Proteomics analysis of rat brain postsynaptic density: Implications of the diverse protein functional groups for the integration of synaptic physiology

Journal of Biological Chemistry

Volumn 279, Issue 2, 2004, Pages 987-1002

  Li, Ka Wan ^a   Hornshaw, Martin P ^b   Van Der Schors, Roel C ^a   Watson, Rod ^b   Tate, Stephen ^b   Casetta, Bruno ^c   Jimenez, Connie R ^a   Gouwenberg, Yvonne ^a   Gundelfinger, Eckart D ^d   Smalla, Karl Heinz ^d,e   Smit, August B ^a  

^a VU UNIVERSITY AMSTERDAM   (Netherlands)

^b Applied Biosystems   (United Kingdom)

^c Applied Biosystems   (Italy)

^d LEIBNIZ INSTITUTE FOR NEUROBIOLOGY   (Germany)

^e FAN GmbH   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGICAL MEMBRANES; BIOSYNTHESIS; BRAIN; CELLS; ISOTOPES; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; NEUROPHYSIOLOGY; PROTEINS; SEPARATION;

ION CHANNELS; NEUROTRANSMISSION;

BIOCHEMISTRY;

ANIMAL EXPERIMENT; ANIMAL MODEL; ARTICLE; COMPLEX FORMATION; CONTROLLED STUDY; NEUROTRANSMITTER RELEASE; NONHUMAN; PEPTIDE ANALYSIS; POSTSYNAPTIC MEMBRANE; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN ASSEMBLY; PROTEIN FOLDING; PROTEIN FUNCTION; PROTEOMICS; RAT; RECEPTOR DENSITY; SIGNAL TRANSDUCTION; SYNAPTIC TRANSMISSION; TANDEM MASS SPECTROMETRY; TWO DIMENSIONAL GEL ELECTROPHORESIS;

ANIMALS; BLOTTING, WESTERN; BRAIN; CHROMATOGRAPHY, LIQUID; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; GLUTAMIC ACID; IMMUNOBLOTTING; IONS; MASS SPECTROMETRY; MEMBRANE PROTEINS; PEPTIDES; PROTEIN FOLDING; PROTEOME; RATS; ROSANILINE DYES; SYNAPSES; TRYPSIN;

ANIMALIA;

EID: 9144265671     PISSN: 00219258     EISSN: None     Source Type: Journal    
DOI: 10.1074/jbc.M303116200     Document Type: Article

References (97)

