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Robert Todd Batey, Ph.D. - Publications

2001- Chemistry and Biochemistry University of Colorado, Boulder, Boulder, CO, United States 
Molecular Biophysics, Nucleic Acids, Structural Biology

86 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Nakamoto MY, Lammer NC, Batey RT, Wuttke DS. hnRNPK recognition of the B motif of Xist and other biological RNAs. Nucleic Acids Research. PMID 32813011 DOI: 10.1093/Nar/Gkaa677  0.56
2020 Iwasaki RS, Batey RT. SPRINT: a Cas13a-based platform for detection of small molecules. Nucleic Acids Research. PMID 32797156 DOI: 10.1093/Nar/Gkaa673  1
2020 Matyjasik MM, Hall SD, Batey RT. High Affinity Binding of N2-Modified Guanine Derivatives Significantly Disrupts the Ligand Binding Pocket of the Guanine Riboswitch. Molecules (Basel, Switzerland). 25. PMID 32414072 DOI: 10.3390/Molecules25102295  0.64
2020 Carter AC, Xu J, Nakamoto MY, Wei Y, Zarnegar BJ, Shi Q, Broughton JP, Ransom RC, Salhotra A, Nagaraja SD, Li R, Dou DR, Yost KE, Cho SW, Mistry A, ... ... Batey RT, et al. Spen links RNA-mediated endogenous retrovirus silencing and X chromosome inactivation. Elife. 9. PMID 32379046 DOI: 10.7554/Elife.54508  0.56
2020 Holmes ZE, Hamilton DJ, Hwang T, Parsonnet NV, Rinn JL, Wuttke DS, Batey RT. The Sox2 transcription factor binds RNA. Nature Communications. 11: 1805. PMID 32286318 DOI: 10.1038/S41467-020-15571-8  0.56
2020 Iwasaki RS, Ozdilek BA, Garst AD, Choudhury A, Batey RT. Small molecule regulated sgRNAs enable control of genome editing in E. coli by Cas9. Nature Communications. 11: 1394. PMID 32170140 DOI: 10.1038/S41467-020-15226-8  1
2019 Matyjasik MM, Batey RT. Structural basis for 2'-deoxyguanosine recognition by the 2'-dG-II class of riboswitches. Nucleic Acids Research. PMID 31598729 DOI: 10.1093/Nar/Gkz839  0.64
2019 Parsonnet NV, Lammer NC, Holmes ZE, Batey RT, Wuttke DS. The glucocorticoid receptor DNA-binding domain recognizes RNA hairpin structures with high affinity. Nucleic Acids Research. PMID 31147715 DOI: 10.1093/Nar/Gkz486  0.56
2018 Vicens Q, Mondragón E, Reyes FE, Coish P, Aristoff P, Berman J, Kaur H, Kells KW, Wickens P, Wilson J, Gadwood RC, Schostarez HJ, Suto RK, Blount KF, Batey RT. Structure-activity relationship of flavin analogs that target the FMN riboswitch. Acs Chemical Biology. PMID 30107111 DOI: 10.2210/Pdb6Dn1/Pdb  0.8
2018 Braselmann E, Wierzba AJ, Polaski JT, Chromiński M, Holmes ZE, Hung ST, Batan D, Wheeler JR, Parker R, Jimenez R, Gryko D, Batey RT, Palmer AE. A multicolor riboswitch-based platform for imaging of RNA in live mammalian cells. Nature Chemical Biology. PMID 30061719 DOI: 10.1038/S41589-018-0103-7  0.56
2017 Ozdilek BA, Thompson VF, Ahmed NS, White CI, Batey RT, Schwartz JC. Intrinsically disordered RGG/RG domains mediate degenerate specificity in RNA binding. Nucleic Acids Research. PMID 28575444 DOI: 10.1093/Nar/Gkx460  0.64
2017 Miao Z, Adamiak RW, Antczak M, Batey RT, Becka AJ, Biesiada M, Boniecki MJ, Bujnicki J, Chen SJ, Cheng CY, Chou FC, Ferré-D'Amaré AR, Das R, Dawson WK, Feng D, et al. RNA-Puzzles Round III: 3D RNA structure prediction of five riboswitches and one ribozyme. Rna (New York, N.Y.). PMID 28138060 DOI: 10.1261/Rna.060368.116  0.96
