Paul F. Agris

Human tRNALys3UUU Is Pre-Structured by Natural Modifications for Cognate and Wobble Codon Binding through Keto–Enol Tautomerism

Vendeix, F. A. P., Murphy, F. V., Cantara, W. A., Leszczyńska, G., Gustilo, E. M., Sproat, B., … Agris, P. F. (2011, December 29). Journal of Molecular Biology.

YrdC exhibits properties expected of a subunit for a tRNA threonylcarbamoyl transferase

RNA, 17(9), 1678–1687.

Binding of aminoglycoside antibiotics to helix 69 of 23S rRNA

Nucleic Acids Research, 38(9), 3094–3105.

Free energy calculation of modified base-pair formation in explicit solvent: A predictive model

Vendeix, F. A. P., Munoz, A. M., & Agris, P. F. (2009, October 27). RNA.

The structure of the human tRNALys3 anticodon bound to the HIV genome is stabilized by modified nucleosides and adjacent mismatch base pairs

Bilbille, Y., Vendeix, F. A. P., Guenther, R., Malkiewicz, A., Ariza, X., Vilarrasa, J., & Agris, P. F. (2009, March 26). Nucleic Acids Research.

A Disease-causing Point Mutation in Human Mitochondrial tRNAMet Results in tRNA Misfolding Leading to Defects in Translational Initiation and Elongation

Jones, C. N., Jones, C. I., Graham, W. D., Agris, P. F., & Spremulli, L. L. (2008, October 4). Journal of Biological Chemistry.

Anticodon Domain Modifications Contribute Order to tRNA for Ribosome-Mediated Codon Binding

Vendeix, F. A. P., Dziergowska, A., Gustilo, E. M., Graham, W. D., Sproat, B., Malkiewicz, A., & Agris, P. F. (2008, May 13). Biochemistry.

Bringing order to translation: the contributions of transfer RNA anticodon‐domain modifications

Agris, P. F. (2008, June 13). EMBO Reports.

Synthesis and investigation of the 5-formylcytidine modified, anticodon stem and loop of the human mitochondrial tRNAMet

Lusic, H., Gustilo, E. M., Vendeix, F. A. P., Kaiser, R., Delaney, M. O., Graham, W. D., … Deiters, A. (2008, October 16). Nucleic Acids Research.

tRNA's modifications bring order to gene expression

[Review of ]. Current Opinion in Microbiology, 11(2), 134–140.

E. coliGlutamyl-tRNA Synthetase is Inhibited by Anticodon Stem-Loop Domains and a Minihelix

Gustilo, E. M., Dubois, D., Lapointe, J., Dubois, D., & Agris, P. (2007, April 1). RNA Biology.

Mechanism for expanding the decoding capacity of transfer RNAs by modification of uridines

Weixlbaumer, A., Murphy, F. V., Dziergowska, A., Malkiewicz, A., Vendeix, F. A. P., Agris, P. F., & Ramakrishnan, V. (2007, May 13). Nature Structural & Molecular Biology.

Quality assessment of commercial small interfering RNA and DNA: Monoclonal antibodies and a high-throughput chemiluminescence assay

Analytical Biochemistry, 360(1), 172–174.

Specificity of Phage Display Selected Peptides for Modified Anticodon Stem and Loop Domains of tRNA

Eshete, M., Marchbank, M. T., Deutscher, S. L., Sproat, B., Leszczynska, G., Malkiewicz, A., & Agris, P. F. (2007, January 1). The Protein Journal.

tRNA's wobble decoding of the genome: 40 years of modification

[Review of ]. Journal of Molecular Biology, 366(1), 1–13.

A Counterintuitive Mg2+-dependent and Modification-assisted Functional Folding of Mitochondrial tRNAs

Jones, C. I., Spencer, A. C., Hsu, J. L., Spremulli, L. L., Martinis, S. A., DeRider, M., & Agris, P. F. (2006, August 1). Journal of Molecular Biology.

Assembly of the Archaeal Box C/D sRNP Can Occur via Alternative Pathways and Requires Temperature-facilitated sRNA Remodeling

Gagnon, K. T., Zhang, X., Agris, P. F., & Maxwell, E. S. (2006, August 7). Journal of Molecular Biology.

