Genome-wide structural analysis reveals novel membrane binding properties of AP180 N-terminal homology (ANTH) domains

Journal of Biological Chemistry

Volumn 286, Issue 39, 2011, Pages 34155-34163

  Silkov, Antonina ^a   Yoon, Youngdae ^b   Lee, Hunjoong ^a   Gokhale, Nikhil ^b   Adu Gyamfi, Emmanuel ^c   Stahelin, Robert V ^c,d   Cho, Wonhwa ^b,e   Murray, Diana ^a  

^a Och Spine at New York Presbyterian Hospitals   (United States)

^b UNIVERSITY OF ILLINOIS AT CHICAGO   (United States)

^c UNIVERSITY OF NOTRE DAME   (United States)

^d INDIANA UNIVERSITY SCHOOL OF MEDICINE   (United States)

^e Pohang University of Science and Technology (POSTECH)   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

BINDING PROTEINS; BIOPHYSICAL PROPERTIES; CELLULAR PROCESS; COMPUTATION PROTOCOLS; COMPUTATIONAL APPROACH; COMPUTATIONAL PREDICTIONS; CYTOSOLIC PROTEINS; EXPERIMENTAL CHARACTERIZATION; FUNCTIONAL ANNOTATION; HIGH THROUGHPUT; HOMOLOGY MODELING; LIPID BINDING; MEMBRANE BINDING; MEMBRANE LIPIDS; N-TERMINALS; STRUCTURAL FEATURE;

BINDING ENERGY; FORECASTING; GENES; LIPIDS; MEMBRANES; PROTEINS;

STRUCTURAL ANALYSIS;

AP180 AMINO TERMINAL HOMOLOGY DOMAIN PROTEIN; LIPID BINDING PROTEIN; MEMBRANE PROTEIN; UNCLASSIFIED DRUG;

AMINO TERMINAL SEQUENCE; ANIMAL CELL; ARTICLE; BINDING AFFINITY; BINDING SITE; CONTROLLED STUDY; GENETIC ASSOCIATION; HIGH THROUGHPUT SCREENING; HYDROPHOBICITY; LIPID BILAYER; MEMBRANE BINDING; NONHUMAN; NUCLEOTIDE SEQUENCE; PREDICTION; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN EXPRESSION; PROTEIN MOTIF; PROTEIN STRUCTURE; RAT; STRUCTURE ANALYSIS;

ANIMALS; CELL MEMBRANE; EVOLUTION, MOLECULAR; GENOME-WIDE ASSOCIATION STUDY; HUMANS; MONOMERIC CLATHRIN ASSEMBLY PROTEINS; PROTEIN BINDING; PROTEIN STRUCTURE, TERTIARY; STRUCTURAL HOMOLOGY, PROTEIN;

EID: 80053201448     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M111.265611     Document Type: Article

References (45)

