Abstract
Bacteriophage T4 encodes a transcription factor, MotA, that binds to the -30 region of middle-mode promoters and activates transcription by host RNA polymerase. We have solved the structure of the MotA activation domain to 2.2 A by X-ray crystallography, and have also determined its secondary structure by NMR. An area on the surface of the protein has a distinctive patch that is populated with acidic and hydrophobic residues. Mutations within this patch cause a defective T4 growth phenotype, arguing that the patch is important for MotA function. One of the mutant MotA activation domains was purified and analyzed by NMR, and the spectra clearly show that the domain is properly folded. The mutant full-length protein appears to bind DNA normally but is deficient in transcriptional activation. We conclude that the acidic/hydrophobic surface patch is specifically involved in transcriptional activation, which is reminiscent of eukaryotic acidic activation domains.
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Selected References
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- Benson K. H., Kreuzer K. N. Role of MotA transcription factor in bacteriophage T4 DNA replication. J Mol Biol. 1992 Nov 5;228(1):88–100. doi: 10.1016/0022-2836(92)90493-4. [DOI] [PubMed] [Google Scholar]
- Busby S., Ebright R. H. Promoter structure, promoter recognition, and transcription activation in prokaryotes. Cell. 1994 Dec 2;79(5):743–746. doi: 10.1016/0092-8674(94)90063-9. [DOI] [PubMed] [Google Scholar]
- Finnin M. S., Hoffman D. W., White S. W. The DNA-binding domain of the MotA transcription factor from bacteriophage T4 shows structural similarity to the TATA-binding protein. Proc Natl Acad Sci U S A. 1994 Nov 8;91(23):10972–10976. doi: 10.1073/pnas.91.23.10972. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Gerber J. S., Hinton D. M. An N-terminal mutation in the bacteriophage T4 motA gene yields a protein that binds DNA but is defective for activation of transcription. J Bacteriol. 1996 Nov;178(21):6133–6139. doi: 10.1128/jb.178.21.6133-6139.1996. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Grzesiek S., Bax A. Amino acid type determination in the sequential assignment procedure of uniformly 13C/15N-enriched proteins. J Biomol NMR. 1993 Mar;3(2):185–204. doi: 10.1007/BF00178261. [DOI] [PubMed] [Google Scholar]
- Jaishree T. N., Ramakrishnan V., White S. W. Solution structure of prokaryotic ribosomal protein S17 by high-resolution NMR spectroscopy. Biochemistry. 1996 Mar 5;35(9):2845–2853. doi: 10.1021/bi951062i. [DOI] [PubMed] [Google Scholar]
- Jones T. A., Zou J. Y., Cowan S. W., Kjeldgaard M. Improved methods for building protein models in electron density maps and the location of errors in these models. Acta Crystallogr A. 1991 Mar 1;47(Pt 2):110–119. doi: 10.1107/s0108767390010224. [DOI] [PubMed] [Google Scholar]
- Kim J. L., Nikolov D. B., Burley S. K. Co-crystal structure of TBP recognizing the minor groove of a TATA element. Nature. 1993 Oct 7;365(6446):520–527. doi: 10.1038/365520a0. [DOI] [PubMed] [Google Scholar]
- Kim Y., Geiger J. H., Hahn S., Sigler P. B. Crystal structure of a yeast TBP/TATA-box complex. Nature. 1993 Oct 7;365(6446):512–520. doi: 10.1038/365512a0. [DOI] [PubMed] [Google Scholar]
- Kreuzer K. N., Engman H. W., Yap W. Y. Tertiary initiation of replication in bacteriophage T4. Deletion of the overlapping uvsY promoter/replication origin from the phage genome. J Biol Chem. 1988 Aug 15;263(23):11348–11357. [PubMed] [Google Scholar]
- Kreuzer K. N., Jongeneel C. V. Escherichia coli phage T4 topoisomerase. Methods Enzymol. 1983;100:144–160. doi: 10.1016/0076-6879(83)00051-8. [DOI] [PubMed] [Google Scholar]
