Solution conformations of early intermediates in Mos1 transposition

Nucleic Acids Research

Volumn 41, Issue 3, 2013, Pages 2020-2033

  Cuypers, Maxime G ^a,b   Trubitsyna, Maryia ^c   Callow, Philip ^a   Forsyth, V Trevor ^a,b   Richardson, Julia M ^c  

^a INSTITUT LAUE LANGEVIN   (France)

^b KEELE UNIVERSITY   (United Kingdom)

^c UNIVERSITY OF EDINBURGH   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

MOS1 TRANSPOSASE; TRANSPOSASE; UNCLASSIFIED DRUG;

AMINO TERMINAL SEQUENCE; ARTICLE; BIOCHEMICAL COMPOSITION; CONFORMATIONAL TRANSITION; CONTROLLED STUDY; DIMERIZATION; DNA BINDING; DNA CLEAVAGE; DNA CONFORMATION; DNA HELIX; DNA TRANSPOSITION; GENE REARRANGEMENT; INVERTED REPEAT; MOLECULAR RECOGNITION; PRIORITY JOURNAL; RESIDUE ANALYSIS; SEQUENCE ANALYSIS; STOICHIOMETRY; STRUCTURE ANALYSIS; TRANSPOSON;

DIMERIZATION; DNA; DNA TRANSPOSABLE ELEMENTS; DNA-BINDING PROTEINS; MODELS, MOLECULAR; NEUTRON DIFFRACTION; PROTEIN STRUCTURE, TERTIARY; SCATTERING, SMALL ANGLE; TRANSPOSASES; X-RAY DIFFRACTION;

EID: 84873649483     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gks1295     Document Type: Article

References (46)

