Therapeutic peptidomimetic macrocycles

1. A method of selecting a peptidomimetic macrocycle that generates a reduced antibody response capable of being used in therapy to treat a cell proliferative disorder, comprising:

a) preparing a peptidomimetic macrocycle by forming a cross-linker connecting two amino acid residues of a polypeptide to stabilize a secondary structure of the peptidomimetic macrocycle;

b) testing the peptidomimetic macrocycle for a reduced antibody response in an in vivo assay as compared to a corresponding uncross-linked polypeptide; and

c) selecting the tested peptidomimetic macrocycle as the peptidomimetic macrocycle that generates the reduced antibody response capable of being used in therapy to treat a cell proliferative disorder if the tested peptidomimetic macrocycle has the reduced antibody response; and

wherein the peptidomimetic macrocycle that generates the reduced antibody response is of Formula (I):

wherein:

each A, C, D, and E, is independently a natural or non-natural amino acid;

B is a natural or non-natural amino acid, amino acid analog,

[—NH-L 3 -CO—], [—NH-L 3 -SO 2 —], or [—NH-L 3 -];

R 1 and R 2 are independently —H, alkyl, alkenyl, alkynyl, arylalkyl, cycloalkyl, cycloalkylalkyl, heteroalkyl, or heterocycloalkyl, each of which except —H is unsubstituted or substituted with halo-;

R 3 is hydrogen, alkyl, alkenyl, alkynyl, arylalkyl, heteroalkyl, cycloalkyl, heterocycloalkyl, cycloalkylalkyl, cycloaryl, or heterocycloaryl, each of which except hydrogen is optionally substituted with R 5 ;

L is a macrocycle-forming linker of the formula -L 1 -L 2 -;

L 1 and L 2 and L 3 are independently alkylene, alkenylene, alkynylene, heteroalkylene, cycloalkylene, heterocycloalkylene, cycloarylene, heterocycloarylene, or [—R 4 —K—R 4 —] n , each being optionally substituted with R 5 ;

each R 4 is independently alkylene, alkenylene, alkynylene, heteroalkylene, cycloalkylene, heterocycloalkylene, arylene, or heteroarylene;

each K is independently O, S, SO, SO 2 , CO, CO 2 , or CONR 3 ;

each R 5 is independently halogen, alkyl, —OR 6 , —N(R 6 ) 2 , —SR 6 , —SOR 6 , —SO 2 R 6 , —CO 2 R 6 , a fluorescent moiety, a radioisotope, or a therapeutic agent;

each R 6 is independently —H, alkyl, alkenyl, alkynyl, arylalkyl, cycloalkylalkyl, heterocycloalkyl, a fluorescent moiety, a radioisotope, or a therapeutic agent;

R 7 is —H, alkyl, alkenyl, alkynyl, arylalkyl, cycloalkyl, heteroalkyl, cycloalkylalkyl, heterocycloalkyl, cycloaryl, or heterocycloaryl, each of which except —H is optionally substituted with R 5 , or part of a cyclic structure with a D residue;

R 8 is —H, alkyl, alkenyl, alkynyl, arylalkyl, cycloalkyl, heteroalkyl, cycloalkylalkyl, heterocycloalkyl, cycloaryl, or heterocycloaryl, each of which except —H is optionally substituted with R 5 , or part of a cyclic structure with an E residue;

each of v and w is independently an integer from 1-1000;

each of x, y, and z, is independently an integer from 0-10; u is an integer from 1-10; and

n is an integer from 1-5.

2. The method of claim 1 , wherein the peptidomimetic macrocycle that generates the reduced antibody response comprises a helix.

3. The method of claim 1 , wherein the peptidomimetic macrocycle that generates the reduced antibody response comprises an α-helix.

4. The method of claim 1 , wherein the polypeptide comprises a BH3 domain.

5. The method of claim 1 , wherein an α-carbon atom in the peptidomimetic macrocycle that generates the reduced antibody response is additionally substituted with independent substituents of formula R—, wherein R— is alkyl, alkenyl, alkynyl, arylalkyl, cycloalkylalkyl, heteroalkyl, or heterocycloalkyl, each of which is unsubstituted or substituted with halo-.

6. The method of claim 5 , wherein an α-carbon atom to which the cross-linker is not attached is additionally substituted with a substituent of formula R—, wherein R— is alkyl, alkenyl, alkynyl, arylalkyl, cycloalkylalkyl, heteroalkyl, or heterocycloalkyl, each of which is unsubstituted or substituted with halo-.

7. The method of claim 1 , wherein in the peptidomimetic macrocycle that generates the reduced antibody response of Formula (I), R 1 and R 2 are each, independently, alkyl, alkenyl, alkynyl, arylalkyl, cycloalkyl, cycloalkylalkyl, heteroalkyl, or heterocycloalkyl, each of which is unsubstituted or substituted with halo-.

8. The method of claim 5 , wherein R— is alkyl.

9. The method of claim 1 , wherein the cross-linker is formed of consecutive carbon-carbon bonds.

10. The method of claim 1 , wherein the cross-linker contains about 9 consecutive bonds.

11. The method of claim 1 , wherein the cross-linker contains about 12 consecutive bonds.

12. The method of claim 1 , wherein the cross-linker comprises about 6 carbon atoms.

13. The method of claim 1 , wherein the cross-linker comprises about 9 carbon atoms.

14. The method of claim 1 , wherein the peptidomimetic macrocycle that generates the reduced antibody response is cell permeable.

15. The method of claim 3 , wherein the length of the cross-linker is about 5 Å to about 9 Å per turn of the alpha-helix.

16. The method of claim 1 , wherein the secondary structure is an α-helical structure.