1. Ziff, E. B. (1997) Neuron 19, 1163-1174
2. Dresbach, T., Qualmann, B., Kessels, M. M., Garner, C. C., and Gundelfinger, E. D. (2001) Cell. Mol. Life Sci. 58, 94-116
3. Kennedy, M. B. (2000) Science 290, 750-754
4. Husi, H., Ward, M. A., Choudhary, J. S., Blackstock, W. P., and Grant, S. G. (2000) Nat. Neurosci. 3, 661-669
5. Husi, H., Choudhary, J., Blackstock, W., and Grant, S. G. (2002) FENS Forum 2002 in Paris, Abstr. 112.11
6. Malinow, R., and Malenka, R. C. (2002) Annu. Rev. Neurosci. 25, 103-126
7. Yuste, R., and Bonhoeffer, T. (2001) Annu. Rev. Neurosci. 24, 1071-1089
8. Huntley, G. W., Benson, D. L., and Colman, D. R. (2002) Cell 108, 1-4
9. Sheng, M. (2001) Proc. Natl. Acad. Sci. U. S. A. 98, 7058-7061
10. McGee, A. W., and Bredt, D. S. (2003) Curr. Opin. Neurobiol. 13, 111-118
11. Garner, C. C., Nash, J., and Huganir, R. L. (2000) Trends Cell Biol. 10, 274-280
12. Walsh, M. J., and Kuruc, N. (1992) J. Neurochem. 59, 667-678
13. Langnaese, K., Seidenbecher, C., Wex, H., Seidel, B., Hartung, K., Appeltauer, U., Garner, A., Voss, B., Mueller, B., Garner, C. C., and Gundelfinger, E. D. (1996) Mol. Brain Res. 42, 118-122
14. Bader, G. D., and Hogue, C. W. V. (2002) Nat. Biotech. 20, 991-997
15. Koller, A., Washburn, M. P., Lange, B. M., Andon, N. L., Deciu, C., Haynes, P. A., Hays, L., Schieltz, D., Ulaszek, R., Wei, J., Wolters, D., and Yates, J. R. (2002) Proc. Natl. Acad. Sci. U. S. A. 99, 11969-11974
16. Cronshaw, J. M., Krutchinsky, A. N., Zhang, W., Chait, B. T., and Matunis, M. J. (2002) J. Cell Biol. 158, 915-927
17. Zhou, Z., Licklider, L. J., Gygi, S. P., and Reed, R. (2002) Nature 419, 182-185
18. Walikonis, R. S., Jensen, O. N., Mann, M., William Provance, D., Mercer, J. A., and Kennedy, M. B. (2000) J. Neurosci. 20, 4069-4080
19. Carlin, R. K., Grab, D. J., Cohen, R. S., and Siekevitz, P. (1980) J. Cell Biol. 86, 831-845
20. Tao, W. A., and Aebersold, R. (2003) Curr. Opin. Biotech. 14, 110-118
21. Zhang, W., and Benson, D. L. (2000) Hippocampus 10, 512-526
22. Nimchinsky, E. A., Sabatini, B. L., and Svoboda, K. (2002) Annu. Rev. Physiol. 64, 313-353
23. Wyneken, U., Smalla, K-H., Marengo, J. J., Soto, D., de la Cerda, A., Tischmeyer, W., Grimm, R, Boeckers, T. M., Wolf, G., Orrego, F., and Gundelfinger, E. D. (2001) Neurosci. 102, 65-74
24. Wu, K., Carlin, R., and Siekevitz, P. (1986) J. Neurochem. 46, 831-841
25. Jimenez, C. R., Eyman, M., Scotto Lavina, Z., Gioio, A., Li, K. W., van der Schors, R. C., Geraerts, W. P. M., Giuditta, A., Kaplan, B. B., and van Minnen, J. (2002) J. Neurochem. 81, 735-744
26. Nagle, G. T., de Jong-Brink, M., Painter, S. D., and Li, K. W. (2001) Eur. J. Biochem. 268, 1213-1221
27. Gygi, S. P., Rist, B., Gerber, S. A., Turecek, F., Gelb, M. H., and Aebersold, R. (1999) Nat. Biotechnol. 17, 994-999
28. Griffin, T. J., Gygi, S. P., Rist, B., Aebersold, R., Loboda, A., Jilkine, A., Ens, W., and Standing, K. G. (2001) Anal. Chem. 73, 978-986
29. Hansen, K. C., Schmitt-Ulms, G., Chalkley, R. J., Hirsch, J., Baldwin, M. A., and Burlingame, A. L. (2003) Mol. Cell. Proteomics 2, 299-314
30. Ishimoto, T., Ninomiya, K., Miyaji, K., Uyeda, A., Kasai, M., and Taguchi, T. (2002) Biochim. Biophys. Acta 1579, 189-195
31. Jordan, J. D., Landau, E. M., and Iyengar, R. (2000) Cell 103, 193-200
32. Soderling, T. R., and Derkach, V. A. (2000) Trends Neurosci. 23, 75-80
