Sequence, structure, and stacking

References

• Breaker RR. Riboswitches and the RNA world. Cold Spring Harb Perspect Biol 2012; 4:4; http://dx.doi.org/10.1101/cshperspect.a003566; PMID: 21106649
   PubMed Web of Science ®Google Scholar
• Grundy FJ, Henkin TM. tRNA as a positive regulator of transcription antitermination in B. subtilis. Cell 1993; 74:475 - 82; http://dx.doi.org/10.1016/0092-8674(93)80049-K; PMID: 8348614
   PubMed Web of Science ®Google Scholar
• Henkin TM. tRNA-directed transcription antitermination. Mol Microbiol 1994; 13:381 - 7; http://dx.doi.org/10.1111/j.1365-2958.1994.tb00432.x; PMID: 7527891
   PubMed Web of Science ®Google Scholar
• Green NJ, Grundy FJ, Henkin TM. The T box mechanism: tRNA as a regulatory molecule. FEBS Lett 2010; 584:318 - 24; http://dx.doi.org/10.1016/j.febslet.2009.11.056; PMID: 19932103
   PubMed Web of Science ®Google Scholar
• Gutiérrez-Preciado A, Henkin TM, Grundy FJ, Yanofsky C, Merino E. Biochemical features and functional implications of the RNA-based T-box regulatory mechanism. Microbiol Mol Biol Rev 2009; 73:36 - 61; http://dx.doi.org/10.1128/MMBR.00026-08; PMID: 19258532
   PubMed Web of Science ®Google Scholar
• Vitreschak AG, Mironov AA, Lyubetsky VA, Gelfand MS. Comparative genomic analysis of T-box regulatory systems in bacteria. RNA 2008; 14:717 - 35; http://dx.doi.org/10.1261/rna.819308; PMID: 18359782
   PubMed Web of Science ®Google Scholar
• Grundy FJ, Hodil SE, Rollins SM, Henkin TM. Specificity of tRNA-mRNA interactions in Bacillus subtilis tyrS antitermination. J Bacteriol 1997; 179:2587 - 94; PMID: 9098057
   PubMed Web of Science ®Google Scholar
• Grundy FJ, Winkler WC, Henkin TM. tRNA-mediated transcription antitermination in vitro: codon-anticodon pairing independent of the ribosome. Proc Natl Acad Sci U S A 2002; 99:11121 - 6; http://dx.doi.org/10.1073/pnas.162366799; PMID: 12165569
   PubMed Web of Science ®Google Scholar
• Rollins SM, Grundy FJ, Henkin TM. Analysis of cis-acting sequence and structural elements required for antitermination of the Bacillus subtilis tyrS gene. Mol Microbiol 1997; 25:411 - 21; http://dx.doi.org/10.1046/j.1365-2958.1997.4851839.x; PMID: 9282752
   PubMed Web of Science ®Google Scholar
• Chang AT, Nikonowicz EP. Solution NMR determination of hydrogen bonding and base pairing between the glyQS T box riboswitch Specifier domain and the anticodon loop of tRNA LID - S0014-5793(13)00673-X [pii] LID - http://dx.doi.org/10.1016/j.febslet.2013.09.003 [doi]. 2013.
   Google Scholar
• Wang J, Henkin TM, Nikonowicz EP. NMR structure and dynamics of the Specifier Loop domain from the Bacillus subtilis tyrS T box leader RNA. Nucleic Acids Res 2010; 38:3388 - 98; http://dx.doi.org/10.1093/nar/gkq020; PMID: 20110252
   PubMed Web of Science ®Google Scholar
• Wang J, Nikonowicz EP. Solution structure of the K-turn and Specifier Loop domains from the Bacillus subtilis tyrS T-box leader RNA. J Mol Biol 2011; 408:99 - 117; http://dx.doi.org/10.1016/j.jmb.2011.02.014; PMID: 21333656
   PubMed Web of Science ®Google Scholar
• Grigg JC, Chen Y, Grundy FJ, Henkin TM, Pollack L, Ke A. T box RNA decodes both the information content and geometry of tRNA to affect gene expression. Proc Natl Acad Sci U S A 2013; 110:7240 - 5; http://dx.doi.org/10.1073/pnas.1222214110; PMID: 23589841
   PubMed Web of Science ®Google Scholar
• Grigg JC, Ke A. Structural determinants for geometry and information decoding of tRNA by T box leader RNA. Structure (London, England: 1993) 2013:In press.
