Identification of CRALBP ligand interactions by photoaffinity labeling, hydrogen/deuterium exchange, and structural modeling

Journal of Biological Chemistry

Volumn 279, Issue 26, 2004, Pages 27357-27364

  Wu, Zhiping ^a,b   Hasan, Azeem ^a,d   Liu, Tianyun ^c   Teller, David C ^c   Crabb, John W ^a,b  

^a LERNER RESEARCH INSTITUTE   (United States)

^b CLEVELAND STATE UNIVERSITY   (United States)

^c UNIVERSITY OF WASHINGTON SCHOOL OF MEDICINE   (United States)

^d UNIVERSITY OF FLORIDA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALCOHOLS; CELLS; ENZYMES; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY;

ROD VISUAL CYCLE; SUBSTRATE CARRIER;

BIOCHEMISTRY;

11 CIS RETINAL; 11 CIS RETINOL; 11 CIS RETINOL DEHYDROGENASE; APOPROTEIN; BINDING PROTEIN; CELLULAR RETINALDEHYDE BINDING PROTEIN; CYSTEINE; DEUTERIUM; HOLOPROTEIN; HYDROGEN; LIPID BINDING PROTEIN; LYSINE; METHIONINE; PHENYLALANINE; PROTEIN DERIVATIVE; RECOMBINANT PROTEIN; RETINOID; RETINOL; RETINOL DEHYDROGENASE; TYROSINE; UNCLASSIFIED DRUG; VALINE;

ANALYTIC METHOD; ARTICLE; BINDING SITE; CRYSTAL STRUCTURE; DEUTERIUM HYDROGEN EXCHANGE; ENZYME SUBSTRATE; HYDROPHOBICITY; ISOMERIZATION; LIGAND BINDING; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; MODEL; NONHUMAN; PHOTOAFFINITY LABELING; PIGMENT EPITHELIUM; PRIORITY JOURNAL; PROTEIN FUNCTION; PROTEIN INTERACTION; PROTEIN MODIFICATION; RETINA ROD; SEQUENCE HOMOLOGY; STRUCTURE ANALYSIS;

AMINO ACID SEQUENCE; CARRIER PROTEINS; DEUTERIUM EXCHANGE MEASUREMENT; ESCHERICHIA COLI; HUMANS; HYDROGEN; ISOMERISM; LIGANDS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; PEPTIDE FRAGMENTS; PHOTOAFFINITY LABELS; PROTEIN BINDING; PROTEIN STRUCTURE, TERTIARY; RECOMBINANT PROTEINS; RETINALDEHYDE; RETINOIDS; SPECTROMETRY, MASS, ELECTROSPRAY IONIZATION; SPECTROPHOTOMETRY, ULTRAVIOLET; TRITIUM;

EID: 3042639764     PISSN: 00219258     EISSN: None     Source Type: Journal    
DOI: 10.1074/jbc.M401960200     Document Type: Article

References (48)