2017 Porter EB, Polaski JT, Morck MM, Batey RT. Recurrent RNA motifs as scaffolds for genetically encodable small-molecule biosensors. Nature Chemical Biology. PMID 28092358 DOI: 10.1038/Nchembio.2278  0.4
2016 Batey RT, Kieft JS. Soaking Hexammine Cations into RNA Crystals to Obtain Derivatives for Phasing Diffraction Data. Methods in Molecular Biology (Clifton, N.J.). 1320: 219-32. PMID 26227046 DOI: 10.1007/978-1-4939-2763-0_14  1
2015 Wostenberg C, Ceres P, Polaski JT, Batey RT. A Highly Coupled Network of Tertiary Interactions in the SAM-I Riboswitch and Their Role in Regulatory Tuning. Journal of Molecular Biology. 427: 3473-90. PMID 26343759 DOI: 10.1016/J.Jmb.2015.07.027  1
2015 Trausch JJ, Marcano-Velázquez JG, Matyjasik MM, Batey RT. Metal Ion-Mediated Nucleobase Recognition by the ZTP Riboswitch. Chemistry & Biology. 22: 829-37. PMID 26144884 DOI: 10.1016/J.Chembiol.2015.06.007  1
2015 Batey RT. Riboswitches: still a lot of undiscovered country. Rna (New York, N.Y.). 21: 560-3. PMID 25780138 DOI: 10.1261/Rna.050765.115  1
2015 Trausch JJ, Batey RT. Design of modular "plug-and-play" expression platforms derived from natural riboswitches for engineering novel genetically encodable RNA regulatory devices. Methods in Enzymology. 550: 41-71. PMID 25605380 DOI: 10.1016/Bs.Mie.2014.10.031  1
2015 Marcano-Velázquez JG, Batey RT. Structure-guided mutational analysis of gene regulation by the Bacillus subtilis pbuE adenine-responsive riboswitch in a cellular context. The Journal of Biological Chemistry. 290: 4464-75. PMID 25550163 DOI: 10.1074/Jbc.M114.613497  1
2014 Holmstrom ED, Polaski JT, Batey RT, Nesbitt DJ. Single-molecule conformational dynamics of a biologically functional hydroxocobalamin riboswitch. Journal of the American Chemical Society. 136: 16832-43. PMID 25325398 DOI: 10.1021/Ja5076184  1
2014 Batey RT. Structural biology: Lariat lessons. Nature. 514: 173-4. PMID 25252981 DOI: 10.1038/Nature13754  1
2014 Trausch JJ, Xu Z, Edwards AL, Reyes FE, Ross PE, Knight R, Batey RT. Structural basis for diversity in the SAM clan of riboswitches. Proceedings of the National Academy of Sciences of the United States of America. 111: 6624-9. PMID 24753586 DOI: 10.1073/Pnas.1312918111  1
2014 Batey RT. Advances in methods for native expression and purification of RNA for structural studies. Current Opinion in Structural Biology. 26: 1-8. PMID 24607442 DOI: 10.1016/J.Sbi.2014.01.014  1
2014 Porter EB, Marcano-Velázquez JG, Batey RT. The purine riboswitch as a model system for exploring RNA biology and chemistry. Biochimica Et Biophysica Acta. 1839: 919-930. PMID 24590258 DOI: 10.1016/J.Bbagrm.2014.02.014  1
2014 Trausch JJ, Batey RT. A disconnect between high-affinity binding and efficient regulation by antifolates and purines in the tetrahydrofolate riboswitch. Chemistry & Biology. 21: 205-16. PMID 24388757 DOI: 10.1016/J.Chembiol.2013.11.012  1
2013 Ceres P, Trausch JJ, Batey RT. Engineering modular 'ON' RNA switches using biological components. Nucleic Acids Research. 41: 10449-61. PMID 23999097 DOI: 10.1093/Nar/Gkt787  1
