The conserved CA/TG motif at Mu termini: T specifies stable transpososome assembly

Journal of Molecular Biology

Volumn 330, Issue 2, 2003, Pages 261-275

  Lee, Insuk ^a   Harshey, Rasika M ^a  

^a UNIVERSITY OF TEXAS AT AUSTIN   (United States)

Author keywords

HIV; MuA transposase; Retrotransposons; Terminal inverted CA TG dinucleotide; Transpososome assembly

Indexed keywords

DINUCLEOTIDE; PROTEIN; PROTEIN MUA; PROTEIN MUB; TRANSPOSASE; UNCLASSIFIED DRUG;

ARTICLE; BASE MISPAIRING; CONFORMATION; DNA STRUCTURE; DNA TRANSPOSITION; ENZYME STRUCTURE; ENZYME SUBSTRATE; GENE INSERTION SEQUENCE; GENE MUTATION; GENE STRUCTURE; GENETIC CODE; GENETIC CONSERVATION; HUMAN IMMUNODEFICIENCY VIRUS; HYPOTHESIS; MOLECULAR STABILITY; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN FUNCTION; PROTEIN MOTIF; RETROPOSON; TRANSPOSON; WILD TYPE;

ENTEROBACTERIA PHAGE MU;

EID: 0037785140     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0022-2836(03)00574-6     Document Type: Article

References (51)

