MFP1 is a thylakoid-associated, nucleoid-binding protein with a coiled-coil structure

Nucleic Acids Research

Volumn 31, Issue 17, 2003, Pages 5175-5185

  Jeong, Sun Yong ^a   Rose, Annkatrin ^a   Meier, Iris ^a  

^a OHIO STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; CHLOROPLAST DNA; DNA BINDING PROTEIN; MITOCHONDRIAL DNA;

ARABIDOPSIS; ARTICLE; BINDING SITE; CARBOXY TERMINAL SEQUENCE; CHLOROPLAST; CONTROLLED STUDY; DNA PROTEIN COMPLEX; DNA SEQUENCE; NONHUMAN; PLANT LEAF; PLASTID; PRIORITY JOURNAL; PROTEIN FUNCTION; PROTEIN LOCALIZATION; PROTEIN STRUCTURE; STROMA; SUSPENSION CELL CULTURE; THYLAKOID MEMBRANE;

AMINO ACID SEQUENCE; ARABIDOPSIS; ARABIDOPSIS PROTEINS; BLOTTING, SOUTHWESTERN; CELL LINE; CHLOROPLASTS; DNA, CHLOROPLAST; GENE EXPRESSION REGULATION, PLANT; GREEN FLUORESCENT PROTEINS; IMMUNOBLOTTING; LIGHT; LUMINESCENT PROTEINS; MATRIX ATTACHMENT REGION BINDING PROTEINS; MICROSCOPY, CONFOCAL; MICROSCOPY, FLUORESCENCE; MOLECULAR SEQUENCE DATA; PLANTS, GENETICALLY MODIFIED; PROTEIN BINDING; PROTEIN CONFORMATION; RECOMBINANT FUSION PROTEINS; THYLAKOIDS;

ARABIDOPSIS; BACTERIA (MICROORGANISMS);

EID: 0345306340     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/gkg693     Document Type: Article

References (70)

