The human mitochondrial transcription termination factor (mTERF) is a multizipper protein but binds to DNA as a monomer, with evidence pointing to intramolecular leucine zipper interactions

EMBO Journal

Volumn 16, Issue 5, 1997, Pages 1066-1079

  Fernandez Silva, Patricio ^a,b   Martinez Azorin, Francisco ^a   Micol, Vicente ^a   Attardi, Giuseppe ^a  

^a CALIFORNIA INSTITUTE OF TECHNOLOGY   (United States)

^b Ospedale Pediatrico   (Italy)

Author keywords

Coiled coil; DNA binding; Leucine zipper; Mitochondrial transcription; Transcription termination factor

Indexed keywords

LEUCINE ZIPPER PROTEIN; MONOMER; PROTEIN PRECURSOR; RECOMBINANT PROTEIN; TRANSCRIPTION FACTOR;

AMINO TERMINAL SEQUENCE; ARTICLE; CONTROLLED STUDY; DIMERIZATION; DNA FOOTPRINTING; HUMAN; HUMAN CELL; MITOCHONDRION; MOLECULAR CLONING; MUTAGENESIS; POINT MUTATION; PRIORITY JOURNAL; PROTEIN DNA BINDING; PROTEIN DOMAIN; PROTEIN EXPRESSION; PROTEIN PROCESSING; TRANSCRIPTION REGULATION; TRANSCRIPTION TERMINATION;

AMINO ACID SEQUENCE; BASE SEQUENCE; BASIC-LEUCINE ZIPPER TRANSCRIPTION FACTORS; CLONING, MOLECULAR; DNA; DNA FOOTPRINTING; ELECTROPHORESIS, POLYACRYLAMIDE GEL; HUMANS; IODOACETAMIDE; LEUCINE ZIPPERS; MITOCHONDRIA; MOLECULAR SEQUENCE DATA; POINT MUTATION; PROTEIN DENATURATION; PROTEIN PRECURSORS; PROTEIN PROCESSING, POST-TRANSLATIONAL; RECOMBINANT PROTEINS; SEQUENCE ANALYSIS; STRUCTURE-ACTIVITY RELATIONSHIP; TRANSCRIPTION FACTORS; TRANSCRIPTION, GENETIC; TRYPSIN;

EID: 0031048845     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1093/emboj/16.5.1066     Document Type: Article

References (51)

