Characterization of a comparative model of the extracellular domain of the Epidermal Growth Factor receptor

Protein Science

Volumn 9, Issue 2, 2000, Pages 310-324

  Jorissen, Robert N ^a   Epa, V Chandana ^b   Treutlein, Herbert R ^a   Garrett, Thomas P J ^a,b   Ward, Colin W ^a,b   Burgess, Antony W ^a  

^a ROYAL MELBOURNE HOSPITAL   (Australia)

^b CSIRO   (Australia)

Author keywords

Comparative modeling; Epidermal growth factor receptor

Indexed keywords

EPIDERMAL GROWTH FACTOR RECEPTOR; SOMATOMEDIN C RECEPTOR;

AMINO ACID SEQUENCE; ARTICLE; BINDING SITE; CELL GROWTH; HUMAN; LIGAND BINDING; MOLECULAR MODEL; NONHUMAN; PRIORITY JOURNAL; RECEPTOR BINDING; SEQUENCE HOMOLOGY;

EID: 0034000148     PISSN: 09618368     EISSN: None     Source Type: Journal    
DOI: 10.1110/ps.9.2.310     Document Type: Article

References (78)

1. Abe Y, Odaka M, Inagaki F, Lax I, Schlessinger J, Kohda D. 1998. Disulfide bond structure of human epidermal growth factor receptor. J Biol Chem 273:11150-11157.
2. Alroy I, Yarden Y. 1997. The ErbB signaling network in embryogenesis and oncogenesis: Signal diversification through combinatorial ligand-receptor interactions. FEBS Lett 410:83-86.
3. Anzano MA, Roberts AB, Smith JM, Sporn MB, De Larco JE. 1983. Sarcoma growth factor from conditioned medium of virally transformed cells is composed of both type α and type β transforming growth factors. Proc Natl Acad Sci USA 80:6264-6268.
4. Bajaj M, Waterfield MD, Schlessinger J, Taylor WR, Blundell T. 1987. On the tertiary structure of the extracellular domains of the epidermal growth factor and insulin receptors. Biochim Biophys Acta 916:220-226.
5. Bernstein FC, Koetzle TF, Williams GJ, Meyer EE Jr, Brice MD, Rodgers JR, Kennard O, Shimanouchi T, Tasumi M. 1977. The Protein Data Bank: A computer-based archival file for macromolecular structures. J Mol Biol 112:535-542.
6. Bowie JU, Lüthy R, Eisenberg D. 1991. A method to identify protein sequences that fold into a known three-dimensional structure. Science 253:164-170.
7. Brooks B, Bruccoleri R, Olafson B, States D, Swaminathan S, Karplus M. 1983. CHARMM: A program for macromolecular energy, minimization, and molecular dynamics calculations. J Comput Chem 41:187-217.
8. Burden S, Yarden Y. 1997. Neuregulins and their receptors: A versatile signaling module in organogenesis and oncogenesis. Neuron 18:847-855.
9. Carpenter G, Cohen S. 1990. Epidermal growth factor. J Biol Chem 265:7709-7712.
10. Degenhardt M, Weber W, Eschenburg S, Dierks K, Funari SS, Rapp G, Betzel C. 1998. Crystallization and preliminary X-ray crystallographic analysis of the EGF receptor ectodomain. Acta Crystallogr D54:999-1001.
11. Derynck R, Roberts AB, Winkler ME, Chen EY, Goeddel DV. 1984. Human transforming growth factor-alpha: Precursor structure and expression in E. coli. Cell 38:287-297.
12. Domagala T, Konstantopoulos N, Smyth F, Jorissen RN, Fabri L, Geleick D, Lax I, Schlessinger J, Sawyer WH, Hewlett GJ, et al. 2000. Stoichiometry, kinetics and binding equilibria of the interaction between epidermal growth factor (EGF) and the extracellular domain of the EGF receptor. Growth Factors. Forthcoming.
13. Etzold T, Argos P. 1993. SRS an indexing and retrieval too for flat file data libraries. Comput Appl Biosci 9:49-57.
14. Fernandez R, Tabarini D, Azpiazu N, Frasch M, Schlessinger J. 1995. The Drosophila insulin receptor homolog: A gene essential for embryonic development encodes two receptor isoforms with different signaling potential. EMBO J 14:3373-3384.
15. Garrett TP, McKern NM, Lou M, Frenkel MJ, Bentley JD, Lovrecz GO, Elleman TC, Cosgrove LJ, Ward CW. 1998. Crystal structure of the first three domains of the type-1 insulin-like growth factor receptor. Nature 394:395-399.
16. Gilson MK, Sharp KA, Honig BH. 1988. Calculating the electrostatic potential of molecules in solution: Method and error assessment. J Comp Chem 9:327-335.