1. Craigie R., Mizuuchi M., Mizuuchi K. Site-specific recognition of the bacteriophage Mu ends by the Mu A protein. Cell. 39:1984;387-394.
2. Mahillon J., Chandler M. Insertion sequences. Microbiol. Mol. Biol. Rev. 62:1998;725-774.
3. Asante-Appiah E., Skalka A.M. Molecular mechanisms in retrovirus DNA integration. Antiviral Res. 36:1997;139-156.
4. Bingham P.M., Zachar Z. Retrotransposons and the FB transposon from Drosophila melanogaster. Berg D.E., Howe M.M. Mobile DNA. 1989;485-502 American Society for Microbiology, Washington, DC.
5. Boeke J.D. Transposable elements in Saccharomyces cerevisiae. Berg D.E., Howe M.M. Mobile DNA. 1989;335-374 American Society for Microbiology Press, Washington, DC.
6. Brown P.O. Integration. Coffin J.M., Hughes S.H., Varmus H.E. Retroviruses. 1997;161-203 Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
7. Coffin J.M. Retroviridae and their replication. Fields B.N., Knipe D.M. Fundamental Virology. 1991;645-708 Raven Press, New York.
8. Mizuuchi K. Transpositional recombination: mechanistic insights from studies of Mu and other elements. Annu. Rev. Biochem. 61:1992;1011-1051.
9. Lee I., Harshey R.M. Importance of the conserved CA dinucleotide at Mu termini. J. Mol. Biol. 314:2001;433-444.
10. Coros C.J., Chaconas G. Effect of mutations in the Mu-host junction region on transpososome assembly. J. Mol. Biol. 310:2001;299-309.
11. Surette M.G., Harkness T., Chaconas G. Stimulation of the Mu A protein-mediated strand cleavage reaction by the Mu B protein, and the requirement of DNA nicking for stable type 1 transpososome formation. In vitro transposition characteristics of mini-Mu plasmids carrying terminal base pair mutations. J. Biol. Chem. 266:1991;3118-3124.
12. Watson M.A., Chaconas G. Three-site synapsis during Mu DNA transposition: a critical intermediate preceding engagement of the active site. Cell. 85:1996;435-445.
13. Chaconas G., Harshey R.M. Transposition of phage Mu DNA. Craig N.L., Craigie R., Gellert M., Lambowitz A.M. Mobile DNA II. 2002;384-402 American Society for Microbiology, Washington, DC.
14. Namgoong S.Y., Harshey R.M. The same two monomers within a MuA tetramer provide the DDE domains for the strand cleavage and strand transfer steps of transposition. EMBO J. 17:1998;3775-3785.
15. Williams T.L., Jackson E.L., Carritte A., Baker T.A. Organization and dynamics of the Mu transpososome: recombination by communication between two active sites. Genes Dev. 13:1999;2725-2737.
16. Wang Z., Harshey R.M. Crucial role for DNA supercoiling in Mu transposition: a kinetic study. Proc. Natl Acad. Sci. USA. 91:1994;699-703.
17. Wang Z., Namgoong S.Y., Zhang X., Harshey R.M. Kinetic and structural probing of the precleavage synaptic complex (type 0) formed during phage Mu transposition. Action of metal ions and reagents specific to single-stranded DNA. J. Biol. Chem. 271:1996;9619-9626.
18. Kobryn K., Watson M.A., Allison R.G., Chaconas G. The Mu three site synaptic complex: a strained assembly platform in which delivery of the L1 transposase binding site triggers catalytic commitment. Mol. Cell. 10:2002;659-669.
19. Savilahti H., Rice P.A., Mizuuchi K. The Phage Mu transpososome core - DNA requirements for assembly and function. EMBO J. 14:1995;4893-4903.
20. Scottoline B.P., Chow S., Ellison V., Brown P.O. Disruption of the terminal base pairs of retroviral DNA during integration. Genes Dev. 11:1997;371-382.
21. Mizuuchi K., Baker T.A. Chemical mechanisms for mobilizing DNA. Craig N.L., Craigie R., Gellert M., Lambowitz A.M. Mobile DNA II. 2002;12-23 American Society for Microbiology, Washington, DC.
22. Engelman A., Mizuuchi K., Craigie R. HIV-1 DNA integration: mechanism of viral DNA cleavage and DNA strand transfer. Cell. 67:1991;1211-1221.
23. El Hassan M.A., Calladine C.R. Conformational characteristics of DNA: empirical classifications and a hypothesis for the conformational behaviour of dinucleotide steps. Philos. Trans. Roy. Soc. London. 355:1997;43-100.
24. Esposito D., Craigie R. Sequence specificity of viral end DNA binding by HIV-1 integrase reveals critical regions for protein-DNA interaction. EMBO J. 17:1998;5832-5843.
25. Mizuuchi M., Mizuuchi K. Efficient Mu transposition requires interaction of transposase with a DNA sequence at the Mu operator: implications for regulation. Cell. 58:1989;399-408.
26. Kuo C.F., Zou A.H., Jayaram M., Getzoff E., Harshey R. DNA-protein complexes during attachment-site synapsis in Mu DNA transposition. EMBO J. 10:1991;1585-1591.
27. Kim K., Namgoong S.Y., Jayaram M., Harshey R.M. Step-arrest mutants of phage Mu transposase. Implications in DNA-protein assembly, Mu end cleavage, and strand transfer. J. Biol. Chem. 270:1995;1472-1479.
