Year |
Citation |
Score |
2016 |
Siaw GE, Liu IF, Lin PY, Been MD, Hsieh TS. DNA and RNA topoisomerase activities of Top3β are promoted by mediator protein Tudor domain-containing protein 3. Proceedings of the National Academy of Sciences of the United States of America. PMID 27582462 DOI: 10.1073/Pnas.1605517113 |
0.487 |
|
2008 |
Brown AL, Perrotta AT, Wadkins TS, Been MD. The poly(A) site sequence in HDV RNA alters both extent and rate of self-cleavage of the antigenomic ribozyme. Nucleic Acids Research. 36: 2990-3000. PMID 18388129 DOI: 10.1093/Nar/Gkn156 |
0.786 |
|
2007 |
Klein DJ, Been MD, Ferré-D'Amaré AR. Essential role of an active-site guanine in glmS ribozyme catalysis. Journal of the American Chemical Society. 129: 14858-9. PMID 17990888 DOI: 10.1021/Ja0768441 |
0.4 |
|
2007 |
Klein DJ, Wilkinson SR, Been MD, Ferré-D'Amaré AR. Requirement of helix P2.2 and nucleotide G1 for positioning the cleavage site and cofactor of the glmS ribozyme. Journal of Molecular Biology. 373: 178-89. PMID 17804015 DOI: 10.1016/J.Jmb.2007.07.062 |
0.559 |
|
2007 |
Perrotta AT, Been MD. A single nucleotide linked to a switch in metal ion reactivity preference in the HDV ribozymes. Biochemistry. 46: 5124-30. PMID 17417876 DOI: 10.1021/Bi602569X |
0.446 |
|
2006 |
Been MD. Molecular biology. Versatility of self-cleaving ribozymes. Science (New York, N.Y.). 313: 1745-7. PMID 16990539 DOI: 10.1126/Science.1133259 |
0.506 |
|
2006 |
Perrotta AT, Been MD. HDV ribozyme activity in monovalent cations. Biochemistry. 45: 11357-65. PMID 16981696 DOI: 10.1021/Bi061215+ |
0.465 |
|
2006 |
Been MD. HDV ribozymes Current Topics in Microbiology and Immunology. 307: 47-65. PMID 16903220 |
0.52 |
|
2006 |
Perrotta AT, Wadkins TS, Been MD. Chemical rescue, multiple ionizable groups, and general acid-base catalysis in the HDV genomic ribozyme. Rna (New York, N.Y.). 12: 1282-91. PMID 16690998 DOI: 10.1261/Rna.14106 |
0.756 |
|
2005 |
Wilkinson SR, Been MD. A pseudoknot in the 3' non-core region of the glmS ribozyme enhances self-cleavage activity. Rna (New York, N.Y.). 11: 1788-94. PMID 16314452 DOI: 10.1261/Rna.2203605 |
0.535 |
|
2002 |
Shih IH, Been MD. Catalytic strategies of the hepatitis delta virus ribozymes. Annual Review of Biochemistry. 71: 887-917. PMID 12045114 DOI: 10.1146/Annurev.Biochem.71.110601.135349 |
0.743 |
|
2002 |
Wadkins TS, Been MD. Ribozyme activity in the genomic and antigenomic RNA strands of hepatitis delta virus. Cellular and Molecular Life Sciences : Cmls. 59: 112-25. PMID 11846024 DOI: 10.1007/S00018-002-8409-7 |
0.782 |
|
2001 |
Shih IH, Been MD. Energetic contribution of non-essential 5′ sequence to catalysis in a hepatitis delta virus ribozyme Embo Journal. 20: 4884-4891. PMID 11532952 DOI: 10.1093/Emboj/20.17.4884 |
0.694 |
|
2001 |
Shih IH, Been MD. Involvement of a cytosine side chain in proton transfer in the rate-determining step of ribozyme self-cleavage. Proceedings of the National Academy of Sciences of the United States of America. 98: 1489-94. PMID 11171978 DOI: 10.1073/Pnas.98.4.1489 |
0.649 |
|
2001 |
Wadkins TS, Shih I, Perrotta AT, Been MD. A pH-sensitive RNA tertiary interaction affects self-cleavage activity of the HDV ribozymes in the absence of added divalent metal ion. Journal of Molecular Biology. 305: 1045-55. PMID 11162113 DOI: 10.1006/Jmbi.2000.4368 |
