Structure and ligand selection of hemoglobin II from Lucina pectinata

Journal of Biological Chemistry

Volumn 283, Issue 14, 2008, Pages 9414-9423

  Gavira, José A ^a   Camara Artigas, Ana ^b   De Jesús Bonilla, Walleska ^c   López Garriga, Juan ^c   Lewis, Ariel ^c   Pietri, Ruth ^c   Yeh, Syun Ru ^d   Cadilla, Carmen L ^e   García Ruiz, Juan Manuel ^a  

^a LABORATORIO DE ESTUDIOS CRISTALOGRÁFICOS   (Spain)

^b UNIVERSITY OF ALMERÍA   (Spain)

^c UNIVERSITY OF PUERTO RICO   (Puerto Rico)

^d ALBERT EINSTEIN COLLEGE OF MEDICINE   (United States)

^e UNIVERSITY OF PUERTO RICO   (Puerto Rico)

Author keywords

[No Author keywords available]

Indexed keywords

CHEMICAL OXYGEN DEMAND; CRYSTAL STRUCTURE; HYDROGEN; HYDROGEN BONDS; LIGANDS; MOLECULES; NONMETALS; OXIDATION; OXYGEN; PORPHYRINS; PROTEINS;

COMBINED EFFECTS; DYNAMIC DISPLACEMENTS; HEME GROUPS; HEME OXIDATIONS; HEME POCKETS; HEME PROTEINS; HYDROGEN BONDING NETWORKS; OXYGEN BINDINGS; OXYGEN MOLECULES; RESONANCE RAMAN SPECTROSCOPIES; WATER MOLECULES;

HEMOGLOBIN;

DIMER; GLUTAMINE; HEME; HEMOGLOBIN; HEMOPROTEIN; HISTIDINE; HYDROGEN SULFIDE; IRON; LIGAND; PHENYLALANINE; PROPIONIC ACID; TYROSINE; WATER; HYDROGEN SULFITE; OXYGEN; SULFITE;

ARTICLE; CLAM; COMPLEX FORMATION; CRYSTAL STRUCTURE; HOST; HYDROGEN BOND; LUCINA PECTINATA; MOLECULE; NUCLEOTIDE SEQUENCE; OXIDATION; OXYGEN AFFINITY; OXYGEN TRANSPORT; PH MEASUREMENT; PRIORITY JOURNAL; PROTEIN FUNCTION; PROTEIN STRUCTURE; RAMAN SPECTROMETRY; ANIMAL; BIVALVE; CHEMISTRY; DIMERIZATION; METABOLISM; STRUCTURAL HOMOLOGY; X RAY CRYSTALLOGRAPHY;

LUCINA PECTINATA;

ANIMALS; BIVALVIA; CRYSTALLOGRAPHY, X-RAY; DIMERIZATION; HEME; HEMOGLOBINS; HYDROGEN BONDING; OXYGEN; SPECTRUM ANALYSIS, RAMAN; STRUCTURAL HOMOLOGY, PROTEIN; SULFITES; WATER;

EID: 44049092482     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M705026200     Document Type: Article

References (53)

