Genetic and biochemical analysis of the integration host factor of Escherichia coli

Journal of Molecular Biology

Volumn 231, Issue 3, 1993, Pages 646-657

  Mengeritsky, Gatina ^a   Goldenberg, Daniel ^a   Mendelson, Itai ^a   Giladi, Hilla ^a   Oppenheim, Amos B ^a  

^a HEBREW UNIVERSITY   (Israel)

Author keywords

E. coli; HU; IHF; Protein structure; Protein DNA interactions

Indexed keywords

EID: 0027327311     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1993.1316     Document Type: Article

References (43)

1. Bonnefoy, E. & Rouviere-Yaniv, J. (1991). HU and IHF, two homologous histone-like proteins of Escherichia coli, form different protein-DNA complexes with short DNA fragments. EM BO J. 10, 687-696.
2. Boubrik, F., Bonnefoy, E. & Rouviere-Yaniv, J. (1991) HU and IHF: similarities and differences. In Escherichia coli, the lack of HU is not compensated for by IHF. Res. Microbiol. 142, 239-247.
3. Bradford, M. M. (1976). A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein dye binding. Aval. Biochem. 72, 248-254.
4. Court, D., Huang, T. F. & Oppenheim, A. B. (1983). Deletion analysis of the retroregulatory site for the X int gene. J. Mol. Biol. 166, 233-240.
5. Craig, N. & Nash, H. A. (1984). E. coli Integration host factor binds to specific sites in DNA. Cell, 39, 707-716.
6. Dente, L. & Cortese, R. (1987) EMBL: a new family of single-stranded plasmids for sequencing DNA. Methods Enzymol. 155, 111-119.
7. Drlica, K. & Rouviere-Yaniv, J. (1987). Histone-like pro-teins of bacteria. Microbiol. Rev. 51, 301-319.
8. Enquist, L. W. & Weisberg, R. A. (1976). The red plaque test: a rapid method for identification of excision defective variants of bacteriophage lambda. Viroloyy, 72, 147-153.
9. Enquist, L. W. & Weisberg, R. A. (1977). A genetie analysis of the att-int-xis region of coliphage lambda. J. Mol. Biol. 111, 97-120.
10. Flamm, E. L. & Weisberg, R. A. (1985). Primary struc-ture of the hip gene of Escherichia coli and of its product, the ß subunit of Integration host factor. J. Mol. Biol. 183, 117-128.
11. Fried, M. G. (1989). Measurements of protein-DNA inter-action pararneters by eleetrophoresis mobility shift assay. Eleetrophoresis, 10, 366-376.
12. Fried, M. & Crothers, D. M (1981). Equilibria and kinetics of lac repressor-operator interactions by polyacrylamide gel eleetrophoresis. Nucl. Acids Res. 9, 6505-6525.
13. Friedman, D. I. (1988). Integration host factor: a protein for all reasons. Cell, 55, 545-554.
14. Giladi, H., Gottesman, Al. & Oppenheim, A. B. (1990). Integration host factor stimulates the phage lambda pL promoter. J. Mol. Biol. 213, 109-121.
15. Giladi, H., Koby, S., Gottesman, M. E. & Oppenheim, A. B. (1992). Supercoiling, integration host factor, and a dual promoter System, participate in the control of the bacteriophage X pL promoter. J. Mol. Biol. 224, 937-948.
16. Goodman, S. D. & Nash, H. A. (1989). Functional replace-ment of a protein-induced bend in a DNA recombina-tion site, Nature (London), 341, 251-254.
17. Goshima, N., Kohno, K., Imamoto, F. & Kano, Y. (1990). HU-l mutants of Escherichia coli deficient in DNA binding. Gene, 96, 141-145.
18. Giiffo, G., Oppenheim, A. B. & Gottesman, M. E. (1989). Repression of the X pein promoter by integrative host factor. J. Mol. Biol. 209, 55-64.
19. Haluzi, H., Goitein, D., Koby, S., Mendelson, I., Teflf, D., Mengeritsky, €., Giladi, H. & Oppenheim, A. B. (1991). Genes coding for integration host factor are conserved in Gram-negative bacteria. J. Bacteriol. 173, 6297-6299.
20. Hubbard, A. J., Bracco, L. P., Eisenbeis, S. J., Gayle, R. B., Beaton, G. & Caruthers, M. H, (1990). Role of the Cro repressor carboxy-terminal domain and flexible dimer linkage in operator and nonspeeific DNA binding. Biochemistry, 29, 9241-9249.
21. Hutchison, C. A., Nordeen, S. K., Vogt, K. & Edgell, M. H. (1986). A complete library of point Substitution mutations in the glucocorticoid response element of mouse mammary tumor virus. Proc. Nat. Acad. Sei., U.S.A. 83, 710-714.