33. El-Husseini, A. E.-D., Schnell, E., Dakoji, S., Sweeney, N., Zhou, Q., Prange, O., Gauthier-Campbell, C., Aguilera-Moreno, A., Nicoll, R. A., and Bredt, D. S. (2002) Cell 108, 849-863
34. Xiao, B., Tu, J. C., and Worley, P. F. (2000) Curr. Opin. Neurobiol. 10, 370-374
35. Lim, I. A., Hall, D. D., and Hell, J. W. (2002) J. Biol. Chem. 277, 21697-21711
36. Lisman, J. E., and Zhabotinsky, A. M. (2001) Neuron 31, 191-201
37. Yuasa, K. Oligaru, T., Asahina, M., and Omori, K. (2001) Eur. J. Biochem. 268, 4440-4448
38. De Vries, L., Lou, X., Zhao, G., Zheng, B., and Farquhar, M. G. (1998) Proc. Natl. Acad. Sci. U. S. A. 95, 12340-12345
39. Yunoue, S., Tokuo, H., Fukunaga, K., Feng, L., Ozawa, T., Nishi, T., Kikuchi, A., Hattori, S., Kuratsu, J., Saya, H., and Araki, N. (2003) J. Biol. Chem. 278, 26958-26969
40. Costa, R. M., Yang, T., Huynh, D. P., Pulst, S. M., Viskochil, D. H., Silva, A. J., and Brannan, C. I. (2001) Nat. Genet. 27, 399-405
41. Komiyama, N. H., Watabe, A. M., Carlisle, H. J., Porter, K., Charlesworth, P., Monti, J., Strathdee, D. J. C., O'Carroll, C. M., Martin, S. J., Morris, R. G. M., O'Dell, T. J., and Grant, S. G. N. (2002) J. Neurosci. 22, 9721-9732
42. Kim, J. H., Lee, H.-K., Takamiya, K., and Huganir, R. L. (2003) J. Neurosci. 23, 1119-1124
43. Zhang, W., Vazquez, L., Apperson, M., and Kennedy, M. B. (1999) J. Neurosci. 19, 96-108
44. Di Cunto, F., Ferrara, L., Curtetti, R., Imarisio, S., Guazzone, S., Broccoli, V., Bulfone, A., Altruda, F., Vercelli, A., and Silengo, L. (2003) Brain Res. Bulletin 60, 319-327
45. Packard, M., Koo, E. S., Gorczyca, M., Sharpe, J., Cumberledge, S., and Budnik, V. (2002) Cell 111, 319-330
46. Hsieh, J.-C., Kodjabachian, L., Rebbert, M. L., Rattner, A., Smallwood, P. M., Samos, C. H., Nusse, R., Dawid, I. B., and Nathans, J. (1999) Nature 398, 431-436
47. Suzuki, T., Mitake, S., Okumura-Noji, K., Yang, J.-P., Fujii, T., and Okamoto, T. (1997) NeuroReport 8, 2931-2935
48. Burette, A., Zabel, U., Weinberg, R. J., Schmidt, H. H. H. W., and Valtschanoff, J. G. (2002) J. Neurosci. 22, 8961-8970
49. Lei, S., Czerwinska, E., Czerwinski, W., Walsh, M. P., and MacDonald, J. F. (2001) J. Neurosci. 21, 8464-8472
50. Halpain, S., Hipolito, A., and Saffer, L. (1998) J. Neurosci. 18, 9835-9844
51. Kaech, S., Parmar, H., Roelandse, M., Bornmann, C., and Matus, A. (2001) Proc. Natl. Acad. Sci. U. S. A. 98, 7086-7092
52. Matus, A. (2000) Science 290, 754-758
53. Star, E. N., Kwiatkowski, D. J., and Murthy, V. N. (2002) Nat. Neurosci. 5, 239-246
54. Cooper, J. A., and Schafer, D. A. (2000) Curr. Opin. Cell Biol. 12, 97-103
55. Terry-Lorenzo, R. T., Carmody, L. C., Voltz, J. W., Connor, J. H., Li, S., Smith, F. D., Milgram, S. L., Colbran, R. J., and Shenolikar, S. (2002) J. Biol. Chem. 277, 27716-27724
56. Chew, C. S., Parente, J. A., Chen, X., Chaponnier, C., and Cameron, R. S. (2000) J. Cell Sci. 113, 2035-2045
57. Pomies, P., Louis, H. A., and Beckerle, M. C. (1997) J. Cell Biol. 139, 157-168
58. Weber, A., Pennise, C. R., and Fowler, V. M., (1999) J. Biol. Chem. 274, 34637-34645
59. Kessels, M. M., and Qualmann, B. (2002) EMBO J. 21, 6083-6094
60. Llorca, O., Martin-Benito, J., Grantham, J., Ritco-Vonsovici, M., Willison, K. R., Carrascosa, J. L., and Valpuesta, J. M. (2001) EMBO J. 20, 4065-4075
61. Bockmann, J., Kreutz, M. R., Gundelfinger, E. D., and Bockers, T. M. (2002) J. Neurochem. 83, 1013-1017