1. Feschotte,C. (2008) Transposable elements and the evolution of regulatory networks. Nat. Rev. Genet., 9, 397-405.
2. O'Donnell,K.A. and Burns,K.H. (2010) Mobilizing diversity: transposable element insertions in genetic variation and disease. Mob. DNA, 1, 21.
3. Agrawal,A., Eastman,Q.M. and Schatz,D.G. (1998) Transposition mediated by RAG1 and RAG2 and its implications for the evolution of the immune system. Nature, 394, 744-751.
4. Casola,C., Hucks,D. and Feschotte,C. (2008) Convergent domestication of pogo-like transposases into centromere-binding proteins in fission yeast and mammals. Mol. Biol. Evol., 25, 29-41.
5. Plasterk,R.H., Izsvak,Z. and Ivics,Z. (1999) Resident aliens: the Tc1/mariner superfamily of transposable elements. Trends Genet., 15, 326-332.
6. Ammar,I., Izsvak,Z. and Ivics,Z. (2012) The Sleeping Beauty transposon toolbox. Methods Mol. Biol., 859, 229-240.
7. Robert,V.J. (2012) Engineering the Caenorhabditis elegans genome by Mos1-induced transgene-instructed gene conversion. Methods Mol. Biol., 859, 189-201.
8. Halford,S.E., Welsh,A.J. and Szczelkun,M.D. (2004) Enzyme-mediated DNA looping. Annu. Rev. Biophys. Biomol. Struct., 33, 1-24.
9. Tang,M., Cecconi,C., Bustamante,C. and Rio,D.C. (2007) Analysis of P element transposase protein-DNA interactions during the early stages of transposition. J. Biol. Chem., 282, 29002-29012.
10. Dawson,A. and Finnegan,D.J. (2003) Excision of the Drosophila mariner transposon Mos1. Comparison with bacterial transposition and V(D)J recombination. Mol. Cell, 11, 225-235.
11. Richardson,J.M., Dawson,A., O'Hagan,N., Taylor,P., Finnegan,D.J. and Walkinshaw,M.D. (2006) Mechanism of Mos1 transposition: insights from structural analysis. EMBO J., 25, 1324-1334.
12. Auge-Gouillou,C., Brillet,B., Germon,S., Hamelin,M.H. and Bigot,Y. (2005) Mariner Mos1 transposase dimerizes prior to ITR binding. J. Mol. Biol., 351, 117-130.
13. Auge-Gouillou,C., Brillet,B., Hamelin,M.H. and Bigot,Y. (2005) Assembly of the mariner Mos1 synaptic complex. Mol. Cell Biol., 25, 2861-2870.
14. Richardson,J.M., Colloms,S.D., Finnegan,D.J. and Walkinshaw,M.D. (2009) Molecular architecture of the Mos1 paired-end complex: the structural basis of DNA transposition in a eukaryote. Cell, 138, 1096-1108.
15. Claeys,B.C. and Chalmers,R. (2010) Transposition of the human Hsmar1 transposon: rate-limiting steps and the importance of the flanking TA dinucleotide in second strand cleavage. Nucleic Acids Res., 38, 190-202.
16. Lipkow,K., Buisine,N., Lampe,D.J. and Chalmers,R. (2004) Early intermediates of mariner transposition: catalysis without synapsis of the transposon ends suggests a novel architecture of the synaptic complex. Mol. Cell Biol., 24, 8301-8311.
17. Liu,D., Bischerour,J., Siddique,A., Buisine,N., Bigot,Y. and Chalmers,R. (2007) The human SETMAR protein preserves most of the activities of the ancestral Hsmar1 transposase. Mol. Cell Biol., 27, 1125-1132.
18. Carpentier,G., Jaillet,J., Pflieger,A., Adet,J., Renault,S. and Auge-Gouillou,C. (2011) Transposase-transposase interactions in MOS1 complexes: a biochemical approach. J. Mol. Biol., 405, 892-908.
19. Timmins,P.A. and Zaccai,G. (1988) Low resolution structures of biological complexes studied by neutron scattering. Eur. Biophys. J., 15, 257-268.
20. Stuhrman,H.B. (1974) Neutron small-angle scattering of biological macromolecules in solution. J. Appl. Crystallogr., 7, 173-178.
21. Kennaway,C.K., Taylor,J.E., Song,C.F., Potrzebowski,W., Nicholson,W., White,J.H., Swiderska,A., Obarska-Kosinska,A., Callow,P., Cooper,L.P. et al. (2012) Structure and operation of the DNA-translocating type I DNA restriction enzymes. Genes Dev., 26, 92-104.
22. Taylor,J.E., Swiderska,A., Artero,J.B., Callow,P. and Kneale,G. (2012) Structural and functional analysis of the symmetrical type I restriction endonuclease R.EcoR124I(NT). PLoS One, 7, e35263.
23. Vijayakrishnan,S., Callow,P., Nutley,M.A., McGow,D.P., Gilbert,D., Kropholler,P., Cooper,A., Byron,O. and Lindsay,J.G. (2011) Variation in the organization and subunit composition of the mammalian pyruvate dehydrogenase complex E2/E3BP core assembly. Biochem. J., 437, 565-574.
