Substrate recognition and induced DNA deformation by transposase at the target-capture stage of Tn10 transposition

Journal of Molecular Biology

Volumn 303, Issue 2, 2000, Pages 145-159

  Pribil, Patrick A ^a   Haniford, David B ^a  

^a UNIVERSITY OF WESTERN ONTARIO   (Canada)

Author keywords

DNA transposition; Phosphorothioate substitution; Protein DNA interactions; Tn10; Transposase

Indexed keywords

PHOSPHOROTHIOIC ACID; TRANSPOSASE;

ANIMAL CELL; ARTICLE; COMPLEX FORMATION; COVALENT BOND; DNA DEGRADATION; DNA FLANKING REGION; DNA TRANSPOSITION; ENZYME ACTIVE SITE; ENZYME SUBSTRATE; GENE TARGETING; METHYLATION; MOLECULAR RECOGNITION; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN DNA INTERACTION; TARGET CELL; TRANSPOSON;

ANIMALIA; BACTERIA (MICROORGANISMS); PROKARYOTA;

EID: 0034692874     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.2000.4135     Document Type: Article

References (46)

1. All three residues of the Tn10 transposase DDE catalytic triad function in divalent metal ion binding
2. Genetic evidence that Tn10 transposes by a nonreplicative mechanism
3. IS10 transposase mutations that specifically alter target site recognition
4. Tn10 insertion specificity is strongly dependent upon sequences immediately adjacent to the target-site consensus sequence
5. Intramolecular transposition by Tn10
6. The two single-strand cleavages at each end of Tn10 occur in a specific order during transposition
7. The three chemical steps of Tn10/IS10 transposition involve repeated utilization of a single active site
8. Structural principles for the inhibition of the 3'-5' exonuclease activity of Escherichia coli DNA polymerase I by phosphorothioates
9. Tn10/IS10 transposase purification, activation, and in vitro reaction
10. IHF modulation of Tn10 transposition: Sensory transduction of supercoiling status via a proposed protein/DNA molecular spring
11. Target site selection in transposition
12. Nucleoside phosphorothioates
13. Bond order and charge localization in nucleoside phosphorothioates
14. Substitutions in conserved dodecapeptide motifs that uncouple the DNA binding and DNA cleavage activities of PI-SceI endonuclease
15. Substrate recognition and induced DNA distortion by the PI-Sce1 endonuclease, an enzyme generated by protein splicing
16. A symmetrical six-base-pair target site sequence determines Tn10 insertion specificity
17. A specific class of IS10 transposase mutants are blocked for target site interactions and promote formation of an excised transposon fragment
18. Kinetic and structural analysis of a cleaved donor intermediate and a strand transfer intermediate in Tn10 transposition
19. The gamma delta resolvase induces an unusual DNA structure at the recombinational crossover point
20. Factors responsible for target site selection in Tn10 transposition: A role for the DDE motif in target DNA capture
21. Tn10 transposition via a DNA hairpin intermediate
22. Single active site catalysis of the successive phosphoryl transfer steps by DNA transposases: Insights from phosphorothioate stereoselectivity
23. 2+ binding to the active site of EcoRV endonuclease: A crystallographic study of complexes with substrate and product at 2 Å resolution
24. Application of phosphate-backbone-modified oligonucleotides in the study on EcoRI endonuclease mechanism of action
25. Structural domains of IS10 transposase and reconstitution of transposition activity from proteolytic fragments lacking an interdomain linker
26. 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
27. Efficient Tn10 transposition into a DNA insertion hotspot in vivo requires the 5-methyl groups of symmetrically disposed thymines within the hotspot consensus sequence
28. Stereoselective interaction with chiral phosphorothioates at the central DNA kink of the EcoRI endonuclease-GAATTC complex
29. Sequencing end-labeled DNA with base-specific chemical cleavages
30. Ethidium fluorescence assays: Physicochemical studies
31. DNA bending creates favored sites for retroviral integration: An explanation for preferred insertion sites in nucleosomes
32. Overproduction of Escherichia coli integration host factor, a protein with nonidentical subunits
33. The structure of an oligo(dA)-oligo(dT) tract and its biological implications
34. Metal ion catalysis in the Tetrahymena ribozyme reaction
35. Recognition of triple-helical DNA structures by transposon Tn7
36. Crystal structure of an IHF-DNA complex: A protein-induced DNA U-turn
37. The Tn10 synaptic complex can capture a target DNA only after transposon excision
38. Identification and characterization of a pre-cleavage synaptic complex that is an early intermediate in Tn10 transposition
39. Tn10 transpososome assembly involves a folded intermediate that must be unfolded for target Capture and strand transfer
40. Targeting transposition: At home in the genome
41. Contacts between Escherichia coli RNA polymerase and an early promoter of phage T7
42. Nuclease activity of 1,10-phenanthroline-copper in the study of protein-DNA interaction
43. Actinomycin and DNA transcription
44. Organization of DNA in chromatin
45. The crystal structure of EcoRV endonuclease and of its complexes with cognate and non-cognate DNA fragments
46. The interaction of E. coli IHF protein with its specific binding sites