Studies of the structure-activity relationships of peptides and proteins involved in growth and development based on their three-dimensional structures

Bioscience, Biotechnology and Biochemistry

Volumn 74, Issue 3, 2010, Pages 462-470

  Nagata, Koji ^a  

^a UNIVERSITY OF TOKYO   (Japan)

Author keywords

Bombyxin; Epidermal growth factor like domain of heregulin ; Molt inhibiting hormone; Nuclear magnetic resonance; WW domain

Indexed keywords

AMINO ACID SEQUENCE; BIOLOGICAL FUNCTIONS; EPIDERMAL GROWTH FACTORS; FUNCTIONAL CHARACTERIZATION; GROWTH AND DEVELOPMENT; HEREGULIN; INTRACELLULAR SIGNALING; MOLT-INHIBITING HORMONE; STRUCTURE ACTIVITY RELATIONSHIPS; STRUCTURE-BASED; THREE-DIMENSIONAL STRUCTURE; WW DOMAIN;

AMINO ACIDS; BIOACTIVITY; ENZYME ACTIVITY; MAMMALS; NUCLEAR MAGNETIC RESONANCE; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; ORGANIC ACIDS; PEPTIDES; RESONANCE; THREE DIMENSIONAL;

MAGNETIC DOMAINS;

BOMBYXINS; EPIDERMAL GROWTH FACTOR; HORMONE; HYPERGLYCEMIC HORMONE, CRUSTACEAN; INSULIN; MOLT INHIBITING HORMONE; MOLT-INHIBITING HORMONE; NERVE PROTEIN; NEU DIFFERENTIATION FACTOR; NEUROPEPTIDE;

AMINO ACID SEQUENCE; ANIMAL; CHEMISTRY; METABOLISM; PROTEIN FOLDING; PROTEIN TERTIARY STRUCTURE; REVIEW; SEQUENCE ANALYSIS; STRUCTURE ACTIVITY RELATION;

AMINO ACID SEQUENCE; ANIMALS; EPIDERMAL GROWTH FACTOR; INSULIN; INVERTEBRATE HORMONES; NERVE TISSUE PROTEINS; NEUREGULIN-1; NEUROPEPTIDES; PROTEIN FOLDING; PROTEIN STRUCTURE, TERTIARY; SEQUENCE ANALYSIS, PROTEIN; STRUCTURE-ACTIVITY RELATIONSHIP;

CRUSTACEA; HEXAPODA; MAMMALIA;

EID: 77950178254     PISSN: 09168451     EISSN: 13476947     Source Type: Journal    
DOI: 10.1271/bbb.90678     Document Type: Review

References (104)

