| Year |
Citation |
Score |
| 2014 |
Kraemer-Chant CM, Heckman JE, Lambert D, Burke JM. Cobalt(III)hexaammine-dependent photocrosslinks in the hairpin ribozyme. Journal of Inorganic Biochemistry. 131: 87-98. PMID 24295878 DOI: 10.1016/J.Jinorgbio.2013.11.001 |
0.466 |
|
| 2012 |
Buskiewicz IA, Burke JM. Folding of the hammerhead ribozyme: pyrrolo-cytosine fluorescence separates core folding from global folding and reveals a pH-dependent conformational change. Rna (New York, N.Y.). 18: 434-48. PMID 22274955 DOI: 10.1261/Rna.030999.111 |
0.446 |
|
| 2008 |
Gaur S, Heckman JE, Burke JM. Mutational inhibition of ligation in the hairpin ribozyme: substitutions of conserved nucleobases A9 and A10 destabilize tertiary structure and selectively promote cleavage. Rna (New York, N.Y.). 14: 55-65. PMID 17998292 DOI: 10.1261/Rna.716108 |
0.495 |
|
| 2006 |
Lambert D, Heckman JE, Burke JM. Three conserved guanosines approach the reaction site in native and minimal hammerhead ribozymes. Biochemistry. 45: 7140-7. PMID 16752904 DOI: 10.1021/Bi052457X |
0.517 |
|
| 2006 |
Lambert D, Heckman JE, Burke JM. Cation-specific structural accommodation within a catalytic RNA. Biochemistry. 45: 829-38. PMID 16411759 DOI: 10.1021/Bi0513709 |
0.494 |
|
| 2005 |
Han J, Burke JM. Model for general acid-base catalysis by the hammerhead ribozyme: pH-activity relationships of G8 and G12 variants at the putative active site. Biochemistry. 44: 7864-70. PMID 15910000 DOI: 10.1021/Bi047941Z |
0.396 |
|
| 2005 |
Heckman JE, Lambert D, Burke JM. Photocrosslinking detects a compact, active structure of the hammerhead ribozyme. Biochemistry. 44: 4148-56. PMID 15766242 DOI: 10.1021/Bi047858B |
0.531 |
|
| 2005 |
Zhang Z, Burke JM. Inhibition of viral replication by ribozyme: mutational analysis of the site and mechanism of antiviral activity. Journal of Virology. 79: 3728-36. PMID 15731266 DOI: 10.1128/Jvi.79.6.3728-3736.2005 |
0.419 |
|
| 2004 |
Pinard R, Lambert D, Pothiawala G, Major F, Burke JM. Modifications and deletions of helices within the hairpin ribozyme-substrate complex: an active ribozyme lacking helix 1. Rna (New York, N.Y.). 10: 395-402. PMID 14970385 DOI: 10.1261/Rna.5650904 |
0.475 |
|
| 2003 |
Sargueil B, Hampel KJ, Lambert D, Burke JM. In vitro selection of second site revertants analysis of the hairpin ribozyme active site. The Journal of Biological Chemistry. 278: 52783-91. PMID 14555657 DOI: 10.1074/Jbc.M306703200 |
0.748 |
|
| 2003 |
Hampel KJ, Burke JM. Solvent protection of the hammerhead ribozyme in the ground state: evidence for a cation-assisted conformational change leading to catalysis. Biochemistry. 42: 4421-9. PMID 12693938 DOI: 10.1021/Bi020659C |
0.747 |
|
| 2002 |
Seyhan AA, Vitiello D, Shields MT, Burke JM. Ribozyme inhibition of alphavirus replication. The Journal of Biological Chemistry. 277: 25957-62. PMID 12006558 DOI: 10.1074/Jbc.M111360200 |
0.347 |
|
| 2001 |
Pinard R, Hampel KJ, Heckman JE, Lambert D, Chan PA, Major F, Burke JM. Functional involvement of G8 in the hairpin ribozyme cleavage mechanism. The Embo Journal. 20: 6434-42. PMID 11707414 DOI: 10.1093/Emboj/20.22.6434 |
0.733 |
|
| 2001 |
Hampel KJ, Pinard R, Burke JM. Catalytic and structural assays for the hairpin ribozyme. Methods in Enzymology. 341: 566-80. PMID 11582806 DOI: 10.1016/S0076-6879(01)41177-3 |
0.724 |
|
| 2001 |