0.746 |
|
2001 |
Shih IH, Been MD. Energetic contribution of non-essential 5′ sequence to catalysis in a hepatitis delta virus ribozyme (EMBO Journal (2000) 20 (4884-4891)) Embo Journal. 20: 5302. |
0.613 |
|
2000 |
Shih I, Been MD. Kinetic scheme for intermolecular RNA cleavage by a ribozyme derived from hepatitis delta virus RNA. Biochemistry. 39: 9055-66. PMID 10924098 DOI: 10.1021/bi000499+ |
0.602 |
|
1999 |
Perrotta AT, Shih I, Been MD. Imidazole rescue of a cytosine mutation in a self-cleaving ribozyme. Science (New York, N.Y.). 286: 123-6. PMID 10506560 DOI: 10.1126/Science.286.5437.123 |
0.655 |
|
1999 |
Shih IH, Been MD. Ribozyme cleavage of a 2,5-phosphodiester linkage: mechanism and a restricted divalent metal-ion requirement. Rna (New York, N.Y.). 5: 1140-8. PMID 10496215 DOI: 10.1017/S1355838299990763 |
0.631 |
|
1999 |
Wadkins TS, Perrotta AT, Ferré-D'Amaré AR, Doudna JA, Been MD. A nested double pseudoknot is required for self-cleavage activity of both the genomic and antigenomic hepatitis delta virus ribozymes. Rna (New York, N.Y.). 5: 720-7. PMID 10376872 DOI: 10.1017/S1355838299990209 |
0.762 |
|
1999 |
Perrotta AT, Nikiforova O, Been MD. A conserved bulged adenosine in a peripheral duplex of the antigenomic HDV self-cleaving RNA reduces kinetic trapping of inactive conformations Nucleic Acids Research. 27: 795-802. PMID 9889275 DOI: 10.1093/Nar/27.3.795 |
0.498 |
|
1998 |
Perrotta AT, Been MD. A toggle duplex in hepatitis delta virus self-cleaving RNA that stabilizes an inactive and a salt-dependent pro-active ribozyme conformation Journal of Molecular Biology. 279: 361-373. PMID 9642043 DOI: 10.1006/Jmbi.1998.1798 |
0.569 |
|
1997 |
Wadkins TS, Been MD. Core-associated non-duplex sequences distinguishing the genomic and antigenomic self-cleaving RNAs of hepatitis delta virus. Nucleic Acids Research. 25: 4085-92. PMID 9321662 DOI: 10.1093/Nar/25.20.4085 |
0.779 |
|
1997 |
Been MD, Wickham GS. Self-cleaving ribozymes of hepatitis delta virus RNA European Journal of Biochemistry. 247: 741-753. PMID 9288893 DOI: 10.1111/J.1432-1033.1997.00741.X |
0.606 |
|
1996 |
Bohjanen PR, Colvin RA, Puttaraju M, Been MD, Garcia-Blanco MA. A small circular TAR RNA decoy specifically inhibits Tat-activated HIV-1 transcription Nucleic Acids Research. 24: 3733-3738. PMID 8871552 DOI: 10.1093/Nar/24.19.3733 |
0.414 |
|
1996 |
Puttaraju M, Been MD. Circular ribozymes generated in Escherichia coli using group I self- splicing permuted intron-exon sequences Journal of Biological Chemistry. 271: 26081-26087. PMID 8824250 DOI: 10.1074/Jbc.271.42.26081 |
0.557 |
|
1996 |
Rosenstein SP, Been MD. Hepatitis delta virus ribozymes fold to generate a solvent-inaccessible core with essential nucleotides near the cleavage site phosphate Biochemistry. 35: 11403-11413. PMID 8784196 DOI: 10.1021/Bi9609984 |
0.552 |
|
1996 |
Pasman Z, Been MD, Garcia-Blanco MA. Exon circularization in mammalian nuclear extracts Rna. 2: 603-610. PMID 8718689 |
0.372 |
|
1996 |
Puttaraju M, Been MD. Circularizing ribozymes and decoy-competitors by autocatalytic splicing in vitro and in vivo Saas Bulletin, Biochemistry and Biotechnology. 9: 77-82. PMID 8652136 |
0.449 |
|
1996 |