17. Grandis JR, Tweardy DJ. 1993. TGF-alpha and EGFR in head and neck cancer. J Cell Biochem Suppl 17F:188-191.
18. Greenfield C, Hiles I, Waterfield MD, Federwisch M, Wollmer A, Blundell TL, McDonald N. 1989. Epidermal growth factor binding induces a conformational change in the external domain of its receptor. EMBO J 8:4115-4123.
19. Groenen LC, Nice EC, Burgess AW. 1994. Structure-function relationships for the EGF/TGF-α family of mitogens. Growth Factors 11:235-257.
20. Gullick WJ, Marsden JJ, Whittle N, Ward B, Bobrow L, Waterfield MD. 1986. Expression of epidermal growth factor receptors on human cervical, ovarian, and vulval carcinomas. Cancer Res 46:285-292.
21. Günther N, Betzel C, Weber W. 1990. The secreted form of the epidermal growth factor receptor. Characterization and crystallization of the receptorligand complex. J Biol Chem 265:22082-22085.
22. Haeder M, Rotsch M, Bepler G, Hennig C, Havemann K, Heimann B, Moelling K. 1988. Epidermal growth factor receptor expression in human lung cancer cell lines. Cancer Res 48:1132-1136.
23. Harte MT, Gentry LE. 1995. Mutations within subdomain II of the extracellular region of epidermal growth factor receptor selectively alter TGFα binding. Arch Biochem Biophys 322:378-389.
24. Hendlich M, Lackner P, Weitckus S, Floeckner H, Froschauer R, Gottsbacher K, Casari G, Sippl MJ. 1990. Identification of native protein folds amongst a large number of incorrect models. The calculation of low energy conformations from potentials of mean force. J Mol Biol 216:167-180.
25. Huang HS, Nagane M, Klingbeil CK, Lin H, Nishikawa R, Ji XD, Huang CM, Gill GN, Wiley HS, Cavence WK. 1997. The enhanced tumorigenic activity of a mutant epidermal growth factor receptor common in human cancers is mediated by threshold levels of constitutive tyrosine phosphorylation and unattenuated signaling. J Biol Chem 272:2927-2935.
26. Humphrey PA, Gangarosa LM, Wong AJ, Archer GE, Lund-Johansen M, Bjerkvig R. Laerum OD, Friedman HS, Bigner DD. 1991. Deletion-mutant epidermal growth factor receptor in human gliomas: Effect of type II mutation on receptor function. Biochem Biophys Res Commun 178:1413-1420.
27. King AC, Cuatrecasas P. 1983. Resolution of high and low affinity epidermal growth factor receptors. Inhibition of high affinity component by low temperature, cycloheximide, and phorbol esters. J Biol Chem 257:3053-3060.
28. King CR, Kraus MH, Williams LT, Merlino GT, Pastan IH, Aaronson SA. 1985. Human tumor cell lines with EGF receptor gene amplification in the absence of aberrant sized mRNAs. Nucleic Acids Res 13:8477-8486.
29. 1H NMR data. Biochemistry 29:7805-7813.
30. Kohda D, Inagaki F. 1992. Three-dimensional nuclear magnetic resonance structures of mouse epidermal growth factor in acidic and physiological pH solutions. Biochemistry 31:11928-11939.
31. Kohda D, Odaka M, Lax I, Kawasaki H, Suzuki K, Ullrich A, Schlessinger J, Inagaki F. 1993. A 40-kDa epidermal growth factor/transforming growth factor alpha-binding domain produced by limited protcolysis of the extracellular domain of the epidermal growth factor receptor. J Biol Chem 268:1976-1981.
32. Korc M, Chandrasekar B, Yamanaka Y, Friess H, Buchier M, Beger HG. 1992. Overexpression of the epidermal growth factor receptor in human pancreatic cancer is associated with concomitant increases in the levels of epidermal growth factor and transforming growth factor alpha. J Clin Invest 90:1352-1360.
33. Kraulis P. 1991. MOLSCRIPT: A program to produce both detailed and schematic plots of protein structures. J Appl Crystallogr 24:946-950.
34. Kraus MH, Issing W, Miki T, Popescu NC, Aaronson SA. 1989. Isolation and characterization of ERBB3, a third member of the ERBB/epidermal growth factor receptor family: Evidence for overexpression in a subset of human mammary tumors. Proc Natl Acad Sci USA 86:9193-9197.
35. Laskowski RA, MacArthur MW, Moss DS, Thornton JM. 1993. PROCHECK: A program to check the stereochemical quality of protein structures. J Appl Crystallogr 26:283-291.