1. Nagasawa H, Kataoka H, Isogai A, Tamura S, Suzuki A, Ishizaki H, Mizoguchi A, Fujiwara Y, and Suzuki A, Science, 226, 1344-1345 (1984).
2. Nagasawa H, Kataoka H, Isogai A, Tamura S, Suzuki A, Mizoguchi A, Fujiwara Y, Suzuki A, Takahashi SY, and Ishizaki H, Proc. Natl. Acad. Sci. USA, 83, 5840-5843 (1986).
3. Nagasawa H, Kataoka H, Hori Y, Isogai A, Tamura S, Suzuki A, Guo F, Zhong X, Mizoguchi A, Fujishita M, Takahashi SY, Ohnishi E, and Suzuki A, Gen. Comp. Endocrinol., 53, 143-152 (1984).
4. Satake S, Masumura M, Ishizaki H, Nagata K, Kataoka H, Suzuki A, and Mizoguchi A, Comp. Biochem. Physiol., B118, 349-357 (1997).
5. Orikasa C, Yamauchi H, Nagasawa H, Suzuki A, and Nagata M, Appl. Entomol. Zool., 28, 303-311 (1993).
6. Tanaka M, Kataoka H, Nagata K, Nagasawa H, and Suzuki A, Regul. Pept., 57, 311-318 (1995).
7. Nijhout HF and Grunert LW, Proc. Natl. Acad. Sci. USA, 99, 15446-15450 (2002).
8. Nagata K, Momomura K, Tamori K, Kadowaki T, Maruyama K, Tanaka M, Kojima K, Nagasawa H, Kataoka H, Isogai A, Ishizaki H, and Suzuki A, "Peptide Chemistry 1992," ed. Yanaihara N, ESCOM Science Publishers B. V., Leiden, pp. 416-419 (1993).
9. Fullbright G, Lacy ER, and Büllesbach EE, Eur. J. Biochem., 245, 774-780 (1997).
10. Nagata K, Hatanaka H, Kohda D, Kataoka H, Nagasawa H, Isogai A, Ishizaki H, Suzuki A, and Inagaki F, J. Mol. Biol., 253, 749-758 (1995).
11. Hua QX, Shoelson SE, Kochoyan M, and Weiss MA, Nature, 354, 238-241 (1991).
12. Baker EN, Blundell TL, Cutfield JF, Cutfield SM, Dodson EJ, Dodson GG, Hodgkin DMC, Hubbard RE, Isaacs NW, Reynolds CD, Sakabe K, Sakabe N, and Vijayan NM, Philos. Trans. R. Soc., B319, 369-456 (1988).
13. Eigenbrot C, Randal M, Quan C, Burnier J, O'Connell L, Rinderknecht E, and Kossiakoff AA, J. Mol. Biol., 221, 15-21 (1991).
14. Jhoti H, McLeod AN, Blundell TL, Ishizaki H, Nagasawa H, and Suzuki A, FEBS Lett., 219, 419-425 (1987).
15. Maruyama K, Nagata K, Tanaka M, Nagasawa H, Isogai A, Ishizaki H, and Suzuki A, J. Protein Chem., 11, 1-12 (1992).
16. Nagata K, Maruyama K, Nagasawa H, Urushibata I, Isogai A, Ishizaki H, and Suzuki A, Peptides, 13, 653-662 (1992).
17. Nagata K, Hatanaka H, Kohda D, Kataoka H, Nagasawa H, Isogai A, Ishizaki H, Suzuki A, and Inagaki F, J. Mol. Biol., 253, 759-770 (1995).
18. Nagata K, Hatanaka H, Kohda D, Kataoka H, Nagasawa H, Isogai A, Ishizaki H, Suzuki A, and Inagaki F, "Molecular Mechanisms of Insect Metamorphosis and Diapause," eds. Suzuki A, Kataoka H, and Matsumoto S, Industrial Publishing & Consulting, Inc., Tokyo, pp. 87-96 (1995).
19. Blundell T, Dodson G, Hodgkin D, and Mercola D, Adv. Protein Chem., 26, 279-402 (1972).
20. Pullen RA, Lindsay DG, Wood SP, Tickle IJ, Blundell TL, Wollmer A, Krail G, Brandenburg D, Zahn H, Gliemann J, and Gammeltoft S, Nature, 259, 369-371 (1976).
21. Murray-Rust J, McLeod AN, Blundell TL, and Wood SP, Bioessays, 14, 325-331 (1992).
22. Siddle K, Prog. Growth Factor Res., 4, 301-320 (1992).
