and can include additional amino acids (e.g., a peptide or protein), as well as non-peptide entities (e.g., carbohydrates) or linkers.

[0081] In certain embodiments, the amino acids represented by XCiC ₂ can complex with a metal ion having a square planar/pyramidal geometry. The metal ion can complex with the MAP tag through 2N:2S coordination. In general, suitable metal ions include, but are not limited to, ions of nickel, zinc, cobalt, platinum, and palladium.

[0082] Prior to complexation with a metal ion, the amino acids represented by XCiC ₂ are L- enantiomeric, or in the case of X, achiral. Upon complexation with a metal ion, one or more of the amino acids undergo a site-specific chiral inversion. For example, LXLCILC ₂ can become DXLCIDC ₂ upon complexation with a metal ion provided X is a chiral amino acid. In another example, when X is an achiral amino acid, such as glycine, only C ₂ can undergo the chiral inversion. [0083] In one example, the NCC tripeptide contains all L-amino acids. Conversion to the D- containing form can occur after complexation with nickel resulting in inversion at two positions to produce a stable DLD-NCC-metal complex. In some examples, chiral inversion in NCC peptides occurs at the first and third carbon-a positions in the NCC sequence. The resulting DLD- peptide-metal complex is stable in aqueous solution and benefits from an increase in

thermodynamic stability.

[0084] In another embodiment, the present disclosure provides methods and compositions for site-specific chiral inversion of amino acids that can be useful to protect against proteolysis.

[0085] In various embodiments, the resulting DLD-peptide is incorporated in a therapeutic peptide or protein. In various embodiments, D-amino acid containing peptides or proteins are resistant to degradation in-vivo. In various embodiments, the therapeutic peptide or protein comprising the DLD-peptide or achiral-L-D tripeptide has an increased half-life in-vivo.

[0086] In various embodiments, the invention is directed to methods of providing therapeutic peptides or proteins with increased half-lives in-vivo. In various embodiments, the method comprises providing a therapeutic peptide or protein comprising a MAP -tag as all L-enantiomers; exposing the MAP -tag to a metal under conditions such that the LLL-MAP-tag is converted to a DLD-tag; removing the metal; and isolating the resulting therapeutic peptide or protein to be administered to a subject in need thereof, wherein the therapeutic peptide or protein with a DLD- tag has increased resistance to proteolysis.

[0087] In various embodiments, the invention is directed to methods of providing therapeutic peptides or proteins with increased half-lives in-vivo. In various embodiments, the method comprises providing a therapeutic peptide or protein comprising a MAP -tag with a terminal L- enantiomer; exposing the MAP -tag to a metal under conditions such that the terminal L-amino acid is converted to a D-amino acid; removing the metal; and isolating the resulting therapeutic peptide or protein to be administered to a subject in need thereof, wherein the therapeutic peptide or protein with a terminal D-amino acid has increased resistance to proteolysis. Chiral inversion by the MAP -based chemistry can result in a mixture with greater than about 70%, greater than about 80%, greater than about 90%>, greater than about 95%, or greater than about 99% enrichment in one D-amino acid over the corresponding L-amino acid. In various embodiments, the therapeutic protein with increased half-life in-vivo is insulin.

[0088] The MAP sequences can be 3 amino acids in length and can be included in longer polypeptides and proteins at the N-terminus, C-terminus, or any position in between. In certain embodiments, however, it can be advantageous for a MAP sequence to be present in a polypeptide or protein configuration that presents the MAP sequence for binding with a metal, such as being present in a linker region between two proteins or in an internal sequence within a protein. A MAP sequence also can be attached to a non-peptide entity (e.g., polymer,

fluorophore, solid support, chemical linker, and the like). Additionally, more than one MAP sequence can be present on a particular molecule. In various embodiments, one or more MAPs are part of an antibody's protein sequence. In various embodiments, one or more MAPs are covalently linked to an antibody through amino acid side-chains of the antibody, through sugar moieties linked to the antibody, or through non-natural linkers such as polyethers.

SUPEROXIDE DISMUTASE ACTIVITY

[0089] Nickel superoxide dismutase, of which Ni-NCC is both a structural and functional mimic, is a complex enzyme with many factors governing its unique and efficient reactivity. In Ni-SOD, the amino acid residues involved in the mononuclear nickel binding site are found at the N- terminal end of the enzyme, comprising a nickel hook. The metal is bound in a 2N:2S, square planar nickel (II) geometry, utilizing two nonadjacent cysteine side chains, a backbone nitrogen,

2_ _| _ and the N-terminus as ligands. The presence of two cysteine ligands helps maintain the Ni /Ni redox couple that is necessary to catalyze the disproportionation reaction. Without both cysteine amino acid residues, catalysis is not possible and coordination is a weak, octahedral arrangement. During catalysis, an axial histidine ligand is critical, to stabilizing the nickel (III) oxidized state and helping to tune the nickel redox potential for superoxide disproportionation; when the axial histidine is missing, the enzyme resides mostly in the nickel (II) (reduced) form, resulting in the rate of disproportionation decreasing by two orders of magnitude. Individual amino acid residues outside of the primary coordination sphere also impact reactivity. The primary coordination sphere determines the redox potential, which impacts reactivity, but larger structural differences and the secondary coordination sphere impact the reactivity without changing the redox potential.

[0090] Many complexes have been synthesized in attempt to maintain the reactivity of the enzyme in a simple, small-molecule based system to better understand how specific features of the enzyme facilitate catalysis. Ironically, the experiments that have probed the primary coordination sphere and the effect of individual ligands on redox potential and catalysis have produced diverse results. Two Ni complexes synthesized by Hegg et al. (Mathrubootham, V.; Thomas, J.; Staples, R.; McCraken, J.; Shearer, J.; Hegg, E. L. Inorg. Chem. 2010, 49, 5393, incorporated by reference) illustrate differences between amine/amide vs bis-amide species. In the bis-amide complex, the spectral features were shifted to higher energy and the system has a more negative oxidation potential. Peptide maquettes and other peptide -based mimics of Ni-SOD have provided a way to examine the reactivity of the enzyme, as individual components that contribute to reactivity can be modified. Shearer and coworkers (Neupane, K. P.; Shearer, J. Inorg. Chem. 2006, 45, 10552, incorporated by reference) have performed studies on maquettes of Ni-SOD. Studies on these maquettes have probed the role of N-terminal acetylation to check the importance of the mixed amine/amide coordination on the reactivity. When the maquette was acetylated to generate a bis-amide (versus not acetylated, with amine/amide coordination), the redox potential and superoxide scavenging activity of the complex changed. Like the synthetic complex, the spectral features are shifted to higher energy with bis-amide coordination. The acetylated maquette, however, has a quasi-reversible redox potential that is more positive compared to the amine/amide maquette.

[0091] In a 5-mer NCC system with two glycines preceding the NCC tripeptide, converting the amine/amide to bis-amide coordination shifts the spectral features to higher energy, but only modestly impacts superoxide scavenging activity and redox potential. Each of these systems have 2N:2S coordination, yet altering the nitrogen ligand composition leads to different outcomes, suggesting that even within the primary coordination sphere, features other than the ligand affect redox potential and catalytic activity. Despite amine/amide coordination, no chiral inversion has been observed in Ni-SOD or reported for peptide maquettes that contain the metal binding sequences that mimic the activity of Ni-SOD.

[0092] In various embodiments, the present invention relates to the use of various peptides with superoxide dismutase activity. In various embodiments, the superoxide dismutase activity of a metal-MAP complex in an in-vitro assay is at least about 50%, at least about 60%, at least about 70%), at least about 80%>, at least about 90%>, or at least about 100% of the superoxide dismutase activity of a wild-type or native enzyme. In various embodiments, the superoxide dismutase activity of a polypeptide, protein, glycoprotein, antibody, or other substrate with multiple metal- MAP complexes in an in-vitro assay is at least about 50%, at least about 60%, at least about 70%, at least about 80%>, at least about 90%>, or at least about 100%> of the superoxide dismutase activity of a wild-type or native enzyme.

[0093] In one example, a MAP comprising the sequence peptide- Asn-Cys-Cys (NCC) can be formed through a reaction with IMAC resin-chelated nickel, which allows this NCC peptide to react with and abstract the metal, resulting in a high affinity Ni-peptide complex at neutral pH. The nickel-bound peptide, Ni-peptide-NCC, can contain a diamagnetic Ni ¹¹ center bound in square planar geometry with 2N:2S coordination. In various embodiments, bound nickel cycles through Ni ¹¹ and Ni ^m states.

[0094] In various embodiments, the structure of Ni-NCC has mixed amine/amide nitrogen coordination and cis deprotonated thiolates. Without wishing to be bound by theory, this coordination can resemble that of Ni in nickel superoxide dismutase (Ni-SOD), which can consist of two cysteinate sulfurs (Cys2 and Cys6) arranged cis to one another, the N-terminal amine, and the deprotonated amide nitrogen from the peptide backbone of Cys2. When bound to nickel, the tripeptide can act as a functional mimic of the enzyme nickel superoxide dismutase. Although a common function exists, the MAP amino acid sequence is not related to the sequence of the Ni- SOD enzyme participating in the same function.

[0095] In various embodiments, the Ni -MAP -tag peptide complex is part of a larger polypeptide, protein, glycoprotein, or antibody, and has superoxide dismutase activity without undergoing site-specific chiral inversion to DLD enantiomers. In various embodiments, the MAP -tag is XCC as all L enantiomers, where X is any amino acid. In various embodiments, the MAP -tag is NCC as all L enantiomers. The change from a mixed amine/amide in the MAP -tag to a bis-amide within a larger sequence only minorly impacts the superoxide scavenging activity and redox potential of the complex, but it substantially avoids the occurrence of chiral inversion. Without wishing to be bound by theory, the mechanism of chiral inversion in the Ni-NCC system aids in understanding the role of the nitrogen coordination on the electronic properties and chiral inversion aids in understanding how the exact chemical composition dictates electron transfer properties of the nickel metal center.

[0096] In various embodiments, a method is provided for treating a defect in superoxide dismutase in a subject in need thereof comprising administering a composition as disclosed herein to the subject. In various embodiments, one or more metal-MAP complexes are linked to a targeting moiety, such as an antibody. In various embodiments, Ni-MAP complex and/or proteins or polypeptides containing Ni-MAP complexes are used as models for Ni-SOD enzymes for in- vitro analysis or diagnosis.

ANTI-OXIDANT ACTIVE AGENT

[0097] In certain embodiments, the present disclosure provides anti-oxidant compositions and methods. For example, the metal-MAP -tag complex has anti-oxidant properties. In various embodiments, the metal ion-MAP-tag complex is present as an active ingredient in a therapeutic or cosmetic composition. Such compositions can be targeted, or otherwise used, in applications or compositions benefiting from an anti-oxidant active agent. In various embodiments, one or more metal-MAP complexes are linked to a targeting moiety, such as an antibody. Linkage to the targeting moiety can be through a natural or non-natural linker such as a carbohydrate or polyether linker. In various embodiments, one or more metal-MAP complexes can be part of the primary sequence of a polypeptide, protein, glycoprotein, antibody, or other biologically- produced polymer.

[0098] In various embodiments, the metal-MAP complex has antioxidant activity and is administered to provide pain relief. While not wishing to be bound by theory, it is believed that the metal-MAP complex administered to provide pain relief interferes with or reduces the amount of reactive oxygen species present in-vivo. Reactive oxygen species are involved in pain feedback loops and signaling of inflammation in-vivo. In various embodiments, the metal-MAP complex is delivered to target and interfere with the pain feedback loop. In various embodiments, the metal-MAP complex provides an anti -inflammatory effect in-vivo or by in-vitro assay. In various embodiments, the metal-MAP complex reduces the amount of reactive oxygen species in-vivo or in an in-vitro assay. In various embodiments, the antioxidant activity is correlated to superoxide dismutase activity. In various embodiments, a method is provided for reducing pain and/or inflammation in a subject in need thereof comprising administering a composition as disclosed herein to the subject.

[0099] Dosing for the metal-MAP complex, in the methods of the invention can vary based on the subject. The dose can range from about 1 x 10 ^~10 g to about 5000 mg. Dose range can depend on the form of form and/or route of administration. For example, for systemic administration, non-limiting examples of dose ranges are, e.g. about 1 to about 5000 mg, or about 1 to about 3000 mg, or about 1 to about 2000 mg, or about 1 to about 1000 mg, or about 1 to about 500 mg, or about 1 to about 100 mg, or about 10 to about 5000 mg, or about 10 to about 3000 mg, or about 10 to about 2000 mg, or about 10 to about 1000 mg, or about 10 to about 500 mg, or about 10 to about 200 mg, or about 10 to about 100 mg, or about 20 to about 2000 mg, or about 20 to about 1500 mg, or about 20 to about 1000 mg, or about 20 to about 500 mg, or about 20 to about 100 mg, or about 50 to about 5000 mg, or about 50 to about 4000 mg, or about 50 to about 3000 mg, or about 50 to about 2000 mg, or about 50 to about 1000 mg, or about 50 to about 500 mg, or about 50 to about 100 mg, about 100 to about 5000 mg, or about 100 to about 4000 mg, or about 100 to about 3000 mg, or about 100 to about 2000 mg, or about 100 to about 1000 mg, or about 100 to about 500 mg. In some embodiments, the dose is about 100, about 200, about 300, about 400, about 500, about 600, about 700, about 800, about 900, or about 1000 mg. In some embodiments, the dose is 0.1 mg. In some embodiments, the dose is 1.0 mg. In some

embodiments, the dose is about 10 mg. In some embodiments, the dose is about 100 mg. In some embodiments, the dose is about 500 mg. In some embodiments, the dose is about 1000 mg. All amounts are considered to be about the indicated amount.

ANTI-OXIDANT PRESERVATIVE

[00100] In various embodiments, the present disclosure provides metal-MAP complexes as anti-oxidant ingredients in compositions. For example, the metal-MAP -tag complex has antioxidant properties which act as a preservative in the composition. Such compositions can be used in applications or compositions benefiting from an anti-oxidant component, which is not present in a therapeutically or cosmetically active amount. In various embodiments, the metal ion-MAP- tag complex is present in a therapeutic or cosmetic composition, wherein the metal ion-MAP-tag complex is present in an amount effective to provide anti-oxidant and/or preservative properties, where the metal-MAP -tag complex is not present as an active ingredient in the composition.

[00101] The metal-MAP complex can be used in combination with or in place of known preservatives, which can be used to form pharmaceutical compositions and dosage forms including, but not limited to, purite, peroxides, perborates, imidazolidinyl urea, diazolidinyl urea, phenoxyethanol, alkonium chlorides including benzalkonium chlorides, methylparaben, ethylparaben and propylparaben. In other embodiments, suitable preservatives for which the metal-MAP complex can be used in combination with or in place of include: benzalkonium chloride, purite, peroxides, perborates, thimerosal, chlorobutanol, methyl paraben, propyl paraben, phenylethyl alcohol, edetate disodium, sorbic acid, or Onamer M.

[00102] In some embodiments of the invention, metal-MAP complex can be employed at a level of from 0.004% to 0.02% w/v. In some compositions of the present application, the preservative can be employed at a level of from about 0.001% w/v to less than about 0.04%> w/v, e.g. from about 0.001% w/v to about 0.008%) w/v, or about 0.005%) w/v. For example, formulations for application to skin can use metal-MAP complex at about 0.02% w/v or about 0.04% w/v. In some embodiments, a metal-MAP complex is used to replace other preservatives. In some embodiments, a metal-MAP complex is used in place of methyl paraben or propyl paraben such that formulations use methyl paraben or propyl paraben at less than 0.02% w/v. In some embodiments, these formulations use essentially no methyl paraben or no propyl paraben.

[00103] In some embodiments, the peptide is present in an amount from about 0.001% w/v to about 0.005% w/v, from about 0.001% w/v to about 0.01% w/v, from about 0.001% w/v to about 0.05% w/v, from about 0.001% w/v to about 0.1% w/v, from about 0.005% w/v to about 0.01% w/v, or from about 0.005% w/v to about 0.1% w/v.

INFLAMMATION

[00104] In various embodiments, the present disclosure provides metal-MAP complexes as anti-inflammatories. A metal-MAP complex can be used to treat inflammation arising from a local response to cellular injury. A metal-MAP complex can be used to treat inflammation that is characterized by capillary dilatation, leukocytic infiltration, redness, heat, and/or pain. In some embodiments, a metal-MAP peptide can serve as a mechanism initiating the elimination of noxious agents and of damaged tissue associated with inflammation.

[00105] A metal-MAP peptide of the invention can be used to treat acute inflammation.

Symptoms of acute inflammation can be present for a few days, or can persist for a few weeks. Symptoms can include redness, immobility, swelling, pain, discomfort, and heat. Examples of diseases, conditions, and situations which can be associated with acute inflammation include: acute bronchitis, infected ingrown toenail, sore throat from a cold or flu, a scratch/cut on the skin, exercise (especially intense training), acute appendicitis, acute dermatitis, acute tonsillitis, acute infective meningitis, acute sinusitis, or a bruise or abrasion.