Assessing incomplete deprotection of microarray oligonucleotides in situ

Nucleic Acids Research, 34(19).

tRNA regulation of gene expression: Interactions of an mRNA 5′-UTR with a regulatory tRNA

Nelson, A. R., Henkin, T. M., & Agris, P. F. (2006, June 1). RNA.

Antibacterial and antiviral agents and methods of screening for the same

Washington, DC: U.S. Patent and Trademark Office.

Methods and compositions for determining the purity of chemically synthesized nucleic acids

Washington, DC: U.S. Patent and Trademark Office.

Decoding the genome: a modified view

Agris, P. F. (2004, January 2). Nucleic Acids Research.

Modified Nucleotides in tRNALys and tRNAVal are Important for Translocation

Phelps, S. S., Malkiewicz, A., Agris, P. F., & Joseph, S. (2004, March 24). Journal of Molecular Biology.

Sequence-Altered Peptide Adopts Optimum Conformation for Modification-Dependent Binding of the Yeast tRNAPhe Anticodon Domain

Mucha, P., Szyk, A., Rekowski, P., & Agris, P. F. (2004, January 1). The Protein Journal.

Structural characterization of an intermolecular RNA-RNA interaction involved in the transcription regulation element of a bipartite plant virus

Guenther, R. H., Sit, T., Gracz, H. S., Dolan, M. A., Townsend, H. L., Liu, G. H., … Lommel, S. A. (2004, May 17). Nucleic Acids Research, Vol. 32, pp. 2819–2828.

The role of modifications in codon discrimination by tRNALysUUU

Murphy, F. V., Ramakrishnan, V., Malkiewicz, A., & Agris, P. F. (2004, November 21). Nature Structural & Molecular Biology.

Naturally-occurring Modification Restricts the Anticodon Domain Conformational Space of tRNA Phe

Stuart, J. W., Koshlap, K. M., Guenther, R., & Agris, P. F. (2003, December 1). Journal of Molecular Biology.

Using capillary electrophoresis to study methylation effect on RNA-peptide interaction

Acta Biochimica Polonica, 50(3), 857–864.

Accurate Translation of the Genetic Code Depends on tRNA Modified Nucleosides

Yarian, C., Townsend, H., Czestkowski, W., Sochacka, E., Malkiewicz, A. J., Guenther, R., … Agris, P. F. (2002, May 1). Journal of Biological Chemistry.

Highly conserved modified nucleosides influence Mg2+-dependent tRNA folding

Nobles, K. N. (2002, October 30). Nucleic Acids Research.

Identification and Quantification of Protecting Groups Remaining in Commercial Oligonucleotide Products Using Monoclonal Antibodies

Fu, C., Smith, S., Simkins, S. G., & Agris, P. F. (2002, July 1). Analytical Biochemistry.

Interaction of RNA with phage display selected peptides analyzed by capillary electrophoresis mobility shift assay

MUCHA, P. I. O. T. R., SZYK, A. G. N. I. E. S. Z. K. A., REKOWSKI, P. I. O. T. R., GUENTHER, R. I. C. H. A. R. D., & AGRIS, P. A. U. L. F. (2002, May 1). RNA.

QC in antisense oligo synthesis

Anticodon Domain Methylated Nucleosides of Yeast tRNA^Phe Are Significant Recognition Determinants in the Binding of a Phage Display Selected Peptide

Mucha, P., Szyk, A., Rekowski, P., Weiss, P. A., & Agris, P. F. (2001, November 1). Biochemistry.

Functional Anticodon Architecture of Human tRNA^Lys3 Includes Disruption of Intraloop Hydrogen Bonding by the Naturally Occurring Amino Acid Modification, t⁶A

Stuart, J. W., Gdaniec, Z., Guenther, R., Marszalek, M., Sochacka, E., Malkiewicz, A., & Agris, P. F. (2000, October 10). Biochemistry.

