Proteins are typically synthesized with 20 amino acids, yet over 300 amino acids are found in proteins as a result of posttranslational modifications (PTMs). These natural non-genetically encoded amino acids (ngeAAs) modulate protein function and control fundamental cellular processes. Malfunction in PTM pathways leads to numerous human diseases including cancer, neurological and developmental disorders. Satisfactory genetic encoding of ngeAAs requires the development of efficient and accurate aminoacyl-tRNA formation and delivery to the ribosome by design of tRNAs, tRNA synthetases, and elongation factors that constitute orthogonal translation systems (OTSs). While some ngeAAs have been genetically encoded (e.g., N-acetyl lysine, phosphoserine (Sep)), OTSs have not been established for a number of critical PTMs. The overall goal of this proposal is to rewire translation by developing OTSs in Escherichia coli and mammalian cells for facile and precise production of natural and engineered proteins containing naturally occurring ngeAAs. This technology is essential to define the role of ngeAAs in cells and how their malfunction can cause disease. These general goals will be realized in three specific areas of the proposed work. I) We plan to create aminoacyl-tRNA synthetases for efficient synthesis of ngeAA-tRNA for a series of phosphoamino acids and lysine derivatives. Given the critical role of phosphorylation in cell signaling and the success of kinase inhibitors against cancer cells, and based on our success establishing an OTS for phosphoserine, we propose to establish OTSs for additional phosphoamino acids and their non-hydrolyzable analogs. We will further endeavor to develop OTSs for newly discovered lysine analogs that play important roles in gene expression and metabolism. II) Selenium, in the form of selenocysteine (Sec), is an essential trace element for human health, and selenoprotein mutations have been implicated in cancer and in conditions affecting the muscular, nervous, immune and endocrine systems. Site-directed insertion of Sec in E. coli and mammalian cells will allow production of natural, mutant and custom designed selenoproteins. We will also investigate the role of defective Sec biosynthesis in two severe human genetic diseases. III) Translational quality control by the elongation factors EF-Tu, EF1A, and EF-Sec will be studied along side efforts to design elongation factor variants that will specifically recognize and enhance co-translational incorporation of ngeAAs. The proposed work is significant because the ability to produce, purify, biochemically and structurally characterize proteins containing ngeAAs at defined sites is essential for elucidation of fundamental cellular processes. The innovation of the proposed work is to genetically encode these biologically relevant ngeAAs, and provide broad access to facile and efficient OTSs for biochemical and biomedical researchers, which will help unravel the complex network of PTMs and their role in human health and disease.

Public Health Relevance

The unexpected diversity of aminoacyl-tRNA synthesis (processes that maintain the coding relationship between DNA and protein) opens previously inaccessible frontiers in the biology of translation and post- translational protein modifications, the malfunction of which is linked to several human diseases including cancer, neurodegenerative and metabolic disorders. The proposed projects aim to design new routes for aminoacyl-tRNA formation and create OTSs to site-specifically incorporate natural ngeAAs, which is relevant to human health because the ability to produce and biochemically characterize purified proteins containing ngeAAs at defined sites will allow elucidation of molecular mechanisms for basic cellular processes including apoptosis, gene expression, and cellular signaling networks in healthy and diseased human cells. These studies will ultimately provide valuable pharmacological targets and novel therapeutic interventions for a variety of human diseases including cancers and genetic disorders.

National Institute of Health (NIH)
National Institute of General Medical Sciences (NIGMS)
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Molecular Genetics A Study Section (MGA)
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Bender, Michael T
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Yale University
Schools of Medicine
New Haven
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Mukai, Takahito; Sevostyanova, Anastasia; Suzuki, Tateki et al. (2018) A Facile Method for Producing Selenocysteine-Containing Proteins. Angew Chem Int Ed Engl 57:7215-7219
Fu, Xian; Söll, Dieter; Sevostyanova, Anastasia (2018) Challenges of site-specific selenocysteine incorporation into proteins by Escherichia coli. RNA Biol 15:461-470
Umehara, Takuya; Kosono, Saori; Söll, Dieter et al. (2018) Lysine Acetylation Regulates Alanyl-tRNA Synthetase Activity in Escherichia coli. Genes (Basel) 9:
Kunjapur, Aditya M; Stork, Devon A; Kuru, Erkin et al. (2018) Engineering posttranslational proofreading to discriminate nonstandard amino acids. Proc Natl Acad Sci U S A 115:619-624
Mukai, Takahito; Sevostyanova, Anastasia; Suzuki, Tateki et al. (2018) [A facile method for producing selenocysteine-containing proteins]. Angew Chem Weinheim Bergstr Ger 130:7333-7337
Vargas-Rodriguez, Oscar; Englert, Markus; Merkuryev, Anna et al. (2018) Recoding of the selenocysteine UGA codon by cysteine in the presence of a non-canonical tRNACys and elongation factor SelB. RNA Biol 15:471-479
Ho, Joanne M; Bakkalbasi, Erol; Söll, Dieter et al. (2018) Drugging tRNA aminoacylation. RNA Biol 15:667-677
Reynolds, Noah M; Vargas-Rodriguez, Oscar; Söll, Dieter et al. (2017) The central role of tRNA in genetic code expansion. Biochim Biophys Acta Gen Subj 1861:3001-3008
Gan, Qinglei; Fan, Chenguang (2017) Increasing the fidelity of noncanonical amino acid incorporation in cell-free protein synthesis. Biochim Biophys Acta Gen Subj 1861:3047-3052
Bryson, David I; Fan, Chenguang; Guo, Li-Tao et al. (2017) Continuous directed evolution of aminoacyl-tRNA synthetases. Nat Chem Biol 13:1253-1260

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