24. Laux,V., Callow,P., Svergun,D.I., Timmins,P.A., Forsyth,V.T. and Haertlein,M. (2008) Selective deuteration of tryptophan and methionine residues in maltose binding protein: a model system for neutron scattering. Eur. Biophys. J., 37, 815-822.
25. Blakeley,M.P., Ruiz,F., Cachau,R., Hazemann,I., Meilleur,F., Mitschler,A., Ginell,S., Afonine,P., Ventura,O.N., Cousido-Siah,A. et al. (2008) Quantum model of catalysis based on a mobile proton revealed by subatomic x-ray and neutron diffraction studies of h-aldose reductase. Proc. Natl Acad. Sci. USA, 105, 1844-1848.
26. Wood,K., Grudinin,S., Kessler,B., Weik,M., Johnson,M., Kneller,G.R., Oesterhelt,D. and Zaccai,G. (2008) Dynamical heterogeneity of specific amino acids in bacteriorhodopsin. J. Mol. Biol., 380, 581-591.
27. Richardson,J.M., Zhang,L., Marcos,S., Finnegan,D.J., Harding,M.M., Taylor,P. and Walkinshaw,M.D. (2004) Expression, purification and preliminary crystallographic studies of a single-point mutant of Mos1 mariner transposase. Acta Crystallogr. D. Biol. Crystallogr., 60, 962-964.
28. Meilleur,F., Weiss,K.L. and Myles,D.A. (2009) Deuterium labeling for neutron structure-function-dynamics analysis. Methods Mol. Biol., 544, 281-292.
29. Zhang,L., Dawson,A. and Finnegan,D.J. (2001) DNA-binding activity and subunit interaction of the mariner transposase. Nucleic Acids Res., 29, 3566-3575.
30. Konarev,P.V., Volkov,V.V., Sokolova,A.V., Koch,M.H.J. and Svergun,D.I. (2003) PRIMUS: a Windows PC-based system for small-angle scattering data analysis. J. Appl. Crystallogr., 36, 1277-1282.
31. Jacrot,B. (1976) Study of biological structures by neutron-scattering from solution. Rep. Prog. Phys., 39, 911-953.
32. Jacrot,B. and Zaccai,G. (1981) Determination of molecular-weight by neutron-scattering. Biopolymers, 20, 2413-2426.
33. Svergun,D.I., Petoukhov,M.V. and Koch,M.H. (2001) Determination of domain structure of proteins from X-ray solution scattering. Biophys. J., 80, 2946-2953.
34. Kozin,M.B. and Svergun,D.I. (2000) A software system for rigid-body modelling of solution scattering data. J. Appl. Crystallogr., 33, 775-777.
35. Petoukhov,M.V. and Svergun,D.I. (2005) Global rigid body modeling of macromolecular complexes against small-angle scattering data. Biophys. J., 89, 1237-1250.
36. Svergun,D.I. (1999) Restoring low resolution structure of biological macromolecules from solution scattering using simulated annealing. Biophys. J., 76, 2879-2886.
37. Svergun,D.I., Petoukhov,M.V. and Koch,M.H.J. (2001) Determination of domain structure of proteins from X-ray solution scattering. Biophys. J., 80, 2946-2953.
38. Serdyuk,I.N. (1979) A method of joint use of electromagnetic and neutron scattering: a study of internal ribosomal structure. Methods Enzymol., 59, 750-775.
39. Bailin,T., Mo,X.M. and Sadofsky,M.J. (1999) A RAG1 and RAG2 tetramer complex is active in cleavage in V(D)J recombination. Mol. Cell. Biol., 19, 4664-4671.
40. Swanson,P.C. and Desiderio,S. (1999) RAG-2 promotes heptamer occupancy by RAG-1 in the assembly of a V(D)J initiation complex. Mol. Cell. Biol., 19, 3674-3683.
41. Hickman,A.B., Perez,Z.N., Zhou,L., Musingarimi,P., Ghirlando,R., Hinshaw,J.E., Craig,N.L. and Dyda,F. (2005) Molecular architecture of a eukaryotic DNA transposase. Nat. Struct. Mol. Biol., 12, 715-721.
42. Izsvak,Z., Khare,D., Behlke,J., Heinemann,U., Plasterk,R.H. and Ivics,Z. (2002) Involvement of a bifunctional, paired-like DNA-binding domain and a transpositional enhancer in sleeping beauty transposition. J. Biol. Chem., 277, 34581-34588.
43. Butler,M.G., Chakraborty,S.A. and Lampe,D.J. (2006) The N-terminus of Himar1 mariner transposase mediates multiple activities during transposition. Genetica, 127, 351-366.
44. Braam,L.A., Goryshin,I.Y. and Reznikoff,W.S. (1999) A mechanism for Tn5 inhibition - Carboxyl-terminal dimerization. J. Biol. Chem., 274, 86-92.
45. Reznikoff,W.S. (2008) Transposon Tn5. Annu. Rev. Genet., 42, 269-286.
46. Davies,D.R., Goryshin,I.Y., Reznikoff,W.S. and Rayment,I. (2000) Three-dimensional structure of the Tn5 synaptic complex transposition intermediate. Science, 289, 77-85.