1. Gruenbaum, Y., Wilson, K.L., Harel, A., Goldberg, M. and Cohen, M. (2000) Review: nuclear lamins - structural proteins with fundamental functions. J. Struct. Biol., 129, 313-323.
2. Rouviere-Yaniv, J. and Gros, F. (1975) Characterization of a novel, low-molecular-weight DNA-binding protein from Escherichia coli. Proc. Natl Acad. Sci. USA, 72, 3428-3432.
3. Rouviere-Yaniv, J., Yaniv, M. and Germond, J.E. (1979) E. coli DNA binding protein HU forms nucleosomelike structure with circular double-stranded DNA. Cell, 17, 265-274.
4. Norris, V., Turnock, G. and Sigee, D. (1996) The Escherichia coli enzoskeleton. Mol. Microbiol., 19, 197-204.
5. Diffley, J.F. and Stillman, B. (1991) A close relative of the nuclear, chromosomal high-mobility group protein HMG1 in yeast mitochondria. Proc. Natl Acad. Sci. USA, 88, 7864-7868.
6. Cho, J.H., Ha, S.J., Kao, L.R., Megraw, T.L. and Chae, C.B. (1998) A novel DNA-binding protein bound to the mitochondrial inner membrane restores the null mutation of mitochondrial histone Abf2p in Saccharomyces cerevisiae. Mol. Cell. Biol., 18, 5712-5723.
7. Kobayashi, T., Takahara, M., Miyagishima, S.Y., Kuroiwa, H., Sasaki, N., Ohta, N., Matsuzaki, M. and Kuroiwa, T. (2002) Detection and localization of a chloroplast-encoded HU-like protein that organizes chloroplast nucleoids. Plant Cell, 14, 1579-1589.
8. Nakano, T., Murakami, S., Shoji, T., Yoshida, S., Yamada, Y. and Sato, F. (1997) A novel protein with DNA binding activity from tobacco chloroplast nucleoids. Plant Cell, 9, 1673-1682.
9. Sato, N., Albrieux, C., Joyard, J., Douce, R. and Kuroiwa, T. (1993) Detection and characterization of a plastid envelope DNA-binding protein which may anchor plastid nucleoids. EMBO J., 12, 555-561.
10. Cannon, G.C., Ward, L.N., Case, C.I. and Heinhorst, S. (1999) The 68 kDa DNA compacting nucleoid protein from soybean chloroplasts inhibits DNA synthesis in vitro. Plant Mol. Biol., 39, 835-845.
11. Nemoto, Y., Kawano, S., Nakamura, S., Mita, T., Nagata, T. and Kuroiwa, T. (1988) Studies on plastid-nuclei (nucleoids) in Nicotiana tabacum L.I. Isolation of proplastid-nuclei from cultured cells and identification of proplastid-nuclear protein. Plant Cell Physiol., 29, 167-177.
12. Sato, N., Nakayama, M. and Hase, T. (2001) The 70-kDa major DNA-compacting protein of the chloroplast nucleoid is sulfite reductase. FEBS Lett., 487, 347-350.
13. Chi-Ham, C.L., Keaton, M.A., Cannon, G.C. and Heinhorst, S. (2002) The DNA-compacting protein DCP68 from soybean chloroplasts is ferredoxin:sulfite reductase and co-localizes with the organellar nucleoid. Plant Mol. Biol., 49, 621-631.
14. Sato, N., Rolland, N., Block, M.A. and Joyard, J. (1999) Do plastid envelope membranes play a role in the expression of the plastid genome? Biochimie, 81, 619-629.
15. Miyamura, S., Nagata, T. and Kuroiwa, T. (1986) Quantitative fluorescence microscopy on dynamic changes of plastid nucleoids during wheat development. Protoplasma, 133, 66-72.
16. Liu, J.W. and Rose, R.J. (1992) The spinach chloroplast chromosome is bound to the thylakoid membrane in the region of the inverted repeat. Biochem. Biophys. Res. Commun., 184, 993-1000.
17. Sato, N., Ohshima, K., Watanabe, A., Ohta, N., Nishiyama, Y., Joyard, J. and Douce, R. (1998) Molecular characterization of the PEND protein, a novel bZIP protein present in the envelope membrane that is the site of nucleoid replication in developing plastids. Plant Cell, 10, 859-872.
18. Meier, I., Phelan, T., Gruissem, W., Spiker, S. and Schneider, D. (1996) MFP1, a novel plant filament-like protein with affinity for matrix attachment region DNA. Plant Cell, 8, 2105-2115.
19. Gindullis, F. and Meier, I. (1999) Matrix attachment region binding protein MFP1 is localized in discrete domains at the nuclear envelope. Plant Cell, 11, 1117-1128.
20. Emanuelsson, O., Nielsen, H. and von Heijne, G. (1999) ChloroP, a neural network-based method for predicting chloroplast transit peptides and their cleavage sites. Protein Sci., 8, 978-984.
21. Emanuelsson, O., Nielsen, H., Brunak, S. and von Heijne, G. (2000) Predicting subcellular localization of proteins based on their N-terminal amino acid sequence. J. Mol. Biol., 300, 1005-1016.
22. Nakai, K. and Horton, P. (1999) PSORT: a program for detecting sorting signals in proteins and predicting their subcellular localization. Trends Biochem. Sci., 24, 34-36.