[00106] A metal-MAP peptide of the invention can be used to treat chronic inflammation.

Chronic inflammation can persist for months or even years. Symptoms of chronic inflammation can persist for months or years. Symptoms can include redness, immobility, swelling, pain, discomfort, and heat. Examples of diseases and conditions which can be associated with chronic inflammation include: asthma, chronic peptic ulcer, tuberculosis, rheumatoid arthritis, chronic periodontitis, ulcerative colitis and Crohn's disease, chronic sinusitis, and chronic active hepatitis.

FORMULATIONS

[00107] Administration of compositions or formulations containing the MAP of the present invention can be by any pharmaceutically- or cosmetically-acceptable route. For example, administration can be intravenous, intraperitoneal, intramuscular, topical, or any other route used for delivery of pharmaceutical or cosmetic compositions.

[00108] The compositions of the present invention comprise a pharmaceutically- acceptable excipient or carrier, which, as used herein, includes any and all solvents, diluents, or other liquid vehicle, dispersion or suspension aids, surface active agents, isotonic agents, thickening or emulsifying agents, preservatives, solid binders, and lubricants, as suited to the particular dosage form desired. Remington's Pharmaceutical Sciences, Sixteenth Edition, E. W. Martin (Mack Publishing Co., Easton, Pa., 1980) discloses various carriers used in formulating pharmaceutical compositions and known techniques for the preparation thereof. Some examples of materials which can serve as acceptable carriers include, but are not limited to, sugars such as lactose, glucose and sucrose; starches such as corn starch and potato starch; cellulose and its derivatives such as sodium carboxymethyl cellulose, ethyl cellulose and cellulose acetate;

powdered tragacanth; malt; gelatine; talc; excipients such as cocoa butter and suppository waxes; oils such as peanut oil, cottonseed oil; safflower oil, sesame oil; olive oil; corn oil and soybean oil; glycols; such as propylene glycol; esters such as ethyl oleate and ethyl laurate; agar;

buffering agents such as magnesium hydroxide and aluminum hydroxide; alginic acid;

pyrogenfree water; isotonic saline; Ringer's solution; ethyl alcohol, and phosphate buffer solutions, as well as other non-toxic compatible lubricants such as sodium lauryl sulfate and magnesium stearate, as well as coloring agents, releasing agents, coating agents, sweetening, flavoring and perfuming agents, preservatives and antioxidants can also be present in the composition, according to the judgment of the formulator. [00109] Injectable preparations, for example, sterile injectable aqueous or oleaginous suspensions can be formulated according to the known art using suitable dispersing or wetting agents and suspending agents. The sterile injectable preparation can also be a sterile injectable solution, suspension or emulsion in a nontoxic parenterally acceptable diluent or solvent, for example, as a solution in 1,3-butanediol. Among the acceptable vehicles and solvents that can be employed are water, Ringer's solution, U.S. P. and isotonic sodium chloride solution. In addition, sterile, fixed oils are conventionally employed as a solvent or suspending medium. For this purpose any bland fixed oil can be employed including synthetic mono- or diglycerides. In addition, fatty acids such as oleic acid are used in the preparation of injectables.

[00110] Injectable formulations can be sterilized, for example, by filtration through a bacterial -retaining filter, or by incorporating sterilizing agents in the form of sterile solid compositions which can be dissolved or dispersed in sterile water or other sterile injectable medium prior to use.

[00111] Compositions of the present invention can be formulated and employed in combination therapies. The compositions can be formulated with or administered concurrently with, prior to, or subsequent to, one or more other desired therapeutics or medical procedures. The particular combination of therapies (therapeutics or procedures) to employ in a combination regimen will take into account compatibility of the desired therapeutics and/or procedures and the desired therapeutic effect to be achieved. Therapies employed can achieve a desired effect for the same disorder (for example, an inventive composition can be administered concurrently with another agent), or they can achieve different effects (e.g., control of any adverse effects).

[00112] Kits are provided for carrying out the methods of administering the disclosed compositions to subjects and consumers in need thereof. Such kits can include a number of unit dosages, such as a 30-day supply, or a multi-course treatment regimen. Optionally associated with such container(s) can be a notice in the form prescribed by a governmental agency regulating the manufacture, use or sale of pharmaceutical or cosmetic products, which notice reflects approval by the agency of manufacture, use or sale for human administration.

[00113] In some embodiments, a kit includes written instructions on the use of the therapy.

The written material can be, for example, a label. The written material can suggest conditions and methods of administration. The instructions provide the subject and the supervising physician with the best guidance for achieving the optimal clinical outcome from the

administration of the therapy.

[00114] In some embodiments, the invention provides a use of a peptide and a metal in formulating a medicament for treating a defect in superoxide dismutase in a subject in need thereof, the medicament comprising: i) the peptide, wherein the peptide comprises a sequence XC ₁ C ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, and further wherein Ci and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid; and ii) the metal bound to the peptide.

[00115] In some embodiments, the invention provides a use of a peptide and a metal in treating a defect in superoxide dismutase in a subject in need thereof, wherein: i) the peptide comprises a sequence XCiC ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, and further wherein Ci and C ₂ are each individually chosen from a cysteine and a sulfur- containing alpha or beta amino acid; and ii) the metal is bound to the peptide.

[00116] In some embodiments, the invention provides a use of a peptide and a metal in formulating a medicament for reducing pain in a subject in need thereof, the medicament comprising: i) the peptide, wherein the peptide comprises a sequence XC ₁ C ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, and further wherein Ci and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid; and ii) the metal bound to the peptide.

[00117] In some embodiments, the invention provides a use of a peptide and a metal in reducing pain in a subject in need thereof, wherein: i) the peptide comprises a sequence XC ₁ C ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, and further wherein Ci and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid; and ii) the metal is bound to the peptide.

[00118] In some embodiments, the invention provides a use of a peptide and a metal in formulating a medicament for reducing inflammation in a subject in need thereof, the

medicament comprising: i) the peptide, wherein the peptide comprises a sequence XCiC ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, and further wherein Ci and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid; and ii) the metal bound to the peptide.

[00119] In some embodiments, the invention provides a use of a peptide and a metal in reducing inflammation in a subject in need thereof, wherein: i) the peptide comprises a sequence XC ₁ C ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, and further wherein Ci and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid; and ii) the metal is bound to the peptide.

PHARMACEUTICALLY ACCEPTABLE SALTS

[00120] The invention provides the use of pharmaceutically-acceptable salts of any therapeutic compound described herein. Pharmaceutically-acceptable salts include, for example, acid-addition salts and base-addition salts. The acid that is added to the compound to form an acid-addition salt can be an organic acid or an inorganic acid. A base that is added to the compound to form a base-addition salt can be an organic base or an inorganic base. In some embodiments, a pharmaceutically-acceptable salt is a metal salt. In some embodiments, a pharmaceutically-acceptable salt is an ammonium salt.

[00121] Metal salts can arise from the addition of an inorganic base to a compound of the invention. The inorganic base consists of a metal cation paired with a basic counterion, such as, for example, hydroxide, carbonate, bicarbonate, or phosphate. The metal can be an alkali metal, alkaline earth metal, transition metal, or main group metal. In some embodiments, the metal is lithium, sodium, potassium, cesium, cerium, magnesium, manganese, iron, calcium, strontium, cobalt, titanium, aluminum, copper, cadmium, or zinc.

[00122] In some embodiments, a metal salt is a lithium salt, a sodium salt, a potassium salt, a cesium salt, a cerium salt, a magnesium salt, a manganese salt, a iron salt, a calcium salt, a strontium salt, a cobalt salt, a titanium salt, an aluminum salt, a copper salt, a cadmium salt, or a zinc salt.

[00123] Ammonium salts can arise from the addition of ammonia or an organic amine to a compound of the invention. In some embodiments, the organic amine is triethyl amine, diisopropyl amine, ethanol amine, diethanol amine, triethanol amine, morpholine, N- methylmorpholine, piperidine, N-methylpiperidine, N-ethylpiperidine, dibenzylamine, piperazine, pyridine, pyrrazole, pipyrrazole, imidazole, pyrazine, or pipyrazine.

[00124] In some embodiments, an ammonium salt is a triethyl amine salt, a diisopropyl amine salt, an ethanol amine salt, a diethanol amine salt, a triethanol amine salt, a morpholine salt, an N-methylmorpholine salt, a piperidine salt, an N-methylpiperidine salt, an N- ethylpiperidine salt, a dibenzylamine salt, a piperazine salt, a pyridine salt, a pyrrazole salt, a pipyrrazole salt, an imidazole salt, a pyrazine salt, or a pipyrazine salt.

[00125] Acid addition salts can arise from the addition of an acid to a compound of the invention. In some embodiments, the acid is organic. In some embodiments, the acid is inorganic. In some embodiments, the acid is hydrochloric acid, hydrobromic acid, hydroiodic acid, nitric acid, nitrous acid, sulfuric acid, sulfurous acid, a phosphoric acid, isonicotinic acid, lactic acid, salicylic acid, tartaric acid, ascorbic acid, gentisinic acid, gluconic acid, glucaronic acid, saccaric acid, formic acid, benzoic acid, glutamic acid, pantothenic acid, acetic acid, propionic acid, butyric acid, fumaric acid, succinic acid, methanesulfonic acid, ethanesulfonic acid, benzenesulfonic acid, p-toluenesulfonic acid, citric acid, oxalic acid, or maleic acid.

[00126] In some embodiments, the salt is a hydrochloride salt, a hydrobromide salt, a hydroiodide salt, a nitrate salt, a nitrite salt, a sulfate salt, a sulfite salt, a phosphate salt, isonicotinate salt, a lactate salt, a salicylate salt, a tartrate salt, an ascorbate salt, a gentisinate salt, a gluconate salt, a glucaronate salt, a saccarate salt, a formate salt, a benzoate salt, a glutamate salt, a pantothenate salt, an acetate salt, a propionate salt, a butyrate salt, a fumarate salt, a succinate salt, a methanesulfonate (mesylate) salt, an ethanesulfonate salt, a benzenesulfonate salt, a p-toluenesulfonate salt, a citrate salt, an oxalate salt, or a maleate salt.

CHEMICAL REAGENT

[00127] Enzymes, such as xanthine oxidase, horseradish peroxidase, chloroperoxidase, and alcohol oxidase, have been used to initiate polymerization reactions, including acrylamide and methacrylate chemistries, based on their ability to generate free radical species in solution.

Enzymes, such as superoxide dismutase (SOD), have been used to control such reactions based on their ability to scavenge radical species. Without wishing to be bound by theory, it is believed that the metal-peptide complex can mimic SOD in controlling such reactions and/or the metal- peptide complex can be used to initiate such reactions.

[00128] Thus, in various embodiments, the metal-peptide complex according to the invention is used as a chemical reagent. In various embodiments, the metal-peptide complex is used as a reagent for scavenging superoxide. In various embodiments, the metal-peptide complex is used as a catalyst for scavenging superoxide in an industrial or laboratory process or chemical reaction. For example, in various embodiments, the metal-peptide complex according to the invention is used as a free-radical scavenger in a polymerization process.

[00129] In some embodiments, the metal-peptide complex according to the invention can be used to control polymerization reaction chemistry. In various embodiments, metal-peptide complex produces radical oxygen species, which can initiate a polymerization reaction.

[00130] In various embodiments, a method is provided for performing a chemical reaction, the method comprising contacting: i) a peptide comprising a sequence XC ₁ C ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, wherein Ci and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid, and wherein a metal is bound to the peptide; and ii) chemical starting materials, whereupon the chemical starting materials are combined into a product.

[00131] In some embodiments, the metal-peptide complex is used in catalytic amounts (for example, less than 1 equivalent) and/or in a catalytic cycle wherein active species are regenerated in situ in the absence of a quenching event. In some embodiments, the chemical starting materials are polymer precursors, i.e. monomers. In various embodiments, the metal-peptide complex is used to control the rate of a polymerization reaction, such as a (meth)acrylic-based

polymerization reaction. Non-limiting examples of polymerization include radical, cationic, and anionic. Non-limiting examples of functional groups that can be polymerized include polyolefms, polyacetylides, polyesters, polyamides, polycarbonates, and polyurethanes.

[00132] In various embodiments, the metal-peptide complex according to the invention is used as a scavenger of cyanide anion.

PROCESSES OF PRODUCING MAPS

[00133] A MAP sequence of the present disclosure can be encoded in line with a gene or nucleotide sequence for expression using any recombinant technology system. Additionally, it can be incorporated into a peptide or protein using any synthetic or biosynthetic method for peptide or protein production.

[00134] Nucleic acids encoding polypeptides or polypeptide fusion proteins/chimeric proteins described herein can be used to construct recombinant expression vectors capable of expressing the polypeptides or polypeptide fusion proteins/chimeric proteins of the present invention. In some embodiments, nucleic acid constructs capable of expressing the protein constructs described herein comprise nucleotide sequences containing transcriptional and translational regulatory information and such sequences are operably linked to nucleotide coding sequences.

[00135] A large number of suitable vectors are known in the art. Selection of the appropriate vector can depend on 1) whether it is to be used for nucleic acid amplification or for nucleic acid expression, 2) the size of the nucleic acid to be inserted into the vector, and 3) the host cell to be transformed with the vector. A vector can contain various components specific to its function (e.g. amplification of nucleic acid or expression of nucleic acid) and the host cell for which it is compatible.

[00136] In some embodiments, host cells are capable of expressing one or more polypeptides or polypeptide fusion proteins/chimeric proteins described herein. The host cells of the present invention encompass cells in prokaryotic, eukaryotic, and insect cells. In some embodiments, host cells are capable of modulating the expression of the inserted sequences, or modifying and processing the gene or protein product in the specific fashion desired. For example, expression from certain promoters can be elevated in the presence of certain inducers (e.g., zinc and cadmium ions for metallothionine promoters). In some embodiments,

modifications (e.g., phosphorylation) and processing (e.g., cleavage) of protein products are important for the function of the protein. Host cells of the present invention can have

characteristic and specific mechanisms for the post-translational processing and modification of a protein. Suitable cell lines or host systems to ensure the correct modification and processing of the expressed protein are well known in the art. In some embodiments, host cells secrete minimal amounts of proteolytic enzymes. In some embodiments, host systems of viral origin are utilized to perform the processes described for host cells herein.

[00137] Various expression vector/host systems can be utilized equally well by those skilled in the art for the recombinant expression of polypeptides or polypeptide fusion

proteins/chimeric proteins described herein. Such systems include but are not limited to microorganisms such as bacteria transformed with recombinant bacteriophage DNA, plasmid DNA or cosmid DNA expression vectors containing the desired nucleic acid sequence encoding polypeptides or polypeptide fusion proteins/chimeric proteins described herein; yeast

transformed with recombinant yeast expression vectors containing the desired nucleic acid sequence encoding polypeptides or polypeptide fusion proteins/chimeric proteins described herein; insect cell systems infected with recombinant virus expression vectors (e.g., baculovirus) containing the desired nucleic acid sequence encoding polypeptides or polypeptide fusion proteins/chimeric proteins described herein; plant cell systems infected with recombinant virus expression vectors (e.g., cauliflower mosaic virus CaMV; tobacco mosaic virus, TMV) or transformed with recombinant plasmid expression vectors (e.g., Ti plasmid) containing the desired nucleic acid sequence encoding polypeptides or polypeptide fusion proteins/chimeric proteins described herein; or animal cell systems infected with recombinant virus expression vectors (e.g. adenovirus, vaccinia virus) including cell lines engineered to contain multiple copies of the nucleic acid sequence encoding polypeptides or polypeptide fusion proteins/chimeric proteins described herein, either stably amplified (e.g., CHO/dhfr, CHO/glutamine synthetase) or unstably amplified in double-minute chromosomes (e.g., murine cell lines).

[00138] In the case of cell or viral based samples, organisms can be treated prior to purification to preserve and/or release a target polypeptide. In certain embodiments, the cells are fixed using a fixing agent. In some embodiments, the cells are lysed. The cellular material can be treated in a manner that does not disrupt a significant proportion of cells, but which removes proteins from the surface of the cellular material, and/or from the interstices between cells. For example, cellular material can be soaked in a liquid buffer, or, in the case of plant material, can be subjected to a vacuum, in order to remove proteins located in the intercellular spaces and/or in the plant cell wall. If the cellular material is a microorganism, proteins can be extracted from the microorganism culture medium. Compositions and methods for polypeptide secreting

microorganisms and other cell cultures are known in the art and can be applied when suitable. Alternatively, the polypeptides can be packed in inclusion bodies. The inclusion bodies can further be separated from the cellular components in the medium. In some embodiments, the cells are not disrupted. A cellular or viral polypeptide that is presented by a cell or virus can be used for the attachment and/or purification of intact cells or viral particles. [00139] Polypeptides can also be synthesized in a cell-free system prior to extraction.

