A proteomic approach to identification of transmembrane proteins and membrane-anchored proteins of Arabidopsis thaliana by peptide sequencing

DNA Research

Volumn 11, Issue 2, 2004, Pages 101-113

  Sazuka, Takashi ^a,b   Keta, Sumie ^b   Shiratake, Katsuhiro ^b   Yamaki, Shohei ^b   Shibata, Daisuke ^a  

^a KAZUSA DNA RESEARCH INSTITUTE   (Japan)

^b NAGOYA UNIVERSITY   (Japan)

Author keywords

Arabidopsis thaliana; Membrane anchored protein; Membrane bound protein; Proteomics; Transmembrane protein

Indexed keywords

BINDING PROTEIN; CARRIER PROTEIN; CHLOROPHYLL; GUANOSINE TRIPHOSPHATASE; HEAT SHOCK PROTEIN 70; MEMBRANE PROTEIN; PROTEINASE; RIBOSOME PROTEIN;

ARABIDOPSIS; ARTICLE; CELL FRACTIONATION; CHLOROPHYLL CONTENT; ENDOPLASMIC RETICULUM; GOLGI COMPLEX; NONHUMAN; PLANT GENETICS; POLYACRYLAMIDE GEL ELECTROPHORESIS; PROTEOMICS; REVERSED PHASE HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; SEQUENCE ANALYSIS; SUCROSE DENSITY GRADIENT CENTRIFUGATION; TONOPLAST; TWO DIMENSIONAL GEL ELECTROPHORESIS;

AMINO ACID SEQUENCE; ARABIDOPSIS; ARABIDOPSIS PROTEINS; CHROMATOGRAPHY, HIGH PRESSURE LIQUID; ELECTROPHORESIS, POLYACRYLAMIDE GEL; ENZYMES; EXPRESSED SEQUENCE TAGS; IMMUNOBLOTTING; MEMBRANE PROTEINS; MOLECULAR SEQUENCE DATA; ORGANOPHOSPHORUS COMPOUNDS; PROTEOMICS; SEQUENCE ANALYSIS, PROTEIN;

ARABIDOPSIS THALIANA; EMBRYOPHYTA;

EID: 11144260362     PISSN: 13402838     EISSN: None     Source Type: Journal    
DOI: 10.1093/dnares/11.2.101     Document Type: Article

References (27)