23. Nielsen, H., Engelbrecht, J., Brunak, S. and von Heijne, G. (1997) A neural network method for identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites. Int. J. Neural Syst., 8, 581-599.
24. Nielsen, H., Brunak, S. and von Heijne, G. (1999) Machine learning approaches for the prediction of signal peptides and other protein sorting signals. Protein Eng., 12, 3-9.
25. Wolf, E., Kim, P.S. and Berger, B. (1997) MultiCoil: A program for predicting two- and three-stranded coiled coils. Protein Sci., 6, 1179-1189.
26. Tusnady, G.E. and Simon, I. (2001) The HMMTOP transmembrane topology prediction server. Bioinformatics, 17, 849-850.
27. Altschul, S.F., Madden, T.L., Schaffer, A.A., Zhang, J., Zhang, Z., Miller, W. and Lipman, D.J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402.
28. Falquet, L., Pagni, M., Bucher, P., Hulo, N., Sigrist, C.J., Hofmann, K. and Bairoch, A. (2002) The PROSITE database, its status in 2002. Nucleic Acids Res., 30, 235-238.
29. Murashige, T. and Skoog, F. (1962) A revised medium for rapid growth and bioassays with tobacco tissue culture. Physiol. Plant, 103, 473-479.
30. Rose, A. and Meier, I. (2001) A domain unique to plant RanGAP is responsible for its targeting to the plant nuclear rim. Proc. Natl Acad. Sci. USA, 98, 15377-15382.
31. Harder, P.A., Silverstein, R.A. and Meier, I. (2000) Conservation of matrix attachment region-binding filament-like protein 1 among higher plants. Plant Physiol., 122, 225-234.
32. Voelker, R. and Barkan, A. (1995) Two nuclear mutations disrupt distinct pathways for targeting proteins to the chloroplast thylakoid. EMBO J., 14, 3905-3914.
33. Rohl, T. and van Wijk, K.J. (2001) In vitro reconstitution of insertion and processing of cytochrome f in a homologous chloroplast translation system. J. Biol. Chem., 276, 35465-35472.
34. Sambrook, J., Fritsch, E. and Maniatis, T. (1989) Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Press, Cold Spring Harbor, NY.
35. Maliga, P., Klessig, D., Cashmore, A., Gruissem, W. and Varner, J. (1995) Methods in Plant Molecular Biology: A Laboratory Course Manual. Cold Spring Harbor Press, Cold Spring Harbor, NY.
36. Peltier, J.B., Friso, G., Kalume, D.E., Roepstorff, P., Nilsson, F., Adamska, I. and van Wijk, K.J. (2000) Proteomics of the chloroplast: systematic identification and targeting analysis of lumenal and peripheral thylakoid proteins. Plant Cell, 12, 319-341.
37. Hall, G., Jr, Allen, G.C., Loer, D.S., Thompson, W.F. and Spiker, S. (1991) Nuclear scaffolds and scaffold-attachment regions in higher plants. Proc. Natl Acad. Sci. USA, 88, 9320-9324.
38. Kapoor, S. and Sugiura, M. (1999) Identification of two essential sequence elements in the nonconsensus type II PatpB-290 plastid promoter by using plastid transcription extracts from cultured tobacco BY-2 cells. Plant Cell, 11, 1799-1810.
39. Krysan, P.J., Young, J.C. and Sussman, M.R. (1999) T-DNA as an insertional mutagen in Arabidopsis. Plant Cell, 11, 2283-2290.
40. Köhler, R.H. and Hanson, M.R. (2000) Plastid tubules of higher plants are tissue-specific and developmentally regulated. J. Cell Sci., 113, 81-89.
41. Nebenführ, A., Gallagher, L.A., Dunahay, T.G., Frohlick, J.A., Mazurkiewicz, A.M., Meehl, J.B. and Staehelin, L.A. (1999) Stop-and-go movements of plant Golgi stacks are mediated by the acto-myosin system. Plant Physiol., 121, 1127-1142.
42. Collings, D.A., Carter, C.N., Rink, J.C., Scott, A.C., Wyatt, S.E. and Allen, N.S. (2000) Plant nuclei can contain extensive grooves and invaginations. Plant Cell, 12, 2425-2440.
43. Fisk, D.G., Walker, M.B. and Barkan, A. (1999) Molecular cloning of the maize gene crp1 reveals similarity between regulators of mitochondrial and chloroplast gene expression. EMBO J., 18, 2621-2630.
44. Park, J.M., Cho, J.H., Kang, S.G., Jang, H.J., Pih, K.T., Piao, H.L., Cho, M.J. and Hwang, I. (1998) A dynamin-like protein in Arabidopsis thaliana is involved in biogenesis of thylakoid membranes. EMBO J., 17, 859-867.
45. Robinson, C., Woolhead, C. and Edwards, W. (2000) Transport of proteins into and across the thylakoid membrane. J. Exp. Bot., 51, 369-374.
46. Robinson, C., Thompson, S.J. and Woolhead, C. (2001) Multiple pathways used for the targeting of thylakoid proteins in chloroplasts. Traffic, 2, 245-251.
47. Summer, E.J., Mori, H., Settles, A.M. and Cline, K. (2000) The thylakoid delta pH-dependent pathway machinery facilitates RR-independent N-tail protein integration. J. Biol. Chem., 275, 23483-23490.