EXAMPLES

[00140] To facilitate a better understanding of the present invention, the following examples of specific embodiments are given. In no way should the following examples be read to limit, or to define, the entire scope of the invention.

[00141] Example 1.

[00142] Generation of metal peptide complexes. The peptides NCC, GCC, and NCC with a D-cysteine in the middle position [LDL-NCC] were purchased from Genscript Corporation (Piscataway, NJ, USA). The NCC peptides with a D-cysteine in the third position [LLD-NCC] and with both D-asparagine in the first position and D-cysteine in the third position [DLD-NCC] were purchased from Neo-Peptide (Cambridge, MA, USA). FIGURE 1 panel A illustrates a general structure of a peptide comprising a metal abstraction peptide sequence NCC reacting with a metal ion (M) to form a metal-peptide complex. FIGURE 1 panel B illustrates a Ni- GGNCC peptide complex coordinated in a 2N:2S geometry with two amide backbone nitrogen atoms and two cysteine side chains. Nickel-peptide complexes were generated in aqueous solution at neutral to basic pH. Incubation of the peptide for approximately 30 minutes with immobilized metal affinity chromatography (IMAC) resin (GE Healthcare) charged with nickel ensured a clean reaction with no undesired side products and no free metal ions in solution, yielding a reddish-brown complex, varying slightly by the identity of the peptide. Aged Ni-NCC samples were allowed to age for >40 days.

[00143] CD and absorption studies. A 1.5 mM solution of Ni-NCC was prepared in

50 mM potassium phosphate, pH 7.4, and used as is or sparged with argon. Immediately after incubation, samples were placed in a cuvette with a 1-cm path length and scanned from 800-300 nm using both absorption and CD spectroscopy. Samples were aged and monitored at various timepoints over the course of several days. Background scans of buffer alone were subtracted from each scan. Absorption studies were performed on an Agilent 8453 UV/Visible

spectrophotometer. Circular dichroism analysis was performed on a J-815 (Jasco Corporation) spectropolarimeter. The CD data presented represent the average of at least five scans. To accurately control the time frame of Ni-NCC aging for activity assays, the complex also was formed in solution upon addition of one equivalent of N1SO ₄ .

[00144] MCD experiments. Samples of Ni-NCC were prepared in 50 mM potassium phosphate buffer at pH 7.4 sparged with argon. Solid sucrose was added as a glassing agent and the mixture was heated to form a saturated solution. CD spectra of sucrose-saturated samples demonstrated no significant changes in features compared with samples lacking sucrose, indicating that this procedure did not perturb the structures of the Ni-NCC complex. The samples were placed in an MCD cell and flash frozen in liquid N ₂ . Spectra were collected on a J-815 (Jasco Corporation) spectropolarimeter interfaced with a magnetocryostat (Oxford

Spectromag 4000-8). To remove contributions from CD signals, MCD data represent difference spectra of accumulations at +7 and -7 T. Because the signal intensities from paramagnetic species display inverse temperature dependence, spectra were collected at several temperatures.

[00145] Deconvolution of CD and absorption data. Deconvolution of CD and absorption data was performed using Igor Pro (Wavemetrics). Iterative Gaussian deconvolutions were performed with a constant peak width of 1650 cm. Absorption band energies were kept within 10% of the corresponding CD bands due to the broad nature of the absorption spectrum.

[00146] ESI-MS. Samples were diluted 100 x in a 1 : 1 mixture of methanol/water and analyzed on an LCT Premier (Waters Corporation) operating in negative ion mode, as described previously.

[00147] Deuterium exchange. A solution of 50 mM potassium phosphate was prepared in

D ₂ 0 and adjusted with NaOD and DC1 to a pD of 7.4. Samples of 1.5 mM NCC and GCC were prepared in this solution. Transmetallation was performed as described. After removal of the solid resin, 10 /L of the sample was back-exchanged into one mL of a 1 : 1 water/methanol mixture and analyzed using ESI-MS operating in negative ion mode. The original samples were then incubated for 24 hours and analyzed in the same manner.

[00148] Electrochemistry. Electrochemical data were collected. A 3 mL sample of 3 mM

Ni-NCC was prepared in 50 mM sodium borate at pH 10. CV data were collected with a CH1812C Electrochemical Analyzer potentiostat (CH Instruments) with a three-electrode setup (platinum working electrode, Bioanalytical Systems, Inc.; Pt auxiliary electrode; Ag/AgCl reference electrode) in a glass CV cell. Potential was applied from zero to 1.2 V with a scan rate of 0.2 V per second, and current was measured. The same experiment was attempted on a 3 mM Ni-NCC sample in 50 mM potassium phosphate at the same pH. The sample was incubated for 24 hours and analyzed again.

[00149] Coordination of cyanide and IR analysis. Samples of Ni-NCC were prepared at a concentration of 3 mM in 50 mM sodium borate at pH 10 and 50 mM potassium phosphate at pH 7.4. A sample of Ni-NCC in phosphate buffer was incubated for 24 hours. One equivalent of potassium cyanide was added to each of the three Ni-NCC samples. Samples were flash frozen and lyophilized. IR analysis was performed to observe the cyanide peak in each sample. IR spectra were acquired from dry powder samples on a Perkin Elmer Spectrum 100 FT-IR spectrometer equipped with a universal ATR (Attenuated Total Reflection) sampling accessory. The spectrum of solid potassium cyanide was used to compare the shift of v(C≡N) vibration from the free to the nickel-coordinated state.

[00150] Computations. Spin-restricted density functional theory (DFT) computations were performed using ORCA 2.8.0 and employed the conductor-like screening model (COSMO) with an epsilon value of 80 to approximate water. Geometry optimizations used the BP86 functional and the aug-TZVP basis set (a triple-zeta basis set with diffuse and polarization functions).

Because these computations employed the resolution of identity (RI) approximation, the TZV/J auxiliary basis set was also used. Single point and time-dependent DFT (TD-DFT) computations used the B3LYP functional and the aug-TZVP basis set. In order to evaluate if the inclusion of explicit water molecules H-bonded to charged groups gave rise to geometries markedly different than those obtained using COSMO, a water molecule was added to hydrogen bond with the C- terminal carboxylate in the LLL, DLD, and DDL models of Ni-NCC. Observations of differences in bond lengths of less than 0.015 A support a conclusion that the use of COSMO is sufficient to account for major solvation effects in this system.

[00151] Ni-SOD xanthine/xanthine oxidase coupled assay. Ni-SOD activity was determined, except Ni-NCC was generated in situ using one equivalent N1SO ₄ . Ni-NCC was aged for 0— 120 minutes, and the Ni-SOD activity was determined using the standard xanthine/xanthine oxidase method developed by Crappo and coworkers. All reagents were generated in 50 mM potassium phosphate, 100 μΜ EDTA reaction buffer at pH 7.8 except for Ni-NCC, which was generated in 50 mM potassium phosphate, pH 7.4. 600 μΜ cytochrome c from bovine heart (Sigma), 300 μΜ xanthine (Sigma) and enough xanthine oxidase from buttermilk (Sigma) to cause a change in absorbance at 550 nM of 0.02— 0.04 AU per minute were added to a final volume of 300 μΙ_, with reaction buffer. The change in absorbance at 550 nm was monitored on a Cary 100 UV- Visible spectrophotometer (Varian). The assay was performed with 100 μΜ Ni-NCC.

[00152] Preparation and spectroscopic characterization of Ni-NCC. Metal incorporation into the described complex was accomplished via transmetallation. Peptides were incubated with IMAC resin in either 50 mM potassium phosphate buffer at pH 7.4 or in 50 mM sodium borate at pH 10. Absorption and CD spectroscopies were utilized to characterize the Ni-NCC complex. Studies have shown that pH, ionic strength, and concentration of the metal-peptide complex do not change the spectral features of the system; however, these studies show that the initial spectra differ between buffer systems but later converge to a common final state. pH was not a factor in the differences between spectra, as Ni-NCC samples analyzed in phosphate buffer at pH 10 directly after incubation exhibited the same spectral features as those in phosphate buffer at pH 7.4. [00153] Over time, the spectral features of Ni-NCC in phosphate buffer changed to resemble those in borate buffer, suggesting rearrangement to a more stable structure occurred.

Although samples were prepared in sparged solutions, no further precautions were taken to avoid oxygen dissolution during aging. To ensure complete conversion, a Ni-NCC sample in phosphate buffer was aged in air for up to 90 days and analyzed again. ESI-MS of the Ni-NCC complex in various conditions demonstrated that the peptide mass did not change with the changes in spectral features (m/z = 392.98), indicating a lack of oxidation of thiolate ligands.

Varied pH did not affect the overall rate of the aging process. This suggests that the changes observed in the CD are due to more subtle changes about the metal center. A Ni-GCC sample was examined in the same manner to evaluate the influence of the chirality at the first position.

Although the spectral changes for the two complexes are not identical, a similar perturbation of

CD signals was observed for Ni-GCC over a comparable time frame.

[00154] Spectral deconvolutions. In contrast to the changes in the CD spectra of Ni-NCC, absorption spectra of Ni-NCC freshly prepared in phosphate buffer and that same sample aged for 40 days appeared nearly identical. Both feature a broad envelope centered at 21 000 cm ^"1 (ε = 210 M^cm ^"1 ) with a higher energy feature at 29 000 cm ^"1 (ε = 1400 ^cm ^"1 ). These data are consistent with both species having a four-coordinate Ni ¹¹ center in an N _2: S2 square planar geometry. To quantitatively evaluate the CD spectral changes, spectral deconvolutions of these data were performed to determine the energies and signs of the electronic transitions. Whereas freshly prepared Ni-NCC displays signals with positive sign at 18 900, 22 170, and 26 520 cm ^"1 , the spectrum of the aged sample shows negative bands at similar energies (Table 1). These transitions shift to slightly lower energies (Δ-200 - 900 cm ^"1 ) with age. Bands 1 - 4 of freshly prepared Ni-NCC were previously assigned as d-d transitions and their energies should be very sensitive to changes in geometry about the Ni ¹¹ center. The observation that the energies of these bands shift by < 900 cm ^"1 upon aging demonstrates that fresh and aged Ni-NCC have nearly identical coordination environments. The major spectral perturbations are predominately due to changes in sign and intensity of CD features. These minor changes in the d-d transition energies (Table 1) along with the virtually identical absorption spectra of fresh and aged Ni-NCC demonstrate that the geometry and ligands of the Ni ¹¹ center are unaltered and that neither dimerization of the complex nor oxidation of the thiolate ligand occurs. [00155] Table 1. Transition energies derived from Gaussian deconvo luted CD spectra of freshly prepared and aged Ni-NCC in phosphate buffer. Bands having opposite sign in the fresh and aged spectra are shown in italics.

"The low signal-to-noise ratio between 11 000 and 14 000 cm ^"1 precludes reliable deconvo lution within this spectral window.

[00156] Magnetic circular dichroism. To investigate whether a paramagnetic, tetrahedral intermediate is formed, magnetic CD (MCD) experiments were performed. Previous MCD experiments have shown that the primary Ni-NCC species in borate buffer at pH 10 is largely diamagnetic, although a minor paramagnetic (S=l) species was present. Here, MCD experiments performed on a freshly prepared Ni-NCC sample demonstrated that the species initially present in phosphate buffer is also primarily diamagnetic; a minor paramagnetic component that accounts for less than 1% of the sample can reflect an intermediate state that does not accumulate. After aging, these temperature-dependent signals are no longer observed. Therefore, it can be concluded that aged Ni-NCC contains neither appreciable amounts of S =1 Ni ¹¹ or S = 1/2 Ni ^m centers. These data collectively show that both fresh and aged Ni-NCC contain diamagnetic Ni ¹¹ centers. These data collectively show that both fresh and aged Ni-NCC contain diamagnetic Ni ¹¹ in square planar geometries; the differences in spectral features and in reactivity between the freshly prepared and aged samples led to further investigation of the changes in the Ni-NCC complex.

[00157] Electrochemistry and reactivity of Ni-NCC. Electrochemical experiments have shown that Ni-NCC in borate buffer at pH 9.3 has a midpoint potential of 0.72 V (vs. Ag/Ag ⁺ ). When attempts to measure the midpoint potential of Ni-NCC in phosphate buffer at the same pH were made, the complex prepared in phosphate buffer did not exhibit a measurable potential; however, when the same sample was aged for 24 hours, the midpoint potential was comparable to that of the sample in borate buffer (0.71 V vs. Ag/Ag ⁺ ). Previous studies have shown that square planar geometries, for example peptide mimics of Ni-SOD, coordinate cyanide in an axial position, as determined by IR of the bound cyanide. Similarly, IR experiments have

demonstrated that Ni-NCC in borate buffer is capable of coordinating CN in the axial position, as a shift in the v (C≡N) vibration occurs. The IR spectrum of Ni-NCC freshly prepared in phosphate buffer did not exhibit a peak corresponding to coordinated cyanide; however, addition of cyanide after aging the sample overnight generated the expected peak for the coordinated state (Table 2). These data lend support to a slow structural rearrangement that occurs over the course of hours, resulting in a structure that allows for the interaction of a fifth ligand with the Ni-NCC complex.

[00158] Table 2. IR data for cyanide coordinated to nickel.

[00159] Deuterium exchange. The flip in sign of CD signals suggests the structural change that allows for ligand binding can be due to chiral inversion. Because of this possibility, NCC was transmetallated with Ni-IMAC resin in buffers prepared in D ₂ 0 to determine if deuterium would be incorporated into the peptide at any non-exchangeable site. After back-exchanging the Ni-NCC into 1 : 1 water/methanol to preserve the integrity of the complex but remove any exchangeable deuterium atoms, ESI-MS demonstrated incorporation of deuterium into two non- exchangeable positions (392.98 vs. 394.99). ESI-MS of the same reaction performed in H ₂ 0 showed no difference in m/z over 24 hours. Because Ni-GCC shows a similar inversion of CD signals with time, but lacks chirality in the first position, Ni-GCC was also examined for deuterium exchange. Ni-GCC exhibited incorporation of deuterium into one non-exchangeable position, suggesting that the chirality of Asn in the first position and only one of the Cys is affected. This information was used to predict the possible location(s) of the incorporated deuterium atom(s). [00160] Characterization of peptides containing D amino acids. The LDL-Ni-NCC, LLD-

Ni-NCC, and DLD-Ni-NCC complexes were generated and each analyzed using absorption and CD spectroscopies and ESI-MS. All of the complexes exhibit the same mass profile

(m/z=392.98) in ESI-MS, suggesting that each forms 1 : 1 complexes with the metal. To determine the chirality of the final, stable Ni-NCC arrangement, CD spectra of each D-containing peptide were compared to the data collected for the aged (>40 days) Ni-NCC sample in phosphate buffer. The DLD- -NCC spectrum overlaid with the aged Ni-NCC spectrum shows parallel features. These data indicate chiral inversion occurs at the first and third position within Ni-NCC to generate the DLD-Ni-NCC complex.

[00161] Whereas the spectral features of DLD-M-NCC do not shift or lose intensity with time, the CD spectrum of LLD-Ni-NCC evolves over time to look like that of DLD-Ni-NCC. In contrast, the CD spectrum of aged LDL-Ni-NCC looks like the mirror image of that of DLD-Ni- NCC. When the freshly prepared peptides were reacted with cyanide, only DLD-Ni-NCC was able to immediately coordinate cyanide in the axial position, providing further evidence that the DLD-form is the arrangment that aged Ni-NCC reaches over time.

[00162] DFT-Optimized Models and Computed Energies. Computations were performed on models of Ni-NCC to explore the structural and energetic changes associated with chiral inversion of the different amino acid residues in the tripeptide-Ni ¹¹ complex. These results are summarized in Table 3. In the optimized structure of LLL-Ni-NCC, the nickel(II) ion is bound in a near-square planar geometry. The coordination of the terminal amine, internal amide, and sulfur of Cys2 form two five-membered chelate rings that share a common edge. The sulfur of Cys3 coordinates trans to the amide nitrogen, which requires that the peptide wrap around the nickel center, thereby blocking one coordination site perpendicular to the square plane. The other open coordination site is partially blocked by the Asn side chain. These results suggest that the metal center can be sterically occluded in the LLL-peptide complex, explaining the lack of CN coordination observed in the freshly prepared samples described above.

[00163] The energies of Ni-NCC models with the chirality of different amino acids inverted show that inversion of Asnl leads to a model (DLL-M-NCC) that is isoenergetic to that of LLL-Ni-NCC. In addition, the models in which Cys2 is inverted, LDL- and DDL-Ni-NCC, have an energetic destabilization of ~5 kcal/mol when compared to LLL-Ni-NCC. In contrast, when Cys3 is inverted, as in LLD- and DLD-Ni-NCC, an energetic stabilization of ~11 kcal/mol is predicted. Investigation into the role of solvation on the total energy of the conformers shows that although DLD-Ni-NCC does have an overall stabilization with respect to LLL-Ni-NCC in solvation energy, the relief of steric strain of the loop containing Cys3 has a more pronounced effect on the total energy. These results for DLD-Ni-NCC agree with the experimental data described above. The inversion from LLL -Ni-NCC to DLD- -NCC opens one face of the Ni ¹¹ ion to interact with exogenous ligands, consistent with the observation that aged Ni-NCC binds CN .

