The Ryu Laboratory

Refereed publications

• Guedez, A.; Sherman, M.; Ryu, Y. "Dual genetic selection of the theophylline riboswitch with altered aptamer specificity for caffeine", Biochem. Biophys. Res. Commun. 2021, 579, 105 

• Bernal-Perez, L. F.; Ryu, Y. "Sequence-specific cleavage of initiating methionie and RimJ-catalyzed N-terminal acetylation of the Z-domain in Escherichia coli", Adv. Biosci. Biotech. 2015, 6, 182  

• Budhathoki, P.; Bernal-Perez, L. F.; Annunziata, O.; Ryu, Y. "Rationally-designed fluorescent lysine riboswich probes", Org. Biomol. Chem. DOI:10.1039/C2OB26160J.

• Bernal-Perez, L. F.; Prokai, L.; Ryu, Y. "Selective N-terminal fluorescent labeling of proteins: a method to distinguish protein N-terminal acetylation", Anal. Biochem. 2012, 428, 13-15.

• Bernal-Perez, L. F.; Sahyouni, F.; Prokai, L.; Ryu, Y. "RimJ-mediated context-dependent N-terminal acetylation of the recombinant Z-domain protein in Escherichia coli", Mol. BioSyst. 2012, 8, 1128.

• Cellitti, S. E.; Jones, D. H.; Lagpacan, L.; Hao, X.; Zhang, Q.; Hu, H.; Brittain, S. M.; Brinker, A.; Caldwell, J.; Bursulaya, B., Spraggon, G.; Brock, A.; Ryu, Y.; Uno, T.; Schultz, P. G.; Geierstanger, B. H. “In vivo Incorporation of Unnatural Amino Acids to Probe Structure, Dynamics, and Ligand Binding in a Large Protein by Nuclear Magnetic Resonance Spectroscopy”, J. Am. Chem. Soc. 2008, 130, 9268.

• Schultz, K. C.; Supekova, L.; Ryu, Y.; Xie, J.; Perera, R.; Schultz, P.G. “A genetically encoded infrared probe”, J. Am. Chem. Soc. 2006, 128, 13984.

• Ryu, Y.; Schultz, P. G. “Efficient incorporation of unnatural amino acids into proteins in Escherichia coli”, Nat. Methods 2006, 3, 263.

• Deiters, A., Groff, D., Ryu, Y., Xie, J., Schultz, P.G. “A genetically encoded photocaged tyrosine” Angew. Chem. Int. Ed. 2006, 45, 2728.

• Taso, M.-L.; Summerer, D.; Ryu, Y.; Schultz. P.G. “The genetic incorporation of a distance probe into proteins in Escherichia coli”, J. Am. Chem. Soc. 2006, 128, 4572.

• Ryu, Y.; Kim, K.-J.; Roessner, C. A.; Scott, A. I. “Decarboxylative Claisen condensation catalyzed by in vitro selected ribozymes”, Chem. Commun. 2006, 1439.

• Ryu, Y.; Scott, A. I. “Efficient one step syntheses of isoprenoid conjugates of nucleoside 5’-diphosphate”, Org. Lett.  2003, 5, 4713.

• Ryu, Y.; Scott, A. I. “Self-condensation of activated malonic acid half esters: a model for the decarboxylative Claisen condensation in polyketide biosynthesis” Tetrahedron Lett. 2003, 44, 7499.

• Chung, S. K.; Zhao, L. M.; Ryu, Y. “Synthesis of DL-6-O-(2-aminoethyl-1-phosphono)-myo-inositol-1,3,4,5-tetrakisphosphate as a precursor of affinity material for I(1,3,4,5)P₄ binding proteins” Bull. Korean. Chem. Soc.1999, 20, 846.

• Kim, G.; Kang, S.; Ryu, Y., Geum, G.; Seo, M. J. “A Pd-catalyzed double coupling reaction to 4, 5-disubstituted imidazole alkynes” Synth. Comm. 1999, 29, 507.

• Kim, G.; Ryu, Y. “A new route to a key chiral intermediate of thienamycin from trans-ethyl crotonate”  Bull. Korean Chem. Soc. 1996, 17, 493.

• Chung, S. K.; Chang, Y. T.; Ryu, Y. “A divergent approach toward synthesis of myo-inositol phosphates: acyl migration and regioselectivity” Pure Appl. Chem. 1996, 68, 931.

• Lee, S. J.; Cho, S. J.; Oh, K. S.; Cui, C.; Ryu, Y.; Chang, Y. T.; Kim, K. S.; Chung, S. K. “Ab initio conformational study of 1,2:4,5-Di-O-isopropylidene-myo-inositol” J. Phys. Chem. 1996, 100, 10111.

• Ryu, Y.; Kim, G. “A practical and divergent way to trihydroxylated pyrrolidine derivatives as potential glycosidase inhibitors via stereoselective intermolecular cis-amidoalkylations” J. Org. Chem. 1995, 60, 103.

• Chung, S. K.; Ryu, Y. “Regioselective functionalizations and conformational studies of the di-O-isopropylidene-myo-inositol derivatives” Carbohydr. Res. 1994, 258, 145.

• Chung, S. K.; Ryu, Y.; Chang, Y. T.; Whang, D.; Kim, K. “Crystal structures of 1,2:4,5-di-O-isopropylidene-myo-inositol and 1,2:5,6-di-O-isopropylidene-myo-inositol: a conformational analysis” Carbohydr. Res. 1994, 253, 13.

• Chung, S. K.; Moon, S. H.; Ryu, Y. “Synthesis of D-Mannose-1,4,6-trisphosphate as an analogue of L-myo-inositiol-1,4,5-trisphosphate” Kor. J. Med. Chem.1992, 2, 131.

• Chung, S. K.; Ryu, Y.; Chang, Y. T.; Moon, S. H. “Synthesis of myo-inositol-1,4,5-trisphosphate and myo-inositol-1,4-bisphosphate” Kor. J. Med. Chem. 1992, 2, 33.

 

Patents

• Cellitti, S.; Jones, D.; Ryu, Y.; Schultz, P.G.; Geierstanger, B.H. "Methods and compositions for the site-selective incorporation of fluorinated amino acids into polypeptide" US Patent Application in draft

• Ryu, Y.; Schultz, P.G. “Systems for the expression of orthogonal translation components in eubacterial host cells” US Patent Application: 54-0017100US