Fay MJ, Walter NG, Burke JM. Identification of cis-acting elements involved in 3′-end formation of Saccharomyces cerevisiae 18S rRNA Rna. 7: 896-903. PMID 11421364 DOI: 10.1017/S1355838201010196 |
0.527 |
|
| 2001 |
Fay MJ, Walter NG, Burke JM. Imaging of single hairpin ribozymes in solution by atomic force microscopy. Rna (New York, N.Y.). 7: 887-95. PMID 11421363 DOI: 10.1017/S1355838201002473 |
0.646 |
|
| 2001 |
Walter NG, Chan PA, Hampel KJ, Millar DP, Burke JM. A base change in the catalytic core of the hairpin ribozyme perturbs function but not domain docking. Biochemistry. 40: 2580-7. PMID 11327881 DOI: 10.1021/Bi001609F |
0.802 |
|
| 2001 |
Burke JM. RNA is all you need Nature Structural Biology. 8: 382-384. PMID 11323706 DOI: 10.1038/87527 |
0.46 |
|
| 2001 |
Hampel KJ, Burke JM. A conformational change in the "loop E-like" motif of the hairpin ribozyme is coincidental with domain docking and is essential for catalysis. Biochemistry. 40: 3723-9. PMID 11297441 DOI: 10.1021/Bi0028385 |
0.771 |
|
| 2001 |
Hampel KJ, Burke JM. Time-resolved hydroxyl-radical footprinting of RNA using Fe(II)-EDTA. Methods (San Diego, Calif.). 23: 233-9. PMID 11243836 DOI: 10.1006/Meth.2000.1134 |
0.728 |
|
| 2001 |
Pinard R, Lambert D, Heckman JE, Esteban JA, Gundlach CW, Hampel KJ, Glick GD, Walter NG, Major F, Burke JM. The hairpin ribozyme substrate binding-domain: a highly constrained D-shaped conformation. Journal of Molecular Biology. 307: 51-65. PMID 11243803 DOI: 10.1006/Jmbi.2000.4472 |
0.782 |
|
| 2000 |
Sargueil B, McKenna J, Burke JM. Analysis of the functional role of a G·A sheared base pair by in vitro genetics Journal of Biological Chemistry. 275: 32157-32166. PMID 10906144 DOI: 10.1074/Jbc.M005591200 |
0.488 |
|
| 2000 |
Walter NG, Burke JM. Fluorescence assays to study structure, dynamics, and function of RNA and RNA-ligand complexes. Methods in Enzymology. 317: 409-40. PMID 10829293 DOI: 10.1016/S0076-6879(00)17027-2 |
0.622 |
|
| 2000 |
Vitiello D, Pecchia DB, Burke JM. Intracellular ribozyme-catalyzed trans-cleavage of RNA monitored by fluorescence resonance energy transfer. Rna (New York, N.Y.). 6: 628-37. PMID 10786853 DOI: 10.1017/S1355838200990964 |
0.435 |
|
| 2000 |
Walter NG, Yang N, Burke JM. Probing non-selective cation binding in the hairpin ribozyme with Tb(III). Journal of Molecular Biology. 298: 539-55. PMID 10772868 DOI: 10.1006/Jmbi.2000.3691 |
0.629 |
|
| 2000 |
Seyhan AA, Burke JM. Mg2+-independent hairpin ribozyme catalysis in hydrated RNA films Rna. 6: 189-198. PMID 10688358 DOI: 10.1017/S1355838200991441 |
0.458 |
|
| 1999 |
Pinard R, Lambert D, Walter NG, Heckman JE, Major F, Burke JM. Structural basis for the guanosine requirement of the hairpin ribozyme. Biochemistry. 38: 16035-9. PMID 10587425 DOI: 10.1021/Bi992024S |
0.656 |
|
| 1999 |
Porschke D, Burke JM, Walter NG. Global structure and flexibility of hairpin ribozymes with extended terminal helices. Journal of Molecular Biology. 289: 799-813. PMID 10369762 DOI: 10.1006/Jmbi.1999.2777 |
0.628 |
|
| 1999 |
Zu Putlitz J, Yu Q, Burke JM, Wands JR. Combinatorial screening and intracellular antiviral activity of hairpin ribozymes directed against hepatitis B virus Journal of Virology. 73: 5381-5387. PMID 10364285 DOI: 10.1128/Jvi.73.7.5381-5387.1999 |
0.361 |
|
| 1999 |
Walter NG, Burke JM, Millar DP. Stability of hairpin ribozyme tertiary structure is governed by the interdomain junction. Nature Structural Biology. 6: 544-9. PMID 10360357 DOI: 10.1038/9316 |
0.612 |
|
| 1999 |