[00164] Table 3. Bond lengths (A) and relative energies (kcal/mol) of DFT-optimized models of Ni ^N -NCC with amino acids of differing chiralities.

[00165] TD-DFT computations. TD-DFT computations were performed to determine if the structural differences between LLL- -NCC and DLD-M-NCC can account for the experimentally observed red-shift in the Ni ¹¹ d-d transition energies upon aging of Ni-NCC. Because Ni-S bond lengths are frequently overestimated in DFT geometry-optimized models, it is expected that the predicted electronic transition energies for both Ni-NCC models will be computed at lower energy than experimentally observed. Nonetheless, this known shortcoming in DFT-computed Ni-S bond lengths will not hinder the analysis performed here, as the focus is on reproducing the relative shift in Ni ¹¹ d-d transitions between LLL-Ni-NCC and DLD-Ni-NCC. For an S = 0, d ⁸ metal ion in a square planar geometry, four d-d transitions are expected from excitation from

2 2

each of the four doubly-occupied d orbitals to the unoccupied d _x _ _y orbital. The computed relative energies of these transitions are shown in Table 3. Relative to LLL-Ni-NCC, all calculated d-d transitions for DLD-Ni-NCC are red-shifted, consistent with the experimental

2 2 observation. This shift in transition energies is directly related to the energy of the d _x _ _y orbital.

2 2

In an idealized square planar geometry (e.g., D _4h symmetry), the d _x _ _y orbital is the dominant σ* orbital and is significantly destabilized relative to the remaining four d orbitals. As the geometry is perturbed from this limit, other d orbitals take on partial σ* character. This leads to the d _x ² _ _y ² orbital being at a relatively lower energy and a red shift in d-d transitions. The nickel(II) coordination sphere in DLD-Ni-NCC is more distorted from square planar geometry than that of LLL-Ni-NCC, which gives rise to a smaller splitting between the Ni ¹¹ d orbitals and thus red shifted d-d transitions.

[00166] Studies performed in the absence of oxygen result in metal binding but chiral inversion does not occur. Introduction of oxygen into the Ni-NCC sample facilitated conversion to the DLD state. Therefore in addition to the metal being bound in the unique MAP configuration, an electron transfer agent, in this case derived from molecular oxygen, must be present in various embodiments for modulation of the peptide. The concentration or partial pressure of oxygen can be altered to alter the rate of the reaction.

[00167] Example 2.

[00168] Preparation of 0 ₂ -exposed samples. LLL-NCC was purchased as a lyophilized powder from GenScript, of higher than 85% purity, and stored desiccated at -20 °C when not in use. Authentic D-containing peptides, DLD-NCC, LLD-NCC, and DLL-NCC were purchased from NeoBioSci and were stored the same way. The peptide was reconstituted with 50 mM potassium phosphate buffer, generated from dibasic potassium phosphate (Fisher) and adjusted to the appropriate pH with either HC1 or KOH. Following dissolution, 1.0 or 1.2 molar equivalents of NiS0 ₄ *6H ₂ 0 (Fisher) in deionized water were added, and the solution was inverted to ensure good mixing, just before the sample was inserted into the spectrometer for analysis. Samples generated for spectroscopic analysis were generated with 1.2 molar equivalents of Ni ¹¹ to ensure maximum complex formation, whereas those that were produced for nitroblue tetrazolium (NBT) and acetaldehyde assays were made with 1.0 molar equivalent of Ni ¹¹ ion.

[00169] All pH values are given for the potassium phosphate solutions after addition of

NCC and NiS0 ₄ ^» 6H ₂ 0. For the lower pH value (7), which is within the buffering capacity of potassium phosphate, addition of the peptide and metal solutions had minimal (<0.2) change to the solution pH. However, for the higher pH values (8 and 9), addition of NCC and NiS0 ₄ *6H ₂ 0 solutions to pH 9.3 and 10.4 potassium phosphate solutions significantly dropped the pH, by 1.3 pH units. This is because complex formation produces four equivalents of protons and the higher pH value solutions are outside of the buffering range of potassium phosphate. All solutions at pH > 7.3 were pH-adjusted just prior to sample generation and analysis.

[00170] Preparation of 0 ₂ -free samples. Peptide was reconstituted in 50 mM potassium phosphate buffer of the designated pH and transferred to a quartz cuvette that was stoppered with a Suba-Seal septum and further sealed with parafilm. NiS0 ₄ ^» 6H ₂ 0 prepared in water was placed into a small vial secured with a septum and also sealed with parafilm. Samples were purged with 99.5% Ar that was itself purified by passage through columns of activated BASF catalyst and molecular sieves for 20 - 30 minutes to remove 0 ₂ . 1.2 equivalents of Ar-purged NiS0 ₄ ^» 6H ₂ 0 in water were transferred to the NCC solution using a gastight syringe. The septum was sealed with parafilm, the solution slowly agitated for ~ 2 minutes to ensure proper mixing, and then the cuvette was placed in the spectrometer for data collection and left for the duration of the experiment. [00171] Electronic absorption spectroscopy. Electronic absorption spectra were collected with either a Cary 50 or Agilent 5500 diode array ultraviolet-visible spectrophotometer. All spectra were collected in one cm path length quartz cuvettes with samples at room temperature. 0 ₂ - exposed samples were stirred during data collection using the interfaced Unisoku cryostat to promote efficient mixing. Ar-purged solutions were not stirred, but were inverted gently prior to data collected to promote efficient mixing. Spectra were collected every 0.1 min for the first 60 minutes and then every minute thereafter for a minimum of 167 minutes. To monitor formation of Ni ⁿ -NCC for 0 ₂ -exposed samples, full-spectra were collected for a total of at least 167 minutes with a spectrum collected every second for the first hour and then attenuated by 1% for each data collection point following.

[00172] Nitroblue tetrazolium reduction assay. The nitroblue tetrazolium (NBT) assay was performed to detect the presence of the superoxide anion (0 ₂ ) during the chiral inversion reaction of Ni-NCC. Conversion of NBT (yellow) to its four-electron reduced form, diformazin (blue), results in an increase in absorption at 530 nm. Ni ⁿ -NCC was generated by addition of one molar equivalent of 0.1 M NiS0 ₄ ^» 6H ₂ 0 in water to 3 mM NCC in pH 7.3 potassium phosphate buffer. The Ni ⁿ -NCC mixture was briefly mixed to ensure homogeneity and then the appropriate volume of 12 mM NBT (Alfa Aesar) in pH 7.3 potassium phosphate buffer was added rapidly, to determine the effect of aging Ni ⁿ -NCC on the oxidation of NBT to diformazin. Final

concentrations of Ni ⁿ -NCC and NBT were 0.75 mM and 0.15 mM respectively. Absorption spectra were collected to monitor the formation of diformazin over the course of one hour.

[00173] Carbanion trapping with acetaldehyde. In order to determine if a carbanion is an intermediate en route to chiral inversion in Ni-NCC, the aging complex was treated with acetaldehyde (ACS Reagent Grade, > 99.5%, Sigma-Aldrich) and the reaction was monitored via electrospray ionization mass spectrometry (ESI-MS) on an LCT Premier (Waters Corporation) instrument operated in the positive ion mode. It has been established that aldehydes can react with carbanion intermediates in solution, resulting in the formation of a product with an increased mass equivalent to that of the deprotonated aldehyde. For example, an increase of 43 m/z (the molecular mass of CH ₃ CHO is 44 Da) indicates the quenching of a single carbanion unit using acetaldehyde. Therefore, the reaction of acetaldehyde with aging Ni ⁿ -NCC via ESI-MS was monitored for the formation of a new major ion peak corresponding to an increased mass, indicating quenching of the carbanion and addition of the aldehyde to the ligand. Ni ⁿ -NCC was treated with excess (>30 equivalents) acetaldehyde and the reaction was allowed to incubate for at least 24 hours at room temperature.

[00174] Circular dichroism (CD) spectroscopy. CD spectra were collected on a Jasco J-

815 spectropolarimeter, using samples generated in quartz cuvettes. Spectra were scanned between 300 and 900 nm (33 333 and 11 111 cm ^"1 ) unless otherwise noted. Instrumental parameters included 0.5 s response, 0.2 nm data pitch, 500 nm/min scan rate, and 5 nm

bandwidth. Spectra were collected every ten minutes for a total of 600 minutes (61 total spectra collected) unless otherwise noted.

[00175] O ₂ addition to 0 ₂ -free prepared Ni-NCC. Solutions of 02-free Ni-NCC were generated as described previously. The Ni ⁿ -NCC sample was incubated 0 ₂ -free for 300 minutes, and monitored by CD spectroscopy, in order to ensure maximum Ni ⁿ -NCC complex formation. 0 ₂ was added to the sample via bubbling for one minute. Prior it its addition, the 0 ₂ was stored in a balloon, over a column of DriRite. CD spectra were collected every ten minutes for the first 300 minutes and then 600 minutes following 0 ₂ addition.

[00176] Compared to CD spectroscopy, electronic absorption offers a more

straightforward method for monitoring the formation of the colored LLL-Ni ⁿ -NCC complex from the colorless dilute N1SO ₄ and NCC components, because, in principle, electronic absorption spectroscopy is insensitive to the chirality of the complex. A drop in extinction coefficient with time should be indicative of chiral inversion.

Scheme 1. Complex formation (1.1) and chiral inversion (1.2) reactions of Ni -NCC. LLL-NCC _{aq) + N1SO ₄ (aq) -> LLL-[Ni-NCC] ^2" _{aq) + S0 ₄ ^2" (aq) + 4H ⁺ (aq) (1.1)

[LLL-Ni-NCC] ^2" _(a(?) -> [DLD-Ni-NCC] ^2" (aq) (1.2)

[00177] Formation of LLL-Ni -NCC under 0 ₂ -free conditions.

[00178] Electronic absorption data following the formation of 0.75 mM LLL-Ni ⁿ -NCC under 0 ₂ -free conditions show a rise in absorption intensity in the visible and UV regions (FIGURE 2) over time. The spectrum was collected approximately two minutes after metal was added to NCC in 0 ₂ -free solutions and represents the earliest accumulated data point for complex formation. The absorption intensity at 21 550 cm ^"1 shows a rapid rise within the first minute of data collection and levels after 150 minutes (FIGURE 2, inset). Attempts to model the kinetics of formation of LLL-Ni ⁿ -NCC from NiS0 ₄ ^» 6H ₂ 0 and LLL-NCC to first-order or second-order rate equations were unsuccessful, given that complex formation likely involves several intermediate species. A drop in absorption intensity due to chiral inversion is not observed, as there is little change in absorption intensity after 150 minutes. In addition, the extinction coefficient observed under these 0 ₂ -free conditions is substantially greater than that for 0 ₂ -exposed LLL-Ni ⁿ -NCC (ε ₂ ι 550 = 1 000 M ^"1 cm ^"1 for LLL-Ni ⁿ -NCC formed 0 ₂ -free). The ε ₂ ι ₅₅ o for 0 ₂ -exposed LLL-Ni ⁿ -NCC of 300 M^cm ^"1 is one-third that of the value above. See FIGURE 2: Electronic absorption spectra showing the formation of 0.75 mM LLL-Ni ⁿ -NCC under 0 ₂ -free conditions in pH 7.3 50 mM potassium phosphate buffer. The spectra include LLL-NCC without metal (dark), Ni-NCC shortly following addition of N1SO ₄ to LLL-NCC (light), and LLL-Ni ⁿ -NCC incubated for ten hours. Inset: absorption intensity at 21 550 cm ^"1 as a function of time.

[00179] Formation of -Ni ⁿ -NCC in the presence of O ₂ .

[00180] Upon addition of NiS0 ₄ ^» 6H ₂ 0 to NCC under an air atmosphere, the electronic absorption intensity rises rapidly to 0.75 AU within ten minutes (FIGURE 3), indicating the formation of LLL-Ni ⁿ -NCC in -96% yield, using the extinction coefficient determined above. After ten minutes of aging, the absorption intensity at this wavelength drops rapidly, eventually leveling to 0.25 AU by -500 minutes (FIGURE 3). Assuming the chiral inversion of LLL-Ni ¹¹ - NCC is responsible for the drop in absorption intensity in the 0 ₂ -exposed sample, the inversion reaction proceeds rapidly following near full formation of the LLL-Ni ⁿ -NCC only in the presence of 0 ₂ . See FIGURE 3: Single-energy time profile of electronic absorption spectra of 0.75 mM LLL-Ni ⁿ -NCC prepared 0 ₂ -free (dark) and 0 ₂ -exposed (light) in pH 7.3 potassium phosphate buffer.

[00181] The chiral inversion reaction of -Ni ⁿ -NCC does not occur in the absence of

0 ₂ .

[00182] CD spectra of LLL-Ni ⁿ -NCC aged for 600 minutes under argon and air

atmospheres are shown in FIGURE 4. Spectra taken at maximum formation (t = 10 minutes for 0 ₂ -exposed samples, t = 150 minutes for 0 ₂ -free samples) are very similar but not identical. Both feature four prominent CD signals at 15 500 (-), 19 200 (+), 23 800 (+) and 26 000 cm ^"1 (+). On the basis of a deconvolution of electronic absorption and CD spectra, these CD transitions are due to four d-d bands expected for a Ni ¹¹ ion in a square planar geometry with 2N:2S ligand environment and three S-Ni charge transfer (CT) transitions. Starting at t = 0 seconds, some increase in band intensity is initially observed, especially at 16 300, 18 900, 22 200 and 26 500 cm ^"1 , in both 02-free and 0 ₂ -exposed LLL-Ni ⁿ -NCC, indicating complex formation (FIGURE 4, panel B). Each band has a slightly different rate of change in formation, likely because LLL-Ni ¹¹ - NCC formation from LLL-NCC and NiS0 ₄ is not a two-state process and involves two or more intermediates. FIGURE 4 panel A shows CD spectra of 0.75 mM LLL-Ni ¹¹ -NCC in pH 7.3 potassium phosphate buffer exposed to air (top) and purged with Ar (bottom). Dark spectra were obtained at the time the absorption spectra were at maximum intensity, indicating maximum LLL- Ni ⁿ -NCC complex formation (t = 10 minutes for 0 ₂ -exposed and t = 150 minutes for 0 ₂ -free LLL-Ni ⁿ -NCC), light spectra were collected at t = 590 minutes, and intermediate spectra obtained every ten minutes between these two times are represented as grey dotted traces. FIGURE 4, panel B shows CD signal at single energies for 0.75 mM LLL-Ni ⁿ -NCC incubated in 0 ₂ -free (black) and 0 ₂ -exposed (lighter) pH 7.3 potassium phosphate buffer. Error bars represent +/- one standard deviation from an average of three trials.

[00183] The time-progression CD spectra of 0 ₂ -exposed LLL-Ni ⁿ -NCC demonstrate distinct sign changes without significant band shifting, indicating chiral inversion of LLL-Ni ¹¹ - NCC. Major changes occur within the first 10 hours, where the absolute intensities of the bands at 16 000 and 23 000 cm ^"1 decrease, and negative bands form at ~ 17 000 and 24 000 cm ^"1 . This CD spectrum does not look like that for DLD-Ni ⁿ NCC, but instead resembles that for LLL-Ni ¹¹ - NCC after 24 hours of aging. This ten-hour aged species represents either an intermediate, or a mixture of intermediate species, formed en route to DLD-Ni ⁿ -NCC.

[00184] In contrast, the CD spectra collected for LLL-Ni ⁿ -NCC prepared under an argon atmosphere offer no evidence of chiral inversion. The 0 ₂ -free sample does demonstrate a change in CD signal within the 600 minute time frame; however, these changes occur within the first 150 minutes and only lead to an increase in absolute ellipticity (FIGURE 4, panel B, and FIGURE 11); i.e., no change in sign of any CD features is observed. For 0 ₂ -free LLL-Ni ⁿ -NCC, the individual time traces level after 150 minutes (FIGURE 4, panel B), consistent with the time scale for formation of LLL-Ni ⁿ -NCC from NiS0 ₄ ^» 6H ₂ 0 and NCC established by the electronic absorption data described above. The intensities of the CD features for 0 ₂ -free LLL-Ni ⁿ -NCC are approximately twice that of0 ₂ -exposed LLL-Ni ⁿ -NCC, suggesting that the CD spectrum of0 ₂ - exposed LLL-Ni ⁿ -NCC collected at t = 10 minutes has contributions from multiple species. The CD spectrum for LLL-Ni ⁿ -NCC prepared and aged under an Ar atmosphere thus represents the authentic CD spectrum of LLL-Ni ⁿ -NCC; all previously reported spectra were complicated by the presence of additional species generated by this 0 ₂ -dependent reaction.