2013 Ceres P, Garst AD, Marcano-Velázquez JG, Batey RT. Modularity of select riboswitch expression platforms enables facile engineering of novel genetic regulatory devices. Acs Synthetic Biology. 2: 463-72. PMID 23654267 DOI: 10.1021/Sb4000096  1
2013 Stoddard CD, Widmann J, Trausch JJ, Marcano-Velázquez JG, Knight R, Batey RT. Nucleotides adjacent to the ligand-binding pocket are linked to activity tuning in the purine riboswitch. Journal of Molecular Biology. 425: 1596-611. PMID 23485418 DOI: 10.1016/J.Jmb.2013.02.023  1
2012 Fiegland LR, Garst AD, Batey RT, Nesbitt DJ. Single-molecule studies of the lysine riboswitch reveal effector-dependent conformational dynamics of the aptamer domain. Biochemistry. 51: 9223-33. PMID 23067368 DOI: 10.1021/Bi3007753  1
2012 Johnson JE, Reyes FE, Polaski JT, Batey RT. B12 cofactors directly stabilize an mRNA regulatory switch. Nature. 492: 133-7. PMID 23064232 DOI: 10.1038/Nature11607  1
2012 Batey RT. Structure and mechanism of purine-binding riboswitches. Quarterly Reviews of Biophysics. 45: 345-81. PMID 22850604 DOI: 10.1017/S0033583512000078  1
2012 Garst AD, Porter EB, Batey RT. Insights into the regulatory landscape of the lysine riboswitch. Journal of Molecular Biology. 423: 17-33. PMID 22771573 DOI: 10.1016/J.Jmb.2012.06.038  1
2011 Batey RT. Recognition of S-adenosylmethionine by riboswitches. Wiley Interdisciplinary Reviews. Rna. 2: 299-311. PMID 21957011 DOI: 10.1002/Wrna.63  1
2011 Trausch JJ, Ceres P, Reyes FE, Batey RT. The structure of a tetrahydrofolate-sensing riboswitch reveals two ligand binding sites in a single aptamer. Structure (London, England : 1993). 19: 1413-23. PMID 21906956 DOI: 10.1016/J.Str.2011.06.019  1
2011 Vicens Q, Mondragón E, Batey RT. Molecular sensing by the aptamer domain of the FMN riboswitch: a general model for ligand binding by conformational selection. Nucleic Acids Research. 39: 8586-98. PMID 21745821 DOI: 10.1093/Nar/Gkr565  1
2011 Daldrop P, Reyes FE, Robinson DA, Hammond CM, Lilley DM, Batey RT, Brenk R. Novel ligands for a purine riboswitch discovered by RNA-ligand docking. Chemistry & Biology. 18: 324-35. PMID 21439477 DOI: 10.1016/J.Chembiol.2010.12.020  1
2011 Garst AD, Edwards AL, Batey RT. Riboswitches: structures and mechanisms. Cold Spring Harbor Perspectives in Biology. 3. PMID 20943759 DOI: 10.1101/Cshperspect.A003533  1
2010 Edwards AL, Reyes FE, Héroux A, Batey RT. Structural basis for recognition of S-adenosylhomocysteine by riboswitches. Rna (New York, N.Y.). 16: 2144-55. PMID 20864509 DOI: 10.1261/Rna.2341610  1
2010 Stoddard CD, Montange RK, Hennelly SP, Rambo RP, Sanbonmatsu KY, Batey RT. Free state conformational sampling of the SAM-I riboswitch aptamer domain. Structure (London, England : 1993). 18: 787-97. PMID 20637415 DOI: 10.1016/J.Str.2010.04.006  1
2010 Montange RK, Mondragón E, van Tyne D, Garst AD, Ceres P, Batey RT. Discrimination between closely related cellular metabolites by the SAM-I riboswitch. Journal of Molecular Biology. 396: 761-72. PMID 20006621 DOI: 10.1016/J.Jmb.2009.12.007  1