   Google Scholar
• Lehmann J, Jossinet F, Gautheret D. A universal RNA structural motif docking the elbow of tRNA in the ribosome, RNAse P and T-box leaders. Nucleic Acids Res 2013; 41:5494 - 502; http://dx.doi.org/10.1093/nar/gkt219; PMID: 23580544
   PubMed Web of Science ®Google Scholar
• Zhang J, Ferré-D’Amaré AR. Co-crystal structure of a T-box riboswitch stem I domain in complex with its cognate tRNA. Nature 2013; 500:363 - 6; http://dx.doi.org/10.1038/nature12440; PMID: 23892783
   PubMed Web of Science ®Google Scholar
• Chan CW, Chetnani B, Mondragón A. Structure and function of the T-loop structural motif in noncoding RNAs. Wiley Interdiscip Rev RNA 2013; 4:507 - 22; http://dx.doi.org/10.1002/wrna.1175; PMID: 23754657
   PubMed Web of Science ®Google Scholar
• Krasilnikov AS, Xiao Y, Pan T, Mondragón A. Basis for structural diversity in homologous RNAs. Science 2004; 306:104 - 7; http://dx.doi.org/10.1126/science.1101489; PMID: 15459389
   PubMed Web of Science ®Google Scholar
• Reiter NJ, Osterman A, Torres-Larios A, Swinger KK, Pan T, Mondragón A. Structure of a bacterial ribonuclease P holoenzyme in complex with tRNA. Nature 2010; 468:784 - 9; http://dx.doi.org/10.1038/nature09516; PMID: 21076397
   PubMed Web of Science ®Google Scholar
• Selmer M, Dunham CM, Murphy FV 4th, Weixlbaumer A, Petry S, Kelley AC, Weir JR, Ramakrishnan V. Structure of the 70S ribosome complexed with mRNA and tRNA. Science 2006; 313:1935 - 42; http://dx.doi.org/10.1126/science.1131127; PMID: 16959973
   PubMed Web of Science ®Google Scholar
• Grundy FJ, Collins JA, Rollins SM, Henkin TM. tRNA determinants for transcription antitermination of the Bacillus subtilis tyrS gene. RNA 2000; 6:1131 - 41; http://dx.doi.org/10.1017/S1355838200992100; PMID: 10943892
   PubMed Web of Science ®Google Scholar
• Yousef MR, Grundy FJ, Henkin TM. tRNA requirements for glyQS antitermination: a new twist on tRNA. RNA 2003; 9:1148 - 56; http://dx.doi.org/10.1261/rna.5540203; PMID: 12923262
   PubMed Web of Science ®Google Scholar
• Yousef MR, Grundy FJ, Henkin TM. Structural transitions induced by the interaction between tRNA(Gly) and the Bacillus subtilis glyQS T box leader RNA. J Mol Biol 2005; 349:273 - 87; http://dx.doi.org/10.1016/j.jmb.2005.03.061; PMID: 15890195
   PubMed Web of Science ®Google Scholar
• Grundy FJ, Henkin TM. Kinetic analysis of tRNA-directed transcription antitermination of the Bacillus subtilis glyQS gene in vitro. J Bacteriol 2004; 186:5392 - 9; http://dx.doi.org/10.1128/JB.186.16.5392-5399.2004; PMID: 15292140
   PubMed Web of Science ®Google Scholar