Modified tRNA containing unnatural base and use thereof
In the method for introducing a noncanonical amino acid residue into a desired position in a protein, the structure of tRNA is so modified as to have improved affinity for aminoacyl-tRNA synthetase or improved specificity to aminoacyl-tRNA synthetase. An unnatural base is contained at any position in tRNA, whereby the efficiency of aminoacylation of the tRNA with a noncanonical amino acid can be improved.
1. A method of screening a modified tRNA for improving aminoacylation reaction of a tRNA by a noncanonical amino acid, comprising:
(a) preparing a modified suppressor tRNA comprising an unnatural base at the first or the second position of the anticodon of a suppressor tRNA, wherein said unnatural base comprises a 2-oxo-1H-pyridine-3-yl (y) group which may have a substituted group at position 5, a 2-oxo-1H-imidazole-3-yl (z) group, a 2-formyl-1H-pyrrole- 1-yl (Pa) group which may have a substituted group at position 4 or a 2-nitro-1H-pyrrole-1-yl (Pn) group which may have a substituted group at position 4;
(b) measuring an aminoacylation activity of the modified tRNA with standard and noncanonical amino acids, and a mutant aminoacyl-tRNA svnthetase that is:
a mutant aminoacyl-tRNA synthetase having the amino acid sequence of SEQ ID NO: 2 in which the glutamic acid at position 418 is replaced with aspartic acid, asparagine or glutamine;
a mutant aminoacyl-tRNA synthetase having the amino acid sequence of SEQ ID NO: 2 in which the glutamic acid at position 420 is replaced with aspartic acid, asparagine, glutamine, lysine or arginine;
a mutant aminoacvl-tRNA synthetase having the amino acid sequence of SEQ ID NO: 2 in which the glutamic acid at position 418 is replaced with aspartic acid, asparagine or glutamine, and the glutamic acid at position 420 is replaced with aspartic acid, asparagine or glutamine: or
a mutant aminoacvl-tRNA synthetase having the amino acid sequence of SEQ ID NO:2 in which the glutamic acid at position 418 is replaced with asparagine, the glutamic acid at position 420 is replaced with asparagine and the threonine at position 423 is replaced with valine; and
(c) selecting the modified tRNA, in which an incorporating amount of the noncanonical amino acid(s) is increased or an incorporating rate of the noncanonical amino acid is improved compared to that of the standard amino acid(s), as a modified tRNA having improved aminoacylation activity with a noncanonical amino acid.
2. The method of claim 1 , wherein said modified tRNA in (a) is synthesized such that a tRNA gene including the unnatural base is prepared and a transcription reaction is performed with said tRNA gene as a template DNA.
3. The method of claim 1 , wherein said unnatural base pair is a Ds-Pa pair, a Ds-Pn pair or a s-y pair.
4. A method for producing a protein incorporating a noncanonical amino acid, comprising expressing in a cell(s) or providing in a cell extract the following (a), (b) and (c) together with an unnatural base(s) and the noncanonical amino acid(s):
(a) a mutant aminoacyl-tRNA synthetase that is:
a mutant aminoacyl-tRNA synthetase having the amino acid sequence of SEQ ID NO: 2 in which the glutamic acid at position 418 is replaced with aspartic acid. asparagine or glutamine;
a mutant aminoacyl-tRNA synthetase having the amino acid sequence of SEQ ID NO: 2 in which the glutamic acid at position 420 is replaced with aspartic acid, asparagine, glutamine, lysine or arginine;
a mutant aminoacyl-tRNA synthetase having the amino acid sequence of SEQ ID NO: 2 in which the glutamic acid at position 418 is replaced with aspartic acid. asparagine or glutamine, and the glutamic acid at position 420 is replaced with aspartic acid, asparagine or glutamine: or
a mutant aminoacyl-tRNA synthetase having the amino acid sequence of SEQ ID NO: 2 in which the glutamic acid at position 418 is replaced with asparagine, the glutamic acid at position 420 is replaced with asparagine and the threonine at position 423 is replaced with valine;
(b) a modified suppressor tRNA comprising an unnatural base at the first or the second position of the anticodon of a suppressor tRNA, wherein said unnatural base comprises a 2-oxo-1H-pyridine-3-yl (y) group which may have a substituted group at position 5, a 2-oxo-1H-imidazole-3-yl (z) group, a 2-formyl-1H-pyrrole-1-yl (Pa) group which may have a substituted group at position 4 or a 2-nitro-1H-pyrrole-1-yl (Pn) group which may have a substituted group at position 4 and that is recognized by said mutant aminoacyl-tRNA synthetase; and
(c) an mRNA coding for a desired protein and having a nonsense codon or a codon including an unnatural base at a desired position(s), wherein said unnatural base comprises a 2-oxo-1H-pyridine-3-yl (y) group which may have a substituted group at position 5, a 2-oxo-1H-imidazole-3-yl (z) group, a 2-formyl-1H-pyrrole-1-yl (Pa) group which may have a substituted group at position 4 or a 2-nitro-1H-pyrrole-1-yl (Pn) group which may have a substituted group at position 4.
5. The method of claim 4 , wherein said noncanonical amino acid is phosphoserine, pyrrolidine, lysine derivative or tyrosine derivative.
6. The method of claim 4 , wherein said aminoacyl-tRNA synthetase is a mutant phosphoseryl-tRNA synthetase, and a codon in mRNA including said unnatural base is UADs.
7. A combination of a modified suppressor tRNA comprising an unnatural base at the first or the second position of the anticodon of a suppressor tRNA, wherein said unnatural base comprises a 2-oxo-1H-pyridine-3-yl (y) group which may have a substituted group at position 5, a 2-oxo-1H-imidazole-3-yl (z) group, a 2-formyl- 1-1H-pyrrole-1-yl (Pa) group which may have a substituted group at position 4 or a 2-nitro-1H-pyrrole-1-yl (Pn) group which may have a substituted group at position 4; and
a mutant aminoacyl-tRNA synthetase which can aminoacylate the modified suppressor tRNA with a noncanonical amino acid(s) , and wherein said mutant aminoacyl-tRNA synthetase is:
a mutant aminoacyl-tRNA synthetase having the amino acid sequence of SEQ ID NO: 2 in which the glutamic acid at position 418 is replaced with aspartic acid, asparagine or glutamine;
a mutant aminoacyl-tRNA synthetase having the amino acid sequence of SEQ ID NO: 2 in which the glutamic acid at position 420 is replaced with aspartic acid, asparagine, glutamine, lysine or arginine;
a mutant aminoacyl-tRNA synthetase having the amino acid sequence of SEQ ID NO: 2 in which the glutamic acid at position 418 s replaced with aspartic acid, asparagine or glutamine, and the glutamic acid at position 420 is replaced with aspartic acid, asparagine or glutamine; or
a mutant aminoacyl-tRNA synthetase having the amino acid sequence of SEQ ID NO: 2 in which the glutamic acid at position 418 is replaced with asparagine, the glutamic acid at position 420 is replaced with asparagine and the threonine at position 423 is replaced with valine.