2009 Reyes FE, Garst AD, Batey RT. Strategies in RNA crystallography. Methods in Enzymology. 469: 119-39. PMID 20946787 DOI: 10.1016/S0076-6879(09)69006-6  1
2009 Gelinas AD, Paschini M, Reyes FE, Héroux A, Batey RT, Lundblad V, Wuttke DS. Telomere capping proteins are structurally related to RPA with an additional telomere-specific domain. Proceedings of the National Academy of Sciences of the United States of America. 106: 19298-303. PMID 19884503 DOI: 10.1073/Pnas.0909203106  1
2009 Vicens Q, Gooding AR, Duarte LF, Batey RT. Preparation of group I introns for biochemical studies and crystallization assays by native affinity purification. Plos One. 4: e6740. PMID 19710925 DOI: 10.1371/Journal.Pone.0006740  1
2009 Garst AD, Batey RT. A switch in time: detailing the life of a riboswitch. Biochimica Et Biophysica Acta. 1789: 584-91. PMID 19595806 DOI: 10.1016/J.Bbagrm.2009.06.004  1
2009 Gilbert SD, Reyes FE, Edwards AL, Batey RT. Adaptive ligand binding by the purine riboswitch in the recognition of guanine and adenine analogs. Structure (London, England : 1993). 17: 857-68. PMID 19523903 DOI: 10.1016/J.Str.2009.04.009  1
2009 Gilbert SD, Batey RT. Monitoring RNA-ligand interactions using isothermal titration calorimetry. Methods in Molecular Biology (Clifton, N.J.). 540: 97-114. PMID 19381555 DOI: 10.1007/978-1-59745-558-9_8  1
2009 Edwards AL, Garst AD, Batey RT. Determining structures of RNA aptamers and riboswitches by X-ray crystallography. Methods in Molecular Biology (Clifton, N.J.). 535: 135-63. PMID 19377976 DOI: 10.1007/978-1-59745-557-2_9  1
2009 Hardin JW, Reyes FE, Batey RT. Analysis of a critical interaction within the archaeal box C/D small ribonucleoprotein complex. The Journal of Biological Chemistry. 284: 15317-24. PMID 19336398 DOI: 10.1074/Jbc.M901368200  1
2009 Edwards AL, Batey RT. A structural basis for the recognition of 2'-deoxyguanosine by the purine riboswitch. Journal of Molecular Biology. 385: 938-48. PMID 19007790 DOI: 10.1016/J.Jmb.2008.10.074  1
2008 Garst AD, Héroux A, Rambo RP, Batey RT. Crystal structure of the lysine riboswitch regulatory mRNA element. The Journal of Biological Chemistry. 283: 22347-51. PMID 18593706 DOI: 10.1074/Jbc.C800120200  1
2008 Montange RK, Batey RT. Riboswitches: emerging themes in RNA structure and function. Annual Review of Biophysics. 37: 117-33. PMID 18573075 DOI: 10.1146/Annurev.Biophys.37.032807.130000  1
2008 Stoddard CD, Gilbert SD, Batey RT. Ligand-dependent folding of the three-way junction in the purine riboswitch. Rna (New York, N.Y.). 14: 675-84. PMID 18268025 DOI: 10.1261/Rna.736908  1
2008 Gilbert SD, Rambo RP, Van Tyne D, Batey RT. Structure of the SAM-II riboswitch bound to S-adenosylmethionine. Nature Structural & Molecular Biology. 15: 177-82. PMID 18204466 DOI: 10.1038/Nsmb.1371  1
2008 Vicens Q, Allen MA, Gilbert SD, Reznik B, Gooding AR, Batey RT. The Cech Symposium: a celebration of 25 years of ribozymes, 10 years of TERT, and 60 years of Tom. Rna (New York, N.Y.). 14: 397-403. PMID 18203922 DOI: 10.1261/Rna.910008  1
2007 Gilbert SD, Love CE, Edwards AL, Batey RT. Mutational analysis of the purine riboswitch aptamer domain. Biochemistry. 46: 13297-309. PMID 17960911 DOI: 10.1021/Bi700410G  1