Modified Nucleoside Dependent Watson−Crick and Wobble Codon Binding by tRNA^Lys_UUU Species

Yarian, C., Marszalek, M., Sochacka, E., Malkiewicz, A., Guenther, R., Miskiewicz, A., & Agris, P. F. (2000, October 10). Biochemistry.

Modified constructs of the tRNA TPsiC domain to probe substrate conformational requirements of m1A58 and m5U54 tRNA methyltransferases

Sengupta, R. (2000, March 15). Nucleic Acids Research.

Role of Modified Nucleosides of Yeast tRNA^Phe in Ribosomal Binding

Ashraf, S. S., Guenther, R. H., Ansari, G., Malkiewicz, A., Sochacka, E., & Agris, P. F. (2000, January 1). Cell Biochemistry and Biophysics.

Synthesis and Properties of Uniquely Modified Oligoribonucleotides: Yeast Trna^PheFragments with 6-Methyluridine and 5,6-Dimethyluridine at Site-Specific Positions

Sochacka, E., Czerwinska, G., Guenther, R., Cain, R., Agris, P. F., & Malkiewicz, A. (2000, March 1). Nucleosides Nucleotides & Nucleic Acids.

A Distinctive RNA Fold:  The Solution Structure of an Analogue of the Yeast tRNA^Phe TΨC Domain^,

Koshlap, K. M., Guenther, R., Sochacka, E., Malkiewicz, A., & Agris, P. F. (1999, June 16). Biochemistry.

Antibacterial agents and methods of screening for the same

Washington, DC: U.S. Patent and Trademark Office.

Experimental Models of Protein–RNA Interaction: Isolation and Analyses of tRNAPhe and U1 snRNA-Binding Peptides from Bacteriophage Display Libraries

Agris, P. F., Marchbank, M. T., Newman, W., Guenther, R., Ingram, P., Swallow, J., … Deutscher, S. L. (1999, May 1). Journal of Protein Chemistry.

Orientation of the tRNA anticodon in the ribosomal P-site: Quantitative footprinting with U33-modified, anticodon stem and loop domains

ASHRAF, S. S. A. L. M. A. N., GUENTHER, R. I. C. H. A. R. D., & AGRIS, P. A. U. L. F. (1999, September 1). RNA.

Single atom modification (O → S) of tRNA confers ribosome binding

ASHRAF, S. S. A. L. M. A. N., SOCHACKA, E. L. Z. B. I. E. T. A., CAIN, R. O. B. E. R. T., GUENTHER, R. I. C. H. A. R. D., MALKIEWICZ, A. N. D. R. Z. E. J., & AGRIS, P. A. U. L. F. (1999, February 1). RNA.

Structural and functional roles of the N1- and N3-protons of   at tRNA's position 39

Yarian, C. S., Basti, M. M., Cain, R. J., Ansari, G., Guenther, R. H., Sochacka, E., … Agris, P. F. (1999, September 1). Nucleic Acids Research.

The uridine in “U-turn”: Contributions to tRNA-ribosomal binding

ASHRAF, S. S. A. L. M. A. N., ANSARI, G. H. A. Z. A. L. A., GUENTHER, R. I. C. H. A. R. D., SOCHACKA, E. L. Z. B. I. E. T. A., MALKIEWICZ, A. N. D. R. Z. E. J., & AGRIS, P. A. U. L. F. (1999, April 1). RNA.

Thermodynamic contribution of nucleoside modifications to yeast tRNA(Phe) anticodon stem loop analogs

Acta Biochimica Polonica, 46(1), 163–172.

Modified RNAs as potential drug targets

Acta Biochimica Polonica, 45(1), 13–18.

Ribosomal binding of modified tRNA anticodons related to thermal stability

Symposium on RNA Biology II. RNA: Tool and Target (1997: North Carolina Biotechnology Center) Research Triangle Park, North Carolina, USA, October 17-19, 1997 (Nucleic acids symposium series; no. 36), 36, 58–60. Oxford: Oxford University Press.

Unconventional structure of tRNA(Lys)SUU anticodon explains tRNA's role in bacterial and mammalian ribosomal frameshifting and primer selection by HIV-1

RNA, 3(4), 420–428.