Perrotta AT, Been MD. Core sequences and a cleavage site wobble pair required for HDV antigenomic ribozyme self-cleavage Nucleic Acids Research. 24: 1314-1321. PMID 8614636 DOI: 10.1093/Nar/24.7.1314 |
0.517 |
|
1995 |
Puttaraju M, Beebe JA, Niranjanakumari S, Been MD, Fierke CA. Generation and characterization of circular Bacillus subtilis RNase P RNA; activation by RNase P protein. Nucleic Acids Symposium Series. 92-4. PMID 8643411 |
0.425 |
|
1995 |
Puttaraju M, Been MD. Generation of nuclease resistant circular RNA decoys for HIV-Tat and HIV-Rev by autocatalytic splicing Nucleic Acids Symposium Series. 152-155. PMID 8643355 |
0.36 |
|
1995 |
Been MD, Perrotta AT. Optimal self-cleavage activity of the hepatitis delta virus RNA is dependent on a homopurine base pair in the ribozyme core Rna. 1: 1061-1070. PMID 8595561 |
0.432 |
|
1994 |
Been MD. Cis- and trans-acting ribozymes from a human pathogen, hepatitis delta virus Trends in Biochemical Sciences. 19: 251-256. PMID 8073503 DOI: 10.1016/0968-0004(94)90151-1 |
0.573 |
|
1993 |
Perrotta AT, Rosenstein SP, Been MD. Experimental evidence for the secondary structure of the hepatitis delta virus ribozyme Progress in Clinical and Biological Research. 382: 69-77. PMID 8502719 |
0.482 |
|
1993 |
Perrotta AT, Been MD. Assessment of disparate structural features in three models of the hepatitis delta virus ribozyme Nucleic Acids Research. 21: 3959-3965. PMID 8371972 DOI: 10.1093/Nar/21.17.3959 |
0.566 |
|
1993 |
Puttaraju M, Perrotta AT, Been MD. A circular trans-acting hepatitis delta virus ribozyme Nucleic Acids Research. 21: 4253-4258. PMID 7692400 DOI: 10.1093/Nar/21.18.4253 |
0.554 |
|
1992 |
Perrotta AT, Been MD. Cleavage of oligoribonucleotides by a ribozyme derived from the hepatitis δ virus RNA sequence Biochemistry. 31: 16-21. PMID 1731868 DOI: 10.1021/Bi00116A004 |
0.619 |
|
1992 |
DePriest PT, Been MD. Numerous group I introns with variable distributions in the ribosomal DNA of a lichen fungus Journal of Molecular Biology. 228: 315-321. PMID 1453441 DOI: 10.1016/0022-2836(92)90819-6 |
0.385 |
|
1992 |
Been MD, Perrotta AT, Rosenstein SP. Secondary structure of the self-cleaving RNA of hepatitis delta virus: Applications to catalytic RNA design Biochemistry. 31: 11843-11852. PMID 1445917 DOI: 10.1021/Bi00162A024 |
0.537 |
|
1992 |
Puttaraju M, Been MD. Group I permuted intron-exon (PIE) sequences self-splice to produce circular exons. Nucleic Acids Research. 20: 5357-64. PMID 1279519 DOI: 10.1093/Nar/20.20.5357 |
0.553 |
|
1991 |
Been MD, Perrotta AT. Group I intron self-splicing with adenosine: Evidence for a single nucleoside-binding site Science. 252: 434-437. PMID 2017681 DOI: 10.1126/Science.2017681 |
0.445 |
|
1991 |
Perrotta AT, Been MD. A pseudoknot-like structure required for efficient self-cleavage of hepatitis delta virus RNA Nature. 350: 434-436. PMID 2011192 DOI: 10.1038/350434A0 |
0.596 |
|
1991 |
Rosenstein SP, Been MD. Evidence that genomic and antigenomic RNA self-cleaving elements from hepatitis delta virus have similar secondary structures Nucleic Acids Research. 19: 5409-5416. PMID 1923826 DOI: 10.1093/Nar/19.19.5409 |
0.618 |
|
1991 |
Perrotta AT, Been MD. The self-cleaving domain from the genomic RNA of hepatitis delta virus: Sequence requirements and the effects of denaturant Nucleic Acids Research. 19: 1979. DOI: 10.1093/nar/19.8.1979-a |