[00185] Addition of O ₂ to LLL-Ni ¹¹ -NCC prepared 0 ₂ -free induces the chiral inversion reaction.

[00186] Conclusive evidence that O ₂ causes the chiral inversion of LLL-Ni ⁿ -NCC is provided by the observation of CD changes upon the addition ofO ₂ to 0 ₂ -free LLL-Ni ⁿ -NCC. O ₂ gas was added by a syringe to a sample of LLL-Ni ⁿ -NCC that was prepared and incubated for 300 minutes under an Ar atmosphere to allow for maximum LLL-Ni ⁿ -NCC formation. The CD spectrum of LLL-Ni ⁿ -NCC prepared under an Ar atmosphere, then exposed to O ₂ (FIGURE 5), evolves in the same way as the 0 ₂ -exposed sample (FIGURE 5 and FIGURE 4, panel A, top), demonstrating that chiral inversion of LLL-Ni ⁿ -NCC complex is completely dependent on O2. See FIGURE 5: CD spectra of 0.75 mM LLL-Ni ⁿ -NCC generated 0 ₂ -free and incubated 300 minutes to achieve maximum formation of LLL-Ni ⁿ -NCC, then treated with O ₂ . The dark spectrum was collected at t = 300 minutes to allow for maximum complex formation, and then the sample was injected with O2. The light spectrum was collected after 800 total minutes of incubation (600 minutes of 0 ₂ exposure). Intermediate spectra obtained every ten minutes between these two times are represented as black dotted traces.

[00187] Superoxide is formed by LLL-Ni ¹¹ -NCC under an atmosphere of air.

[00188] The nitro blue tetrazolium (NBT) assay was employed to determine if the chiral inversion reaction of LLL-Ni ⁿ -NCC involves reduction of 0 ₂ to superoxide by the Ni ¹¹ center. The assay detects formation of 0 ₂ ^~ , which oxidizes NBT to its four-electron oxidized species, diformazin, which absorbs strongly at 530 nm. Solutions containing the Ni-NCC complex and NBT absorbed more strongly at 530 nm than the control reactions, indicating the generation of superoxide under these conditions. In addition, monitoring the absorption at 530 nm over the course of an hour showed an increase in diformazin production, suggesting that superoxide forms as LLL-Ni ⁿ -NCC undergoes chiral inversion.

[00189] LLL-Ni ¹¹ -NCC forms two carbanion intermediates en route to chiral inversion.

[00190] LLL-Ni ⁿ -NCC was incubated with excess acetaldehyde in order to determine if the chiral inversion reaction generates a carbanion intermediate. Aldehydes are known to quench carbanion intermediates in solution and generate a product with a mass increase equal to that of the deprotonated aldehyde. The reaction can be cleanly monitored using ESI-MS operated in positive ion mode. The spectra of LLL-Ni ⁿ -NCC incubated with excess acetaldehyde over the course of a day clearly show both the free peptide (339 m/z) and NCC + 2 acetaldehydes (425 m/z) (FIGURE 12). These data indicate that over the course of 24 hours, two carbanion intermediates are formed per molecule of LLL-Ni ⁿ -NCC. Therefore, each of the single chiral inversion reactions from LLL -Ni-NCC to DLD-Ni-NCC requires a carbanion intermediate.

[00191] The chiral inversion reaction of LLL-Ni ¹¹ -NCC does not show first order rate dependence on hydroxide ion concentration.

[00192] The chiral inversion of LLL-Ni ⁿ -NCC was also followed for several different solution pH values, in order to determine the pH dependence of this reaction. The CD spectra of LLL-Ni ⁿ NCC aged in phosphate buffer at pH 7.3, pH 8.0, and pH 8.3 under an air atmosphere are shown in FIGURE 6, panel A. For all three solutions, there is an initial increase in CD intensity, indicating LLL-Ni ⁿ -NCC complex formation, followed by a change in sign of some CD signals, demonstrating the chiral inversion. Although the t = 0 spectra are not identical for the three different samples (FIGURE 6, panel A, dark), they all feature the same CD bands at the same energies, but of different intensities. This could be attributed to slightly different rates of formation and/or chiral inversion. The dependence on pH of the rate of chiral inversion is shown in FIGURE 6, panel B, which compares the change in CD signals with time for samples at pH 7.3 and 8.3. While there is a modest dependence of the rate of change of the CD signal on the pH of the solution, a first-order dependence in this pH range was not observed. Additional experiments at even more elevated pH (> 9.0) were performed, but the reproducibility of these results was poor. Without wishing to be bound by theory, it is thought that when the solution pH is well outside the buffering capacity of phosphate, slight changes in the amount of LLL-NCC or Ni ¹¹ used in the experiment perturb the solution pH more significantly and therefore alter the aging progression profile of the complex. These data collectively demonstrate there is a minor pH effect on the rate of chiral inversion.

[00193] To assess whether inversion can occur at elevated pH in the absence of 0 ₂ , CD spectra were collected for pH 9.0 LLL-Ni ⁿ -NCC prepared and aged under an Ar atmosphere. Under these conditions, the only changes observed in the CD spectra are attributed to complex formation (FIGURE 13); there is no evidence for chiral inversion. Thus, regardless of whether the LLL-Ni ⁿ -NCC is aged in neutral or basic solution, there is no chiral inversion observed in the absence of 0 ₂ . See FIGURE 6, panel A. CD spectra of LLL-Ni ⁿ -NCC in potassium phosphate buffer at pH 7.3 (bottom), pH 8.0 (middle), and pH 8.3 (top). Dark spectra were collected ~ 15 seconds after mixing, light spectra were acquired after 600 minutes of incubation, and

intermediate spectra obtained every ten minutes between the two time points are represented as black dotted traces. See FIGURE 6, panel B. CD signal (mdeg) at designated single energies for pH 7.3 (light) and pH 8.3 (dark) potassium phosphate solutions. Error bars represent +/- one standard deviation from an average of three trials.

[00194] DLD-Ni ⁿ -NCC shows time-dependent CD changes.

[00195] The changes in the CD spectra of DLD-Ni ⁿ -NCC aged under an Ar atmosphere are consistent with complex formation (FIGURE 7, bottom). However, the final spectrum is distinct from that for DLD-Ni ⁿ -NCC. Specifically, in the current spectrum, there is an additional positive feature at 17 000 cm ^"1 not otherwise observed. The intensity of this positive feature decreases over time in the 0 ₂ -exposed sample (FIGURE 7, top). Thus, CD data collected for DLD-Ni ⁿ -NCC in the presence of 0 ₂ are consistent with some extent of racemization, or secondary reaction. These changes were not detected because these modifications happened during the time-course of sample preparation. However, the ten-hour CD spectrum of 0 ₂ -exposed DLD-Ni ⁿ -NCC is essentially identical to that for 0 ₂ -exposed LLL-Ni ⁿ -NCC aged -40 days. Thus, both LLL-, and DLD-Ni ⁿ -NCC proceed to the same end point. See FIGURE 7. CD spectra of DLD-Ni ⁿ -NCC generated in pH 7.3 potassium phosphate buffer and prepared in the absence (bottom) and presence (top) of 0 ₂ . Spectra were collected at t = 0 minutes (dark), t = 600 minutes (light), and every ten minutes in between (dotted black traces).

[00196] Electronic absorption data collected for 0 ₂ -free and 0 ₂ -exposed DLD-Ni ⁿ -NCC reinforce the CD data. In the absence of 0 ₂ , the electronic absorption intensity of DLD-Ni ⁿ -NCC at 21 550 cm ^"1 is essentially constant at 0.43 AU (ε = 570 M^cm ^"1 ) over the course of 600 minutes (FIGURE 8). In contrast, in the 0 ₂ -exposed sample, the absorption intensity at 21 550 cm ^"1 decreases rapidly from 0.40 to 0.20 AU over the course of -100 - 200 minutes. See

FIGURE 8. Single-energy time profile of electronic absorption spectra of DLD-Ni ⁿ -NCC prepared 0 ₂ -free (dark) and 0 ₂ -exposed (light) in pH 7.3 potassium phosphate buffer.

[00197] DLL-Ni ¹¹ -NCC shows time-dependent CD changes.

[00198] The CD spectra of DLL-Ni ⁿ -NCC are nearly identical to those of LLL-Ni ⁿ -NCC

(FIGURE 4, panel A, and FIGURE 9). Changes in the CD spectrum of DLL-Ni ⁿ -NCC aged under an Ar atmosphere are consistent with complex formation (FIGURE 9, bottom). In addition, the CD spectra of DLL-Ni ⁿ -NCC generated in the presence of 0 ₂ change to look like the spectrum of aged, 0 ₂ -exposed DLD-Ni ⁿ -NCC over the course of 600 minutes (FIGURE 9, top). Thus, DLL- Ni ⁿ -NCC reached the final end point significantly faster than LLL-Ni ⁿ -NCC. See FIGURE 9. CD spectra of DLL-Ni ⁿ -NCC generated in pH 7.3 potassium phosphate buffer and prepared in the absence (bottom) and presence (top) of 0 ₂ . Spectra were collected at t = 0 minutes (dark), t = 600 minutes (light), and every ten minutes in between (dotted black traces).

[00199] LLD-Ni-NCC undergoes spectral changes, even in the absence of O ₂ .

[00200] In the absence of 0 ₂ , the initial CD spectra of LLD-Ni ⁿ -NCC look similar to those of DLD-Ni ⁿ -NCC (FIGURES 10 and 7). Moreover, when CD data are collected under an atmosphere of air, the CD features of LLD-Ni ⁿ -NCC at -17 000, 20 000, and 24 000 cm ^"1 lose intensity, with the largest effect at the lowest energy band. However, unlike both LLL- and DLD- Ni ⁿ -NCC, LLD-Ni ⁿ -NCC shows spectral changes even in the absence of 0 ₂ (FIGURE 7, bottom). Given the nature of these spectral changes, this can indicate increased propensity for secondary reactions for the Ni ⁿ -form of LLD-NCC. See FIGURE 10. CD spectra of LLD-Ni ⁿ -NCC generated in pH 7.3 potassium phosphate buffer and prepared in the absence (bottom) and presence (top) of 0 ₂ . Spectra were collected at t = 0 minutes (dark), t = 600 minutes (light), and every ten minutes in between (dotted black traces).

[00201] FIGURE 11 shows the CD spectra of 0 ₂ -free LLL-Ni ⁿ -NCC collected for 600 minutes in pH 7.3 potassium phosphate buffer. Spectra include those for the sample at approximately two minutes after complex formation (light), after 300 minutes of incubation to represent maximum complex formation (dark), and after 600 minutes (medium). Spectra collected every ten minutes between the red and blue spectra are represented as black dotted lines and those collected between the blue and green spectra are shown as grey dotted lines.

[00202] FIGURE 12 shows the ESI-MS spectrum of Ni-NCC incubated with excess acetaldehyde. The major ions include 339.13 m/z (NCC) and 425.11 m/z (NCC + 2

acetaldehydes). The peak at 368.43 m/z is also found in samples without peptide and is therefore just due to the matrix and not the reaction of the aldehyde with the metal peptide complex. [00203] FIGURE 13 shows the CD spectra of 0 ₂ -free LLL-Ni ⁿ -NCC collected for 600 minutes in pH 9.0 potassium phosphate. CD spectra of Ni-NCC in pH 9.0 potassium phosphate, prepared 0 ₂ free. Spectra were collected after ~ 2 minutes (dark), following 600 minutes incubation (light), and every ten minutes in between (dotted black lines).

[00204] The effect of pH, distinct buffer systems, and aging on MAP tag peptide binding.

[00205] Optically active amino acids and peptides are known to undergo racemization in aqueous solution in the absence of metal at temperatures above 100 °C and at pH values above 8 and below 5. Binding of a transition metal to the amino acid residues allows the process to occur under milder conditions. Metal-bound peptides are able to undergo racemization over the course of hours to days at temperatures between 35 °C and 40 °C and at a pH above 9. In both cases, the racemization or chiral inversion proceeds by deprotonation of an alpha hydrogen atom. Re- protonation by solvent gives either the D- or L-isomer. Coordination of the amino acid or peptide to a metal center renders the deprotonation event more thermodynamically favorable, leading to racemization or chiral inversion under milder conditions. In most cases where metal-facilitated chiral inversion occurs instead of racemization, steric factors promote the formation of the D- isomer over the L-form.

[00206] FIGURE 14 is a representative figure of the effect of pH on a tripeptide sequence capable of abstracting a metal ion from a chelator and binding to it. Panel A shows ESI-MS of the nickel-bound tripeptide acquired at basic pH where the mass indicates that nickel is bound to the peptide. Panel B shows ESI-MS spectrum after dropping the pH to an acidic pH, showing that nickel has been released from the peptide.

[00207] In some embodiments, the initial spectra of Ni-NCC peptides in different buffer systems is different, but later converges to a common final state. FIGURE 15 is a representative figure indicating that a tripeptide sequence capable of abstracting a metal ion from a chelator and binding to the metal can initially present different CD spectral features in different buffer systems, but later converges to a final state. FIGURE 15 corresponds to the CD spectra of the Ni-NCC sequence in a phosphate (light line) and a borate (dark line) buffer system.

[00208] In some embodiments, a Ni-NCC peptide complex rearranges over time to a more stable structure. FIGURE 16 shows an aging progression of a general Ni-NCC tripeptide in phosphate buffer, where samples were prepared in sparged solutions, but no further precautions were taken to avoid oxygen dissolution during aging.

[00209] The effect of time and "aging" in the Ni-NCC geometry was investigated with electronic absorption and circular dichroism (CD)methods. The electronic absorption spectrum of a Ni-NCC peptide complex freshly prepared in phosphate buffer shows a similar pattern to the electronic absorption spectra of a Ni-NCC peptide complex aged for 40 days in phosphate buffer (FIGURE 17, panel A). Both feature a broad envelope centered at 21000 cm ^"1 (ε = 210 M ^"1 cm ^"1 ) with a higher energy feature 29000 cm ^"1 (ε = 1400 M ^"1 cm ^"1 ). These data can be consistent with both species having a four-coordinate Ni ¹¹ center in an N2:S2 square planar geometry. Spectral deconvolutions of these data were performed to determine the energies and signs of the electronic transitions (FIGURE 17 panel B).

[00210] In addition to promoting racemization or inversion, the coordination of peptides to metals is also known to facilitate peptide degradation and/or oxidation. One example of this is the nickel complex of the tripeptide glycine-glycine-L-histidine, Ni-GGH. Ni ⁿ -GGH has been studied for its ability to catalyze site-specific oxidation and cleavage of DNA, as well as peptide cross-linking. However, oxidation of Ni ⁿ -GGH by 0 ₂ generates Ni ^m -GGH, which undergoes spontaneous decarboxylation at the C-terminus of the peptide. The decarboxylated product undergoes further reactivity including hydroxylation and racemization. Additional Ni ^m -mediated reactivity in peptides includes ligand oxidation and disulfide bond formation/peptide

crosslinking.

[00211 ] 0 ₂ -dependent chiral inversion of Ni-NCC.

[00212] In the absence of 0 ₂ , LLL-Ni ⁿ -NCC forms rapidly from Ni ⁿ S0 ₄ and NCC, and this complex is stable for at least ten hours, showing no evidence of inversion or secondary reactions, even at pH 9.0. This is in contrast to other square planar Ni ⁿ -peptide complexes that readily undergo base-catalyzed, metal-facilitated racemization at pH > 9 over the course of several hours to days. The lack of chiral inversion in LLL-Ni ⁿ -NCC under anaerobic conditions is attributed to the presence of two anionic cysteinate ligands and one anionic amide ligand. Charge donation from these ligands is expected to reduce the Lewis acidity of the Ni ¹¹ center, mitigating the ability of the metal to promote deprotonation of the Ca-H groups. A complementary rationale is that the anionic ligands, along with the deprotonated carboxylate group, give Ni ⁿ -NCC an overall charge of -2, which would disfavor deprotonation on electrostatic grounds. This same behavior is observed for DLD-Ni ⁿ -NCC, which is also unchanged for at least ten hours when under an Ar atmosphere.

[00213] In the presence of 0 ₂ , LLL-Ni ⁿ -NCC shows fairly rapid spectroscopic changes that are consistent with inversion (or racemization) of the NCC peptide. On the basis of trapping experiments with acetaldehyde, two carbanions are formed during the 0 ₂ -dependent inversion. Studies of the inversion reaction at pH 7.3 - 8.3 reveal a minor increase in the rate of inversion as the pH is increased. These data are consistent with inversion proceeding by Ca-H deprotonation, but this deprotonation does not occur for LLL-Ni ⁿ -NCC. In addition, another step must impact the rate of inversion more significantly than Ca-H deprotonation. The evidence for superoxide formation, as well as the 0 ₂ dependence of this reaction, suggest that LLL-Ni ⁿ -NCC reacts with 0 ₂ to form superoxide and LLL-Ni ^m -NCC. The higher oxidation state Ni ^m center promotes Ca-H deprotonation, leading to inversion (or racemization) for LLL-Ni ⁱⁿ -NCC upon reprotonation. Subsequent reaction of superoxide, or some alternative reductant, with Ni ^m -NCC, would regenerate the Ni ¹¹ form of NCC. Perpendicular-mode X-band EPR spectra collected for frozen aliquots of LLL-Ni ⁿ -NCC during the aging process showed a very weak feature whose position and lineshape are consistent with a Ni ^m center, albeit in very low concentration.