23. Braulke T, Horm. Metab. Res., 31, 242-246 (1999).
24. Brown J, Delaine C, Zaccheo OJ, Siebold C, Gilbert RJ, van Boxel G, Denley A, Wallace JC, Hassan AB, Forbes BE, and Jones EY, EMBO J., 27, 265-276 (2008)
25. Schwabe C and Büllesbach EE, Adv. Exp. Med. Biol., 612, 14-25 (2007).
26. Mirmira RG, Nakagawa SH, and Tager HS, J. Biol. Chem., 266, 1428-1436 (1991).
27. Derewenda U, Derewenda Z, Dodson EJ, Dodson GG, Bing X, and Markussen J, J. Mol. Biol., 220, 425-433 (1991).
28. Lagueux M, Lwoff M, Meister M, Goltszené F, and Hoffmann JA, Eur. J. Biochem., 187, 249-254 (1990).
29. Kimura-Kawakami M, Iwami M, Kawakami A, Nagasawa H, Suzuki A, and Ishizaki H, Gen. Comp. Endocrinol., 86, 257-268 (1992).
30. Iwami M, Furuya I, and Kataoka H, Insect Biochem. Mol. Biol., 26, 25-32 (1996).
31. Ishizaki H, Mizoguchi A, Fujishita M, Suzuki A, Moriya I, O'oka H, Kataoka H, Isogai A, Nagasawa H, Tamura S, and Suzuki A, Dev. Growth Differ., 25, 593-600 (1983).
32. Kiriishi S, Nagasawa H, Kataoka H, Suzuki A, and Sakurai S, Zool. Sci., 9, 149-155 (1992).
33. Ishizaki H and Suzuki A, Int. J. Dev. Biol., 38, 301-310 (1994).
34. Mizoguchi A, Ishizaki H, Nagasawa H, Kataoka H, Isogai A, Tamura S, Suzuki A, Fujino M, and Kitada C, Mol. Cell. Endocrinol., 51, 227-235 (1987).
35. Iwami M, Zool. Sci., 17, 1035-1044 (2000).
36. Nagata K, Maruyama K, Kojima K, Yamamoto M, Tanaka M, Kataoka H, Nagasawa H, Isogai A, Ishizaki H, and Suzuki A, Biochem. Biophys. Res. Commun., 266, 575-578 (1999).
37. Bollenbacher WE, Katahira EJ, O'Brien M, Gilbert LI, Thomas MK, Agui N, and Baumhover AH, Science, 224, 1243-1245 (1984).
38. Soumoff C and O'Connor JD, Gen. Comp. Endocrinol., 48, 432-439 (1982).
39. Keller R, Experientia, 48, 439-448 (1992).
40. Katayama H, Ohira T, Nagata K, and Nagasawa H, Biosci. Biotechnol. Biochem., 65, 1832-1839 (2001).
41. Katayama H, Nagata K, Ohira T, Yumoto F, Tanokura M, and Nagasawa H, J. Biol. Chem., 278, 9620-9623 (2003).
42. Holm M and Sander C, J. Mol. Biol., 233, 123-138 (1993).
43. Yang W-J, Aida K, and Nagasawa H, Aquaculture, 135, 205-212 (1995).
44. Guex N and Peitsch MC, Electrophoresis, 18, 2714-2723 (1997).
45. Katayama H, Ohira T, Aida K, and Nagasawa H, Peptides, 23, 1537-1546 (2002).
46. Ohira T, Katayama H, Aida K, and Nagasawa H, Fish. Sci., 69, 95-100 (2003).
47. Katayama H, Ohira T, Nagata S, and Nagasawa H, Biochemistry, 43, 9629-9635 (2004).
48. Bargmann CI, Hung M-C, and Weinberg RA, Nature, 319, 226-230 (1986).
49. Yamamoto T, Ikawa S, Akiyama T, Semba K, Nomura N, Miyajima N, Saito T, and Toyoshima K, Nature, 319, 230-234 (1986).
50. Plowman GD, Culouscou J-M, Whitney GS, Green JM, Carlton GW, Foy L, Neubauer MG, and Shoyab M, Proc. Natl. Acad. Sci. USA, 90, 1746-1750 (1993).
51. Ullrich A, Coussens L, Hayflick JS, Dull TJ, Gray A, Tam AW, Lee J, Yarden Y, Libermann TA, Schlessinger J, Downward J, Mayes ELV, Whittle N, Waterfield MD, and Seeburg PH, Nature, 309, 418-425 (1984).