36. Lax I, Bellot F, Honegger AM, Schmidt A, Ullrich A, Givol D, Schlessinger J. 1990. Domain deletion in the extracellular portion of the EGF-receptor reduces ligand binding and impairs cell surface expression. Cell Regul 1:173-188.
37. Lax I, Bellot F, Howk R, Ullrich A, Givol D, Schlessinger J. 1989. Functional analysis of the ligand binding site of EGF-receptor utilizing chimeric chicken/ human receptor molecules. EMBO J 8:421-427.
38. Lax I, Fischer R, Ng C, Segre J, Ullrich A, Givol D, Schlessinger J. 1991a. Noncontiguous regions in the extracellular domain of EGF receptor define ligand-binding specificity. Cell Regul 2:337-345.
39. Lax I, Mitra AK, Ravera C, Hurwitz DR, Rubinstein M, Ullrich A, Stroud RM, Schlessinger J. 1991b. Epidermal growth factor (EGF) induces oligomerization of soluble, extracellular, ligand-binding domain of EGF receptor. A low resolution projection structure of the ligand-binding domain. J Biol Chem 266:13828-13833.
40. 288 of the receptor. J Biol Chem 274:17445-17451.
41. Lemmon MA, Bu Z, Ladbury JE, Zhou M, Pinchasi D, Lax I, Engelman DM, Schlessinger J. 1997. Two EGF molecules contribute additively to stabilization of the EGFR dimer. EMBO J 16:281-294.
42. Lüthy R, Bowie JU, Eisenberg D. 1992. Assessment of protein models with three-dimensional profiles. Nature 356:83-85.
43. Malden LT, Novak U, Kaye AH, Burgess AW. 1988. Selective amplification of the cytoplasmic domain of the epidermal growth factor receptor gene in glioblastoma multiforme. Cancer Res 48:2711-2714.
44. Merlino GT, Xu YH, Ishii S, Clark AJ, Semba K, Toyoshima K, Yamamoto T, Pastan I. 1984. Amplification and enhanced expression of the epidermal growth factor receptor gene in A431 human carcinoma cells. Science 224:417-419.
45. Messa C, Russo F, Caruso MG, Di Leo A. 1998. EGF, TGF-alpha and EGF-R in human colorectal adenocarcinoma. Acta Oncol 37:285-289.
46. Morgan DO, Jarnagin K, Roth RA. 1986. Purification and characterization of the receptor for insulin-like growth factor I. Biochemistry 25:5560-5564.
47. Moriai T, Kobrin MS, Hope C, Speck L, Korc M. 1994. A variant epidermal growth factor receptor exhibits altered type α transforming growth factor binding and transmembrane signaling. Proc Natl Acad Sci USA 91:10217-10221.
48. Moscatello DK, Holgado-Madruga M, Godwin AK, Ramirez G, Gunn G, Zoltick PW, Biegel JA, Hayes RL, Wong AJ. 1995. Frequent expression of a mutant epidermal growth factor receptor in multiple human tumors. Cancer Res 55:5536-5539.
49. Naismith JH, Devine TQ, Brandhuber BJ, Sprang SR. 1995. Crystallographic evidence for dimerization of unliganded tumor necrosis factor receptor. J Biol Chem 270:13303-13307.
50. Nicholls A, Honig BH. 1991. A rapid finite difference algorithm, utilizing successive over-relaxation to solve the Poisson-Boltzmann equation. J Comp Chem 12:435-445.
51. Odaka M, Kohda D, Lax I, Schlessinger J, Inagaki F. 1997. Ligand-binding enhances the affinity of dimerization of the extracellular domain of the epidermal growth factor receptor. J Biochem 122:116-121.
52. Peles E, Yarden Y. 1993. Neu and its ligands: From an oncogene to neural factors. BioEssays 15:815-824.
53. Pimentel E. 1994. Handbook of growth factors. Volume II: Peptide growth factors. Boca Raton: CRC Press.
54. erbB4, a fourth member of the epidermal growth factor receptor family. Proc Natl Acad Sci USA 90:1746-1750.
55. Riese DJ II, Stern DF. 1998. Specificity within the EGF family/ErbB receptor family signaling network. BioEssays 20:41-48.
56. Roach P, Zick Y, Formisano P, Accili D, Taylor SI, Gorden P. 1994. A novel human insulin receptor gene mutation uniquely inhibits insulin binding without impairing posttranslational processing. Diabetes 43:1096-1102.
57. Šali A, Blundell TL. 1993. Comparative protein modelling by satisfaction of spatial restraints. J Mol Biol 234:779-815.