1. Aebersold, R., Leavitt, J., Saavedra, R.A., Hood, L.E. and Kent, S.B.H. (1987) Internal amino-acid sequence-analysis of proteins separated by one-dimensional or two-dimensional gel-electrophoresis after in situ protease digestion on nitrocellulose. Proc. Natl Acad. Sci. USA, 84, 6970-6974.
2. Ante, A.N. and Siebert, P.D. (1993) Anchor-ligated cDNA libraries: a technique for generating a cDNA library for the immediate cloning of the 5′ ends of mRNAs. Biotechiques, 15, 890-893.
3. Brown, N.F., Esser, V., Gonzalez, A.D., Evans, C.T., Slaughters, C.A., Foster, D.W. and McGarry, J.D. (1991) Mitochondrial import and processing of rat liver carnitine palmitoyltransferase II defines the amino terminus of the mature protein. J. Biol. Chem., 266, 15446-15449.
4. Cantatore, P. and Attardi, G. (1980) Mapping of nascent light and heavy strand transcripts on the physical map of HeLa cell mitochondrial DNA. Nucleic Acids. Res., 8, 2605-2624.
5. Chomyn, A., Patel, S.D., Cleeter, M.W.J., Ragan, C.I. and Attardi, G. (1988) The site of synthesis of the iron-sulfur subunits of the flavoprotein and iron-protein fractions of human NADH dehydrogenase. J. Biol. Chem., 263, 16395-16400.
6. Chomyn, A. et al. (1992) MELAS mutation in mtDNA binding site for transcription termination factor causes defects in protein synthesis and in respiration but no change in levels of upstream and downstream mature transcripts. Proc. Natl Acad. Sci. USA, 89, 4221-4225.
7. Chou, P.Y. and Fasman, G.D. (1973) Structural and functional role of leucine residues in proteins. J. Mol. Biol., 74, 263-281.
8. Christianson, T.W. and Clayton, D.A. (1988) A tridecamer DNA sequence supports human mitochondrial RNA 3′-end formation in vitro. Mol. Cell. Biol., 8, 4502-4509.
9. Cusack, S., Berthet-Colominas, C., Härtlein, M., Nassar, N. and Leberman, R. (1990) A second class of synthetase structure revealed by X-ray analysis of Escherichia coli seryl-tRNA synthetase at 2.5 Å. Nature, 347, 249-255.
10. Daga, A., Micol, V., Hess, D., Aebersold, R. and Attardi, G. (1993) Molecular characterization of the transcription termination factor from human mitochondria. J. Biol. Chem., 268, 8123-8130.
11. Deng, W.P. and Nickoloff, J.A. (1992) Site-directed mutagenesis of virtually any plasmid by eliminating a unique site. Anal. Biochem., 200, 81-88.
12. Enriquez, J.A., López-Pérez, M.J. and Montoya, J. (1991) Saturation of the processing of newly synthesized rRNA in isolated brain mitochondria. FEBS Lett., 280, 32-36.
13. Evers, R., Smid, A., Rudolf, U., Lottspeich, F. and Grummt, I. (1995) Different domains of the murine RNA polymerase I-specific termination factor mTTF-1 serve distinct functions in transcription termination. EMBO J., 14, 1248-1256.
14. Fernandez-Silva, P., Micol, V. and Attardi, G. (1996) Mitochondrial DNA transcription initiation and termination using mitochondrial lysates from cultured human cells. Methods Enzymol., 264, 129-139.
15. Gaines, G. and Attardi, G. (1984a) Intercalating drugs and low temperature inhibit synthesis and processing of ribosomal RNA in isolated human mitochondria. J. Mol. Biol., 172, 451-466.
16. Gaines, G. and Attardi, G. (1984b) Highly efficient RNA-synthesizing system that uses isolated human mitochondria: new initiation events and in vivo-like processing patterns. Mol. Cell. Biol., 4, 605-1617.
17. Gaines, G., Rossi, C. and Attardi, G. (1987) Markedly ditterent ATP requirements for rRNA synthesis and mtDNA light strand transcription versus mRNA synthesis in isolated human mitochondria. J. Biol. Chem., 262, 1907-1915.
18. Gelfand, R. and Attardi, G. (1981) Synthesis and turnover of mitochondrial ribonucleic acid in HeLa cells: the mature ribosomal and messenger ribonucleic acid species are metabolically unstable. Mol. Cell. Biol., 1, 497-511.
19. Goto, Y.-I., Nonaka, I. and Horai, S. (1990) A mutation in the tRNALeu(UUR) gene associated with the MELAS subgroup of mitochondrial encephalomyopathies. Nature, 348, 651-653.
20. Grummt, I., Rosenbauer, H., Niedermeyer, I., Maier, U. and Öhrlein, A. (1986) A repeated 18 bp sequence motif in the mouse rDNA spacer mediates binding of a nuclear factor and transcription termination. Cell, 45, 837-846.
21. Harbury, P.B., Zhang, T., Kim, P.S. and Alber, T. (1993) A switch between two-, three-, and four-stranded coiled coils in GCN4 leucine zipper mutants. Science, 262, 1401-1407.
22. Harbury, P.B., Kim, P.S. and Alber, T. (1994) Crystal structure of an isoleucine-zipper trimer. Nature, 371, 80-83.
23. Hartl, F.-U., Pfanner, N., Nicholson, D.W. and Heupert, W. (1989) Mitochondrial protein import. Biochim. Biophys. Acta, 988, 1-45.
24. Hess, J.F., Parisi, M.A., Bennet, J.L. and Clayton, D.A. (1991) Impairment of mitochondrial transcription termination by a point mutation associated with the MELAS subgroup of mitochondrial encephalomyopathies. Nature, 351, 236-239.