1. Read, K. R. (1965) Comp. Biochem. Physiol. 15, 137-157
2. Kraus, D. W., and Wittenberg, J. B. (1990) J. Biol. Chem. 265, 16043-16053
3. Kraus, D. W., Wittenberg, J. B., Lu, J. F., and Peisach, J. (1990) J. Biol. Chem. 265, 16054-16059
4. Rizzi, M., Wittenberg, J. B., Coda, A., Fasano, M., Ascenzi, P., and Bolognesi, M. (1994) J. Mol. Biol. 244, 86-99
5. Bolognesi, M., Rosano, C., Losso, R., Borassi, A., Rizzi, M., Wittenberg, J. B., Boffi, A., and Ascenzi, P. (1999) Biophys. J. 77, 1093-1099
6. Rizzi, M., Wittenberg, J. B., Coda, A., Ascenzi, P., and Bolognesi, M. (1996) J. Mol. Biol. 258, 1-5
7. Hockenhull-Johnson, J. D., Stern, M. S., Martin, P., Dass, C., Desidero, D. M., Wittenberg, J. B., Vinogradov, S. N., and Walz, D. A. (1991) J. Protein Chem. 10, 609-622
8. Torres, E., Renta, J. Y., Rodríguez, Y., López-Garriga, J., and Cadilla, C. L. (2003) J. Protein Chem. 22, 683-690
9. Pietri, R., Granell, L., Cruz, A., De Jesús, W., Lewis, A., León, R., Cadilla, C. L., and López Garriga, J. (2005) Biochim. Biophys. Acta 1747, 195-203
10. Yang, J., Kloek, A. P., Goldberg, D. E., and Mathews, F. S. (1995) Proc. Natl. Acad. Sci. U. S. A. 92, 4224-4228
11. Couture, M., Yeh, S., Wittenberg, B. A., Wittenberg, J. B., Ouellet, Y., Rousseau, D. L., and Guertin, M. (1999) Proc. Natl. Acad. Sci. U. S. A. 96, 11223-11228
12. Milani, M., Pesce, A., Ouellet, Y., Ascenzi, P., Guertin, M., and Bolognesi, M., (2001) EMBO J. 20, 3902-3909
13. Condon, P. J., and Royer, W. E., Jr. (1994) J. Biol. Chem. 269, 25259-25267
14. Royer, W. E., Jr., Heard, K. S., Harrington, D. J., and Chiancone, E. (1995) J. Mol. Biol. 253, 168-186
15. Peterson, E. S., Huang, S., Wang, J., Miller, L. M., Vidugiris, G., Kloek, A. P., Goldberg, D. E., Chance, M. R., Wittenberg, J. B., and Friedman, J. M. (1997) Biochemistry 36, 13110-13121
16. De Jesús-Bonilla, W., Jia, Y., Alayash, A. I., and López Garriga, J. (2007) Biochemistry 46, 10451-10460
17. De Jesús-Bonilla, W., Cruz, A. Lewis, A., Cerda, J., Bacelo, D. E., Cadilla, C. L., and López-Garriga, J. (2006) J. Biol. Inorg. Chem. 11, 334-342
18. León, R. G., Munier-Lehmann, H., Barzu, O., Baudin-Creuza, V., Pietri, R., López-Garriga, J., and Cadilla, C. L. (2004) Protein Expr. Purif. 38, 184-195
19. Altschul, S. F., Madden, T. L., Schäffer, A. A., Zhang, J., Zhang, Z., Miller, W., and Lipman, D. J. (1997) Nucleic Acids Res. 25, 3389-3402
20. Thompson, J. D., Higgins, D. G., and Gibson, T. J. (1994) Nucleic Acids Res. 22, 4673-4680
21. Gavira, J. A., De Jesús, W., Camara-Artigas, A., Lopez-Garriga, J., and Garcia-Ruiz, J. M. (2006) Acta Crystallogr. Sect. F Struct. Biol. Crystallogr. Commun. 62, 196-199
22. García-Ruiz, J. M. (2003) Methods Enzymol. 368, 130-154
23. Otwinowski, Z., and Minor, W. (1997) Methods Enzymol. 276, 307-326
24. Brunger, A. T., Adams, P. D., Clore, G. M., Delano, W. L., Gros, P., Grosse-Kunstleve, 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 Biol. Crystallogr. 54, 905-921
25. Bailey, S. (1994) Acta Crystallogr. Sect. D Biol. Crystallogr. 50, 760-763
