Peptide based inhibitors of Raf kinase protein dimerization and kinase activity
Herein are described peptide-based compositions for modifying Raf kinase protein Dimerization. These compositions, treatments, and methods of use are directed to peptides that display a binding affinity for the dimer interface of a Raf kinase protein, methods for modifying Raf kinase dimerization, and methods for inhibiting tumor growth. An embodiment of the disclosure is a peptide generated by modifying an ordered sequence chosen from SEQ ID NO: 1 which corresponds to amino acids 503-521 of B-Raf kinase. The peptides disclosed herein include a modification to an ordered sequence of amino acids derived from SEQ ID NO: 1 that can improve or otherwise alter binding affinity of the peptide to the dimer interface.
1. A peptide comprising a modification to B-Raf residues 503-521 (SEQ ID NO: 1), wherein the modification comprises:
a) deletion of residues G503 and V504 of SEQ ID NO: 1,
b) deletion of residues Y519, S520, and T521 of SEQ ID NO: 1,
c) T508K substitution of SEQ ID NO: 1,
d) N512A substitution of SEQ ID NO: 1, and
e) 1513E substitution of SEQ ID NO: 1; and
wherein the peptide includes no more than 14 amino acid residues.
2. The peptide of claim 1 , wherein the modification further comprises at least 1 additional amino acid substitution.
3. The peptide of claim 1 , wherein the modification further comprises an additional 2 amino acid substitutions.
4. The peptide of claim 1 , wherein the modification further comprises addition of an endcap to the peptide.
5. The peptide of claim 4 , wherein the endcap comprises at least one of the group consisting of: N-terminal acetylation, C-terminal amidation, a protecting group, and a protein fusion.
6. The peptide of claim 1 , wherein the modification further comprises one or more of the following substitutions: L505A, H510F, V511A, L514A, L515I, L515 homoleucine, and F516D.
7. The peptide of claim 1 , wherein the modification further comprises one or more of the following substitutions: L505C, H510H(d), H510V, H510L, F516C, M517S, M517T, and M517N, and wherein the peptide comprises a disulfide bond or a lactam ring.
8. The peptide of claim 1 , wherein the modification further comprises an ornithine amino acid substitution and a glutamic acid amino acid substitution and wherein the peptide comprises a lactam ring.
9. The peptide of claim 1 , wherein the peptide comprises a cyclic peptide sequence.
10. The peptide of claim 1 , wherein the peptide is macrocyclic.
11. The peptide of claim 1 , wherein the modification further comprises substitution of an L-isomer of an amino acid residue of the peptide sequence with a D-isomer of the amino acid of the peptide sequence.
12. The peptide of claim 1 , wherein the modification further comprises N-methylation of a backbone amide nitrogen of the peptide.
13. The peptide of claim 1 , wherein the modification further comprises replacement of residues L505, R506, and K507 with a non-peptide fragment.
14. The peptide of claim 13 , wherein the non-peptide fragment is selected from
15. The peptide of claim 1 , wherein the modification further comprises replacement of residues L514, L515, or F516 with a non-peptide fragment.
16. The peptide of claim 15 , wherein the non-peptide fragment is selected from
17. A method for inhibiting growth in a tumor comprising delivering the peptide of claim 1 to the tumor.
18. The method of claim 17 , wherein the tumor comprises of one or more of the group consisting of: melanoma, hairy cell leukemia, astrocytoma, and colorectal carcinoma.
19. The method of claim 17 wherein the tumor is resistant to treatment with vemurafenib, dabrafenib, trametinib, or combinations thereof.
20. The method of claim 17 , wherein delivering the peptide comprises administering a composition comprising the peptide to a patient having the tumor.