28. Meisenheimer K.M., Koch T.H. Photocross-linking of nucleic acids to associated proteins. Crit. Rev. Biochem. Mol. Biol. 32:1997;101-140.
29. Rice P., Mizuuchi K. Structure of the bacteriophage Mu transposase core: a common structural motif for DNA transposition and retroviral integration. Cell. 82:1995;209-220.
30. Davies D.R., Goryshin I.Y., Reznikoff W.S., Rayment I. Three-dimensional structure of the Tn5 synaptic complex transposition intermediate. Science. 289:2000;77-85.
31. Burlingame R.P., Obukowicz M.G., Lynn D.L., Howe M.M. Isolation of point mutations in bacteriophage Mu attachment regions cloned in a lambda: mini-Mu phage. Proc. Natl Acad. Sci. USA. 83:1986;6012-6016.
32. Bushman F.D., Engelman A., Palmer I., Wingfield P., Craigie R. Domains of the integrase protein of human immunodeficiency virus type 1 responsible for polynucleotidyl transfer and zinc binding. Proc. Natl Acad. Sci. USA. 90:1993;3428-3432.
33. Craigie R., Fujiwara T., Bushman F. The IN protein of Moloney murine leukemia virus processes the viral DNA ends and accomplishes their integration in vitro. Cell. 62:1990;829-837.
34. LaFemina R.L., Callahan P.L., Cordingley M.G. Substrate specificity of recombinant human immunodeficiency virus integrase protein. J. Virol. 65:1991;5624-5630.
35. Leavitt A.D., Rose R.B., Varmus H.E. Both substrate and target oligonucleotide sequences affect in vitro integration mediated by human immunodeficiency virus type 1 integrase protein produced in Saccharomyces cerevisiae. J. Virol. 66:1992;2359-2368.
36. Sherman P.A., Dickson M.L., Fyfe J.A. Human immunodeficiency virus type 1 integration protein: DNA sequence requirements for cleaving and joining reactions. J. Virol. 66:1992;3593-3601.
37. Vink C., van Gent D.C., Elgersma Y., Plasterk R.H. Human immunodeficiency virus integrase protein requires a subterminal position of its viral DNA recognition sequence for efficient cleavage. J. Virol. 65:1991;4636-4644.
38. Ason B., Reznikoff W.S. Mutational analysis of the base flipping event found in Tn5 transposition. J. Biol. Chem. 277:2002;11284-11291.
39. Krementsova E., Giffin M.J., Pincus D., Baker T.A. Mutational analysis of the Mu transposase. Contributions of two distinct regions of domain II to recombination. J. Biol. Chem. 273:1998;31358-31365.
40. Namgoong S.Y., Kim K., Saxena P., Yang J.Y., Jayaram M., Giedroc D.P., Harshey R.M. Mutational analysis of domain IIb of bacteriophage mu transposase: domains IIa and IIb belongs to different catalytic complementation groups. J. Mol. Biol. 275:1998;221-232.
41. Bhasin A., Goryshin I.Y., Steiniger-White M., York D., Reznikoff W.S. Characterization of a Tn5 pre-cleavage synaptic complex. J. Mol. Biol. 302:2000;49-63.
42. Allingham J.S., Wardle S.J., Haniford D.B. Determinants for hairpin formation in Tn10 transposition. EMBO J. 20:2001;2931-2942.
43. Lavoie B.D., Chan B.S., Allison R.G., Chaconas G. Structural aspects of a higher order nucleoprotein complex: induction of an altered DNA structure at the Mu-host junction of the Mu type 1 transpososome. EMBO J. 10:1991;3051-3059.
44. Cuomo C.A., Mundy C.L., Oettinger M.A. DNA sequence and structure requirements for cleavage of V(D)J recombination signal sequences. Mol. Cell Biol. 16:1996;5683-5690.
45. Ramsden D.A., McBlane J.F., van Gent D.C., Gellert M. Distinct DNA sequence and structure requirements for the two steps of V(D)J recombination signal cleavage. EMBO J. 15:1996;3197-3206.
46. Craigie R., Retroviral D.N.A. Retroviral DNA integration. Craig N.L., Craigie R., Gellert M., Lambowitz A.M. Mobile DNA II. 2002;613-630 American Society for Microbiology, Washington, DC.
47. Mizuuchi M., Baker T.A., Mizuuchi K. Assembly of phage Mu transpososomes - cooperative transitions assisted by protein and DNA scaffolds. Cell. 83:1995;375-385.
48. Jiang H., Yang J.Y., Harshey R.M. Criss-crossed interactions between the enhancer and the att sites of phage Mu during DNA transposition. EMBO J. 18:1999;3845-3855.
49. Yanagihara K., Mizuuchi K. Progressive structural transitions within Mu transpositional complexes. Mol. Cell. 11:2003;215-224.
50. Yang J.Y., Kim K., Jayaram M., Harshey R.M. Domain sharing model for active site assembly within the Mu a tetramer during transposition: the enhancer may specify domain contributions. EMBO J. 14:1995;2374-2384.
51. Pathania S., Jayaram M., Harshey R.M. Path of DNA within the Mu transpososome. Transposase interactions bridging two Mu ends and the enhancer trap five DNA supercoils. Cell. 109:2002;425-436.