48. Walker, M.B., Roy, L.M., Coleman, E., Voelker, R. and Barkan, A. (1999) The maize tha4 gene functions in Sec-independent protein transport in chloroplasts and is related to hcf106, tatA and tatB. J. Cell Biol., 147, 267-276.
49. Higo, K., Ugawa, Y., Iwamoto, M. and Korenaga, T. (1999) Plant cis-acting regulatory DNA elements (PLACE) database: 1999. Nucleic Acids Res., 27, 297-300.
50. Gilmartin, P.M., Sarokin, L., Memlink, J. and Chua, N.-H. (1990) Molecular light switches for plant genes. Plant Cell, 2, 369-378.
51. Bathgate, B., Purton, M., Grierson, D. and Goodenough, P. (1985) Plastid changes during the conversion of chloroplasts to chromoplasts in ripening tomatoes. Planta, 165, 197-204.
52. Thelander, M., Narita, J. and Gruissem, W. (1986) Plastid differentiation and pigment biosynthesis during tomato fruit ripening. Curr. Topics Plant Biochem. Physiol., 5, 128-141.
53. Samaniego, R., Yu, W., Meier, I. and Moreno Diaz de la Espina, S. (2001) Characterisation and high-resolution distribution of a matrix attachment region-binding protein (MFP1) in proliferating cells of onion. Planta, 212, 535-546.
54. Moreno Diaz De La Espina, S., Samaniego, R., Yu, W. and De La Torre, C. (2003) Intermediate filament proteins with nuclear functions: NuMA, lamin-like proteins and MFP1. Cell. Biol. Int., 27, 233-235.
55. Rose, A.M., Belford, H.G., Shen, W.C., Greer, C.L., Hopper, A.K. and Martin, N.C. (1995) Location of N2,N2-dimethylguanosine-specific tRNA methyltransferase. Biochimie, 77, 45-53.
56. Molik, S., Karnauchov, I., Weidlich, C., Herrmann, R.G. and Klosgen, R.B. (2001) The Rieske Fe/S protein of the cytochrome b6/f complex in chloroplasts: missing link in the evolution of protein transport pathways in chloroplasts? J. Biol. Chem., 276, 42761-42766.
57. Woodcock, C.L. and Fernandez-Moran, H. (1968) Electron microscopy of DNA conformations in spinach chloroplasts. J. Mol. Biol., 31, 627-631.
58. Lindbeck, A.G. and Rose, R.J. (1990) Thylakoid-bound chloroplast DNA from spinach is enriched for replication forks. Biochem. Biophys. Res. Commun., 172, 204-210.
59. Sato, N., Misumi, O., Shinada, Y., Sasaki, M. and Yoine, M. (1997) Dynamics of localization and protein composition of plastid nuceloids in light-grown pea seedlings. Protoplasma, 200, 163-173.
60. Sato, N. (2001) Was the evolution of plastid genetic machinery discontinuous? Trends Plant Sci., 6, 151-155.
61. Ball, J.A.R. and Yokomori, K. (2001) The structural maintenance of chromosomes (SMC) family of proteins in mammals. Chromosome Res., 9, 85-96.
62. Soppa, J. (2001) Prokaryotic structural maintenance of chromosomes (SMC) proteins: distribution, phylogeny and comparison with MukBs and additional prokaryotic and eukaryotic coiled-coil proteins. Gene, 278, 253-264.
63. Phillips, J.R., Hilbricht, T., Salamini, F. and Bartels, D. (2002) A novel abscisic acid- and dehydration-responsive gene family from the resurrection plant Craterostigma plantagineum encodes a plastid-targeted protein with DNA-binding activity. Planta, 215, 258-266.
64. Allen, J.F. and Pfannschmidt, T. (2000) Balancing the two photosystems: photosynthetic electron transfer governs transcription of reaction centre genes in chloroplasts. Phil. Trans. R. Soc. Lond. B Biol. Sci., 355, 1351-1359.
65. Pfannschmidt, T., Nilsson, A., Tullberg, A., Link, G. and Allen, J.F. (1999) Direct transcriptional control of the chloroplast genes psbA and psaAB adjusts photosynthesis to light energy distribution in plants. IUBMB Life, 48, 271-276.
66. Pfannschmidt, T., Schütze, K., Brost, M. and Oelmüiller, R. (2001) A novel mechanism of nuclear photosynthesis gene regulation by redox signals from the chloroplast during photosystem stoichiometry adjustment. J. Biol. Chem., 276, 36125-36130.
67. Zhang, L., Paakkarinen, V., van Wijk, K.J. and Aro, E.M. (1999) Co-translational assembly of the D1 protein into photosystem II. J. Biol. Chem., 274, 16062-16067.
68. Sato, S., Nakamura, Y., Kaneko, T., Asamizu, E. and Tabata, S. (1999) Complete structure of the chloroplast genome of Arabidopsis thaliana. DNA Res., 6, 283-290.
69. Kunnimalaiyaan, M. and Nielsen, B.L. (1997) Fine mapping of replication origins (ori A and ori B) in Nicotiana tabacum chloroplast DNA. Nucleic Acids Res., 25, 3681-3686.
70. von Kries, J.P., Buhrmester, H. and Strätling, W.H. (1991) A matrix/ scaffold attachment region binding protein: identification, purification and mode of binding. Cell, 64, 123-135.