METHODS AND COMPOSITIONS FOR RIBOSOMAL SYNTHESIS OF MACROCYCLIC PEPTIDES

摘要

Methods and compositions are provided for generating macrocyclic peptides from genetically encoded, ribosomally produced polypeptide precursors. Also provided are nucleic acid molecules, polypeptides, and methods for generating combinatorial libraries of macrocyclic peptides. These methods can be used to produce vast libraries of conformationally constrained peptide ligands as well as facilitate the functional screening of these libraries to identify compound(s) with desired activity properties.

主权项

1. A method for making a macrocyclic peptide, the method comprising:
(a) providing an artificial nucleic acid molecule encoding for a polypeptide of structure:
(AA)m-Z-(AA)n-Cys-(AA)p  (I)or(AA)m-Cys-(AA)n-Z-(AA)p  (II)or(AA)m-Cys-(AA)n-Z2-(AA)o-Cys-(AA)p  (V)  wherein:
(i) (AA)m is an N-terminal amino acid or peptide sequence,(ii) Z is a non-canonical amino acid carrying a side-chain functional group FG1, FG1 being a functional group selected from the group consisting of —(CH2)nX, where X is F, Cl, Br, or I and n is an integer number from 1 to 10; —C(O)CH2X, where X is F, Cl, Br, or I; —CH(R′)X, where X is F, Cl, Br, or I; —C(O)CH(R′)X, where X is F, Cl, Br, or I; —OCH2CH2X, where X is F, Cl, Br, or I; —C(O)CH═C═C(R′)(R″); —SO2C(R′)═C(R′)(R″); —C(O)C(R′)═C(R′)(R″); —C(R′)═C(R′)C(O)OR′; —C(R′)═C(R′)C(O)N(R′)(R″); —C(R′)═C(R′)—CN; —C(R′)═C(R′)—NO2; —C≡C—C(O)OR′; —C≡C—C(O)N(R′)(R″); unsubstituted or substituted oxirane; unsubstituted or substituted aziridine; 1,2-oxathiolane 2,2-dioxide; 4-fluoro-1,2-oxathiolane 2,2-dioxide; and 4,4-difluoro-1,2-oxathiolane 2,2-dioxide, where each R′ and R″ is independently H, an aliphatic, a substituted aliphatic, an aryl, or a substituted aryl group,(iii) Z2 is a non-canonical amino acid carrying two side-chain functional groups FG1 and FG2, wherein each of FG1 and FG2 is a functional group independently selected from the group consisting of —(CH2)nX, where X is F, Cl, Br, or I and n is an integer number from 1 to 10; —C(O)CH2X, where X is F, Cl, Br, or I; —CH(R′)X, where X is F, Cl, Br, or I; —C(O)CH(R′)X, where X is F, Cl, Br, or I; —OCH2CH2X, where X is F, Cl, Br, or I; —C(O)CH═C═C(R′)(R″); —SO2C(R′)═C(R′)(R″); —C(O)C(R′)═C(R′)(R″); —C(R′)═C(R′)C(O)OR′; —C(R′)═C(R′)C(O)N(R′)(R″); —C(R′)═C(R′)—CN; —C(R′)═C(R′)—NO2; —C≡C—C(O)OR′; —C≡C—C(O)N(R′)(R″); unsubstituted or substituted oxirane; unsubstituted or substituted aziridine; 1,2-oxathiolane 2,2-dioxide; 4-fluoro-1,2-oxathiolane 2,2-dioxide; and 4,4-difluoro-1,2-oxathiolane 2,2-dioxide, where each R′ and R″ is independently H, an aliphatic, a substituted aliphatic, an aryl, or a substituted aryl group,(iv) (AA)n is a target peptide sequence,(v) (AA)o is a second target peptide sequence, and(vi) (AA)p is a C-terminal amino acid or peptide sequence; (b) introducing the nucleic acid molecule into an expression system and expressing the nucleic acid molecule in the expression system, thereby producing the polypeptide; and (c) allowing the functional group FG1, and whenever present, FG2, to react with the side-chain sulfhydryl group (—SH) of the cysteine (Cys) residue(s), thereby producing the macrocyclic peptide.