25. Hurst, H. (1995) Transcription factors: bZIP proteins. In Sheterline, P. (ed.), Protein Profile. Vol. 2. Academic Press, London, pp. 105-168.
26. Johns, D.R. and Hurko, O. (1991) Mitochondrial leucine transfer-RNA mutation in neurological diseases. Lancet, 337, 927-928.
27. Leu(UUR) gene in MELAS (mitochondrial myopathy, encephalopathy, lactic acidosis, and stroke-like episodes). Biochem. Biophys. Res. Commun., 173, 816-822.
28. Kozak, M. (1986) Point mutations define a sequence flanking the ATG initiator codon that modulates translation by eucaryotic ribosomes. Cell, 44, 283-292.
29. Kruse, B., Narasimhan, N. and Attardi, G. (1989) Termination of transcription in human mitochondria: identification and pupation of a DNA binding protein factor that promotes termination. Cell, 58, 391-397.
30. Krylov, D., Mikhailenko, I. and Vinson, C. (1994) A thermodynamic scale for leucine zipper stability and dimerization specificity: e and g interhelical interactions. EMBO J., 13, 2849-2861.
31. Kuhn, A., Bartsch, I. and Grummt, I. (1990) Specific interaction of the murine transcription termination factor TTF1 with class-I RNA polymerases. Nature, 344, 559-562.
32. Landschulz, W.H., Johnson, P.F. and McKnight, S.L. (1988) The leucine zipper: a hypothetical structure common to a new class of DNA binding proteins. Science, 240, 1759-1764.
33. Lang, W.H., Morrow, B.E., Ju, Q.D., Warner, J.R. and Reeder, R.H. (1994) A model for transcription termination by RNA-polymerase I. Cell, 79, 527-534.
34. Matsudaira, P. (1987). Sequence from picomole quantities of proteins electroblotted onto polyvinylidene difluoride membranes. J. Biol. Chem., 262, 10035-10038.
35. Montoya, J., Christianson, T., Levens, D., Rabinowitz, M. and Attardi, G. (1982) Identification of initiation sites for heavy strand and light strand transcripts in human mitochondrial DNA. Proc. Natl Acad. Sci. USA, 79, 7195-7199.
36. Montoya, J., Gaines, G. and Attardi, G. (1983) The pattern of transcription of the human mitochondrial rRNA genes reveals two overlapping transcription units. Cell, 34, 151-159.
37. Morrow, B.E., Ju, Q. and Warner, J.R. (1993) A bipartite DNA-binding domain in yeast Reb-1p. Mol. Cell. Biol., 13, 1173-1182.
38. Murre, C., McCaw, P.S. and Baltimore, D. (1989) A new DNA binding and dimerization motif in immunoglobulin enhancer binding, daughterless, MyoD and myc proteins. Cell, 56, 777-783.
39. Nautiyal, S., Woolfson, D.N., King, D.S. and Alber, T. (1995) A designed heterotrimeric coiled coil. Biochemistry, 34, 11645-1165.
40. Rabindran, S.K., Haroun, R.I., Clos, J., Wisniewski, J. and Wu, C. (1993) Resulation of heat shock factor trimer formation: role of a conserved leucine zipper. Science, 259, 230-234.
41. Schatz, G. (1987) Signals guiding proteins to their correct locations in mitochondria. Eur. J. Biochem., 165, 1-6.
42. Shang, J. and Clayton, D.A. (1994) Human mitochondrial transcription termination exhibits RNA polymerase independence and biased bipolarity in vitro. J. Biol. Chem., 269, 29112-29120.
43. Sheldon, L.A. and Kingston, R.E. (1993) Hydrophobic coiled-coil domains regulate the subcellular localization of human heat shock factor 2. Genes Dev., 7, 1549-1558.
44. Smid, A., Finsterer, M. and Grummt, I. (1992) Limited proteolysis unmasks specific DNA-binding of the murine RNA-polymerase I-specific transcription termination factor TTF-I. J. Mol. Biol., 227, 635-647.
45. Turner, R. and Tjian, R. (1989) Leucine repeats and adjacent DNA binding domain mediate the formation of functional cFos-cJun heterodimers. Science, 243, 1698-1694.
46. Van den Ouweland, J.M.W., Lemkes, H.H.P.J., Ruitenbeek, W., Sandkuiji, L.A., de Vijdler, M.F., Struyrenberg, P.A.A., van de Kamp, J.J.P. and Maassen, J.A. (1992) Mutation in mitochondrial transfer RNA Leu(UUR) gene in a large pedigree with maternally transmitted type-II diabetes-mellitus and deafness. Nature Genet., 1, 368-371.
47. Westwood, T. and Wu, C. (1993) Activation of Drosophila heat shock factor: conformational change associated with monomer-to-trimer transition. Mol. Cell. Biol., 13, 3481-3486.
48. Woolfson, D.N. and Alber, T. (1995) Predicting oligomerization states of coiled coils. Protein Sci., 4, 1596-1607.
49. Yan, Y., Winograd, E., Viel, A., Cronin, T., Harrison, S.C. and Branton, D. (1993) Crystal structure of the repetitive segments of spectrin. Science, 262, 2027-2030.
50. Yoza, B.K. and Bogenhagen, D.F. (1984) Identification and in vitro capping of a primary transcript of human mitochondrial DNA. J. Biol. Chem., 259, 3909-3915.
51. Zuo, J., Baler, R., Dahl, G. and Voellmy, R. (1994) Activation of the DNA-binding ability of human heat-shock transcription factor 1 may involve the transition from an intramolecular to an intermolecular triple-stranded coiled-coil structure. Mol. Cell. Biol., 14, 7557-7568.