Pinard R, Heckman JE, Burke JM. Alignment of the two domains of the hairpin ribozyme-substrate complex defined by interdomain photoaffinity crosslinking Journal of Molecular Biology. 287: 239-251. PMID 10080888 DOI: 10.1006/Jmbi.1999.2626 |
0.448 |
|
| 1998 |
Murray JB, Seyhan AA, Walter NG, Burke JM, Scott WG. The hammerhead, hairpin and VS ribozymes are catalytically proficient in monovalent cations alone. Chemistry & Biology. 5: 587-95. PMID 9818150 DOI: 10.1016/S1074-5521(98)90116-8 |
0.607 |
|
| 1998 |
Hampel KJ, Walter NG, Burke JM. The solvent-protected core of the hairpin ribozyme-substrate complex. Biochemistry. 37: 14672-82. PMID 9778342 DOI: 10.1021/Bi981083N |
0.781 |
|
| 1998 |
Yu Q, Pecchia DB, Kingsley SL, Heckman JE, Burke JM. Cleavage of highly structured viral RNA molecules by combinatorial libraries of hairpin ribozymes. The most effective ribozymes are not predicted by substrate selection rules Journal of Biological Chemistry. 273: 23524-23533. PMID 9722591 DOI: 10.1074/Jbc.273.36.23524 |
0.48 |
|
| 1998 |
Seyhan AA, Amaral J, Burke JM. Intracellular RNA cleavage by the hairpin ribozyme Nucleic Acids Research. 26: 3494-3504. PMID 9671810 DOI: 10.1093/Nar/26.15.3494 |
0.456 |
|
| 1998 |
Walter NG, Burke JM. The hairpin ribozyme: structure, assembly and catalysis Current Opinion in Chemical Biology. 2: 303. PMID 9667943 |
0.525 |
|
| 1998 |
Walter NG, Burke JM. The hairpin ribozyme: structure, assembly and catalysis. Current Opinion in Chemical Biology. 2: 24-30. PMID 9667918 DOI: 10.1016/S1367-5931(98)80032-X |
0.633 |
|
| 1998 |
Esteban JA, Walter NG, Kotzorek G, Heckman JE, Burke JM. Structural basis for heterogeneous kinetics: reengineering the hairpin ribozyme. Proceedings of the National Academy of Sciences of the United States of America. 95: 6091-6. PMID 9600922 DOI: 10.1073/Pnas.95.11.6091 |
0.678 |
|
| 1998 |
Walter NG, Hampel KJ, Brown KM, Burke JM. Tertiary structure formation in the hairpin ribozyme monitored by fluorescence resonance energy transfer. The Embo Journal. 17: 2378-91. PMID 9545249 DOI: 10.1093/Emboj/17.8.2378 |
0.794 |
|
| 1997 |
Berzal-Herranz A, Burke JM. Ligation of RNA molecules by the hairpin ribozyme Methods in Molecular Biology (Clifton, N.J.). 74: 349-355. PMID 9204449 DOI: 10.1385/0-89603-389-9:349 |
0.389 |
|
| 1997 |
Sargueil B, Burke JM. In vitro selection of hairpin ribozymes Methods in Molecular Biology (Clifton, N.J.). 74: 289-300. PMID 9204444 DOI: 10.1385/0-89603-389-9:289 |
0.305 |
|
| 1997 |
Yu Q, Burke JM. Design of hairpin ribozymes for in vitro and cellular applications Methods in Molecular Biology (Clifton, N.J.). 74: 161-169. PMID 9204431 DOI: 10.1385/0-89603-389-9:161 |
0.489 |
|
| 1997 |
Esteban JA, Banerjee AR, Burke JM. Kinetic mechanism of the hairpin ribozyme. Identification and characterization of two nonexchangeable conformations. The Journal of Biological Chemistry. 272: 13629-39. PMID 9153212 DOI: 10.1074/Jbc.272.21.13629 |
0.509 |
|
| 1997 |
Burke JM. Clearing the way for ribozymes Nature Biotechnology. 15: 414-415. PMID 9131613 DOI: 10.1038/Nbt0597-414 |
0.327 |
|
| 1997 |
Walter NG, Burke JM. Real-time monitoring of hairpin ribozyme kinetics through base-specific quenching of fluorescein-labeled substrates. Rna (New York, N.Y.). 3: 392-404. PMID 9085846 |
0.603 |
|
| 1996 |
Yamada O, Kraus G, Sargueil B, Yu Q, Burke JM, Wong-Staal F. Conservation of a hairpin ribozyme sequence in HIV-1 is required for efficient viral replication Virology. 220: 361-366. PMID 8661387 DOI: 10.1006/Viro.1996.0324 |