[00214] Pathway to chiral inversion in Ni-NCC.

[00215] Over the course of -40 days, LLL-Ni ⁿ -NCC evolved to a species, or two or more species, with a CD spectrum most similar to that of DLD-Ni ⁿ -NCC. This directed inversion was rationalized on the basis of DFT-computed energies of models of Ni ⁿ -NCC (Scheme 2). The CD spectra of LLD-Ni ⁿ -NCC that developed over time was similar, but not identical, to the CD spectrum of DLD-Ni ⁿ -NCC. The same was true for DLL-Ni ⁿ -NCC. Thus, regardless of the entry point to the cycle shown in Scheme 2, the final spectra of all species are most similar to that of DLD-Ni ⁿ -NCC. DLD-Ni ⁿ -NCC evolved over time when exposed to 0 ₂ , although the change is significantly more minor than that observed for LLL-Ni ⁿ -NCC (FIGURES 7 and 4).

[00216] Scheme 2. Pathway to chiral inversion in Ni-NCC, with DFT-computed relative energies of each model shown. All energy values are given relative to that of LLL-Ni ⁿ -NCC, whose energy is defined as 0 kcal/mol.

Ni ¹¹ + LLL-NCC -> LLL-Ni ⁿ -NCC (2.1)

LLL-Ni ⁿ -NCC -> DLL-Ni ⁿ -NCC (-0.3 kcal/mol) (2.2)

DLL-Ni ⁿ -NCC -> DLD-Ni ⁿ -NCC (-11.1 kcal/mol) (2.3)

DLD-Ni ⁿ -NCC -> LLD-Ni ⁿ -NCC (-11.6 kcal/mol) (2.4)

[00217] According to the DFT-computed energies (Scheme 2), the inversion of Asnl results in very little change in energy (2.2), whereas inversion of Cys3 leads to a stabilization of — 11 kcal/mol (2.2 and 2.3). The accuracy of DFT-computed energies at this level of theory is— 3-5 kcal/mol. CD spectra show a prominent positive band at— 17 000 cm ^"1 , whereas this band disappears with time in the 0 ₂ -exposed samples (FIGURES 7 and 9). LLD-Ni ⁿ -NCC shows some spectral changes in the absence of 0 ₂ , suggesting that this isomer can be reactive even in the Ni ¹¹ oxidation state. The 0 ₂ -dependent conversion of DLD-Ni ⁿ -NCC to LLD-Ni ⁿ -NCC, followed by the formation of some secondary product from the latter complex, could account for the spectral changes observed for 0 ₂ -exposed DLD-Ni ⁿ -NCC. Thus, the likely end point in the cycle shown in Scheme 2 is DLD-Ni ⁿ -NCC in the presence of secondary products that represent a small population of the sample.

[00218] FIGURE 18 further illustrates the characterization of Ni-NCC complexes containing D amino acids with aging. The DLD-Ni ⁿ -NCC spectrum overlaid with the aged Ni- NCC spectrum shows parallel features (FIGURE 18). These data indicate chiral inversion occurs at the first and third position within Ni-NCC to generate the DLD-Ni ⁿ -NCC complex. Whereas the spectral features of DLD-Ni ⁿ -NCC do not shift or lose intensity with time, the CD spectrum of LLD-Ni ⁿ -NCC evolves over time to look like that of DLD-Ni ⁿ -NCC (FIGURE 19). In contrast, the CD spectrum of aged LDL-Ni ⁿ -NCC looks like the mirror image of that of DLD-Ni ⁿ -NCC.

[00219] FIGURE 20 shows CD spectra of aging Ni-NCC in pH 7.4 potassium phosphate buffer exposed to air (top) and purged with Ar (bottom). Darker spectra were obtained at the time the absorption spectra were at maximum intensity, indicating maximum LLL-Ni-NCC complex formation (t = 10 minutes for 0 ₂ exposed and t = 300 minutes for 0 ₂ -free), lighter spectra were collected at t = 590 minutes, and intermediate spectra obtained every ten minutes between these two times are represented as black dotted lines.

[00220] FIGURE 21 shows CD spectra of Ni-NCC generated 0 ₂ -free and incubated 120 minutes to form LLL-Ni-NCC complex, then injected with 0 ₂ (top), Ni-NCC generated 0 ₂ - exposed (middle), and Ni-NCC generated 0 ₂ -free (bottom). Darker spectra were obtained at t = 10 minutes for the 0 ₂ -exposed sample and t = 130 minutes for the sample prepared 0 ₂ -free and the sample formed 0 ₂ -free, then injected with 0 ₂ . The lighter spectra were collected after t = 600 minutes for all three samples. Intermediate spectra obtained every ten minutes between these two times are represented as black dotted lines.

[00221] FIGURE 22 shows a plot of the change in intensity of the CD signal at 19 200 cm ^"

¹ as a function of exposure to oxygen in air.

[00222] FIGURE 23 shows a plot of the change in intensity of the CD signal at 19 200 cm ^"

¹ verses the amount of SOD (superoxide dismutase) activity as a function of exposure to oxygen in air.

[00223] The time-progression of the CD and electronic absorption spectra of LLL-Ni ¹¹ -

NCC indicate the accumulation of an intermediate after ~10 hours of incubation with metal. The CD spectrum of this intermediate is identical to that of the 24-hour intermediate described previously, and is nearly featureless below 22 000 cm ^"1 . This intermediate is not a singly-inverted species, as the CD spectra collected for authentic DLL- and/or LLD-Ni ⁿ -NCC are different than the corresponding spectrum of the ten-hour intermediate. Attempts to reproduce the CD spectrum of the ten-hour intermediate via spectral combinations of authentic (i.e., 0 ₂ -free) LLL-, DLL-, LLD- and DLD-Ni ⁿ -NCC were unsuccessful. The CD spectra of LLD- and DLD-Ni ⁿ -NCC both show a positive band at -17 000 cm ^"1 whereas those of DLL-Ni ⁿ -NCC and LLL-Ni ⁿ -NCC have a negative band at ~ 16 000 cm ^"1 . Therefore, the lower-energy features, although varied in sign, are significantly shifted such that they do not cancel each other out to make the spectrum

appropriately featureless below 21 000 cm ^"1 . This suggests that the ten-hour-aged intermediate is not a mixture of various chiral forms of Ni ⁿ -NCC. Another possible assignment of the ten-hour aged intermediate is a Ni ⁿ -form of NCC where Cys3 has dissociated from the Ni ¹¹ center, in a "Cys3-off ' configuration. The CD spectra of authentic (i.e., 0 ₂ -free) LLD-, and DLD-Ni ⁿ -NCC both show a positive band at ~17 000 cm ^"1 (FIGURES 7 and 10), whereas the CD spectra of LLL-, and DLL-Ni ⁿ -NCC show a negative feature near this energy (at ~16 000 cm ^"1 ; FIGURE 4 and FIGURE 9). Therefore, the band at 17 000 cm ^"1 is directly related to the chiral state of Cys3. Therefore, removal of a thiolate ligand could account for the lack of significant CD spectral features below 21 000 cm ^"1 . Considering the structure of LLL-Ni ⁿ NCC, it is expected that the inversion of Cys3 would not occur without dissociation of this cysteinate ligand. Thus, the CD spectrum of the ten-hour aged species has contributions from a species where Cys3 has dissociated from the Ni ¹¹ center. This "Cys3-off ' form of Ni ⁿ -NCC could also offer a potential route to the secondary reactions of the complex. For the related enzyme Ni-SOD, removal of one Cys ligand by site-directed mutagenesis led to the lack of any sulfur incorporation and the formation of a high-spin (S = 1) Ni ¹¹ protein. 1H-NMR experiments on Ni ⁿ -NCC have been hampered by the presence of a minor paramagnetic component, which, on the basis of low- temperature, variable-temperature, variable-field magnetic circular dichroism (VTVH MCD) data was assigned to a high-spin Ni ¹¹ component that represented less than 1 % of the sample under the conditions of the VTVH MCD experiment.

[00224] Controlled reactivity in Ni ⁿ -NCC.

[00225] The data underscore the specific and unique reactivity of the Ni ⁿ -NCC complexes in the absence of 0 ₂ , as well as their chemistry when 0 ₂ is available to react with the Ni ¹¹ center. Oxidation to the Ni ^m form initiates a cascade of reactions that convert the bulk of the sample to DLD-Ni ⁿ -NCC and some secondary products. The preferred coordination geometry of a low-spin, thiolate-bound Ni ¹¹ center is different than that of a Ni ^m ion (square planar versus distorted octahedral geometry). Thus, the Ni ^m forms of nickel-peptide complexes can be stabilized in a different fashion than the Ni ¹¹ centers to prevent undesired secondary or peptide-modifying reactions.

[00226] In Ni-SOD, metal oxidation is coupled to a change in the coordination

environment around the metal center. Specifically the square planar N2:S2 geometry of Ni ⁿ -SOD converts to square pyramidal N3:S2 geometry in Ni ^m -SOD through the axial ligation of a histidine. Without wishing to be bound by theory, histidine coordination can serve several functions, including tuning the reduction potential of the Ni center. Axial histidine ligation to the Ni ^m center can also serve to prevent any side -reactions for Ni ^m -SOD.

[00227] Example 3. [00228] Generation of metal-peptide complexes. The peptides GGNCC (SEQ ID NO. 1),

GGGCC (SEQ ID NO. 3), GNNCC (SEQ ID NO. 4), and GNGCC (SEQ ID NO. 5), as well as GGNCC (SEQ ID NO. 1) with D-cysteine in the fifth position (XXLLD-GGNCC) (SEQ ID NO. 8), GGNCC (SEQ ID NO. 1) with D-asparagine in the third position and D-cysteine in the fifth position (XXDLD-GGNCC) (SEQ ID NO. 9), and GGNCC (SEQ ID NO. 1) with D-cysteine in the fourth position (XXLDL-GGNCC) (SEQ ID NO. 10), and GGNCC (SEQ ID NO. 1) with D- asparagine in the third position and D-cysteine in the fourth position (XXDDL-GGNCC) (SEQ ID NO. 11), were purchased from Genscript Corporation. (Piscataway, NJ, USA). The longer sequences GGGCCGGK (SEQ ID NO. 6) and GGNCCGGK (SEQ ID NO. 2), where the NCC sequence is in the middle of the peptide sequence rather than at the C-terminus, were also purchased. Nickel-polypeptide complexes were generated in 50 mM potassium phosphate at pH 7.4 either by adding one equivalent of N1SO ₄ or by incubation with nickel-charged immobilized metal affinity chromatography resin, as previously described.

[00229] Expression and purification ofNi-PRL-1. PRL was expressed and purified as described previously. Briefly, the gene for PRL-1 encoded in a pET-30 Xa/LIC expression vector was transformed into BL21(DE3) E. coli cells and grown at 37 °C in minimal media

supplemented with trace metals in an orbital shaker at 250 rpm. Expression was induced with 1 mM IPTG at an OD600 of 0.6 to 0.8 and harvested by centrifugation after 3 hours. Cells were lysed with a French pressure cell and centrifuged for 1 hour at 21,000 x g. The soluble protein was purified using Ni-IMAC chromatography, during which metal was incorporated into the NCC tripeptide sequence. Protein was eluted with imidazole, the His tag was cleaved with Factor Xa, and a size exclusion chromatography step was performed to obtain the pure nickel-bound protein. Protein concentration was determined from the absorbance at 280 nm (G ₂ 8o= 19,420 L mol ^"1 cm ^"1 ).

[00230] CD and absorption studies. Ni -peptide samples were placed in a cuvette with a 1- cm path length and scanned from 800-300 nm using both absorption and CD spectroscopy.

Samples were scanned immediately after generation and then subsequently monitored at various time points. Background scans of buffer alone were subtracted from each scan. Spectra for Ni- PRL-1 were also collected immediately after purification. Absorption studies were performed on an Agilent 8453 UV/Visible spectrophotometer. Circular dichroism analysis was performed on a J-815 (Jasco Corporation) spectropolarimeter.

[00231] Deconvolution of CD and absorption data. Deconvolution of CD and absorption data was performed using Igor Pro (Wavemetrics). Iterative Gaussian deconvolutions were performed with a constant peak width of 1600 cm ^"1 . Absorption band energies were kept within 10% of the corresponding CD bands due to the broad nature of the absorption spectrum. [00232] ESI-MS. Samples of Ni-GGGCC (SEQ ID NO. 3), Ni-GGNCC (SEQ ID NO. 1), Ni-GNNCC (SEQ ID NO. 4), and Ni-GNGCC (SEQ ID NO. 5) were diluted 100 x in a 1 : 1 mixture of methanol/water and analyzed on an LCT Premier (Waters Corporation) operating in negative ion mode, as described previously.

[00233] MCD. Samples containing 3 mM Ni-GGNCC (SEQ ID NO. 1) were prepared in

50 mM phosphate at pH 7.4. An equal volume of glycerol was added, yielding a 50% glycerol solution containing 1.5 mM Ni-GGNCC (SEQ ID NO. 1). The sample was placed in an MCD cell and flash frozen. Spectra were collected on a J-815 (Jasco Corporation) interfaced with an Oxford Spectromag 4000 at +7 and -7 Tesla, and the difference was found via subtraction in order to remove any CD signal. Spectra were collected at 20, 8, and 4.5 K, and analyzed to identify any changes in the spectra that indicate paramagnetic character. The feasibility of correlating these low temperature data with the structure of Ni-GGNCC (SEQ ID NO. 1) at room temperature is demonstrated by the lack of apparent changes in the corresponding CD spectra collected at 298 and 4.5 K.

[00234] Preparation of nickel-released samples for nuclear magnetic resonance (NMR).

Ni-GGNCC (SEQ ID NO. 1) was generated via spiking 3 mM GGNCC (SEQ ID NO. 1) in 50 mM potassium phosphate at pH 7.4 with N1SO ₄ . The pH was dropped to approximately 5.0 by the addition of 1M HCl to release the metal. The sample was purified using reverse-phase HPLC on a Luna 5μ CI 8(2) column (Phenomenex) to remove the released nickel and to isolate the apo, nickel-exposed peptide sample (nickel-exposed GGNCC (SEQ ID NO. 1)). Fractions containing nickel-exposed GGNCC (SEQ ID NO. 1) were pooled and lyophilized.

[00235] Nuclear magnetic resonance (NMR). Peptide samples (XXLLD-GGNCC; SEQ ID

NO. 8), (XXDLD-GGNCC; SEQ ID NO. 9), (XXLDL-GGNCC; SEQ ID NO. 10), (XXDDL- GGNCC; SEQ ID NO. 1 1), and (XXLLL-GGNCC; SEQ ID NO. 1), as well as nickel-exposed GGNCC (SEQ ID NO. 1) were dissolved at a concentration of 3 mM in 50 mM potassium phosphate, pH 7.4, containing 10% D ₂ 0. 1H spectra were acquired using a 500 MHz Bruker DRX spectrometer equipped with a triple resonance probe. Water suppression was accomplished using presaturation.

[00236] Ni-SOD xanthine/xanthine oxidase coupled assay. Superoxide scavenging activity was determined as reported previously, except Ni-peptides were generated in situ using one equivalent of NiS0 ₄ . Superoxide scavenging activity of Ni-GGGCC (SEQ ID NO. 3), Ni- GGNCC (SEQ ID NO. 1), Ni-GNNCC (SEQ ID NO. 4), and Ni-GNGCC (SEQ ID NO. 5) was determined using the standard xanthine/xanthine oxidase method developed by Crapo and coworkers. All reagents were generated in 50 mM potassium phosphate, 100 μΜ EDTA reaction buffer at pH 7.8 except for the Ni -peptide complexes, which were generated in 50 mM potassium phosphate, pH 7.4. In this assay, 600 μΜ cytochrome c from bovine heart (Sigma), 300 μΜ xanthine (Sigma) and enough xanthine oxidase from buttermilk (Sigma) to cause a change in absorbance at 550 nm of 0.02 - 0.04 AU per minute were added to a final volume of 300 with reaction buffer. The change in absorbance at 550 nm was monitored on a Cary 100 UV- Visible spectrophotometer (Varian).

[00237] Electrochemistry. Electrochemical data were collected as previously described. 3- mL samples of 3 mM Ni-GGNCC (SEQ ID NO. 1) and Ni-GGGCC (SEQ ID NO. 3) were prepared in 50 mM potassium phosphate at pH 7.4. After incorporation, pH was raised to 10 to observe more intense signal. Cyclic voltammetry (CV) data were collected with a CH1812C Electrochemical Analyzer potentiostat (CH Instruments) with a three-electrode setup (platinum working electrode, Bioanalytical Systems, Inc.; Pt auxiliary electrode; Ag/AgCl reference electrode) in a glass CV cell. Potential was applied from zero to 1.2 V with a scan rate of 0.2 V per second, and current was measured.

