Binding of phage Φ29 protein p4 to the early A2c promoter: Recruitment of a repressor by the RNA polymerase

Journal of Molecular Biology

Volumn 283, Issue 3, 1998, Pages 559-569

  Monsalve, María ^a   Calles, Belén ^a   Mencía, Mario ^a   Rojo, Fernando ^b   Salas, Margarita ^a  

^a CENTRO DE BIOLOGÍA MOLECULAR SEVERO OCHOA   (Spain)

^b CENTRO NACIONAL DE BIOTECNOLOGÍA   (Spain)

Author keywords

Bacillus subtilis; DNA binding; Prokaryotic repressors; Protein DNA interactions; Transcription regulation

Indexed keywords

BACTERIAL PROTEIN; REGULATOR PROTEIN; RNA POLYMERASE; DNA BINDING PROTEIN; DNA DIRECTED RNA POLYMERASE; P4 PROTEIN, BACTERIOPHAGE PHI 29; REPRESSOR PROTEIN; TRANSCRIPTION FACTOR; VIRUS DNA; VIRUS PROTEIN;

ARTICLE; BACILLUS SUBTILIS; BACTERIOPHAGE; CARBOXY TERMINAL SEQUENCE; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; REPRESSOR GENE; SEQUENCE HOMOLOGY; TRANSCRIPTION REGULATION; DNA FOOTPRINTING; GENE EXPRESSION REGULATION; GENETICS; METABOLISM; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PROTEIN BINDING; VIROLOGY;

BACILLUS SUBTILIS; BACTERIA (MICROORGANISMS); POSIBACTERIA; PROKARYOTA; UNIDENTIFIED BACTERIOPHAGE;

BACILLUS SUBTILIS; BACTERIOPHAGES; BASE SEQUENCE; DNA FOOTPRINTING; DNA, VIRAL; DNA-BINDING PROTEINS; DNA-DIRECTED RNA POLYMERASES; GENE EXPRESSION REGULATION, BACTERIAL; MOLECULAR SEQUENCE DATA; PROMOTER REGIONS (GENETICS); PROTEIN BINDING; REPRESSOR PROTEINS; SEQUENCE HOMOLOGY, NUCLEIC ACID; TRANSCRIPTION FACTORS; VIRAL PROTEINS;

EID: 0032582346     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1998.2084     Document Type: Article

References (37)