62. Takenawa, T., and Miki, H. (2001) J. Cell Sci. 114, 1801-1809
63. Gerke, V., and Moss, S. E. (2002) Physiol. Rev. 82, 331-371
64. Takahashi, H., Sekino, Y., Tanaka, S., Mizui, T., Kishi, S., and Tomoaki Shirao, T. (2003) J. Neurosci. 23, 6586-6595
65. Worby, C. A., and Dixon, J. E. (2002) Nat. Rev. Mol. Cell. Biol. 3, 919-931
66. Kinoshita, M., Field, C. M., Coughlin, M. L., Straight, A. F., and Mitchison, T. J. (2002) Dev. Cell 3, 791-802
67. Lippe, R., Miaczynska, M., Rybin, V., Runge, A., and Zerial, M. (2001) Mol. Biol. Cell 12, 2219-2228
68. Deneka, M., and van der Sluijs, P. (2002) Nat. Cell Biol. 4, E33-35
69. Lee, S. H., Liu, L., Wang, Y. T., and Sheng, M. (2002) Neuron 36, 661-674
70. Suzuki, T., Usuda, N., Murata, S., Nakazawa, A., Ohtsuka, K., and Takagi, H. (1999) Brain Res. 816, 99-110
71. Takayama, S., Xie, Z., and Reed, J. C. (1999) J. Biol. Chem. 274, 781-786
72. Ballinger, C. A., Connell, P., Wu, Y., Hu, Z., Thompson, L. J., Yin, L.-Y., and Patterson, C. (1999) Mol. Cell. Biol. 19, 4535-4545
73. Jiang, J., Ballinger, C. A., Wu, Y., Dai, Q., Cyr, D. M., Hohfeld, J., and Patterson, C. (2001) J. Biol. Chem. 276, 42938-42944
74. Miller, S., Yasuda, M., Coats, J. K., Jones, Y., Martone, M. E., and Mayford, M. (2002) Neuron 36, 507-519
75. Ostroff, L. E., Fiala, J. C., Allwardt, B., and Harris, K. M. (2002) Neuron 35, 535-545
76. Huang, Y.-S., Jung, M.-Y., Sarkissian, M., and Richter, J. D. (2002) EMBO J. 21, 2139-2148
77. Kaur, K. J., and Ruben, L. (1994) J. Biol. Chem. 269, 23045-23050
78. Chang, J.-S., Seok, H., Kwon, T.-K., Min, D. S., Ahn, B.-H., Lee, Y. H., Suh, J.-W., Kim, J.-W., Iwashita, S., Omori, A., Ichinose, S., Numata, O., Seo, J.-K., Oh, Y.-S., and Suh, P.-G. (2002) J. Biol. Chem. 277, 19697-19702
79. McClatchy, D. B., Knudsen, C. R., Clark, B. F., Kahn, R. A., Hall, R. A., and Levey, A. I. (2002) J. Biol. Chem. 277, 29268-29274
80. Wu, K., Aoki, C., Elste, A., Rogalski-Wilk, A. A., and Siekevitz, P. (1997) Proc. Natl. Acad. Sci. U. S. A. 94, 13273-13278
81. Ames, A. (2000) Brain Res. Review 34, 42-68
82. Chapman, A. P., Smit, S. J., Rider, C. C., and Beesley, P. W. (1994) Neurosci. Lett. 168, 238-242
83. Glickman, M. H., and Ciechanover, A. (2002) Physiol. Rev. 82, 373-428
84. Murphey, R. K., and Godenschwege, T. A. (2002) Neuron 36, 5-8
85. Chin, L-S., Vavalle, J. P., and Li, L. (2002) J. Biol. Chem. 277, 35071-35079
86. Burbea, M., Dreier, L., Dittman, J. S., Grunwald, M. E., and Kaplan, J. M. (2002) Neuron 35, 107-120
87. Ehlers, M. D. (2003) Nat. Neurosci. 6, 231-242
88. Xu, W., Marcu, M., Yuan, X., Mimnaugh, E., Patterson, C., and Neckers, L. (2002) Proc. Natl. Acad. Sci. U. S. A. 99, 12847-12852
89. Davis, J. Q., and Bennett, V. (1994) J. Biol. Chem. 269, 27163-27166
90. Dityatev, A., and Schachner, M. (2003) Nat. Reviews Neurosci. 4, 456-468
91. Goda, Y. (2002) Neuron 35, 1-3
92. Benfenati, F., Valtorta, F., Rubenstein, J. L., Gorelick, F. S., Greengard, P., and Czernik, A. J. (1992) Nature 359, 417-420
93. Lee, H-K., Safieddine, S., Petralia, R. S., and Wenthold, R. J. (2002) J. Neurochem. 81, 1338-1347
94. Spacek, J., and Harris, K. M. (1997) J. Neurosci. 17, 190-203
95. Blanpied, T. A., Scott, D. B., and Ehlers, M. D. (2002) Neuron 36, 435-449
96. Janmey, P. A. (1998) Physiol. Rev. 78, 763-781
97. Allison, D. W., Chervin, A. S., Gelfand, V. I., and Craig, A. M. (2000) J. Neurosci. 20, 4545-4554