The response regulator BvgA and RNA polymerase α subunit C-terminal domain bind simultaneously to different faces of the same segment of promoter DNA

Molecular Cell

Volumn 11, Issue 1, 2003, Pages 163-173

  Boucher, Philip E ^a   Maris, Ann E ^b   Yang, Mei Shin ^a   Stibitz, Scott ^a  

^a Ctr for Biologics Eval/R F/D A   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; DIMER; DNA; MONOMER; PROTEIN BVGA; RNA POLYMERASE; UNCLASSIFIED DRUG;

ARTICLE; BINDING KINETICS; BINDING SITE; BORDETELLA PERTUSSIS; CARBOXY TERMINAL SEQUENCE; DNA BINDING; ENZYME BINDING; ENZYME SUBUNIT; PROMOTER REGION; X RAY CRYSTALLOGRAPHY;

BACTERIA (MICROORGANISMS); BORDETELLA; BORDETELLA PERTUSSIS;

EID: 0037245762     PISSN: 10972765     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1097-2765(03)00007-8     Document Type: Article

References (29)

1. Baikalov I., Schroder I., Kaczor-Grzeskowiak M., Grzeskowiak K., Gunsalus R.P., Dickerson R.E. Structure of the Escherichia coli response regulator NarL. Biochemistry. 35:1996;11053-11061.
2. Baikalov I., Shroder I., Kaczor-Grzeskowiak M., Cascio D., Gunsalus R.P., Dickerson R.E. NarL dimerization? Suggestive evidence from a new crystal form. Biochemistry. 37:1998;3665-3676.
3. Beier D., Schwarz B., Fuchs T.M., Gross R. In vivo characterization of the unorthodox BvgS two-component sensor protein of Bordetella pertussis. J. Mol. Biol. 248:1995;596-610.
4. Benoff B., Yang H., Lawson C.L., Parkinson G., Liu J., Blatter E., Ebright Y.W., Berman H.M., Ebright R.H. Structural basis of transcription activation. The CAP-α CTD-DNA complex Science. 297:2002;1562-1566.
5. Boucher P.E., Stibitz S. Synergistic binding of RNA polymerase and BvgA phosphate to the pertussis toxin promoter of Bordetella pertussis. J. Bacteriol. 177:1995;6486-6491.
6. Boucher P.E., Menozzi F.D., Locht C. The modular architecture of bacterial response regulators. Insights into the activation mechanism of the BvgA transactivator of Bordetella pertussis. J. Mol. Biol. 241:1994;363-377.
7. Boucher P.E., Murakami K., Ishihama A., Stibitz S. Nature of DNA binding and RNA polymerase interaction of the Bordetella pertussis BvgA transcriptional activator at the fha promoter. J. Bacteriol. 179:1997;1755-1763.
8. Boucher P.E., Yang M.-S., Schmidt D.M., Stibitz S. Genetic and biochemical analyses of BvgA interaction with the secondary binding region of the fha promoter of Bordetella pertussis. J. Bacteriol. 183:2001;536-544.
9. Busby S., Ebright R. Transcription activation by catabolite activator protein (CAP). J. Mol. Biol. 293:1999;199-213.
10. Choy H.E., Hanger R.R., Aki T., Mahoney M., Murakami K., Ishihama A., Adhya S. Repression and activation of promoter-bound RNA polymerase activity by Gal Repressor. J. Mol. Biol. 272:1997;293-300.
11. Greiner D.P., Miyake R., Moran J.K., Jones A.D., Negishi T., Ishihama A., Meares C.F. Synthesis of the protein cutting reagent iron (S)-1-(p-bromoacetamidobenzyl)ethylenediaminetetraacetate and conjugation to cysteine side chains. Bioconjug. Chem. 8:1997;44-48.
12. Karimova G., Bellalou J., Ullmann A. Phosphorylation-dependent binding of BvgA to the upstream region of the cyaA agene of Bordetella pertussis. Mol. Microbiol. 20:1996;489-496.
13. Landini P., Volkert M.R. RNA polymerase alpha subunit binding site in positively controlled promoters. a new model for RNA polymerase-promoter interaction and transcriptional activation in the Escherichia coli ada and aidB genes EMBO J. 14:1995;4329-4335.