26. Emsley, P., and Cowtan, K. (2004) Acta Crystallogr. Sect. D Biol. Crystallogr. 60, 2126-2132
27. Winn, M. D., Isupov, M. N., and Murshudov, G. N. (2001) Acta Crystallogr. Sect. D Biol. Crystallogr. 57, 122-133
28. Lovell, S. C., Davis, I. W., Adrendall, W. B., III, de Bakker, P. I., Word, J. M., Prisant, M. G., Richardson, J. S., and Richardson, D. C. (2003) Proteins 50, 437-450
29. Laskowski, R. A., MacArthur, M. W., Moss, D. S., and Thornton, J. M. (1993) J. Appl. Crystallogr. 26, 283-291
30. Frishman, D., and Argos, P. (1995) Proteins 23, 566-579
31. Hutchinson, E. G., and Thornton, J. M. (1996) Protein Sci. 5, 212-220
32. Kabsch, W. (1976) Acta Crystallogr. Sect. A 32, 922-923
33. Krissinel, E., and Henrick, K. (2005) Comput. Life Sci. Proc. 3695, 163-174
34. Hubbard, S. J., and Thornton, J. M. (1993) NACCESS, Computer Program, Department of Biochemistry and Molecular Biology, University College, London
35. Binkowski, T. A., Naghibzadeh, S., and Liang, J. (2003) Nucleic Acids Res. 31, 3352-3355
36. Royer, W. E., Knapp, J. E., Strand, K., and Heaslet, H. A. (2001) Trends Biochem. Sci 26, 297-304
37. Smerdon, S. J., Krzywda, S., Wilkinson, A. J., Brantley, R. E., Carver, T. E., Hargrove, M. S., and Olson, J. S. (1993) Biochemistry 32, 5132-5138
38. Royer, W. E., Jr., Pardanani, A., Gibson, Q. H., Peterson, E. S., and Friedman, J. M. (1996) Proc. Natl. Acad. Sci. U. S. A. 93, 14526-14531
39. Pardanani, A., Gambacurta, A., Ascoli, F., and Royer, W. E. (1998) J. Mol. Biol. 284, 729-739
40. Carver, T. E., Brantley, R. E., Jr., Singleton, E. W., Arduini, R. M., Quillin, M. L., Phillips, G. N., Jr., and Olson, J. S. (1992) J. Biol. Chem. 267, 14443-14450
41. Cerda, J., Echevarría, Y., Morales, E., and López-Garriga, J. (1999) Biospectroscopy 5, 289-301
42. Mukai, M., Mills, C. E., Poole, R. K., and Yeh, S. R. (2001) J. Biol. Chem. 276, 7272-7277
43. Fernández-Alberti, S., Bacelo, D. E., Binning, R. C., Echave, J., Chergui, M., and Lopez-Garriga, J., (2006) Biophys. J. 91, 1698-1709
44. Zhou, Y. Q., Zhou, H. Y., and Karplus, M. (2003) J. Mol. Biol. 326, 593- 606
45. Das, K. T., Boffi, A., Chiancone, E., and Rousseau, A. D. (1999) J. Biol. Chem. 274, 2916-2919
46. Pietri, R., Granell, L. B., León, R., Cadilla, C. L., and López-Garriga, J. (2006) Biochim. Biophys. Acta 1764, 758-765
47. Navarro, A., Maldonado, M., González-Lagoa, J., López, R., López-Garriga, J., and Colón, J. (1996) Inorg. Chim. Acta 243, 161-166
48. Blaxter, M. L., Vanfleteren, J. R., Xia, J., and Moens, L. (1994) J. Biol. Chem. 269, 30181-30186
49. Lu, C., Egawa, T., Wainwright, L. M., Poole, R. K., and Yeh, S.-R. (2007) J. Biol. Chem. 282, 13627-13636
50. Hirota, S., Li, T., Phillips, G. H., Olson, J. S., Mukai, M., and Kitagawa, T. (1996) J. Am. Chem. Soc. 118, 7845-7846
51. Coulson, C. A., Duchesne, J., and Manneback, C. (1947) Nature 159, 794-795
52. Califano, S. (1976) Vibrational States, pp. 95-97, John Wiley & Sons, New York
53. Saroff, H. A. (2004) J. Theor. Biol. 229, 113-118