Human mitochondrial transcription factor B2 is required for promoter melting during initiation of transcription

Journal of Biological Chemistry

Volumn 292, Issue 7, 2017, Pages 2637-2645

  Posse, Viktor ^a   Gustafsson, Claes M ^a  

^a UNIVERSITY OF GOTHENBURG   (Sweden)

Author keywords

[No Author keywords available]

Indexed keywords

MACHINERY; MELTING; NUCLEIC ACIDS; PHOSPHORYLATION; TRANSCRIPTION FACTORS;

BUBBLE-TEMPLATE; MITOCHONDRIAL DNA; MITOCHONDRIAL TRANSCRIPTION; MITOCHONDRIAL TRANSCRIPTION FACTOR; OXIDATIVE PHOSPHORYLATION; POTASSIUM PERMANGANATE; RNA POLYMERASE; TRANSCRIPTION INITIATION;

TRANSCRIPTION;

DEOXYRIBONUCLEASE I; MITOCHONDRIAL DNA; PERMANGANATE POTASSIUM; RNA POLYMERASE; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR A; TRANSCRIPTION FACTOR B2; UNCLASSIFIED DRUG; METHYLTRANSFERASE; MITOCHONDRIAL PROTEIN; TFB2M PROTEIN, HUMAN;

ARTICLE; BIOGENESIS; CONTROLLED STUDY; GENE EXPRESSION; HUMAN; HUMAN CELL; IN VITRO STUDY; MOLECULAR INTERACTION; MOLECULAR MODEL; OXIDATIVE PHOSPHORYLATION; PROMOTER MELTING; PROTEIN FOOTPRINTING; PROTEIN FUNCTION; PROTEIN MODIFICATION; TRANSCRIPTION INITIATION; DNA FOOTPRINTING; GENETIC TRANSCRIPTION; METABOLISM; MITOCHONDRION; PHOSPHORYLATION; PROMOTER REGION;

DNA FOOTPRINTING; HUMANS; METHYLTRANSFERASES; MITOCHONDRIA; MITOCHONDRIAL PROTEINS; PHOSPHORYLATION; PROMOTER REGIONS, GENETIC; TRANSCRIPTION FACTORS; TRANSCRIPTION, GENETIC;

EID: 85013149551     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M116.751008     Document Type: Article

References (30)