1. Barthelemy I., Salas M. Characterization of a new prokaryotic transcriptional activator and its DNA recognition site. J. Mol. Biol. 208:1989;225-232
2. Choy H.E., Adhya S. Control of gal transcription through DNA looping inhibition of the initial transcribing complex. Proc. Natl Acad. Sci. USA. 89:1992;11264-11268
3. Choy H.E., Park S.W., Aki T., Parrack P., Fujita N., Ishihama A., Adhya S. Repression and activation of transcription by Gal and Lac repressors involvement of alpha subunit of RNA polymerase. EMBO J. 14:1995;4523-4529
4. Crothers D.M., Haran T.E., Nadeau J.G. Intrinsically Bent DNA. J. Biol. Chem. 265:1990;7093-7096
5. Franz B., O'Halloran T.V. DNA distortion accompanies transcriptional activation by the metal-responsive gene-regulatory protein MerR. Biochemistry. 29:1990;4747-4751
6. Gaal T., Ross W., Blatter E.E., Tang H., Jia X., Krishnan V.V., Assa-Munt N., Ebright R.H., Gourse R.L. DNA-binding determinants of the α subunit of RNA polymerase novel DNA-binding domain architecture. Genes Dev. 10:1996;16-26
7. Greene E.A., Spiegelman G.B. The Spo0A protein in Bacillus subtilis inhibits transcription of the abr gene without preventing binding of the polymerase to the promoter. J. Biol. Chem. 271:1996;11455-11461
8. 70RNA polymerase at the metal-regulated mer promoter. Biochemistry. 29:1990;9572-9584
9. Herlitze S., Koenen M. A general rapid mutagenesis method using polymerase chain reaction. Gene. 91:1990;143-147
10. Katahira M., Sugeta H., Kyogotu K. A new model for bending of DNAs containing the oligo (dA) tracts based on NMR observations. Nucl. Acids Res. 18:1990;613-618
11. Levene S.D., Wu H.-M., Crothers D.M. Bending and Flexibility of Kinetoplast DNA. Biochemistry. 25:1986;3988-3995
12. Lobell R.B., Scleif R.F. AraC-DNA looping orientation and distance-dependent loop breaking by the cyclic AMP receptor protein. J. Mol. Biol. 218:1991;45-54
13. Mencía M., Salas M., Rojo F. Residues of the Bacillus subtilis phage Φ29 transcriptional activator required both to interact with RNA polymerase and to activate transcription. J. Mol. Biol. 233:1993;695-704
14. Mencía M., Monsalve M., Rojo F., Salas M. Transcription activation by phage Φ29 protein p4 is mediated by interaction with the α subunit of Bacillus subtilis RNA polymerase. Proc. Natl Acad. Sci. USA. 93:1996;6616-6620
15. Mencía M., Monsalve M., Salas M., Rojo F. Transcriptional activator of phage Φ29 late promoter mapping of residues involved in interaction with RNA polymerase and in DNA bending. Mol. Microbiol. 20:1996;273-282
16. Monsalve M., Mencía M., Rojo F., Salas M. Transcription regulation in bacteriophage Φ29 expression of the viral promoters throughout the infection cycle. Virology. 207:1995;23-31
17. Monsalve M., Mencía M., Rojo F., Salas M. Activation and repression of transcription at two different phage Φ29 promoters are mediated by interaction of the same residues of regulatory protein p4 with the RNA polymerase. EMBO J. 15:1996;383-391
18. Monsalve M., Mencía M., Salas M., Rojo F. Protein p4 represses phage Φ29 A2c promoter by interacting with the α subunit of Bacillus subtilis RNA polymerase. Proc. Natl Acad. Sci. USA. 93:1996;8913-8918
19. Monsalve M., Calles B., Mencía M., Salas M., Rojo F. Transcription activation or repression by phage Φ29 protein p4 depends on the strength of the RNA polymerase-promoter interactions. Mol. Cell. 1:1997;99-107
20. Nuez B., Salas M. Bacteriophage Nf DNA region controlling late transcription structural and functional homology with bacteriophage Φ29. Nucl. Acids Res. 21:1993;2861-2865
21. Nuez B., Rojo F., Barthelemy I., Salas M. Identification of the sequences recognized by phage Φ29 transcriptional activator possible interaction between the activator and the RNA polymerase. Nucl. Acids Res. 19:1991;2337-2342
22. Nuez B., Rojo F., Salas M. Phage Φ29 regulatory protein p4 stabilizes the binding of the RNA polymerase to the late promoter in a process involving direct protein-protein contacts. Proc. Natl Acad. Sci. USA. 89:1992;11401-11405
23. Nuez B., Rojo F., Salas M. Requirement for an A-tract structure at the binding site of phage Φ29 transcriptional activator. J. Mol. Biol. 237:1994;175-181
24. Richet E., Vidal-Igigliardi D., Raibaud O. A new mechanism for coactivation of transcription initiation repositioning of an activator triggered by the binding of a second activator. Cell. 66:1991;1185-1195
25. Rojo F., Salas M. A DNA curvature can substitute phage Φ29 regulatory protein p4 when acting as a transcriptional repressor. EMBO J. 10:1991;3429-3438
26. Rojo F., Salas M. Transcriptional regulators protein-DNA complexes and regulatory mechanisms. Adolph K.W. Methods in Molecular Genetics. vol. 6B:1995;421-438 Academic Press
27. Rojo F., Zaballos A., Salas M. Bend induced by phage Φ29 transcriptional activator in the viral late promoter is required for activation. J. Mol. Biol. 211:1990;713-725
28. Ross W., Gosink K.K., Salomon J., Igarashi K., Zou C., Ishihama A., Severinov K., Gourse R.L. A third recognition element in bacterial promoters DNA binding by the α subunit of RNA polymerase. Science. 262:1993;1407-1413
29. Schickor P., Metzger W., Werel W., Lederer H., Heumann H. Topography of intermediates in transcription initiation in E. coli. EMBO J. 9:1990;2215-2220
30. Siebenlist U., Gilbert W. Contacts between Escherichia coli RNA polymerase and the early promoter of phage T7. Proc. Natl Acad. Sci. USA. 77:1980;122-126
31. Smith T.L., Sauer R.T. Dual regulation of open-complex formation and promoter clearance by Arc explains a novel repressor to activator switch. Proc. Natl Acad. Sci. USA. 93:1996;8868-8872
32. Søgaard-Andersen L., Valentin-Hansen P. Protein-protein interactions in gene regulation the cAMP-CRP complex sets the specificity of a second DNA-binding protein, the CytR repressor. Cell. 75:1993;557-566
33. Søgaard-Andersen L., Møllegaard N.E., Douthwaite S.R., Valentin-Hansen P. Tandem DNA-bound cAMP-CRP complexes are required for transcriptional repression of the deoP2 promoter by the CytR repressor in Escherichia coli. Mol. Microbiol. 4:1990;1595-1601
34. Sogo J.M., Inciarte M.R., Corral J., Viñuela E., Salas M. RNA polymerase binding sites and transcription of the DNA of Bacillus subtilis phage Φ29. J. Mol. Biol. 127:1979;411-436
35. Suck D., Lahm A., Oefner C. Structure refined to 2 Å of a nicked DNA octanucleotide complex with DNase I. Nature. 332:1988;464-468
36. Tullius T.D., Dombrosky B.A. Hydroxyl-radical footprinting high resolution information about DNA-protein contacts and application to λ repressor and Cro protein. Proc. Natl Acad. Sci. USA. 83:1986;5469-5473
37. Williams D.R., Motallebi-Veshareh M., Thomas C.M. Multifunctional repressor KorB can block transcription by preventing isomerization of RNA polymerase-promoter complexes. Nucl. Acids Res. 21:1993;1141-1148