1. Saari, J. C. (1994) in The Retinoids: Biology, Chemistry, and Medicine (Sporn, M. B., Roberts, A. B., and Goodman, D. S., eds) 2nd Ed., pp. 351-385, Raven Press, New York
2. Golovleva, I., Bhattacharya, S., Wu, Z., Shaw, N., Yang, Y., Andrabi, K., West, K. A., Burstedt, M. S., Forsman, K., Holmgren, G., Sandgren, O., Noy, N., Qin, J., and Crabb, J. W. (2003) J. Biol. Chem. 278, 12397-12402
3. Saari, J. C., Nawrot, M., Kennedy, B. N., Garwin, G. G., Hurley, J. B., Huang, J., Possin, D. E., and Crabb, J. W. (2001) Neuron 29, 739-748
4. Saari, J. C., Bredberg, D. L., and Noy, N. (1994) Biochemistry 33, 3106-3112
5. Stecher, H., Gelb, M. H., Saari, J. C., and Palczewski, K. (1999) J. Biol. Chem. 274, 8577-8585
6. Winston, A., and Rando, R. R. (1998) Biochemistry 37, 2044-2050
7. Bhattacharya, S. K., Wu, Z., Jin, Z., Yan, L., Miyagi, M., West, K., Nawrot, M., Saari, J. C., and Crabb, J. W. (2002) FASEB J. 16, A14 (Abstr. 16.12)
8. Nawrot, M., West, K., Huang, J., Possin, D. E., Bretscher, A., Crabb, J. W., and Saari, J. C. (2004) Investig. Ophthalmol. Vis. Sci. 45, 393-401
9. Crabb, J. W., Nie, Z., Chen, Y., Hulmes, J. D., West, K. A., Kapron, J. T., Ruuska, S. E., Noy, N., and Saari, J. C. (1998) J. Biol. Chem. 273, 20712-20720
10. Wu, Z., Yang, Y., Shaw, N., Bhattacharya, S., Yan, L., West, K., Roth, K., Noy, N., Qin, J., and Crabb, J. W. (2003) J. Biol. Chem. 278, 12390-12396
11. Borhan, B., Souto, M. L., Imai, H., Shichida, Y., and Nakanishi, K. (2000) Science 288, 2209-2212
12. Souto, M. L., Um, J., Borhan, B., and Nakanishi, K. (2000) Helvetical Chimica Acta 83, 2617-2628
13. Panagabko, C., Morley, S., Hernandez, M., Cassolato, P., Gordon, H., Parsons, R., Manor, D., and Atkinson, J. (2003) Biochemistry 42, 6467-6474
14. Meier, R., Tomizaki, T., Schulze-Briese, C., Baumann, U., and Stocker, A. (2003) J. Mol. Biol. 331, 725-734
15. Min, K. C., Kovall, R. A., and Hendrickson, W. A. (2003) Proc. Natl. Acad. Sci. U. S. A. 100, 14713-14718
16. Sha, B., Phillips, S. E., Bankaitis, V. A., and Luo, M. (1998) Nature 391, 506-510
17. Stocker, A., and Baumann, U. (2003) J. Mol. Biol. 332, 759-765
18. Crabb, J. W., Carlson, A., Chen, Y., Goldflam, S., Intres, R., West, K. A., Hulmes, J. D., Kapron, J. T., Luck, L. A., Horwitz, J., and Bok, D. (1998) Protein Sci. 7, 746-757
19. Crabb, J. W., West, K. A., Dodson, W. S., and Hulmes, J. D. (1997) in Current Protocots in Protein Science, Unit 11.9, Supplement 7 (Coligan, J. E., Ploegh, H. L., Smith, J. A., and Speicher, D. W., eds) pp. 11.09.01-11.09.42, John Wiley & Sons, Inc., New York
20. Laemmli, U. (1970) Nature 227, 680-685
21. Bradford, M. M. (1976) Anal. Biochem. 72, 248-254
22. Garwin, G. G., and Saari, J. C. (2000) Methods Enzymol. 316, 313-324
23. Crabb, J. W., Miyagi, M., Gu, X., Shadrach, K., West, K. A., Sakaguchi, H., Kamei, M., Hasan, A., Yan, L., Rayborn, M. E., Salomon, R. G., and Hollyfield, J. G. (2002) Proc. Natl. Acad. Sci. U. S. A. 99, 14682-14687
24. Hasan, A., Smith, D. L., and Smith, J. B. (2002) Biochemistry 41, 15876-15882
25. Wang, L., Pan, H., and Smith D. L. (2002) Mol. Cell. Proteomics 1, 132-138
26. Miyagi, M., Sakaguchi, H., Darrow, R. M., Yan, L., West, K. A., Aulak, K. S., Stuehr, D. J., Hollyfield, J. G., Organisciak, D. T., and Crabb, J. W. (2002) Mol. Cell Proteomics 1, 293-303
27. Zhang, Z., and Smith, D. L. (1993) Protein Sci. 2, 522-531
28. Behnke, C. A., Yee, V. C., Le Trong, I., Pedersen, L. C., Stenkamp, R. E., Kim, S.-S., Reeck, G. R., and Teller, D. C. (1998) Biochemistry 37, 15277-15288
29. CCP4 (1994) Acta Crystallogr. Sect. D 50, 760-763
30. McRee, D. (1999) J. Struct. Biol. 125, 156-165
31. Brunger, A., Adams, P. D., Clore, G. M., DeLano, W. L., Gros, P., Grosse-Kunsatleve, R. W., Jiang, J.-S., Kuszewski, J., Nilges, M., Pannu, N. S., Read, R. J., Rice, L. M., Simonson, T., and Warren G. L. (1998) Acta Crystallogr. Sect. D 54, 905-921
32. Saari, J. C., and Bredberg, L. (1982) Biochim Biophys Acta 716, 266-272
33. MOE (2003), 2003.02 Ed., Chemical Computing Group Inc., Montreal H3A 2R7, Canada
34. Kraulis, P. (1991) J. Appl. Crystallogr. 24, 946-950
35. Merritt, E., and Bacon, D. J. (1997) Methods Enzymol. 277, 505-524
36. Crouch, R. K., Chader, G. J., Wiggert, B., and Pepperberg, D. R. (1996) Photochem. Photobiol. 64, 613-621
37. Saari, J. C. (2000) Invest. Ophthal. Visual Sci. 41, 337-348
38. McBee, J. K., Palczewski, K., Baehr, W., and Pepperberg, D. R. (2001) Prog. Retin Eye Res. 20, 469-529
39. Rando, R. R. (2001) Chem. Rev. 101, 1881-1896
40. Mata, N. L., Radu, R. A., Clemmons, R. C., and Travis, G. H. (2002) Neuron 36, 69-80
41. Saari, J. C., and Bredberg, D. L. (1987) J. Biol. Chem. 262, 7618-7622
42. Chen, Y., Johnson, C., West, K., Goldflam, S., Bean, M. F., Huddleston, M. J., Carr, S. A., Gabriel, J. L., and Crabb, J. W. (1994) in Techniques in Protein Chemistry V (Crabb, J. W., ed) pp. 371-378, Academic Press, San Diego
43. Bernstein, P., Choi, S., Ho, Y.-C., and Rando, R. R. (1995) Proc. Natl. Acad. Sci. U. S. A. 92, 654-658
44. Chen, G., and Radominska-Pandya, A. (2000) Biochemistry 39, 12568-12574
45. Crabb, J. W., Gaur, V. P., Garwin, G. G., Marx, S. V., Chapline, C., Johnson, C. M., and Saari, J. C. (1991) J. Biol. Chem. 266, 16674-16683
46. Luck, L. A., Barrows, S. A., Venters, R. A., Kapron, J. T., Roth, K. E., Paradis, S. G., and Crabb, J. W. (1997) in Techniques in Protein Chemistry VIII (Marshak, D. R., ed) pp. 439-448, Academic Press, San Diego
47. Maw, M. A., Kennedy, B., Knight, A., Bridges, R., Roth, K. E., Mani, E. J., Mukkadan, J. K., Nancarrow, D., Crabb, J. W., and Denton, M. J. (1997) Nat. Genet. 17, 198-200
48. Mata, N. L., Villazanna, E. T., and Tsin, A. T. C. (1998) Invest. Ophthal. Visual. Sci. 39, 1312-1319