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Prediction of functional tertiary interactions and intermolecular interfaces from primary sequence data.
Pang PS, Jankowsky E, Wadley LM, Pyle AM. Pang PS, et al. Among authors: pyle am. J Exp Zool B Mol Dev Evol. 2005 Jan 15;304(1):50-63. doi: 10.1002/jez.b.21024. J Exp Zool B Mol Dev Evol. 2005. PMID: 15595717
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
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
Branch-site selection in a group II intron mediated by active recognition of the adenine amino group and steric exclusion of non-adenine functionalities.
Liu Q, Green JB, Khodadadi A, Haeberli P, Beigelman L, Pyle AM. Liu Q, et al. Among authors: pyle am. J Mol Biol. 1997 Mar 21;267(1):163-71. doi: 10.1006/jmbi.1996.0845. J Mol Biol. 1997. PMID: 9096215
Group II intron ribozymes that cleave DNA and RNA linkages with similar efficiency, and lack contacts with substrate 2'-hydroxyl groups.
Griffin EA Jr, Qin Z, Michels WJ Jr, Pyle AM. Griffin EA Jr, et al. Among authors: pyle am. Chem Biol. 1995 Nov;2(11):761-70. doi: 10.1016/1074-5521(95)90104-3. Chem Biol. 1995. PMID: 9383483
Sequence specificity of a group II intron ribozyme: multiple mechanisms for promoting unusually high discrimination against mismatched targets.
Xiang Q, Qin PZ, Michels WJ, Freeland K, Pyle AM. Xiang Q, et al. Among authors: pyle am. Biochemistry. 1998 Mar 17;37(11):3839-49. doi: 10.1021/bi972661n. Biochemistry. 1998. PMID: 9521704
Ribozyme catalysis from the major groove of group II intron domain 5.
Konforti BB, Abramovitz DL, Duarte CM, Karpeisky A, Beigelman L, Pyle AM. Konforti BB, et al. Among authors: pyle am. Mol Cell. 1998 Feb;1(3):433-41. doi: 10.1016/s1097-2765(00)80043-x. Mol Cell. 1998. PMID: 9660927
Defining functional groups, core structural features and inter-domain tertiary contacts essential for group II intron self-splicing: a NAIM analysis.
Boudvillain M, Pyle AM. Boudvillain M, et al. Among authors: pyle am. EMBO J. 1998 Dec 1;17(23):7091-104. doi: 10.1093/emboj/17.23.7091. EMBO J. 1998. PMID: 9843513 Free PMC article.
A map of the binding site for catalytic domain 5 in the core of a group II intron ribozyme.
Konforti BB, Liu Q, Pyle AM. Konforti BB, et al. Among authors: pyle am. EMBO J. 1998 Dec 1;17(23):7105-17. doi: 10.1093/emboj/17.23.7105. EMBO J. 1998. PMID: 9843514 Free PMC article.
Stepping through an RNA structure: A novel approach to conformational analysis.
Duarte CM, Pyle AM. Duarte CM, et al. Among authors: pyle am. J Mol Biol. 1998 Dec 18;284(5):1465-78. doi: 10.1006/jmbi.1998.2233. J Mol Biol. 1998. PMID: 9878364
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