0.409 |
|
1990 |
Perrotta AT, Been MD. The self-cleaving domain from the genomic RNA of hepatitis delta virus: sequence requirements and the effects of denaturant. Nucleic Acids Research. 18: 6821-7. PMID 2263447 DOI: 10.1093/Nar/18.23.6821 |
0.605 |
|
1990 |
Rosenstein SP, Been MD. Self-cleavage of hepatitis delta virus genomic strand RNA is enhanced under partially denaturing conditions Biochemistry. 29: 8011-8016. PMID 2261458 DOI: 10.1021/Bi00487A002 |
0.489 |
|
1988 |
Been MD, Cech TR. RNA as an RNA polymerase: Net elongation of an RNA primer catalyzed by the tetrahymena ribozyme Science. 239: 1412-1416. PMID 2450400 DOI: 10.1126/Science.2450400 |
0.539 |
|
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 |
0.503 |
|
1987 |
Been MD, Cech TR. Selection of circularization sites in a group I IVS RNA requires multiple alignments of an internal template-like sequence Cell. 50: 951-961. PMID 2441876 DOI: 10.1016/0092-8674(87)90522-8 |
0.456 |
|
1987 |
Zaug AJ, Been MD, Cech TR. Erratum: The Tetrahymena ribozyme acts like an RNA restriction endonuclease Nature. 325: 646-646. DOI: 10.1038/325646A0 |
0.47 |
|
1986 |
Zaug AJ, Been MD, Cech TR. The Tetrahymena ribozyme acts like an RNA restriction endonuclease Nature. 324: 429-433. PMID 3537808 DOI: 10.1038/324429A0 |
0.585 |
|
1986 |
Been MD, Cech TR. One binding site determines sequence specificity of Tetrahymena pre-rRNA self-splicing, trans-splicing, and RNA enzyme activity Cell. 47: 207-216. PMID 3021333 DOI: 10.1016/0092-8674(86)90443-5 |
0.558 |
|
1985 |
Been MD, Cech TR. Sites of circularization of the Tetrahymena rRNA IVS are determined by sequence and influenced by position and secondary structure Nucleic Acids Research. 13: 8389-8408. PMID 4080546 DOI: 10.1093/Nar/13.23.8389 |
0.487 |
|
1984 |
Been MD, Burgess RR, Champoux JJ. DNA strand breakage by wheat germ type 1 topoisomerase Bba - Gene Structure and Expression. 782: 304-312. PMID 6329302 DOI: 10.1016/0167-4781(84)90066-6 |
0.329 |
|
1984 |
Been MD, Burgess RR, Champoux JJ. Nucleotide sequence preference at rat liver and wheat germ type 1 DNA topoisomerase breakage sites in duplex SV40 DNA Nucleic Acids Research. 12: 3097-3114. PMID 6326051 DOI: 10.1093/Nar/12.7.3097 |
0.397 |
|
1984 |
Been MD, Champoux JJ. Breakage of single-stranded DNA by eukaryotic type 1 topoisomerase occurs only at regions with the potential for base-pairing Journal of Molecular Biology. 180: 515-531. PMID 6098684 DOI: 10.1016/0022-2836(84)90025-1 |
0.374 |
|
1983 |
Been MD, Champoux JJ. Cutting of M13mp7 phage DNA and excision of cloned single-stranded sequences by restriction endonucleases Methods in Enzymology. 90-98. PMID 6310344 DOI: 10.1016/0076-6879(83)01007-1 |
0.323 |
|
1981 |
Been MD, Champoux JJ. DNA breakage and closure by rat liver type 1 topoisomerase: separation of the half-reactions by using a single-stranded DNA substrate Proceedings of the National Academy of Sciences of the United States of America. 78: 2883-2887. PMID 6265921 DOI: 10.1073/Pnas.78.5.2883 |
0.336 |
|
1980 |
Been MD, Champoux JJ. Breakage of single-stranded DNA by rat liver nicking-closing enzyme with the formation of a DNA-enzyme complex Nucleic Acids Research. 8: 6129-6142. PMID 6258163 DOI: 10.1093/Nar/8.24.6129 |
0.306 |
|
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