Computational method to predict mitochondrially imported proteins and their targeting sequences

European Journal of Biochemistry

Volumn 241, Issue 3, 1996, Pages 779-786

  Claros, Manuel G ^a,b,c   Vincens, Pierre ^a  

^a ECOLE NORMALE SUPÉRIEURE   (France)

^b UNIVERSITY OF MÁLAGA   (Spain)

^c Department of Clinical Pharmacology   (Spain)

Author keywords

Discriminant function; Mitochondria; Protein import; Targeting sequence; Transit peptide

Indexed keywords

AMINO ACID SEQUENCE; ARTICLE; COMPUTER SIMULATION; DISCRIMINANT ANALYSIS; MEMBRANE TRANSPORT; MITOCHONDRION; PRIORITY JOURNAL; PROTEIN TRANSPORT; STRUCTURE ACTIVITY RELATION;

EID: 0029915525     PISSN: 00142956     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1432-1033.1996.00779.x     Document Type: Article

References (34)

1. Pfanner, N., Söllner, T. & Neupert, W. (1991) Mitochondrial import receptors for precursor proteins, Trends Biochem. Sci. 16, 63-67.
2. Verner, K. (1992) Early events in yeast mitochondrial protein targeting, Mol. Microbiol. 6, 1723-1728.
3. Kiebler, M., Becker, K., Pfanner, N. & Neupert, W. (1993) Mitochondrial protein import: specific recognition and membrane translocation of preproteins, J. Membr. Biol. 135, 191-207.
4. von Heijne, G. (1986) Mitochondrial targeting sequences may form amphiphilic helices, EMBO J. 5, 1335-1342.
5. Schatz, G. (1987) Signals guiding proteins to their correct locations in mitochondria, Eur. J. Biochem. 165, 1-6.
6. von Heijne, G., Steppuhn, J. & Herrmann, R. G. (1989) Domain structure of mitochondrial and chloroplast targeting peptides, Eur. J. Biochem. 180, 535-545.
7. Gavel, Y. & von Heijne, G. (1990) Cleavage-site motifs in mitochondrial targeting peptides, Protein Eng. 4, 33-37.
8. Pack, Y. K. & Weiner, H. (1990) Import of chemically synthesized signal peptides into rat liver mitochondria, J. Biol. Chem. 265, 14 298-14 307.
9. 1-ATPase β-subunit by CD and NMR spectroscopy, Biochim. Biophys. Acta 1159, 81-93.
10. Wang, Y. & Weiner, H. (1993) The presequence of rat liver aldehyde dehydrogenase requires the presence of an α-helix at its N-terminal region which is stabilized by the helix at its C-terminal, J. Biol. Chem. 268, 4759-4765.
11. Jaussi, R. (1995) Homologous nuclear-encoded mitochondrial and cytosolic isoproteins. A review of structure, biosynthesis and genes, Eur. J. Biochem. 228, 551-561.
12. Claros, M. G., Perea, J., Shu, Y., Samatey, F. A., Popot, J. L. & Jacq, C. (1995) Limitations of the in vivo import of hydrophobic proteins into yeast mitochondria. The case of a cytoplasmically synthesized apocytochrome b, Eur. J. Biochem. 228, 762-771.
13. Claros, M. G., Perea, J. & Jacq, C. (1996) Allotopic expression of a yeast mitochondrial maturase to study mitochondrial import of hydrophobic proteins, Methods Enzymol. 264, 389-403.
14. Baker, A. & Schatz, G. (1987) Sequences from a prokaryotic genome or the mouse dihydrofolate reductase gene can restore the import of a truncated precursor into yeast mitochondria, Proc. Natl Acad. Sci. USA 84, 3177-3121.
15. Hurt, E. C. & Schatz, G. (1987) A cytosolic protein contains a cryptic mitochondrial targeting signal, Nature 325, 499-503.
16. Claros, M. G. (1995) MitoProt, a Macintosh application for studying mitochondrial proteins, Comput. Appl. Biosci. 11, 441-447.
17. Nakai, K. & Kanehisa, M. (1992) A knowledge base for predicting protein localization sites in eukaryotic cells, Genomics 14, 897-911.
18. Bairoch, A. Boeckmann, B. (1994) The SWISS-PROT protein sequence data bank: current status, Nucleic Acids Res. 22, 3578-3580.
19. Engelman, D. M., Steitz, T. A. & Goldman, A. (1986) Identifying nonpolar transbilayer helices into amino acid sequences of membrane proteins, Annu. Rev. Biophys. Biophys. Chem. 15, 321-353.
20. von Heijne, G. (1992) Membrane protein structure prediction. Hydrophobicity analysis and the positive-inside rule, J. Mol. Biol. 225, 487-494.
21. Kyte, J. & Doolittle, R. F. (1982) A simple method for displaying the hydropathic character of a protein, J. Mol. Biol. 157, 105-132.
22. Eisenberg, D. (1984) Three-dimensional structure of membrane and surface proteins, Annu. Rev. Biochem. 53, 595-623.
23. Kendall, M. G. & Stuart, A. (1968) The advanced theory of statistics: design and analysis, and time-series, Charles Griffin Company Limited, London.
24. Tarroux, P., Vincens, P. & Rabilloud, T. (1987) HERMES: a second generation approach to the automatic analysis of two-dimensional electrophoresis gels. Part V: data analysis, Electrophoresis 8, 187-199.
25. Efron, B. & Tibshirani, R. (1986) Bootstrap methods for standard errors, confidence intervals and other measures of statistical accuracy, Stat. Sci. 1, 54-77.
26. DeGroot, M. H. (1986) Probability and statistics, Addison-Wesley Publising Company, Inc., Reading.
27. Swanson, S. T. & Roise, D. (1992) Binding of a mitochondrial presequence to natural and artificial membranes. Role of surface potential, Biochemistry 31, 5746-5751.
28. Klein, P., Kanehisha, M. & DeLisi, C. (1985) The detection and classification of membrane-spanning proteins, Biochim. Biophys. Acta 815, 468-476.
29. Oliver, S. G., et al. (1992) The complete DNA sequence of yeast chromosome III, Nature 357, 38-46.
30. Slonimski, P. P. & Brouillet, S. (1993) A data-base of chromosome III of Saccharomyces cerevisiae, Yeast 9, 941-1029.
31. New, L., Liu, K. & Crouse, G. F. (1993) The yeast gene MSH3 helps define a new class of eukaryotic MutS homologous, Mol. & Gen. Genet 329, 97-108.
32. Williams, F. E., Varanasi, U. & Trumbly, R. J. (1991) The CYC8 and TUP1 proteins involved in glucose repression in Saccharomyces cerevisiae are associated in a protein complex, Mol. Cell. Biol. 11, 3307-3316.
33. de Kruijff, B. (1994) Anionic phospholipids and protein translocation, FEBS Lett. 346, 78-82.
34. de Castro Silva Filho, M., Chaumont, F., Leterme, S. & Boutry, M. (1996) Mitochondrial and chloroplast targeting sequences in tandem modify protein import specificity in plant organelles, Plant Mol. Biol. 30, 769-780.