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RNA structure comparison, motif search and discovery using a reduced representation of RNA conformational space.
Duarte CM, Wadley LM, Pyle AM. Duarte CM, et al. Among authors: pyle am. Nucleic Acids Res. 2003 Aug 15;31(16):4755-61. doi: 10.1093/nar/gkg682. Nucleic Acids Res. 2003. PMID: 12907716 Free PMC article.
High resolution footprinting of EcoRI and distamycin with Rh(phi)2(bpy)3+, a new photofootprinting reagent.
Uchida K, Pyle AM, Morii T, Barton JK. Uchida K, et al. Among authors: pyle am. Nucleic Acids Res. 1989 Dec 25;17(24):10259-79. doi: 10.1093/nar/17.24.10259. Nucleic Acids Res. 1989. PMID: 2602152 Free PMC article.
Branch-point attack in group II introns is a highly reversible transesterification, providing a potential proofreading mechanism for 5'-splice site selection.
Chin K, Pyle AM. Chin K, et al. Among authors: pyle am. RNA. 1995 Jun;1(4):391-406. RNA. 1995. PMID: 7493317 Free PMC article.
RNA folding.
Pyle AM, Green JB. Pyle AM, et al. Curr Opin Struct Biol. 1995 Jun;5(3):303-10. doi: 10.1016/0959-440x(95)80091-3. Curr Opin Struct Biol. 1995. PMID: 7583628 Review.
Ribozymes: a distinct class of metalloenzymes.
Pyle AM. Pyle AM. Science. 1993 Aug 6;261(5122):709-14. doi: 10.1126/science.7688142. Science. 1993. PMID: 7688142 Review.
Building a kinetic framework for group II intron ribozyme activity: quantitation of interdomain binding and reaction rate.
Pyle AM, Green JB. Pyle AM, et al. Biochemistry. 1994 Mar 8;33(9):2716-25. doi: 10.1021/bi00175a047. Biochemistry. 1994. PMID: 8117737
Catalytic role of 2'-hydroxyl groups within a group II intron active site.
Abramovitz DL, Friedman RA, Pyle AM. Abramovitz DL, et al. Among authors: pyle am. Science. 1996 Mar 8;271(5254):1410-3. doi: 10.1126/science.271.5254.1410. Science. 1996. PMID: 8596912
Two competing pathways for self-splicing by group II introns: a quantitative analysis of in vitro reaction rates and products.
Daniels DL, Michels WJ Jr, Pyle AM. Daniels DL, et al. Among authors: pyle am. J Mol Biol. 1996 Feb 16;256(1):31-49. doi: 10.1006/jmbi.1996.0066. J Mol Biol. 1996. PMID: 8609612
Role of metal ions in ribozymes.
Pyle AM. Pyle AM. Met Ions Biol Syst. 1996;32:479-520. Met Ions Biol Syst. 1996. PMID: 8640529 Review. No abstract available.
Remarkable morphological variability of a common RNA folding motif: the GNRA tetraloop-receptor interaction.
Abramovitz DL, Pyle AM. Abramovitz DL, et al. Among authors: pyle am. J Mol Biol. 1997 Feb 28;266(3):493-506. doi: 10.1006/jmbi.1996.0810. J Mol Biol. 1997. PMID: 9067606
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