1. Gustafsson, C. M., Falkenberg, M., and Larsson, N. G. (2016) Maintenance and expression of mammalian mitochondrial DNA. Annu. Rev. Biochem. 85, 133-160
2. Masters, B. S., Stohl, L. L., and Clayton, D. A. (1987) Yeast mitochondrial RNA polymerase is homologous to those encoded by bacteriophages T3 and T7. Cell 51, 89-99
3. Ringel, R., Sologub, M., Morozov, Y. I., Litonin, D., Cramer, P., and Temiakov, D. (2011) Structure of human mitochondrial RNA polymerase. Nature 478, 269-273
4. Litonin, D., Sologub, M., Shi, Y., Savkina, M., Anikin, M., Falkenberg, M., Gustafsson, C. M., and Temiakov, D. (2010) Human mitochondrial transcription revisited: only TFAM and TFB2M are required for transcription of the mitochondrial genes in vitro. J. Biol. Chem. 285, 18129-18133
5. Falkenberg, M., Gaspari, M., Rantanen, A., Trifunovic, A., Larsson, N. G., and Gustafsson, C. M. (2002) Mitochondrial transcription factors B1 and B2 activate transcription of human mtDNA. Nat. Genet. 31, 289-294
6. Posse, V., Hoberg, E., Dierckx, A., Shahzad, S., Koolmeister, C., Larsson, N. G., Wilhelmsson, L. M., Hällberg, B. M., and Gustafsson, C. M. (2014) The amino terminal extension of mammalian mitochondrial RNA polymerase ensures promoter specific transcription initiation. Nucleic Acids Res. 42, 3638-3647
7. Fisher, R. P., and Clayton, D. A. (1988) Purification and characterization of human mitochondrial transcription factor 1. Mol. Cell. Biol. 8, 3496-3509
8. Fisher, R. P., Lisowsky, T., Parisi, M. A., and Clayton, D. A. (1992) DNA wrapping and bending by a mitochondrial high mobility group-like transcriptional activator protein. J. Biol. Chem. 267, 3358-3367
9. Fisher, R. P., Topper, J. N., and Clayton, D. A. (1987) Promoter selection in human mitochondria involves binding of a transcription factor to orientation-independent upstream regulatory elements. Cell 50, 247-258
10. Parisi, M. A., and Clayton, D. A. (1991) Similarity of human mitochondrial transcription factor 1 to high mobility group proteins. Science 252, 965-969
11. Ngo, H. B., Kaiser, J. T., and Chan, D. C. (2011) The mitochondrial transcription and packaging factor Tfam imposes a U-turn on mitochondrial DNA. Nat. Struct. Mol. Biol. 18, 1290-1296
12. Rubio-Cosials, A., Sidow, J. F., Jiménez-Menéndez, N., Fernández-Millán, P., Montoya, J., Jacobs, H. T., Coll, M., Bernadó, P., and Solà, M. (2011) Human mitochondrial transcription factor A induces a U-turn structure in the light strand promoter. Nat. Struct. Mol. Biol. 18, 1281-1289
13. Dairaghi, D. J., Shadel, G. S., and Clayton, D. A. (1995) Human mitochondrial transcription factor A and promoter spacing integrity are required for transcription initiation. Biochim. Biophys. Acta 1271, 127-134
14. Morozov, Y. I., Agaronyan, K., Cheung, A. C., Anikin, M., Cramer, P., and Temiakov, D. (2014) A novel intermediate in transcription initiation by human mitochondrial RNA polymerase. Nucleic Acids Res. 42, 3884-3893
15. Kaufman, B. A., Durisic, N., Mativetsky, J. M., Costantino, S., Hancock, M. A., Grutter, P., and Shoubridge, E. A. (2007) The mitochondrial transcription factor TFAM coordinates the assembly of multiple DNA molecules into nucleoid-like structures. Mol. Biol. Cell 18, 3225-3236
16. Kukat, C., Davies, K. M., Wurm, C. A., Spåhr, H., Bonekamp, N. A., Kühl, I., Joos, F., Polosa, P. L., Park, C. B., Posse, V., Falkenberg, M., Jakobs, S., Kühlbrandt, W., and Larsson, N. G. (2015) Cross-strand binding of TFAM to a single mtDNA molecule forms the mitochondrial nucleoid. Proc. Natl. Acad. Sci. U.S.A. 112, 11288-11293
17. Sologub, M., Litonin, D., Anikin, M., Mustaev, A., and Temiakov, D. (2009) TFB2 is a transient component of the catalytic site of the human mitochondrial RNA polymerase. Cell 139, 934-944
18. Mangus, D. A., Jang, S. H., and Jaehning, J. A. (1994) Release of the yeast mitochondrial RNA polymerase specificity factor from transcription complexes. J. Biol. Chem. 269, 26568-26574
19. Gaspari, M., Falkenberg, M., Larsson, N. G., and Gustafsson, C. M. (2004) The mitochondrial RNA polymerase contributes critically to promoter specificity in mammalian cells. EMBO J. 23, 4606-4614
20. Morozov, Y. I., Parshin, A. V., Agaronyan, K., Cheung, A. C., Anikin, M., Cramer, P., and Temiakov, D. (2015) A model for transcription initiation in human mitochondria. Nucleic Acids Res. 43, 3726-3735
21. Xu, B., and Clayton, D. A. (1992) Assignment of a yeast protein necessary for mitochondrial transcription initiation. Nucleic Acids Res. 20, 1053-1059
22. Matsunaga, M., and Jaehning, J. A. (2004) Intrinsic promoter recognition by a "core" RNA polymerase. J. Biol. Chem. 279, 44239-44242
23. Borowiec, J. A., Zhang, L., Sasse-Dwight, S., and Gralla, J. D. (1987) DNA supercoiling promotes formation of a bent repression loop in lac DNA. J. Mol. Biol. 196, 101-111
24. Chan, B., Minchin, S., and Busby, S. (1990) Unwinding of duplex DNA during transcription initiation at the Escherichia coli galactose operon overlapping promoters. FEBS Lett. 267, 46-50
25. Rubin, C. M., and Schmid, C. W. (1980) Pyrimidine-specific chemical reactions useful for DNA sequencing. Nucleic Acids Res. 8, 4613-4619
26. Wanrooij, S., Fusté, J. M., Farge, G., Shi, Y., Gustafsson, C. M., and Falkenberg, M. (2008) Human mitochondrial RNA polymerase primes lagging-strand DNA synthesis in vitro. Proc. Natl. Acad. Sci. U.S.A. 105, 11122-11127
27. Paratkar, S., Deshpande, A. P., Tang, G. Q., and Patel, S. S. (2011) The N-terminal domain of the yeast mitochondrial RNA polymerase regulates multiple steps of transcription. J. Biol. Chem. 286, 16109-16120
28. Shi, Y., Dierckx, A., Wanrooij, P. H., Wanrooij, S., Larsson, N. G., Wilhelmsson, L. M., Falkenberg, M., and Gustafsson, C. M. (2012) Mammalian transcription factor A is a core component of the mitochondrial transcription machinery. Proc. Natl. Acad. Sci. U.S.A. 109, 16510-16515
29. Morozov, Y. I., and Temiakov, D. (2016) Human mitochondrial transcription initiation complexes have similar topology on the light and heavy strand promoters. J. Biol. Chem. 291, 13432-13435
30. Posse, V., Shahzad, S., Falkenberg, M., Hällberg, B. M., and Gustafsson, C. M. (2015) TEFM is a potent stimulator of mitochondrial transcription elongation in vitro. Nucleic Acids Res. 43, 2615-2624