14. Landini P., Bown J.A., Volkert M.R., Busby S.J. Ada protein-RNA polymerase sigma subunit interaction and alpha subunit-promoter interaction are necessary at different steps in transcription initiation at the Escherichia coli ada and aidB promoters. J. Biol. Chem. 273:1998;13307-13312.
15. Lonetto M.A., Lamberg R.V., Kiley P., Busby S., Gross C. Identification of a contact site for different transcription activators in region 4 of the Escherichia coli RNA polymerase sigma70 subunit. J. Mol. Biol. 284:1998;1353-1365.
16. Maris A.E., Sawaya M.R., Kaqczor-Grzeskowiak M., Jarvis M.R., Bearson S.M., Kopka M.L., Schroder I., Gunsalus R.P., Dickerson R.E. Dimerization allows DNA target site recognition by the NarL response regulator. Nat. Struct. Biol. 10:2002;771-778.
17. Mattoo S., Foreman-Wykert A.K., Cotter P.A., Miller J.F. Mechanisms of Bordetella pathogenesis. Front. Biosci. 6:2001;E168-E186.
18. Miller J.H. Experiments in molecular genetics. 1972;Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York.
19. Murakami K., Owens J.T., Belyaeva T.A., Meares C.F., Busby S.J.W., Ishihama A. Positioning of two alpha subunit carboxy-terminal domains of RNA polymerase at promoters by two transcription factors. Proc. Natl. Acad. Sci. USA. 94:1997;11274-11278.
20. Naryshkin N., Revyakin A., Kim Y., Mekler V., Ebright R.H. Structural organization of the RNA polymerase-promoter open complex. Cell. 101:2000;601-611.
21. 70 subunits participate in transcription of the Escherichia coli uhpT promoter. J. Bacteriol. 181:1999;7266-7273.
22. Olekhnovich I.N., Kadner R.J. Mutational scanning and affinity cleavage analysis of UhpA-binding sites in the Escherichia coli uhpT promoter. J. Bacteriol. 184:2002;2682-2691.
23. Ross W., Ernst A., Gourse R.L. Fine structure of E. coli RNA polymerse-promoter interactions. alpha subunit binding to the UP element minor groove Genes Dev. 15:2001;491-506.
24. Scarlato V., Prugnola A., Arico B., Rappuoli R. Positive transcriptional feedback at the bvg locus controls the expression of virulence factors in Bordetetella pertussis. Proc. Natl. Acad. Sci. USA. 87:1990;6753-6757.
25. Severinov K., Soushko M., Goldfarb A., Nikiforov V. Rifampicin region revisited. New rifampicin-resistant and streptolydgin-resistant mutants in the beta subunit of Escherichia coli RNA polymerase. J. Biol. Chem. 268:1993;14820-14825.
26. Stibitz S. Mutations affecting the α subunit of Bordetella pertussis RNA polymerase suppress growth inhibition conferred by short C-terminal deletions of the response regulator BvgA. J. Bacteriol. 180:1998;2484-2492.
27. Tang H., Kim Y., Severinov K., Goldfarb A., Ebright R.H. Escherichia coli RNA polymerase holoenzyme. rapid reconstitution from recombinant α, β, β′, and σ subunits Methods Enzymol. 273:1996;130-134.
28. Yasuno K., Yamazaki T., Tanaka Y., Kodama T.S., Matsugami A., Katahira M., Ishihama A., Kyogoku Y. Interaction of the C-terminal domain of the E. coli RNA polymerase alpha subunit with the UP element. recognizing the backbone structure in the minor groove surface J. Mol. Biol. 306:2001;213-225.
29. Zalenskaya K., Lee J., Gujuluva C.N., Shin Y.K., Slutsky M., Goldfarb A. Recombinant RNA polymerase. inducible expression, purification, and assembly of Escherichia coli rpo gene products Gene. 89:1990;7-12.