1. Cho, W., and Stahelin, R. V. (2005) Annu. Rev. Biophys. Biomol. Struct. 34, 119-151
2. Lemmon, M. A. (2008) Nat. Rev. Mol. Cell Biol. 9, 99-111
3. Heo, W. D., Inoue, T., Park, W. S., Kim, M. L., Park, B. O., Wandless, T. J., and Meyer, T. (2006) Science 314, 1458-1461
4. Cho, W. (2006) Sci. STKE 2006, pe7
5. Bhardwaj, N., Stahelin, R. V., Langlois, R. E., Cho, W., and Lu, H. (2006) J. Mol. Biol. 359, 486-495
6. Lin, H. H., Han, L. Y., Zhang, H. L., Zheng, C. J., Xie, B., and Chen, Y. Z. (2006) J. Lipid Res. 47, 824-831
7. Bhardwaj, N., Gerstein, M., and Lu, H. (2010) BMC Bioinformatics 11, Suppl. 1, S6
8. Xiong, W., Guo, Y., and Li, M. (2010) Protein J. 29, 427-431
9. Lee, H., Li, Z., Silkov, A., Fischer, M., Petrey, D., Honig, B., and Murray, D. (2010) J. Struct. Funct. Genomics 11, 51-59
10. Park, W. S., Heo, W. D., Whalen, J. H., O'Rourke, N. A., Bryan, H. M., Meyer, T., and Teruel, M. N. (2008) Mol. Cell 30, 381-392
11. Mirkovic, N., Li, Z., Parnassa, A., and Murray, D. (2007) Proteins 66, 766-777
12. Ahle, S., and Ungewickell, E. (1986) EMBO J. 5, 3143-3149
13. Zhang, B., Koh, Y. H., Beckstead, R. B., Budnik, V., Ganetzky, B., and Bellen, H. J. (1998) Neuron 21, 1465-1475
14. Nonet, M. L., Holgado, A. M., Brewer, F., Serpe, C. J., Norbeck, B. A., Holleran, J., Wei, L., Hartwieg, E., Jorgensen, E. M., and Alfonso, A. (1999) Mol. Biol. Cell 10, 2343-2360
15. Mishra, S. K., Agostinelli, N. R., Brett, T. J., Mizukami, I., Ross, T. S., and Traub, L. M. (2001) J. Biol. Chem. 276, 46230-46236
16. Yao, P. J., and Coleman, P. D. (1998) J. Neurosci. 18, 2399-2411
17. Yao, P. J., and Coleman, P. D. (1998) Neurosci. Lett. 252, 33-36
18. Yao, P. J., Morsch, R., Callahan, L. M., and Coleman, P. D. (1999) Neuroscience 94, 389-394
19. Dreyling, M. H., Martinez-Climent, J. A., Zheng, M., Mao, J., Rowley, J. D., and Bohlander, S. K. (1996) Proc. Natl. Acad. Sci. U.S.A. 93, 4804-4809
20. Rao, D. S., Hyun, T. S., Kumar, P. D., Mizukami, I. F., Rubin, M. A., Lucas, P. C., Sanda, M. G., and Ross, T. S. (2002) J. Clin. Invest. 110, 351-360
21. Ford, M. G., Pearse, B. M., Higgins, M. K., Vallis, Y., Owen, D. J., Gibson, A., Hopkins, C. R., Evans, P. R., and McMahon, H. T. (2001) Science 291, 1051-1055
22. Sun, Y., Kaksonen, M., Madden, D. T., Schekman, R., and Drubin, D. G. (2005) Mol. Biol. Cell 16, 717-730
23. Ford, M. G., Mills, I. G., Peter, B. J., Vallis, Y., Praefcke, G. J., Evans, P. R., and McMahon, H. T. (2002) Nature 419, 361-366
24. Stahelin, R. V., Long, F., Peter, B. J., Murray, D., De Camilli, P., McMahon, H. T., and Cho, W. (2003) J. Biol. Chem. 278, 28993-28999
25. Sali, A., and Blundell, T. L. (1993) J. Mol. Biol. 234, 779-815
26. Sippl, M. J. (1993) Proteins 17, 355-362
27. Petrey, D., Xiang, Z., Tang, C. L., Xie, L., Gimpelev, M., Mitros, T., Soto, C. S., Goldsmith-Fischman, S., Kernytsky, A., Schlessinger, A., Koh, I. Y., Alexov, E., and Honig, B. (2003) Proteins 53, Suppl. 6, 430-435
28. Petrey, D., and Honig, B. (2003) Methods Enzymol. 374, 492-509
29. Jacobson, M. P., Friesner, R. A., Xiang, Z., and Honig, B. (2002) J. Mol. Biol. 320, 597-608
30. Lüthy, R., Bowie, J. U., and Eisenberg, D. (1992) Nature 356, 83-85
31. Ben-Tal, N., Honig, B., Peitzsch, R. M., Denisov, G., and McLaughlin, S. (1996) Biophys. J. 71, 561-575
32. Mandell, J. G., Roberts, V. A., Pique, M. E., Kotlovyi, V., Mitchell, J. C., Nelson, E., Tsigelny, I., and Ten Eyck, L. F. (2001) Protein Eng. 14, 105-113
33. Stahelin, R. V., and Cho, W. (2001) Biochemistry 40, 4672-4678
34. Cho, W., Bittova, L., and Stahelin, R. V. (2001) Anal. Biochem. 296, 153-161
35. Medkova, M., and Cho, W. (1998) J. Biol. Chem. 273, 17544-17552
36. Bateman, A., Coin, L., Durbin, R., Finn, R. D., Hollich, V., Griffiths-Jones, S., Khanna, A., Marshall, M., Moxon, S., Sonnhammer, E. L., Studholme, D. J., Yeats, C., and Eddy, S. R. (2004) Nucleic Acids Res. 32, D138-D141
37. Marchler-Bauer, A., Anderson, J. B., Cherukuri, P. F., DeWeese-Scott, C., Geer, L. Y., Gwadz, M., He, S., Hurwitz, D. I., Jackson, J. D., Ke, Z., Lanczycki, C. J., Liebert, C. A., Liu, C., Lu, F., Marchler, G. H., Mullokandov, M., Shoemaker, B. A., Simonyan, V., Song, J. S., Thiessen, P. A., Yamashita, R. A., Yin, J. J., Zhang, D., and Bryant, S. H. (2005) Nucleic Acids Res. 33, D192-D196
38. Mulder, N. J., Apweiler, R., Attwood, T. K., Bairoch, A., Bateman, A., Binns, D., Bork, P., Buillard, V., Cerutti, L., Copley, R., Courcelle, E., Das, U., Daugherty, L., Dibley, M., Finn, R., Fleischmann, W., Gough, J., Haft, D., Hulo, N., Hunter, S., Kahn, D., Kanapin, A., Kejariwal, A., Labarga, A., Langendijk-Genevaux, P. S., Lonsdale, D., Lopez, R., Letunic, I., Madera, M., Maslen, J., McAnulla, C., McDowall, J., Mistry, J., Mitchell, A., Nikolskaya, A. N., Orchard, S., Orengo, C., Petryszak, R., Selengut, J. D., Sigrist, C. J., Thomas, P. D., Valentin, F., Wilson, D., Wu, C. H., and Yeats, C. (2007) Nucleic Acids Res. 35, D224-D228
39. Mulgrew-Nesbitt, A., Diraviyam, K., Wang, J., Singh, S., Murray, P., Li, Z., Rogers, L., Mirkovic, N., and Murray, D. (2006) Biochim. Biophys. Acta 1761, 812-826
40. Harlan, J. E., Hajduk, P. J., Yoon, H. S., and Fesik, S. W. (1994) Nature 371, 168-170
41. Jones, D. T. (1999) J. Mol. Biol. 292, 195-202
42. Itoh, T., Koshiba, S., Kigawa, T., Kikuchi, A., Yokoyama, S., and Takenawa, T. (2001) Science 291, 1047-1051
43. Brune, D., and Kim, S. (1994) Proc. Natl. Acad. Sci. U.S.A. 91, 2930-2934
44. Miyazawa, S., and Jernigan, R. L. (1985) Macromolecules 18, 534-552
45. Zhang, C., Vasmatzis, G., Cornette, J. L., and DeLisi, C. (1997) J. Mol. Biol. 267, 707-726