0.345 |
|
| 1995 |
Butcher SE, Heckman JE, Burke JM. Reconstitution of hairpin ribozyme activity following separation of functional domains. The Journal of Biological Chemistry. 270: 29648-51. PMID 8530348 DOI: 10.1074/Jbc.270.50.29648 |
0.724 |
|
| 1995 |
Sargueil B, Pecchia DB, Burke JM. An improved version of the hairpin ribozyme functions as a ribonucleoprotein complex Biochemistry. 34: 7739-7748. PMID 7779820 DOI: 10.1021/Bi00023A021 |
0.465 |
|
| 1995 |
Chowrira BM, Berzal-Herranz A, Burke JM. Novel system for analysis of group I 3′ splice site reactions based on functional trans-interaction of the P1/P10 reaction helix with the ribozyme's catalytic core Nucleic Acids Research. 23: 849-855. PMID 7708502 DOI: 10.1093/Nar/23.5.849 |
0.422 |
|
| 1994 |
Butcher SE, Burke JM. A photo-cross-linkable tertiary structure motif found in functionally distinct RNA molecules is essential for catalytic function of the hairpin ribozyme. Biochemistry. 33: 992-9. PMID 8305446 DOI: 10.1021/Bi00170A018 |
0.714 |
|
| 1994 |
Tasiouka KI, Burke JM. A modified group I intron can function as both a ribozyme and a 5' exon in a trans-exon ligation reaction Gene. 144: 1-7. PMID 8026742 DOI: 10.1016/0378-1119(94)90195-3 |
0.482 |
|
| 1994 |
Butcher SE, Burke JM. Structure-mapping of the hairpin ribozyme. Magnesium-dependent folding and evidence for tertiary interactions within the ribozyme-substrate complex. Journal of Molecular Biology. 244: 52-63. PMID 7966321 DOI: 10.1006/Jmbi.1994.1703 |
0.721 |
|
| 1993 |
Berzal-Herranz A, Joseph S, Chowrira BM, Butcher SE, Burke JM. Essential nucleotide sequences and secondary structure elements of the hairpin ribozyme. The Embo Journal. 12: 2567-73. PMID 8508779 DOI: 10.1002/J.1460-2075.1993.Tb05912.X |
0.768 |
|
| 1993 |
Burke JM, Berzal-Herranz A. In vitro selection and evolution of RNA: Applications for catalytic RNA, molecular recognition, and drug discovery Faseb Journal. 7: 106-112. PMID 8422956 DOI: 10.1096/Fasebj.7.1.8422956 |
0.433 |
|
| 1993 |
Berzal-Herranz A, Chowrira BM, Polsenberg JF, Burke JM. 2'-Hydroxyl groups important for exon polymerization and reverse exon ligation reactions catalyzed by a group I ribozyme. Biochemistry. 32: 8981-6. PMID 8369271 DOI: 10.1021/Bi00086A001 |
0.373 |
|
| 1993 |
Chowrira BM, Berzal-Herranz A, Keller CF, Burke JM. Four ribose 2′-hydroxyl groups essential for catalytic function of the hairpin ribozyme Journal of Biological Chemistry. 268: 19458-19462. PMID 7690032 DOI: 10.13039/100000002 |
0.472 |
|
| 1993 |
Chowrira BM, Berzal-Herranz A, Burke JM. Ionic requirements for RNA binding, cleavage, and ligation by the hairpin ribozyme Biochemistry. 32: 1088-1095. PMID 7678751 DOI: 10.1021/Bi00055A014 |
0.436 |
|
| 1993 |
Joseph S, Berzal-Herranz A, Chowrira BM, Butcher SE, Burke JM. Substrate selection rules for the hairpin ribozyme determined by in vitro selection, mutation, and analysis of mismatched substrates. Genes & Development. 7: 130-8. PMID 7678568 DOI: 10.1101/Gad.7.1.130 |
0.723 |
|
| 1993 |
Chowrira BM, Berzal-Herranz A, Burke JM. Novel RNA polymerization reaction catalyzed by a group I ribozyme Embo Journal. 12: 3599-3605. PMID 7504625 DOI: 10.1002/J.1460-2075.1993.Tb06033.X |
0.475 |
|
| 1992 |