22. Kikuchi, A., Flamm, E. & Weisberg, R. A. (1985). An Escherichia coli mutant unable to Support site-specific recombination of bacteriophage X, J. Mol. Biol. 183, 129-140.
23. Kim, J., Zwieb, C., Wu, C. & Adhya, S. (1989). Bending of DNA by gene-regulatory proteins: construetion and use of a DNA bending vector. Gene, 85. 15-23.
24. Krause, H. M. & Higgins, N. P. (1986). Positive and negative regulation of the Mu operator by Mu repressor and Escherichia coli integration host factor. J. Biol. Chem. 261, 3744-3752.
25. Lee, E. O., Haies, L. M., Gumport, R. I. & Gardner, J, F. (1992). The isolation and characterization of mutants of the integration host factor (IHF) of Escherichia coli with alte red, expanded DNA-binding specifid-ties. EM BO J. 11, 305-313.
26. Li l, J. & Parkinson, J. S. (1989). Genetic and sequence analysis of the pen B locus, an Escherichia coli gene involved in plasmid eopy number control. J. Bacteriol. 171, 1254-1261.
27. Mendelson, I., Gottesman, M. & Oppenheim, A. B. (1991). HU and integration host factor function as auxiliary proteins in cleavage of phage lambda cohesive ends by terminase. J. Bacteriol. 173, 1670-1676.
28. Nash, H. A. & Granston, A. E. (1991). Similarity between the DNA-binding domains of IHF protein and TFIID protein. Cell, 67, 1037-1038.
29. Nash, H. A., Robertson, C. A., Flamm, E., Weisberg, R. A. & Miller, H. I. (1987). Overproduction of Escherichia coli Integration host factor, a protein with nonidentical subunits. J. Bacteriol. 169, 4124-4127.
30. Ptashne, M. (1986). A Genetic Switch, Cell and Blackwell Scientific Press, Cambridge, MA.
31. Richet, E., Abcarian, P. & Nash, H. A. (1988). Synapsis of attachment sites during lambda integrative recombination involves captu re of a naked DNA by a protein-DNA eomplex. Cell, 52, 9-17.
32. Robertson, C. A. & Nash, H. A. (1988). Bending of the bacteriophage lambda attachment site by Escherichia coli integration host factor. J. Biol. Chem. 263, 3554-3557.
33. Rosenberg, AL, Court, D., Shimatake, A., Brady, C. & Wulff, D. L. (1978). The relation between function and DNA sequence in an intercistronic regulatory region in phage X. Nature (London), 272, 414-423.
34. Sambrook, J., Fritsch, E. F. & Maniatis, T. (1989). Molecular Cloniny: A Laboratory Manual, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
35. Sänger, F., Nicklen, S. & Coulson, A. R. (1977). DNA sequencing with chain-terrninating Inhibitors. Proc. Nat. Acad. Sri., U.S.A. 74, 5463-5467.
36. Sayre, M. H. & Ceiduschek, E. P. (1988). TF1, the bacteriophage SPOl-encoded type II DNA-binding protein, is essential for viral inultiplication. J. Virol. 62, 3455-3462.
37. Sayre, AI. H. & Ceiduschek, E. P, (1990). Effects of mutations at amino acid 61 in the arm of TF1 on its DNA-binding properties. J. Mol. Biol. 216, 819-833.
38. Tanaka, I., Appelt, K., Dijk, J., White, S. W. & Whlson, K. S. (1984) 3 Â resolution strueture of a protein with histone-like properties in prokaryotes. Nature (London), 310, 376-381.
39. Thompson, J. F. & Landy, A. (1988). Empirical estima-tion of protein-induced DNA bending angles: applica-tions to lambda site-specific recombination complexes. Nucl. Acids Res. 16, 9687-9705.
40. Thompson, H. F., Waechter-Brulla, D., Gumport, R. I., Gardner, J. F., De Vargas, L. M. & Landy, A, (1986). Mutations in an integration host factor-binding site: effect on lambda site-specific recombination and regulatory implications. J. Bacteriol. 168, 1343-1351.
41. van Rijn, P. A., Goosen, N. & van de Putte, P. (1988). Integration host factor of Escherichia coli regulates early and repressor transcription of bacteriophage Alu by two different mechanisms. Nucl. Acids Res. 16, 4595-4605.
42. Weiss, M. A., Ellenberger, T., Wobbe, C. R., Lee, J. R., Harrison, S. C. & Ktruhl, K. (1990). Fol ding transi-tion in the DNA-binding domain of GCN4 on specific binding to DNA. Nature (London), 347, 575-578.
43. r., Appelt, K., Whlson, K. S. & Tanaka, I. (1989). A protein structural motif that bends DNA. Proteins: Struct. Fv.nct. Geriet. 5, 281-288.