[00238] Coordination of cyanide and IR analysis. Samples of Ni-GGGCC (SEQ ID NO. 3) and Ni-GGNCC (SEQ ID NO. 1) were prepared at a concentration of 3 mM in 50 mM potassium phosphate at pH 7.4. One equivalent of potassium cyanide was added to each of the samples. Samples were flash frozen and lyophilized. IR analysis was performed to observe the cyanide peak in each sample. IR spectra were acquired from dry powder samples on a Perkin Elmer Spectrum 100 FT-IR spectrometer equipped with a universal ATR (Attenuated Total Reflection) sampling accessory. The spectrum of solid potassium cyanide was used to compare the shift of i(C≡N) vibration from the free to the nickel-coordinated state.

[00239] Preparation and spectroscopic characterization ofNi-peptides and Ni-PRL-1.

[00240] The NCC tripeptide sequence was incorporated into a series of four pentapeptides

(GGNCC (SEQ ID NO. 1), GGGCC (SEQ ID NO. 3), GNNCC (SEQ ID NO. 4), and GNGCC (SEQ ID NO. 5)), two 8 mers (GGGCCGGK (SEQ ID NO. 6) and GGNCCGGK (SEQ ID NO. 2)), and within full-length PRL-1. Metal incorporation in the appropriate geometry occurs via metal transfer from a weaker chelating moiety. While immobilized metal affinity

chromatography resin has been a choice for obtaining pure compounds for examination following the metallation reaction, for studies requiring immediate spectroscopic analysis, a solution transfer is preferred. Although NiCl ₂ fails to generate the desired complex, N1SO ₄ enables metal incorporation and provides the same spectral features without the need for a solid support. The peptides were analyzed with CD spectroscopy to validate the ligands involved in the metal coordination.

[00241] The spectral features were slightly different than those previously reported for the

Ni-NCC tripeptide, which is expected because the amine nitrogen ligand from the N-terminus in the tripeptide is replaced by an amide nitrogen ligand in the longer peptides. The four pentapeptides have identical spectral profiles, with only differences in intensity (FIGURE 24). Absorbance and CD spectra were deconvoluted (FIGURE 24, and Table 4). MS data confirm the Ni complex of each pentapeptide is at the expected mass (e.g. Ni-GGNCC (SEQ ID NO. 1), m/z = 506.22, calculated = 506.02). See FIGURE 24. for CD spectra of Ni-pentapeptides in 50 mM potassium phosphate pH 7.4. Spectral features are the same with different peptides, though intensity differences are present. See FIGURE 25 for Gaussian deconvoluted absorption (top) and CD (bottom) spectra of Ni-GGNCC (SEQ ID NO. 1).

[00242] Table 4. Energies of spectral bands in Ni-GGNCC (SEQ ID NO. 1).

[00243] The tripeptide sequences NCC or GCC were also placed in the middle of an 8 mer peptide, generating GGNCCGGK (SEQ ID NO. 2) and GGGCCGGK (SEQ ID NO. 6), respectively. The spectral features of the octomers are similar to that of the pentapeptides, showing that embedding NCC in a longer sequence does not further change the coordination, indicating the metal is bound in the same cis 2N:2S square planar arrangement as observed with NCC (FIGURE 26). Differences in intensity are observed, likely due to differences in efficiency of metal incorporation. ESI-MS operating in negative ion mode confirms 1 : 1 stoichiometry of peptide to metal, and no thiol oxidation or change in the peptide :metal ratio were observed in samples analyzed 24 hours after generation. The peptide GGNCHGGK (SEQ ID NO. 7) was also used to show that the absence of one of the cysteine ligands results in different coordination. MS data indicate the metal did not insert into the modified sequence, suggesting the incorporation mechanism depends on the presence of the second Cys. Taken together, these data further indicate that the coordination is the same here as in the nickel tripeptide complex (FIGURE 1). See FIGURE 26: CD spectra of GGNCC (SEQ ID NO. 1), GGNCCGGK (SEQ ID NO. 2), and PRL-1 (SEQ ID NO. 12), which contain the NCC sequence. All samples were scanned 24 hours after metal incorporation to match the time frame under which PRL-1 data were collected.

[00244] In the case of the Ni-NCC tripeptide complex, the nickel ion is primarily Ni ¹¹ , however, it was considered that change from amine/amide coordination that is present in the tripeptide to the bis-amide coordination that is present in the pentapeptide can stabilize a Ni ^m state and cause more of a Ni ^II/in mixture to be present. To test for the presence of Ni ¹¹¹ , MCD data was collected on the Ni-GGNCC (SEQ ID NO. 1) sample. MCD data show no temperature dependence of the spectra at field, which indicates no paramagnetic component is present and suggests Ni ¹¹¹ does not accumulate.

[00245] Circular dichroism analysis of Ni-pentapeptide complexes containing D amino acids.

[00246] In the NCC tripeptide, chiral inversion occurs at the first and third positions, where nickel incorporated into LLL-NCC converts it to the DLD-NCC isoform over the course of hours. The inversion of the asparagine Ca reorients its side chain away from the space above the plane, allowing coordination of a fifth ligand or substrate and thereby promoting activity. This chiral inversion is apparent in the CD spectra, as the signs of the DLD-NCC peaks are opposite of those of the LLL-NCC. With the pentapeptide complex, however, following the insertion reaction, changes in sign are not observed in the CD spectra, but only a small decrease in intensity occurs on this timescale (FIGURE 27). As such, the lack of sign change suggests chiral inversion either does not occur or is concomitant with metal incorporation; additional studies were performed to examine the possibility of rapid chiral inversion in the pentapeptide system. See FIGURE 27: Aging does not change the spectral features of Ni-GGNCC (SEQ ID NO. 1) within a given buffer system. (50 mM postassium phosphate pH 7.4)

[00247] In order to further explore the possibility of chiral inversion in the pentapeptide and identify any affected position(s), the pentapeptides XXLLD-GGNCC (SEQ ID NO. 8),

XXDLD-GGNCC (SEQ ID NO. 9), XXLDL-GGNCC (SEQ ID NO. 10), XXDDL-GGNCC (SEQ ID NO. 11), and XXLLL-GGNCC (SEQ ID NO. 1), were metallated and compared to the all-L form. CD spectra of the D-containing sequences were collected and compared to data from the all-L isoform (FIGURE 28, panel A). The data were normalized at 22,000 cm ^"1 to compare relative intensity differences that result from different chiral species (FIGURE 28, panel B). The spectra of the D-amino acid-containing peptides are all different from that observed for the all-L form of GGNCC (SEQ ID NO. 1), suggesting chiral inversion likely does not occur in the pentapeptide complex. Specifically, the XXDLD-GGNCC (SEQ ID NO. 9) and XXLLL-GGNCC (SEQ ID NO. 1) nickel complexes have spectra that are nearly mirror images of one another; since DLD-NCC is the final form of the tripeptide complex, this indicates the bisamide pentapeptide complex and the mixed amine/amide tripeptide complex behave differently with respect to chiral inversion chemistry. See FIGURE 28, panel A. CD profiles of several chiral forms of GGNCC (SEQ ID NO. 1) in phosphate buffer. FIGURE 28, panel B. CD profiles of several chiral forms of GGNCC (SEQ ID NO. 1) in phosphate buffer, but normalized at 22,000 cm ^"1 .

[00248] Nuclear magnetic resonance of chiral forms of the pentapeptides.

[00249] To further validate the absence of chiral inversion in the Ni-pentapeptide system,

NMR data were collected for a set of control peptides. NMR spectra were acquired for the apo forms of the XXLLD-GGNCC (SEQ ID NO. 8), XXDLD-GGNCC (SEQ ID NO. 9), XXLDL- GGNCC (SEQ ID NO. 10), XXDDL-GGNCC (SEQ ID NO. 11), and XXLLL-GGNCC (SEQ ID NO. 1) systems to assess difference in splitting patterns for species containing D-amino acids. To determine which form the nickel-exposed GGNCC (SEQ ID NO. 1) resembles, a sample of

GGNCC (SEQ ID NO. 1) was metallated, the pH was dropped to release the metal, and the peptide was separated from free nickel using reverse phase HPLC. After purification and isolation of the nickel-exposed GGNCC (SEQ ID NO. 1), NMR was employed, and the spectrum of the nickel-exposed GGNCC (SEQ ID NO. 1) was compared to that of each GGNCC (SEQ ID NO. 1) form. The spectra of the peptides are very similar, with modest differences between 2.65 and 3.0 ppm (FIGURE 29). These peaks correspond to the CH ₂ groups on the Asn and Cys side chains, and their splitting patterns experience differences based on how they are oriented in space and how they communicate with the nearby protons, which varies with the D or L configuration of each amino acid residue. The XXDLD-GGNCC (SEQ ID NO. 9) and XXLDL-GGNCC (SEQ ID NO. 10) are similar to one another, and the XXLLD-GGNCC (SEQ ID NO. 8) and XXDDL- GGNCC (SEQ ID NO. 11) are similar to one another, based on the exact opposite chiralities of these peptides. XXLLL-GGNCC (SEQ ID NO. 1) and nickel-exposed GGNCC (SEQ ID NO. 1) exhibit nearly identical NMR spectra (FIGURE 30) suggesting nickel-exposed GGNCC (SEQ ID NO. 1) maintains its XXLLL-GGNCC (SEQ ID NO. 1) configuration and chiral inversion does not occur in the pentapeptide. FIGURE 29: NMR spectra of Ni-exposed GGNCC (SEQ ID NO. 1) compared to each D-containing form. Differences in splitting patterns between 2.6 and 3.0 ppm correspond to the different chiralities of the different pentapeptides. FIGURE 30: Superimposed (A) and stacked (B) NMR spectra of XXLLL-GGNCC (SEQ ID NO. 1) and nickel-exposed

GGNCC (SEQ ID NO. 1). Peaks correspond to the 1H on the CH ₂ on the Asn and Cys side chains.

[00250] Reactivity of pentapeptides: Superoxide scavenging, coordination of fifth ligand, and electrochemistry.

[00251] In the NCC tripeptide, chiral inversion occurs at the first and third positions, such that nickel incorporation into LLL-NCC converts it to the DLD-NCC isoform over the course of hours. The inversion of the asparagine C-a reorients its side chain away from the space above the plane, allowing coordination of a fifth ligand or substrate and thereby promoting activity.

Therefore, with the NCC tripeptide, measures of chiral inversion include the ability of the complex to coordinate a fifth ligand, to have a measurable midpoint potential, and exhibit superoxide scavenging activity. The Ni pentapeptide complexes do not undergo chiral inversion, presumably due to the bis-amide coordination rather than mixed amine/amide coordination found in the tripeptide systems. The xanthine/xanthine oxidase assay was performed, coordination of CN ^" was monitored with CD and IR, and electrochemical studies were performed using CV.

[00252] The aged NCC tripeptide, which corresponds to the activity of the chirally inverted form, has superoxide scavenging activity (IC50 = 4.1 x 10 ^"5 M). Despite having bis- amide 2N:2S coordination, as opposed to the mixed amine/amide 2N:2S coordination of the tripeptide system, the longer Ni-peptide complexes have similar superoxide scavenging activity, on the same order of magnitude as the Ni-NCC tripeptide complex (IC ₅₀ = 9.1 ± 5 xlO ^"6 M for Ni-GGNCC (SEQ ID NO. 1)).

[00253] Cyclic voltammetry was used to measure the midpoint potential of the

pentapeptides. The GGGCC (SEQ ID NO. 3) and GGNCC (SEQ ID NO. 1) peptides have similar potentials (respectively, 0.78 and 0.80 mV vs Ag/AgCl at pH 10). These values are slightly higher than those reported for the chirally inverted Ni-NCC tripeptide complex (0.71 mV vs Ag/AgCl). Despite not undergoing chiral inversion, the Ni-pentapeptide signal can be measured immediately after generation, whereas the tripeptide does not have a measurable potential until it has aged and therefore chirally inverted. The small difference in redox potential for the different systems is likely due to a minor deviation in bond length or planarity, but the relatively close potentials are because the overall charge of the complex does not change.

[00254] In the Ni-NCC complex, inversion of the asparagine Ca can reorient its side chain away from the space above the plane, allowing coordination of a fifth ligand. To determine if CN ^" has access to bind the metal, the pentapeptide complexes Ni-GGNCC (SEQ ID NO. 1) and Ni-GGGCC (SEQ ID NO. 3) were generated, and solid phase IR data were collected on free cyanide and cyanide in the presence of the Ni-pentapeptide complexes. The vibration of CN ^" is shifted and corresponds to Ni-bound CN ^" (Table 5), as was observed previously with the tripeptide complex, suggesting that CN ^" is able to coordinate to the nickel-pentapeptide complex immediately after metal insertion. These data suggest access to the axial position is available and structural rearrangement is not necessary for access to the axial position.

[00255] Table 5. Coordination of CN ^" to different nickel species, showing that CN ^" coordinates to the pentapeptide immediately after generation, whereas with the tripeptide, chiral inversion must occur before a fifth ligand can bind. NCC and GGNCC (SEQ ID NO. 1) samples were examined in potassium phosphate buffer at pH 7.4.

[00256] The peptide sequence NCC is capable of coordinating nickel in a 2N:2S geometry, where the sulfur ligands come from the cysteine side chains, one amino nitrogen ligand is from the N-terminus, and one amido nitrogen ligand is from the peptide backbone. After metal is incorporated with the peptide composed of all-L amino acids, LLL-NCC is converted nearly completely to DLD-NCC within hours. After this site-specific chiral inversion, the Ni-tripeptide complex is a functional mimic of the enzyme nickel superoxide dismutase. This chiral inversion is critical for the superoxide scavenging activity, as conversion from the LLL to DLD correlates directly with activity.

[00257] The tripeptide sequence can be incorporated into a longer sequence without disrupting metal complex formation. Here, the coordination of nickel by the NCC sequence within a series of polypeptides was examined. ESI-MS confirms monomeric incorporation of nickel into each pentapeptide, and MCD studies reveal that the nickel is diamagnetic nickel(II), as is the case in the tripeptide. The CD spectral features differ from those of the tripeptide, and the transitions in the pentapeptide complex are shifted to higher energy because the amine nitrogen ligand from the N-terminus in the tripeptide is replaced by an amide in the

pentapeptides. These data together indicate that the ligating moieties are analogous; the same two cysteinyl sulfur and backbone nitrogen ligands are utilized, but the extension at the N-terminus changes the nitrogen coordination from mixed amine/amide to bis-amide. The similarity of four pentapeptides, with and without asparagine present in position 3, confirms that the asparagine side chain is not directly involved in metal coordination and nitrogen ligation is due solely to the backbone amides. In the tripeptide the rate of chiral inversion can be monitored because a change in spectral features is clearly observed over time, but no observable changes occur within the pentapeptide. This lack of change implies that chiral inversion either does not occur or it is concominant with metal incorporation. Examination of several chiral permutations of the GGNCC (SEQ ID NO. 1) pentapeptide revealed that none of their corresponding CD spectra match that of the Ni-GGNCC (SEQ ID NO. 1) pentapeptide complex, suggesting the Ni- pentapeptide complex does not undergo chiral inversion. NMR spectroscopy was employed for cross-validation. While the overall NMR spectral features of all five chiral permutations of the GGNCC (SEQ ID NO. 1) pentapeptide are similar, differences in the chemical shift positions and splitting were observed between 2.60 and 3.0 ppm. This region corresponds to the CH ₂ group on the side chains of the asparagine and cysteine amino acids, which is shifted by the altered configuration of a D-amino acid. While differences are observed in the peptides synthesized to contain D amino acid residues in various positions, the XXLLL-GGNCC (SEQ ID NO. 1) and the nickel-exposed GGNCC (SEQ ID NO. 1) are nearly identical; thus, unlike the tripeptide system, chiral inversion does not occur in the pentapeptide system (FIGURE 30).

[00258] The Ni-NCC tripeptide complex is not able to bind a fifth ligand, have a measurable redox potential, or exhibit superoxide scavenging activity until site-specific chiral inversion has occurred. In contrast, even immediately after generation, the pentapeptides containing the NCC sequence exhibit all of these features, suggesting open access to the axial position is immediately available. The extension of the sequence from NCC to GGNCC (SEQ ID NO. 1) causes differences in the two peptides. First, the N-terminal amine that participates in binding nickel in the tripeptide is an amide in the pentapeptide. Second, the addition of extra residues can change the dynamics of the peptide and access to the metal center. The difference between bis-amide and amine/amide coordination alters the occurrence of chiral inversion in the pentapeptide system and the electron transfer mechanism, eliminating the primary chiral inversion reaction observed in the tripeptide complex but permitting the second, superoxide scavenging chemistry.