Berzal-Herranz A, Joseph S, Burke JM. In vitro selection of active hairpin ribozymes by sequential RNA-catalyzed cleavage and ligation reactions Genes and Development. 6: 129-134. PMID 1730406 DOI: 10.1101/Gad.6.1.129 |
0.664 |
|
| 1992 |
Chowrira BM, Burke JM. Extensive phosphorothioate substitution yields highly active and nuclease-resistant hairpin ribozymes Nucleic Acids Research. 20: 2835-2840. PMID 1377380 DOI: 10.1093/Nar/20.11.2835 |
0.48 |
|
| 1991 |
Chowrira BM, Berzal-Herranz A, Burke JM. Novel guanosine requirement for catalysis by the hairpin ribozyme Nature. 354: 320-322. PMID 1956383 DOI: 10.1038/354320A0 |
0.497 |
|
| 1991 |
Chowrira BM, Burke JM. Binding and cleavage of nucleic acids by the "hairpin" ribozyme. Biochemistry. 30: 8518-22. PMID 1909564 DOI: 10.1021/Bi00099A003 |
0.469 |
|
| 1990 |
Burke JM, Esherick JS, Burfeind WR, King JL. A 3' splice site-binding sequence in the catalytic core of a group I intron Nature. 344: 80-82. PMID 2406615 DOI: 10.1038/344080A0 |
0.479 |
|
| 1989 |
Williamson CL, Desai NM, Burke JM. Compensatory mutations demonstrate that P8 and P6 are RNA secondary structure elements important for processing of a group I intron Nucleic Acids Research. 17: 675-689. PMID 2915927 DOI: 10.1093/Nar/17.2.675 |
0.345 |
|
| 1989 |
Burke JM. Selection of the 3′-splice site in group I introns Febs Letters. 250: 129-133. PMID 2753122 DOI: 10.1016/0014-5793(89)80704-5 |
0.477 |
|
| 1989 |
Burke JM. [36] Sequences and classification of group I and group II introns Methods in Enzymology. 180: 533-545. PMID 2615660 DOI: 10.1016/0076-6879(89)80122-3 |
0.37 |
|
| 1988 |
Burke JM. Molecular genetics of group I introns: RNA structures and protein factors required for splicing - a review Gene. 73: 273-294. PMID 3072260 DOI: 10.1016/0378-1119(88)90493-3 |
0.394 |
|
| 1987 |
Burke JM, Belfort M, Cech TR, Davies RW, Schweyen RJ, Shub DA, Szostak JW, Tabak HF. Structural conventions for group I introns Nucleic Acids Research. 15: 7217-7221. PMID 3658691 DOI: 10.1093/Nar/15.18.7217 |
0.313 |
|
| 1987 |
Been MD, Barfod ET, Burke JM, Price JV, Tanner NK, Zaug AJ, Cech TR. Structures involved in Tetrahymena rRNA self-splicing and RNA enzyme activity Cold Spring Harbor Symposia On Quantitative Biology. 52: 147-157. PMID 3454258 DOI: 10.1101/Sqb.1987.052.01.019 |
0.418 |
|
| 1986 |
Burke JM, Irvine KD, Kaneko KJ, Kerker BJ, Oettgen AB, Tierney WM, Williamson CL, Zaug AJ, Cech TR. Role of conserved sequence elements 9L and 2 in self-splicing of the Tetrahymena ribosomal RNA precursor Cell. 45: 167-176. PMID 2421916 DOI: 10.1016/0092-8674(86)90380-6 |
0.408 |
|
| 1984 |
Burke JM, Breitenberger C, Heckman JE, Dujon B, RajBhandary UL. Cytochrome b gene of Neurospora crassa mitochondria. Partial sequence and location of introns at sites different from those in Saccharomyces cerevisiae and Aspergillus nidulans. The Journal of Biological Chemistry. 259: 504-11. PMID 6231283 |
0.759 |
|
| 1982 |
Burke JM, RajBhandary UL. Intron within the large rRNA gene of N. crassa mitochondria: a long open reading frame and a consensus sequence possibly important in splicing. Cell. 31: 509-20. PMID 6218884 DOI: 10.1016/0092-8674(82)90307-5 |
0.562 |
|
| 1982 |
Yin S, Burke J, Chang DD, Browning KS, Heckman JE, Alzner-Deweerd B, Potter MJ, Rajbhandary UL. Neurospora crassa Mitochondrial tRNAs and rRNAs: Structure, Gene Organization, and DNA Sequences Cold Spring Harbor Monograph Archive. 12: 361-373. DOI: 10.1101/087969145.12.361 |
0.556 |
|
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