2007 Keel AY, Rambo RP, Batey RT, Kieft JS. A general strategy to solve the phase problem in RNA crystallography. Structure (London, England : 1993). 15: 761-72. PMID 17637337 DOI: 10.1016/J.Str.2007.06.003  1
2007 Batey RT, Kieft JS. Improved native affinity purification of RNA. Rna (New York, N.Y.). 13: 1384-9. PMID 17548432 DOI: 10.1261/Rna.528007  1
2006 Gilbert SD, Montange RK, Stoddard CD, Batey RT. Structural studies of the purine and SAM binding riboswitches. Cold Spring Harbor Symposia On Quantitative Biology. 71: 259-68. PMID 17381305 DOI: 10.1101/Sqb.2006.71.015  1
2006 Stoddard CD, Batey RT. Mix-and-match riboswitches. Acs Chemical Biology. 1: 751-4. PMID 17240972 DOI: 10.1021/Cb600458W  1
2006 Gilbert SD, Mediatore SJ, Batey RT. Modified pyrimidines specifically bind the purine riboswitch. Journal of the American Chemical Society. 128: 14214-5. PMID 17076468 DOI: 10.1021/Ja063645T  1
2006 Hardin JW, Batey RT. The bipartite architecture of the sRNA in an archaeal box C/D complex is a primary determinant of specificity. Nucleic Acids Research. 34: 5039-51. PMID 16984968 DOI: 10.1093/Nar/Gkl644  1
2006 Gilbert SD, Batey RT. Riboswitches: fold and function. Chemistry & Biology. 13: 805-7. PMID 16931328 DOI: 10.1016/J.Chembiol.2006.08.002  1
2006 Montange RK, Batey RT. Structure of the S-adenosylmethionine riboswitch regulatory mRNA element. Nature. 441: 1172-5. PMID 16810258 DOI: 10.1038/Nature04819  1
2006 Batey RT. Structures of regulatory elements in mRNAs. Current Opinion in Structural Biology. 16: 299-306. PMID 16707260 DOI: 10.1016/J.Sbi.2006.05.001  1
2006 Gilbert SD, Stoddard CD, Wise SJ, Batey RT. Thermodynamic and kinetic characterization of ligand binding to the purine riboswitch aptamer domain. Journal of Molecular Biology. 359: 754-68. PMID 16650860 DOI: 10.1016/J.Jmb.2006.04.003  1
2005 Pleshe E, Truesdell J, Batey RT. Structure of a class II TrmH tRNA-modifying enzyme from Aquifex aeolicus. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 61: 722-8. PMID 16511140 DOI: 10.1107/S1744309105022980  1
2005 Gilbert SD, Batey RT. Riboswitches: natural SELEXion. Cellular and Molecular Life Sciences : Cmls. 62: 2401-4. PMID 16231083 DOI: 10.1007/S00018-005-5345-3  1
2004 Batey RT, Gilbert SD, Montange RK. Structure of a natural guanine-responsive riboswitch complexed with the metabolite hypoxanthine. Nature. 432: 411-5. PMID 15549109 DOI: 10.1038/Nature03037  1
2004 Doudna JA, Batey RT. Structural insights into the signal recognition particle. Annual Review of Biochemistry. 73: 539-57. PMID 15189152 DOI: 10.1146/Annurev.Biochem.73.011303.074048  1
2004 Kieft JS, Batey RT. A general method for rapid and nondenaturing purification of RNAs. Rna (New York, N.Y.). 10: 988-95. PMID 15146082 DOI: 10.1261/Rna.7040604  1
2004 Hardin JW, Batey RT. Curse of the hairpin loop. Structure (London, England : 1993). 12: 731-2. PMID 15130463 DOI: 10.1016/J.Str.2004.04.004  1
2003 Cochrane JC, Batey RT, Strobel SA. Quantitation of free energy profiles in RNA-ligand interactions by nucleotide analog interference mapping. Rna (New York, N.Y.). 9: 1282-9. PMID 13130142 DOI: 10.1261/Rna.5102803  1
