Degenerate DNA recognition by I-PpoI endonuclease

Gene

Volumn 206, Issue 1, 1998, Pages 11-21

  Wittmayer, Paula K ^a   McKenzie, Jennifer L ^a   Raines, Ronald T ^a  

^a UNIVERSITY OF WISCONSIN MADISON   (United States)

Author keywords

DNA cleavage; Genome mapping; Intron homing; Restriction endonuclease; Substrate specificity; Transcription factor

Indexed keywords

DNA; RESTRICTION ENDONUCLEASE;

ARTICLE; CATALYSIS; CONTROLLED STUDY; DNA CLEAVAGE; DNA FLANKING REGION; DNA SEQUENCE; ENZYME SPECIFICITY; ENZYME SUBSTRATE COMPLEX; GENE MUTATION; MOLECULAR RECOGNITION; NONHUMAN; NUCLEIC ACID BASE SUBSTITUTION; PHYSARUM POLYCEPHALUM; PRIORITY JOURNAL; PROTEIN DNA INTERACTION;

BINDING SITES; DNA; ENDODEOXYRIBONUCLEASES; MUTAGENESIS; NUCLEIC ACID CONFORMATION; OLIGODEOXYRIBONUCLEOTIDES; SUBSTRATE SPECIFICITY;

CHONDROMYCES; MYXOGASTRIA; PHYSARUM POLYCEPHALUM;

EID: 0032484598     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0378-1119(97)00563-5     Document Type: Article

References (24)

1. Ausubel, F.M., Thomas, P.J., Mills, A., Moss, D.S., Palmer, R.A., 1989. Current Protocols in Molecular Biology. Wiley, New York.
2. Barik, S., Site-directed mutagenesis by double polymerase chain reaction: megaprimer method. 1993. In: White, B.A. (Ed.), PCR Protocols: Current Methods and Applications. Humana Press, Totowa, NJ, pp. 277-286.
3. Bryk M., Quirk S.M., Mueller J.E., Loizos N., Lawrence C., Belfort M. The td intron endonuclease I-TevI makes extensive sequence-tolerant contacts across the minor groove of its DNA target. EMBO J. 12:1993;2141-2149.
4. Colleaux L., D'Auriol L., Galibert F., Dujon B. Recognition and cleavage site of the intron-encoded omega transposase. Proc. Natl. Acad. Sci. USA. 85:1988;6022-6026.
5. Dujon B. Group I introns as mobile genetic elements: facts and mechanistic speculations a review. Gene. 82:1989;91-114.
6. Dürrenberger F., Rochaix J.-D. Characterization of the cleavage site and the recognition sequence of the I-CreI DNA endonuclease encoded by the chloroplast ribosomal intron of Chlamydomonas reinhardtii. Mol. Gen. Genet. 236:1993;409-414.
7. Ellison E.L., Vogt V.M. Interaction of the intron-encoded mobility endonuclease I-PpoI with its target site. Mol. Cell. Biol. 13:1993;7531-7539.
8. Hermes J.D., Blacklow S.C., Knowles J.R. Searching sequence space by definably random mutagenesis: improving the catalytic potency of an enzyme. Proc. Natl. Acad. Sci. USA. 87:1990;696-700.
9. Hyde-DeRuyscher R.P., Jennings E., Shenk T. DNA binding sites for the transcriptional activator/repressor YY1. Nucleic Acids Res. 23:1995;4457-4465.
10. Kornberg, A., Baker, T.A., 1992. DNA Replication, 2nd ed. W.H. Freeman, New York.
11. Lowery R., Hung L., Knoche K., Bandziulis R. Properties of I-PpoI: A rare-cutting intron-encoded endonuclease. Promega Notes. 38:1992;8-12.
12. Marshall P., Lemieux C. The I-CeuI endonuclease recognizes a sequence of 19 base pairs and preferentially cleaves the coding strand of the Chlamydomonas moewusii chloroplast large subunit rRNA gene. Nucleic Acids Res. 20:1992;6401-6407.
13. Mossing M.C., Record M.T. Jr. Thermodynamic origins of specificity in the lac repressor-operator interaction. Adaptability in the recognition of mutant operator sites. J. Mol. Biol. 186:1985;295-305.
14. Mueller, J.E., Bryk, M., Loizos, N., Belfort, M., 1993. Homing endonucleases. In: Linn, S.M., Lloyd, R.S., Roberts, R.J. (Eds.), Nucleases. Cold Spring Harbor Press, Cold Spring Harbor, NY, pp. 111-143.
15. Muscarella D.E., Ellison E.L., Ruoff B.M., Vogt V.M. Characterization of I-Ppo, an intron-encoded endonuclease that mediates homing of a group I intron in the ribosomal DNA of Physarum polycephalum. Mol. Cell. Biol. 10:1990;3386-3396.
16. Muscarella D.E., Vogt V.M. A mobile group I intron from Physarum polycephalum can insert itself and induce point mutations in the nuclear ribosomal DNA of Saccharomyces cerevisiae. Mol. Cell Biol. 13:1993;1023-1033.
17. Nickoloff J.A., Singer J.D., Heffron F. In vivo analysis of the Saccharomyces cerevisiae HO nuclease recognition site by site-directed mutagenesis. Mol. Cell Biol. 10:1990;1174-1179.
18. Polisky B., Greene P., Garfin D.E., McCarthy B.J., Goodman H.M., Boyer H.W. Specificity of substrate recognition by the EcoRI restriction endonuclease. Proc. Natl. Acad. Sci. USA. 72:1975;3310-3314.
19. Roberts, R.J., Halford, S.E., 1993. Type II restriction endonucleases. In: Linn, S.M., Lloyd R.S., Roberts, R.J. (Eds.), Nucleases. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, pp. 35-88.
20. Sinha N.D., Biernat J., McManus J., Koster H. Polymer support oligonucleotide synthesis. XVIII: use of β-cyanoethyl-N,N-dialkylamino-/N-morpholino phosphoramidite of deoxynucleosides for the synthesis of DNA fragments simplifying deprotection and isolation of the final product. Nucleic Acids Res. 12:1984;4539-4557.
21. Taylor J.D., Halford S.E. Discrimination between DNA sequences by the EcoRV restriction endonuclease. Biochemistry. 28:1989;6198-6207.
22. Van Cleve M.D., Gumport R.I. Influence of enzyme-substrate contacts located outside the EcoRI recognition site on cleavage of duplex oligodeoxyribonucleotide substrates by EcoRI endonuclease. Biochemistry. 31:1992;334-339.
23. Wernette, C., Saldanha, R., Smith, D., Ming, D., Perlman, P.S., Butow, R.A., 1992. Complex recognition site for the group I intron-encoded endonuclease I-SceII. Mol. Cell Biol. 12, 716-723, 1903.
24. Wittmayer P.K., Raines R.T. Substrate binding and turnover by the highly specific I-PpoI endonuclease. Biochemistry. 35:1996;1076-1083.