- Kussie P. H., Gorina S., Marechal V., Elenbaas B., Moreau J., Levine A. J., Pavletich N. P. Structure of the MDM2 oncoprotein bound to the p53 tumor suppressor transactivation domain. Science. 1996 Nov 8;274(5289):948–953. doi: 10.1126/science.274.5289.948. [DOI] [PubMed] [Google Scholar]
- Lüthy R., Bowie J. U., Eisenberg D. Assessment of protein models with three-dimensional profiles. Nature. 1992 Mar 5;356(6364):83–85. doi: 10.1038/356083a0. [DOI] [PubMed] [Google Scholar]
- Menkens A. E., Kreuzer K. N. Deletion analysis of bacteriophage T4 tertiary origins. A promoter sequence is required for a rifampicin-resistant replication origin. J Biol Chem. 1988 Aug 15;263(23):11358–11365. [PubMed] [Google Scholar]
- Nicholls A., Sharp K. A., Honig B. Protein folding and association: insights from the interfacial and thermodynamic properties of hydrocarbons. Proteins. 1991;11(4):281–296. doi: 10.1002/prot.340110407. [DOI] [PubMed] [Google Scholar]
- Nikolov D. B., Hu S. H., Lin J., Gasch A., Hoffmann A., Horikoshi M., Chua N. H., Roeder R. G., Burley S. K. Crystal structure of TFIID TATA-box binding protein. Nature. 1992 Nov 5;360(6399):40–46. doi: 10.1038/360040a0. [DOI] [PubMed] [Google Scholar]
- O'Farrell P. Z., Gold L. M. Transcription and translation of prereplicative bacteriophage T4 genes in vitro. J Biol Chem. 1973 Aug 10;248(15):5512–5519. [PubMed] [Google Scholar]
- Ouhammouch M., Adelman K., Harvey S. R., Orsini G., Brody E. N. Bacteriophage T4 MotA and AsiA proteins suffice to direct Escherichia coli RNA polymerase to initiate transcription at T4 middle promoters. Proc Natl Acad Sci U S A. 1995 Feb 28;92(5):1451–1455. doi: 10.1073/pnas.92.5.1451. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ouhammouch M., Orsini G., Brody E. N. The asiA gene product of bacteriophage T4 is required for middle mode RNA synthesis. J Bacteriol. 1994 Jul;176(13):3956–3965. doi: 10.1128/jb.176.13.3956-3965.1994. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Pabo C. O., Sauer R. T. Transcription factors: structural families and principles of DNA recognition. Annu Rev Biochem. 1992;61:1053–1095. doi: 10.1146/annurev.bi.61.070192.005201. [DOI] [PubMed] [Google Scholar]
- Spicer E. K., Rush J., Fung C., Reha-Krantz L. J., Karam J. D., Konigsberg W. H. Primary structure of T4 DNA polymerase. Evolutionary relatedness to eucaryotic and other procaryotic DNA polymerases. J Biol Chem. 1988 Jun 5;263(16):7478–7486. [PubMed] [Google Scholar]
- Triezenberg S. J. Structure and function of transcriptional activation domains. Curr Opin Genet Dev. 1995 Apr;5(2):190–196. doi: 10.1016/0959-437x(95)80007-7. [DOI] [PubMed] [Google Scholar]
- Uzan M., Brody E., Favre R. Nucleotide sequence and control of transcription of the bacteriophage T4 motA regulatory gene. Mol Microbiol. 1990 Sep;4(9):1487–1496. doi: 10.1111/j.1365-2958.1990.tb02059.x. [DOI] [PubMed] [Google Scholar]
- Venters R. A., Calderone T. L., Spicer L. D., Fierke C. A. Uniform 13C isotope labeling of proteins with sodium acetate for NMR studies: application to human carbonic anhydrase II. Biochemistry. 1991 May 7;30(18):4491–4494. doi: 10.1021/bi00232a017. [DOI] [PubMed] [Google Scholar]
- Zawel L., Reinberg D. Common themes in assembly and function of eukaryotic transcription complexes. Annu Rev Biochem. 1995;64:533–561. doi: 10.1146/annurev.bi.64.070195.002533. [DOI] [PubMed] [Google Scholar]
- de Franciscis V., Favre R., Uzan M., Leautey J., Brody E. In vitro system for middle T4 RNA. II. Studies with T4-modified RNA polymerase. J Biol Chem. 1982 Apr 25;257(8):4097–4101. [PubMed] [Google Scholar]