Publications 2012

Prat, L., Heinemann, I.U., Aerni, H.R., Rinehart, J., O’Donoghue, P. and Söll, D. (2012) Carbon source dependent expansion of the genetic code in bacteria. Proc. Natl. Acad. Sci. USA 109, 21070-21075. Abstract

O’Donoghue, P., Prat, L., Heinemann, I.U., Ling, J., Odoi, K., Huang, Y., Liu, W.R. and Söll, D. (2012) Near-cognate suppression of amber, opal and quadruplet codons competes with aminoacyl-tRNAPyl for genetic code expansion. FEBS Lett. 586, 3931-3937. Abstract

Ling, J., Cho, C., Guo, L-T., Aerni, H., Rinehart, J. and Söll, D. (2012) Protein aggregation caused by aminoglycoside action is prevented by a hydrogen peroxide scavenger. Mol. Cell 48, 713-722. Abstract

Heinemann, I.U., Rovner, A.J., Aerni, H.R., Rogulina, S., Cheng, L., Olds, W., Fischer, J.T., Söll, D., Isaacs, F. and Rinehart, J. (2012) Enhanced phosphoserine insertion during Escherichia coli protein synthesis via partial UAG codon reassignment and release factor 1 deletion. FEBS Lett. 586, 3716-3722. Abstract

Liu, Y., Zhu, X., Nakamura, A., Orlando, R., Söll, D. and Whitman, W.B. (2012) Biosynthesis of 4-thiouridine in tRNA in the methanogenic archaeon Methanococcus maripaludis. J. Biol. Chem. 287, 36683-36692. Abstract

Englert, M., Xia, S-L., Okada, C., Nakamura, A., Tanavde, V., Yao, M., Eom, S.H., Konigsberg, W.H., Söll, D. and Wang, J. (2012) Structural and mechanistic insights into guanylylation of RNA-splicing ligase RtcB joining RNA between 3’-terminal phosphate and 5’-hydroxyl. Proc. Natl. Acad. Sci. USA 109, 15235-15240. Abstract

Ling, J., Peterson, K.M., Simonovic, I., Söll, D. and Simonovic, M. (2012) The mechanism of pre-transfer editing in yeast mitochondrial threonyl-tRNA synthetase. J. Biol. Chem. 287, 28518-28525. Abstract

Guo, L-T., Helgadottir, S., Söll, D. and Ling, J. (2012) Rational design and directed evolution of a bacterial-type glutaminyl-tRNA synthetase precursor. Nucl. Acids Res. 40, 7967-7974. Abstract

Saha, R., Dasgupta, S., Banerjee, R., Mitra-Bhattacharyya, A., Söll, D., Basu, G. and Roy, S. (2012) A loop spanning distant domains of glutaminyl-tRNA synthetase stabilizes a molten globule state: Implication for evolution of amino acid specificity. Biochemistry 51, 4429-4437. Abstract

Umehara, T., Kim, J., Lee, S., Guo, L-T., Söll, D. and Park, H.-S. (2012) N-acetyl lysyl-tRNA synthetases evolved by a CcdB-based selection possess N-acetyl lysine specificity in vitro and in vivo. FEBS Lett. 586, 729-733. Abstract

Ling, J., Peterson, K.M., Simonovic, I., Cho, C., Söll, D. and Simonovic, M. (2012) Yeast mitochondrial threonyl-tRNA synthetase recognizes tRNA isoacceptors by distinct mechanisms and promotes CUN codon reassignment. Proc. Natl. Acad. Sci. USA 109, 3281-3286. Abstract

Su, D., Ojo, T.T., Söll, D. and Hohn, M.J. (2012) Selenomodification of tRNA in archaea requires a bipartite rhodanese enzyme. FEBS Lett. 586, 717-721. Abstract

Liu, Y., Dos Santos, P.C., Zhu, X., Orlando, R., Dean, D.R., Söll, D. and Yuan, J. (2012) The catalytic mechanism of Sep-tRNA:Cys-tRNA synthase: sulfur transfer is mediated by disulfide and persulfide. J. Biol. Chem. 287, 5426-5433. Abstract

Helgadottir, S., Sinapah, S., Söll, D. and Ling, J. (2012) Mutational analysis of Sep-tRNA:Cys-tRNA synthase reveal critical residues for tRNA-dependent cysteine formation. FEBS Lett. 560, 60-63. Abstract

Heinemann, I. U., Nakamura, A., O’Donoghue, P., Eiler, D. and Söll, D. (2012) tRNAHis-guanylyltransferase establishes tRNAHis identity. Nucl. Acids Res. 40, 333-344. Abstract