[00259] Example 4.

[00260] Polymerization Reaction- Polymerization of Methacrylate.

[00261] Photopolymerization of hydroxy ethyl methacrylic acid (HEM A) was initiated using a visible light-curing unit (Spectrum® 800, Dentsply, Milford, DE, USA) at an intensity of 550 mW cm-2 for 40 seconds. The subsequent rate of polymerization was measured via FTIR and is reported as a normalized ratio of peak intensities from unreacted and reacted monomer (1455 cm ^"1 and 1673 cm ^"1 ). The rate of polymerization was altered by the addition of Ni-NCC and Ni-GGNCC (SEQ ID NO. 1). See FIGURE 31, illustrating the percentage of polymer remaining over time. Both peptides slowed the rate of polymerization. EMBODIMENTS

[00262] The following non-limiting embodiments provide illustrative examples of the invention, but do not limit the scope of the invention.

[00263] Embodiment 1. A method of treating a defect in superoxide dismutase in a subject in need thereof, the method comprising administering to the subject a therapeutically-effective amount of: i) a peptide comprising a sequence XC ₁ C ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, and further wherein Ci and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid; and ii) a metal bound to the peptide.

[00264] Embodiment 2. The method of Embodiment 1, wherein the peptide and the metal are in a unit dosage form, wherein the unit dosage form further comprises a pharmaceutically- acceptable excipient.

[00265] Embodiment 3. The method of any one of Embodiments 1 and 2, wherein the sequence XCiC ₂ is of all L-amino acids.

[00266] Embodiment 4. The method of any one of Embodiments 1 and 2, wherein the sequence XCiC ₂ is of an achiral amino acid and two L-amino acids.

[00267] Embodiment 5. The method of any one of Embodiments 1 and 2, wherein the sequence XCiC ₂ is of an achiral amino acid and two D-amino acids.

[00268] Embodiment 6. The method of any one of Embodiments 1-5, wherein the sequence XCiC ₂ is included in a sequence Zi-XCiC ₂ , wherein Zi is any natural or non-natural amino acid or sequence of natural or non-natural amino acids.

[00269] Embodiment 7. The method of any one of Embodiments 1-6 , wherein the sequence XCiC ₂ is included in a sequence XCiC ₂ -Z ₂ , wherein Z ₂ is any natural or non-natural amino acid or sequence of natural or non-natural amino acids.

[00270] Embodiment 8. The method of any one of Embodiments 1-7, wherein the sequence XCiC ₂ is included in a sequence Zi-XCiC ₂ -Z ₂ , wherein Zi and Z ₂ are each individually any natural or non-natural amino acid or sequence of natural or non-natural amino acids.

[00271] Embodiment 9. The method of any one of Embodiments 1-8, wherein the peptide comprises a basic amino acid adjacent to either X or C ₂ .

[00272] Embodiment 10. The method of any one of Embodiments 1-9, wherein Ci and C ₂ are each cysteine.

[00273] Embodiment 11. The method of any one of Embodiments 1-10, wherein X is asparagine. [00274] Embodiment 12. The method of any one of Embodiments 1-11, wherein the metal is a group 10 metal.

[00275] Embodiment 13. The method of any one of Embodiments 1-12, wherein the metal is nickel.

[00276] Embodiment 14. The method of any one of Embodiments 1-13, wherein the composition has a concentration of the peptide and a concentration of the metal, and further wherein the concentration of the peptide and the concentration of the metal are in a ratio from about 1 : about 2 to about 2: about 1.

[00277] Embodiment 15. The method of Embodiment 15, wherein the ratio is about 1 : about 1.

[00278] Embodiment 16. The method of any one of Embodiments 1-15, wherein the sequence XC ₁ C ₂ binds the metal.

[00279] Embodiment 17. The method of any one of Embodiments 1-16, wherein the peptide binds the metal in a square planar orientation.

[00280] Embodiment 18. The method of any one of Embodiments 1-16, wherein the peptide binds the metal in a square pyramidal orientation.

[00281] Embodiment 19. The method of any one of Embodiments 1-18, wherein the peptide comprises at least 20 amino acids.

[00282] Embodiment 20. The method of any one of Embodiments 1-19, wherein the peptide comprises no more than 500 amino acids.

[00283] Embodiment 21. The method of any one of Embodiments 1 -20, wherein the amount is from about 1 to about 5000 mg.

[00284] Embodiment 22. The method of any one of Embodiments 1-21, wherein a complex of the peptide and the metal acts as a preservative.

[00285] Embodiment 23.The method of any one of Embodiments 1-22, wherein a complex of the peptide and the metal acts as an antioxidant.

[00286] Embodiment 24. The method of any one of Embodiments 1-23, wherein the amount is from about 0.001% to about 0.1% w/v.

[00287] Embodiment 25.The method of any one of Embodiments 1-24, wherein the administration is intravenous.

[00288] Embodiment 26. A method of reducing pain in a subject in need thereof, the method comprising administering to the subject a therapeutically-effective amount of: i) a peptide comprising a sequence XCiC ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, and further wherein Ci and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid; and ii) a metal bound to the peptide. [00289] Embodiment 27. The method of Embodiment 26, wherein the peptide and the metal are in a unit dosage form, wherein the unit dosage form further comprises a

pharmaceutically-acceptable excipient.

[00290] Embodiment 28. The method of any one of Embodiments 26 and 27, wherein the sequence XCiC ₂ is of all L-amino acids.

[00291] Embodiment 29. The method of any one of Embodiments 26 and 27, wherein the sequence XCiC ₂ is of an achiral amino acid and two L-amino acids.

[00292] Embodiment 30. The method of any one of Embodiments 26 and 27, wherein the sequence XCiC ₂ is of an achiral amino acid and two D-amino acids.

[00293] Embodiment 31. The method of any one of Embodiments 26-30, wherein the sequence XCiC ₂ is included in a sequence Z ₁ -XC ₁ C ₂ , wherein Zi is any natural or non-natural amino acid or sequence of natural or non-natural amino acids.

[00294] Embodiment 32. The method of any one of Embodiments 26-31 , wherein the sequence XCiC ₂ is included in a sequence XCiC ₂ -Z ₂ , wherein Z ₂ is any natural or non-natural amino acid or sequence of natural or non-natural amino acids.

[00295] Embodiment 33. The method of any one of Embodiments 26-32, wherein the sequence XCiC ₂ is included in a sequence Zi-XCiC ₂ -Z ₂ , wherein Zi and Z ₂ are each individually any natural or non-natural amino acid or sequence of natural or non-natural amino acids.

[00296] Embodiment 34. The method of any one of Embodiments 26-33, wherein the peptide comprises a basic amino acid adjacent to either X or C ₂ .

[00297] Embodiment 35. The method of any one of Embodiments 26-34, wherein Ci and

C ₂ are each cysteine.

[00298] Embodiment 36. The method of any one of Embodiment 26-35, wherein X is asparagine.

[00299] Embodiment 37. The method of any one of Embodiments 26-36, wherein the metal is a group 10 metal.

[00300] Embodiment 38. The method of any one of Embodiments 26-37, wherein the metal is nickel.

[00301] Embodiment 39. The method of any one of Embodiments 26-38, wherein the composition has a concentration of the peptide and a concentration of the metal, and further wherein the concentration of the peptide and the concentration of the metal are in a ratio from about 1 : about 2 to about 2: about 1.

[00302] Embodiment 40. The method of Embodiment 39, wherein the ratio is about 1 : about 1. [00303] Embodiment 41. The method of any one of Embodiments 26-40, wherein the sequence XCiC ₂ binds the metal.

[00304] Embodiment 42. The method of any one of Embodiments 26-41, wherein the peptide binds the metal in a square planar orientation.

[00305] Embodiment 43. The method of any one of Embodiments 26-41, wherein the peptide binds the metal in a square pyramidal orientation.

[00306] Embodiment 44. The method of any one of Embodiments 26-43, wherein the peptide comprises at least 20 amino acids.

[00307] Embodiment 45. The method of any one of Embodiments 26-44, wherein the peptide comprises no more than 500 amino acids.

[00308] Embodiment 46. The method of any one of Embodiments 26-45, wherein the amount is from about 1 to about 5000 mg.

[00309] Embodiment 47. The method of any one of Embodiments 26-46, wherein a complex of the peptide and the metal acts as a preservative.

[00310] Embodiment 48. The method of any one of Embodiments 26-47, wherein a complex of the peptide and the metal acts as an antioxidant.

[00311] Embodiment 49. The method of any one of Embodiments 26-48, wherein the amount is from about 0.001% to about 0.1% w/v.

[00312] Embodiment 50. The method of any one of Embodiments 26-49, wherein the administration is intravenous.

[00313] Embodiment 51. A method of reducing inflammation in a subject in need thereof, the method comprising administering to the subject a therapeutically-effective amount of: i) a peptide comprising a sequence XCiC ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, and further wherein Ci and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid; and ii) a metal bound to the peptide.

[00314] Embodiment 52. The method of Embodiment 51, wherein the peptide and the metal are in a unit dosage form, wherein the unit dosage form further comprises a

pharmaceutically-acceptable excipient.

[00315] Embodiment 53. The method of any one of Embodiments 51 and 52, wherein the sequence XCiC ₂ is of all L-amino acids.

[00316] Embodiment 54. The method of any one of Embodiments 51 and 52, wherein the sequence XCiC ₂ is of an achiral amino acid and two L-amino acids.

[00317] Embodiment 55. The method of any one of Embodiments 51 and 52, wherein the sequence XCiC ₂ is of an achiral amino acid and two D-amino acids. [00318] Embodiment 56. The method of any one of Embodiments 51-55, wherein the sequence XCiC ₂ is included in a sequence Zi-XCiC ₂ , wherein Zi is any natural or non-natural amino acid or sequence of natural or non-natural amino acids.

[00319] Embodiment 57. The method of any one of Embodiments 51-56, wherein the sequence XCiC ₂ is included in a sequence XCiC ₂ -Z ₂ , wherein Z ₂ is any natural or non-natural amino acid or sequence of natural or non-natural amino acids.

[00320] Embodiment 58. The method of any one of Embodiments 51-57, wherein the sequence XCiC ₂ is included in a sequence Zi-XCiC ₂ -Z ₂ , wherein Zi and Z ₂ are each individually any natural or non-natural amino acid or sequence of natural or non-natural amino acids.

[00321] Embodiment 59. The method of any one of Embodiments 51-58, wherein the peptide comprises a basic amino acid adjacent to either X or C ₂ .

[00322] Embodiment 60. The method of any one of Embodiments 51-59, wherein Ci and

C ₂ are each cysteine.

[00323] Embodiment 61. The method of any one of Embodiments 51 -60, wherein X is asparagine.

[00324] Embodiment 62. The method of any one of Embodiments 51-61, wherein the metal is a group 10 metal.

[00325] Embodiment 63. The method of any one of Embodiments 51-62, wherein the metal is nickel.

[00326] Embodiment 64. The method of any one of Embodiments 51-63, wherein the composition has a concentration of the peptide and a concentration of the metal, and further wherein the concentration of the peptide and the concentration of the metal are in a ratio from about 1 : about 2 to about 2: about 1.

[00327] Embodiment 65. The method of Embodiment 64, wherein the ratio is about 1 : about 1.

[00328] Embodiment 66. The method of any one of Embodiments 51-65, wherein the sequence XCiC ₂ binds the metal.

[00329] Embodiment 67. The method of any one of Embodiments 51-66, wherein the peptide binds the metal in a square planar orientation.

[00330] Embodiment 68. The method of any one of Embodiments 51-66, wherein the peptide binds the metal in a square pyramidal orientation.

[00331] Embodiment 69. The method of any one of Embodiments 51-68, wherein the peptide comprises at least 20 amino acids.

[00332] Embodiment 70. The method of any one of Embodiments 51 -69, wherein the peptide comprises no more than 500 amino acids. [00333] Embodiment 71. The method of any one of Embodiments 51-70, wherein the amount is from about 1 to about 5000 mg.

[00334] Embodiment 72. The method of any one of Embodiments 51-71, wherein a complex of the peptide and the metal acts as a preservative.

[00335] Embodiment 73. The method of any one of Embodiments 51-72, wherein a complex of the peptide and the metal acts as an antioxidant.

[00336] Embodiment 74. The method of any one of Embodiments 51-73, wherein the amount is from about 0.001% to about 0.1% w/v.

[00337] Embodiment 75. The method of any one of Embodiments 51 -74, wherein the administration is intravenous.

[00338] Embodiment 76. A method of increasing in-vivo half-life of a therapeutic polypeptide, the method comprising: i) providing a therapeutic polypeptide with an amino terminus, wherein the amino terminus has a sequence XCiC ₂ , wherein X is any natural or non- natural amino acid or amino acid analog, and further wherein C _\ and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid; ii) forming a complex between a metal and the therapeutic polypeptide under conditions suitable for chiral inversion of C ₂ ; and iii) separating the metal from the therapeutic polypeptide with chirally inverted C ₂ , wherein the in vivo half-life of the therapeutic polypeptide is increased.

[00339] Embodiment 77. The method of Embodiment 76, wherein X is a chiral amino acid, and further wherein X is chirally inverted.

[00340] Embodiment 78. The method of any one of Embodiments 76 and 77, wherein C ₂ has L-stereochemistry prior to chiral inversion.

[00341] Embodiment 79. The method of any one of Embodiments 76-78, wherein Ci and

C ₂ are each cysteine.

[00342] Embodiment 80. The method of any one of Embodiments 76-79, wherein the metal is a group 10 metal.

[00343] Embodiment 81. The method of any one of Embodiments 76-80, wherein the metal is nickel.

[00344] Embodiment 82. The method of any one of Embodiments 76-81 , wherein the sequence XCiC ₂ binds the metal.

[00345] Embodiment 83. The method of any one of Embodiments 76-82, wherein the therapeutic polypeptide binds the metal in a square planar orientation.

[00346] Embodiment 84. The method of any one of Embodiments 76-82, wherein the therapeutic polypeptide binds the metal in a square pyramidal orientation. [00347] Embodiment 85. The method of any one of Embodiments 76-84, wherein the therapeutic polypeptide comprises at least 20 amino acids.

[00348] Embodiment 86. The method of any one of Embodiments 76-85, wherein the therapeutic polypeptide comprises no more than 500 amino acids.

[00349] Embodiment 87. The method of any one of Embodiments 76-86, wherein the therapeutic polypeptide adopts a tertiary structure under physiological conditions, wherein a basic amino acid located at least 17 amino acids away from Ci by amino acid sequence is located within 20 angstroms in space from Ci.

[00350] Embodiment 88. The method of any one of Embodiments 76-87, wherein the therapeutic polypeptide is insulin.

[00351] Embodiment 89. The method of any one of Embodiments 76-88, wherein the conditions suitable for chiral inversion comprise exposure to an electron transfer agent.

[00352] Embodiment 90. The method of Embodiment 89, wherein the electron transfer agent is molecular oxygen.

[00353] Embodiment 91. A method of performing a chemical reaction, the method comprising contacting: i) a peptide comprising a sequence XC ₁ C ₂ , wherein X is any natural or non-natural amino acid or amino acid analog, wherein Ci and C ₂ are each individually chosen from a cysteine and a sulfur-containing alpha or beta amino acid, and wherein a metal is bound to the peptide; and ii) chemical starting materials, whereupon the chemical starting materials are combined into a product.

[00354] Embodiment 92. The method of Embodiment 91, wherein the peptide is XCiC ₂ .

[00355] Embodiment 93. The method of any one of Embodiments 91 and 92, wherein Ci and C ₂ are each cysteine.

[00356] Embodiment 94. The method of any one of Embodiments 91-93, wherein X is asparagine.

[00357] Embodiment 95. The method of any one of Embodiments 91-94, wherein the metal is a group 10 metal.

[00358] Embodiment 96. The method of any one of Embodiments 91-95, wherein the metal is nickel.

[00359] Embodiment 97. The method of any one of Embodiments 91-96, wherein the sequence XCiC ₂ binds the metal.

[00360] Embodiment 98. The method of any one of Embodiments 91-97, wherein the peptide binds the metal in a square planar orientation.

[00361] Embodiment 99. The method of any one of Embodiments 91-97, wherein the peptide binds the metal in a square pyramidal orientation. [00362] Embodiment 100. The method of any one of Embodiments 91-99, wherein the product comprises at least two chemical starting materials linked by at least one covalent bond.

[00363] Embodiment 101. The method of any one of Embodiments 91-100, wherein the chemical reaction is a polymerization reaction.

[00364] Embodiment 102. The method of any one of Embodiments 91-101, wherein a complex of the peptide and the metal acts as an initiator.

[00365] Embodiment 103. The method of any one of Embodiments 91-101, wherein a complex of the peptide and the metal acts as a radical scavenger.

[00366] Embodiment 104. The method of any one of Embodiments 91-103, wherein the peptide has from 3 to about 10 amino acids.