52. Plowman GD, Whitney GS, Neubauer MG, Green JM, McDonald VL, Todaro GJ, and Shoyab M, Proc. Natl. Acad. Sci. USA, 87, 4905-4909 (1990).
53. Plowman GD, Green JM, Culouscou J-M, Carlton GW, Rothwell VM, and Buckley S, Nature, 366, 473-475 (1993).
54. Holmes WE, Sliwkowski MX, Akita RW, Henzel WJ, Lee J, Park JW, Yansura D, Abadi N, Raab H, Lewis GD, Shepard HM, Kuang W-J, Wood WI, Goeddel DV, and Vandlen RL, Science, 256, 1205-1210 (1992).
55. Peles E, Ben-Levy R, Tzahar E, Liu N, Wen D, and Yarden Y, EMBO J., 12, 961-971 (1993).
56. Carpenter G and Cohen S, Annu. Rev. Biochem., 48, 193-216 (1979).
57. Carpenter G and Cohen S, J. Biol. Chem., 265, 7709-7712 (1990).
58. Derynck R, Roberts AB, Winkler ME, Chen EY, and Goeddel DV, Cell, 38, 287-297 (1984).
59. Wen D, Peles E, Cupples R, Suggs SV, Bacus SS, Luo Y, Trail G, Hu S, Silbiger SM, Levy RB, Koski RA, Lu HS, and Yarden Y, Cell, 69, 559-572 (1992).
60. Nagata K, Kohda D, Hatanaka H, Ichikawa S, Matsuda S, Yamamoto T, Suzuki A, and Inagaki F, EMBO J., 13, 3517-3523 (1994).
61. Kline TP, Brown FK, Brown SC, Jeffs PW, Kopple KD, and Muller L, Biochemistry, 29, 7805-7813 (1990).
62. Harvey TS, Wilkinson AJ, Tappin MJ, Cooke RM, and Campbell ID, Eur. J. Biochem., 198, 555-562 (1991).
63. Hommel U, Harvey TS, Driscoll PC, and Campbell ID, J. Mol. Biol., 227, 271-282 (1992).
64. Kohda D and Inagaki F, Biochemistry, 31, 677-685 (1992).
65. Kohda D and Inagaki F, Biochemistry, 31, 11928-11939 (1992).
66. Montelione GT, Wuthrich K, Burgess AW, Nice EC, Wagner G, Gibson KD, and Scheraga HA, Biochemistry, 31, 236-249 (1992).
67. Moy FJ, Li Y-C, Rauenbuehler P, Winkler ME, Scheraga HA, and Montelione GT, Biochemistry, 32, 7334-7353 (1993).
68. Engler DA, Montelione GT, and Niyogi SK, FEBS Lett., 271, 47-50 (1990).
69. Hommel U, Dudgeon TJ, Fallon A, Edwards RM, and Campbell ID, Biochemistry, 30, 8891-8898 (1991).
70. Campion SR, Matsunami RK, Engler DA, and Niyogi SK, Biochemistry, 29, 9988-9993 (1990).
71. Koide H, Muto Y, Kasai H, Kohri K, Hoshi K, Takahashi S, Tsukumo K, Sasaki T, Oka T, Miyake T, Fuwa T, Kohda D, Inagaki F, Miyazawa T, and Yokoyama S, Biochim. Biophys. Acta, 1120, 257-261 (1992).
72. Moy FJ, Scheraga HA, Liu JF, Wu R, and Montelione GT, Proc. Natl. Acad. Sci. USA, 86, 9836-9840 (1989).
73. Dudgeon TJ, Cooke RM, Baron M, Campbell ID, Edwards RM, and Fallon A, FEBS Lett., 261, 392-396 (1990).
74. Ogiso H, Ishitani R, Nureki O, Fukai S, Yamanaka M, Kim JH, Saito K, Sakamoto A, Inoue M, Shirouzu M, and Yokoyama S, Cell, 110, 775-787 (2002).
75. Garrett TP, McKern NM, Lou M, Elleman TC, Adams TE, Lovrecz GO, Zhu HJ, Walker F, Frenkel MJ, Hoyne PA, Jorissen RN, Nice EC, Burgess AW, and Ward CW, Cell, 110, 763-773 (2002).
76. Sudol M and Hunter T, Cell, 103, 1001-1004 (2000).
77. Macias MJ, Hyvonen M, Baraldi E, Schultz J, Sudol M, Saraste M, and Oschkinat H, Nature, 382, 646-649 (1996).
78. Verdecia MA, Bowman ME, Lu KP, Hunter T, and Noel JP, Nat. Struct. Biol., 7, 639-643 (2000).