2002 Batey RT, Doudna JA. Structural and energetic analysis of metal ions essential to SRP signal recognition domain assembly. Biochemistry. 41: 11703-10. PMID 12269812 DOI: 10.1021/Bi026163C  1
2001 Doherty EA, Batey RT, Masquida B, Doudna JA. A universal mode of helix packing in RNA. Nature Structural Biology. 8: 339-43. PMID 11276255 DOI: 10.1038/86221  1
2001 Lucast LJ, Batey RT, Doudna JA. Large-scale purification of a stable form of recombinant tobacco etch virus protease. Biotechniques. 30: 544-6, 548, 550 pass. PMID 11252791 DOI: 10.2144/01303St06  1
2001 Batey RT, Sagar MB, Doudna JA. Structural and energetic analysis of RNA recognition by a universally conserved protein from the signal recognition particle. Journal of Molecular Biology. 307: 229-46. PMID 11243816 DOI: 10.1006/Jmbi.2000.4454  1
2000 Batey RT, Rambo RP, Lucast L, Rha B, Doudna JA. Crystal structure of the ribonucleoprotein core of the signal recognition particle. Science (New York, N.Y.). 287: 1232-9. PMID 10678824 DOI: 10.1126/Science.287.5456.1232  1
1999 Batey RT, Rambo RP, Doudna JA. Tertiary Motifs in RNA Structure and Folding. Angewandte Chemie (International Ed. in English). 38: 2326-2343. PMID 10458781 DOI: 10.1002/(Sici)1521-3773(19990816)38:16<2326::Aid-Anie2326>3.0.Co;2-3  1
1998 Batey RT, Williamson JR. Effects of polyvalent cations on the folding of an rRNA three-way junction and binding of ribosomal protein S15. Rna (New York, N.Y.). 4: 984-97. PMID 9701289 DOI: 10.1017/S1355838298980426  1
1998 Batey RT, Doudna JA. The parallel universe of RNA folding. Nature Structural Biology. 5: 337-40. PMID 9586989 DOI: 10.1038/Nsb0598-337  1
1996 Batey RT, Cloutier N, Mao H, Williamson JR. Improved large scale culture of Methylophilus methylotrophus for 13C/15N labeling and random fractional deuteration of ribonucleotides. Nucleic Acids Research. 24: 4836-7. PMID 8972874 DOI: 10.1093/Nar/24.23.4836  1
1996 Batey RT, Williamson JR. Interaction of the Bacillus stearothermophilus ribosomal protein S15 with 16 S rRNA: II. Specificity determinants of RNA-protein recognition. Journal of Molecular Biology. 261: 550-67. PMID 8794876 DOI: 10.1006/Jmbi.1996.0482  1
1996 Batey RT, Williamson JR. Interaction of the Bacillus stearothermophilus ribosomal protein S15 with 16 S rRNA: I. Defining the minimal RNA site. Journal of Molecular Biology. 261: 536-49. PMID 8794875 DOI: 10.1006/Jmbi.1996.0481  1
1995 Batey RT, Battiste JL, Williamson JR. Preparation of isotopically enriched RNAs for heteronuclear NMR. Methods in Enzymology. 261: 300-22. PMID 8569501 DOI: 10.1016/S0076-6879(95)61015-4  1
1992 Batey RT, Inada M, Kujawinski E, Puglisi JD, Williamson JR. Preparation of isotopically labeled ribonucleotides for multidimensional NMR spectroscopy of RNA. Nucleic Acids Research. 20: 4515-23. PMID 1383928 DOI: 10.1093/Nar/20.17.4515  1
1991 Senear DF, Batey R. Comparison of operator-specific and nonspecific DNA binding of the lambda cI repressor: [KCl] and pH effects. Biochemistry. 30: 6677-88. PMID 1829636 DOI: 10.1021/Bi00241A007  0.52
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