58. Schechter AL, Hung MC, Vaidyanathan L, Weinberg RA, Yang-Feng TL, Francke U, Ullrich A, Coussens L. 1985. The neu gene: An erbB-homologous gene distinct from and unlinked to the gene encoding the EGF receptor. Science 229:976-978.
59. Schejter ED, Segal D, Glazer L, Shilo BZ. 1986 Alternative 5′ exons and tissue-specific expression of the Drosophila EGF receptor homolog transcripts. Cell 46:1091-1101.
60. Schuler GD, Altschul SF, Lipman DJ. 1991. A workbench for multiple alignment construction and analysis. Proteins 9:180-190.
61. Sippl MJ. 1993. Recognition of errors in three-dimensional structures of proteins. Proteins 17:355-362.
62. Smith JJ, Derynck R, Korc M. 1987. Production of transforming growth factor α in human pancreatic cancer cells: Evidence for a superagonist autocrine cycle. Proc Natl Acad Sci USA 84:7567-7570.
63. Stetefeld J, Mayer U, Timpl R, Huber R. 1996. Crystal structure of three consecutive laminin-type epidermal growth factor-like (LE) modules of laminin γl chain harboring the nidogen binding site. J Mol Biol 257:644-657.
64. Sugawa N, Ekstrand AJ, James CD, Collins VP. 1990. Identical splicing of aberrant epidermal growth factor receptor transcripts from amplified rearranged genes in human glioblastomas. Proc Natl Acad Sci USA 87:8602-8606.
65. Summerfield AE, Hudnall AK, Lukas TJ, Guyer CA, Staros JV. 1996. Identification of residues of the epidermal growth factor receptor proximal to residue 45 of bound epidermal growth factor. J Biol Chem 271:19656-19659.
66. Tramontano A. 1998. Homology modeling with low sequence identity. Methods 14:293-300.
67. Tsai CJ, Lin SL, Wolfson HJ, Nussinov R. 1997. Studies of protein-protein interfaces: A statistical analysis of the hydrophobic effect. Protein Sci 6:53-64.
68. Tzahar E, Pinkas-Kramarski R, Moyer JD, Klapper LN, Alroy I, Levkowitz G, Shelly M, Henis S, Eisenstein M, Ratzkin BJ, et al. 1997. Bivalence of EGF-like ligands drives the ErbB signaling network. EMBO J 16:4938-4950.
69. Ullrich A, Bell JR, Chen EY, Herrera R, Petruzzelli LM, Dull TJ, Gray A, Coussens L, Liao YC, Tsubokawa M, et al. 1985. Human insulin receptor and its relationship to the tyrosine kinase family of oncogenes. Nature 313:756-761.
70. Ullrich A, Coussens L, Hayflick JS, Dull TJ, Gray A, Tam AW, Lee J, Yarden Y, Libermann TA, Schlessinger J, et al. 1984. Human epidermal growth factor receptor cDNA sequence and aberrant expression of the amplified gene in A431 epidermoid carcinoma cells. Nature 309:418-425.
71. Ullrich A, Schlessinger J. 1990. Signal transduction by receptors with tyrosine kinase activity. Cell 61:203-212.
72. Ward CW, Hoyne PA, Flegg RH. 1995. Insulin and epidermal growth factor receptors contain the cysteine repeat motif found in the tumor necrosis factor receptor. Proteins 22:141-153.
73. Ward CW, Garrett TPJ, McKern, NM, Lawrence, LJ. 1999. Structure of the insulin receptor family: Unexpected relationships with other proteins. Today's Life Sci 11:26-32.
74. Woltjer RL, Lukas TJ, Staros JV. 1992. Direct identification of residues of the epidermal growth factor receptor in close proximity to the amino terminus of bound epidermal growth factor. Proc Natl Acad Sci USA 89:7801-7805.
75. Wu D, Wang L, Chi Y, Sato GH, Sato JD. 1990. Human epidermal growth factor receptor residue covalently cross-linked to epidermal growth factor. Proc Natl Acad Sci USA 87:3151-3155.
76. Wu DG, Wang LH, Sato GH, West KA, Harris WR, Crabb JW, Sato JD. 1989. Human epidermal growth factor (EGF) receptor sequence recognized by EGF competitive monoclonal antibodies. Evidence for the localization of the EGF-binding site. J Biol Chem 264:17469-17475.
77. Yarden Y, Schlessinger J. 1987. Self-phosphorylation of epidermal growth factor receptor: Evidence for a model of intermolecular allosteric activation. Biochemistry 26:1434-1442.
78. Yoder MD, Keen NT, Jurnak F. 1993. New domain motif: The structure of pectate lyase C, a secreted plant virulence factor. Science 260:1503-1507.