79. Kato Y, Ito M, Kawai K, Nagata K, and Tanokura M, J. Biol. Chem., 277, 10173-10177 (2002).
80. Kato Y, Nagata K, Takahashi M, Lian L, Herrero JJ, Sudol M, and Tanokura M, J. Biol. Chem., 279, 31833-31841 (2004).
81. Terasawa H, Kohda D, Hatanaka H, Tsuchiya S, Ogura K, Nagata K, Ishii S, Mandiyan V, Ullrich A, Schlessinger J, and Inagaki F, Nat. Struct. Biol., 1, 891-897 (1994).
82. Meiyappan M, Birrane G, and Ladias JA, J. Mol. Biol., 372, 970-980 (2007).
83. Macias MJ, Wiesner S, and Sudol M, FEBS Lett., 513, 30-37 (2002).
84. Zarrinpar A and Lim WA, Nat. Struct. Biol., 7, 611-613 (2000).
85. Zarrinpar A, Bhattacharyya RP, and Lim WA, Sci. Signal., 179, 1-10 (2003).
86. Kato Y, Akai A, Suzuki R, Hosokawa H, Ninomiya H, Masaki T, Nagata K, and Tanokura M, J. Biomol. NMR, 29, 539-540 (2004).
87. Kato Y, Hino Y, Nagata K, and Tanokura M, Proteins, 63, 227-234 (2006).
88. Terasawa H, Kohda D, Hatanaka H, Nagata K, Higashihashi N, Fujiwara H, Sakano K, and Inagaki F, EMBO J., 13, 5590-5597 (1994).
89. Ogura K, Nagata K, Hatanaka H, Habuchi H, Kimata K, Tate S, Ravera MW, Jaye M, Schlessinger J, and Inagaki F, J. Biomol. NMR, 13, 11-24 (1999).
90. Iwasaki W, Nagata K, Hatanaka H, Inui T, Kimura T Muramatsu T, Yoshida K, Tasumi M, and Inagaki F, EMBO J., 16, 6936-6946 (1997).
91. Ito M, Nagata K, Kato Y, Oda Y, Yamagoe S, Suzuki K, and Tanokura M, Prot. Expr. Purif., 27, 272-278 (2003).
92. Ito M, Nagata K, Yumoto F, Yamagoe S, Suzuki K, Adachi K, and Tanokura M, J. Biomol. NMR, 29, 543-544 (2004).
93. Tsuchiya S, Ogura K, Hatanaka H, Nagata K, Terasawa H, Mandiyan V, Schlessinger J, Aimoto S, Ohta H, and Inagaki F, J. Biochem., 125, 1151-1159 (1999).
94. Nishida M, Nagata K, Hachimori Y, Horiuchi M, Ogura K, Mandiyan V, Schlessinger J, and Inagaki F, EMBO J., 20, 2995-3007 (2001).
95. Ogura K, Nagata K, Horiuchi M, Ebisui E, Hasuda T, Yuzawa S, Nishida M, Hatanaka H, and Inagaki F, J. Biomol. NMR, 22, 37-46 (2002).
96. Nagata K, Kudo N, Abe K, Arai S, and Tanokura M, Biochemistry, 39, 14753-14760 (2000).
97. Yumoto F, Nara M, Kagi H, Iwasaki W, Ojima T, Nishita K, Nagata K, and Tanokura M, Eur. J. Biochem., 268, 6284-6290 (2001).
98. Nara M, Yumoto F, Nagata K, Tanokura M, Kagi H, Ojima T, and Nishita K, Biopolymers, 74, 77-81 (2004).
99. Yumoto F, Lu QW, Morimoto S, Tanaka H, Kono N, Nagata K, Ojima T, Takahashi-Yanaga F, Miwa Y, Sasaguri T, Nishita K, Tanokura M, and Ohtsuki I, Biochem. Biophys. Res. Commun., 338, 1519-1526 (2005).
100. Imai FL, Nagata K, Yonezawa N, Yu J, Ito E, Kanai S, Tanokura M, and Nakano M, Acta Crystallogr., F62, 1144-1146 (2006).
101. Imai FL, Nagata K, Yonezawa N, Nakano M, and Tanokura M, Acta Crystallogr., F64, 70-76 (2008).
102. DeLano WL, http://www.pymol.org.
103. Huang X, Poy F, Zhang R, Joachimiak A, Sudol M, and Eck MJ, Nat. Struct. Biol., 7, 634-638 (2000).
104. Verdecia MA, Bowman ME, Lu KP, Hunter T, and Noel JP, Nat. Struct. Biol., 7, 639-643 (2000).