1. The Arabidopsis Genome Initiative, 2000, Analysis of the genome sequence of the flowering plant Arabidopsis thaliana, Nature, 408, 796-815.
2. Goff, S. A., Ricke, D., Lan, T. H. et al. 2002, A draft sequence of the rice genome (Oryza sativa L. ssp. japonica), Science, 296, 92-100.
3. Yu, J., Hu, S., Wang, J. et al. 2002, A draft sequence of the rice genome (Oryza sativa L. ssp. indica), Science, 296, 79-92.
4. Roberts, J. K. 2002, Proteomics and a future generation of plant molecular biologists, Plant Mol. Biol., 48, 143-154.
5. Van Wijk, K. J. 2001, Challenges and prospects of plant proteomics, Plant Physiol., 126, 501-508.
6. Santoni, V., Molloy, M., and Rabilloud, T. 2000, Membrane proteins and proteomics: un amour impossible?, Electrophoresis, 21, 1054-1070.
7. Simpson, R. J., Connolly, L. M., Eddes, J. S., Pereira, J. J., Moritz, R. L., and Reid, G. E. 2000, Proteomic analysis of the human colon carcinoma cell line (LIM 1215): development of a membrane protein database, Electrophoresis, 9, 1707-1732.
8. Ward, J. M. 2001, Identification of novel families of membrane proteins from the model plant Arabidopsis thaliana, Bioinformatics, 17, 560-563.
9. Fu, Y. and Yang, Z. 2001, Rop GTPase: a master switch of cell polarity development in plants, Trends Plant Sci., 12, 545-547.
10. Li, H., Shen, J. J., Zheng, Z. L., Lin, Y., and Yang, Z. 2001, The Rop GTPase switch controls multiple developmental processes in Arabidopsis, Plant Physiol., 126, 670-684.
11. Pfeffer, S. R. 2001, Rab GTPases: specifying and deciphering organelle identity and function, Trends Cell Biol., 11, 487-491.
12. Maeshima, M. 2001, Tonoplast transporters: organization and function, Annu. Rev. Plant Physiol. Plant Mol. Biol., 52, 469-497.
13. Maeshima, M. and Yoshida, S. 1989, Purification and properties of vacuolar membrane proton-translocating inorganic pyrophosphatase from mung bean, J. Biol. Chem., 264, 20068-20073.
14. Laemmli, U. K. 1970, Cleavage of structural proteins during the assembly of the head of bacteriophage T4, Nature, 227, 680-685.
15. Maeshima, M. 1992, Characterization of the major integral protein of vacuolar membrane, Plant Physiol., 98, 1248-1254.
16. Higuchi, T., Suga, S., Tsuchiya, T., Hisada, H., Morishima, S., Okada, Y., and Maeshima, M. 1998, Molecular cloning, water channel activity and tissue specific expression of two isoforms of radish vacuolar aquaporin, Plant Cell Physiol., 39, 905-913.
17. Hatano, PC, Shimada, T., Hiraiwa, N., Nishimura, M., and Hara-Nishimura, I. 1997, A rapid increase in the level of binding protein (BiP) is accompanied by synthesis and degradation of storage proteins in pumpkin cotyledons, Plant Cell Physiol., 38, 344-351.
18. +-ATPase from the plasma membrane of maize roots and preparation of its antibody, Plant Cell Physiol, 28, 1181-1186.
19. +-pumps and a tonoplast intrinsic protein of vacuolar membranes during the development of pear fruit, Plant Cell Physiol., 38, 1039-1045.
20. Mitsui, T., Kimura, S., and Igaue, I. 1990, Isolation and characterization of Golgi membranes from suspension-cultured cells of rice (Oryza sativa L.), Plant Cell Physiol., 31, 15-26.
21. Wintermans, J. F. G. M. and De Mots, A. 1965, Spectrophotometric characteristics of chlorophylls a and b and their pheophytins in ethanol, Biochim. Biophys. Acta, 109, 448-453.
22. Devereux, J., Haeberli, P., and Smithies, O. 1984, A comprehensive set of sequence analysis programs for the VAX, Nucleic Acids Res., 12, 387-395.
23. Sahnoun, I., Dehais P., Van Montagu, M., Rossignol, M., and Rouze, P. 2000, PPMdb: a plant plasma membrane database, J. Biotechnol., 78, 235-246.
24. Sonnhammer, E. L., von Heijne, G., and Krogh, A. 1998, A hidden Markov model for predicting transmembrane helices in protein sequences. In Proceedings of the Sixth International Conference on Intelligent Systems for Molecular Biology (Glasgow, J., Littlejohn, T., Major, F., Lathrop, R., Sankoff, D., and Sensen, C., eds). AAAI Press, Menlo Park, CA, pp. 175-182.
25. Lu, Y. P., Li, Z. S., and Rea, P. A. 1997, AtMRP1 gene of Arabidopsis encodes a glutathione S-conjugate pump: isolation and functional definition of a plant ATP-binding cassette transporter gene, Proc. Natl. Acad. Sci. U.S.A., 94, 8243-8248.
26. Pereira-Leal, J. B., Hume, A. N., and Seabra, M. C. 2001, Prenylation of Rab GTPases: molecular mechanisms and involvement in genetic disease, FEBS Lett., 498, 197-200.
27. Prime, T. A., Sherrier, D. J., Mahon, P., Packman, L. C., and Dupree, P. 2000, A proteomic analysis of organelles from Arabidopsis thaliana, Electrophoresis, 21, 3488-3499.