Medical Hypotheses
Volume 44, Issue 1 , Pages 32-38 , January 1995

Synthetic inducible biological response amplifiers (SIBRAs): Rational peptides at the crossroads Between molecular evolution and structure-based drug design

Received 24 March 1994 ,Accepted 18 July 1994.

References 

  1. Stein CA, Cheng Y-C. Antisense oligonucleotides as therapeutic agents—is the bullet really magical?. Science. 1993;261:1004–1012
  2. Mulligan RC. The basic science of gene therapy. Science. 1993;260:926–932
  3. Culver KW, Ram Z, Wallbridge S, Ishii H, Oldfield EH, Blaese RM. In vivo gene transfer with retroviral vectorproducer cells for treatment of experimental brain tumors. Science. 1992;256:1550–1552
  4. Ojwang JO, Hampel A, Looney DJ, Wong-Staal F, Rappaport J. Inhibition of human immunodeficiency virus type 1 expression by a hairpin ribozyme. In: 3rd edn. Proc Natl Acad Sci USA. 89:1992;p. 10802–10806
  5. Marasco WA, Haseltine WA, Chen S. Design, intracellular expression, and activity of a human anti-human immunodeficiency virus type 1 gp120 single-chain antibody. In: 3rd edn. Proc Natl Acad Sci USA. 90:1993;p. 7889–7893
  6. Mergny JL, Duval-Valentin G, Nguyen CH, et al.  Triple helix-specific ligands. Science. 1992;256:1681–1684
  7. Johnsson K, Allemann RK, Widmer H, Benner SA. Synthesis, structure and activity of artificial, rationally designed catalytic polypeptides. Nature. 1993;365:530–532
  8. Pastan I, Fitzgerald D. Recombinant toxins for cancer treatment. Science. 1991;254:1173–1177
  9. Riechmann L, Clark M, Waldmann H, Winter G. Reshaping human antibodies for therapy. Nature. 1988;332:323–327
  10. Huse WD, Sastry L, Iverson SA, et al.  Generation of a large combinatorial library of the immunoglobulin repertoire in phage lambda. Science. 1989;246:1275–1281
  11. Barbass CF, Crowe JE, Cababa D, et al.  Human monoclonal Fab fragments derived from a combinatorial library bind to respiratory syncytial virus F glycoprotein and neutralize infectivity. In: 3rd edn. Proc Natt Acad Sci USA. 89:1992;p. 10164–10168
  12. Wild C, Oas T, McDanal C, Bolognesi D, Matthews T. A synthetic peptide inhibitor of human immunodeficiency virus replication: correlation between solution structure and viral inhibition. In: 3rd edn. Proc Natl Acad Sci USA. 89:1992;p. 10537–10541
  13. Jiang S, Lin K, Strick N, Neurath AR. HIV-1 inhibition by a peptide. Nature. 1993;365:113
  14. Katz-Levy Y, Kirshner SL, Sela M, Mozes E. Inhibition of T-cell reactivity to myasthenogenic epitopes of the human acetylcholine receptor by synthetic analogs. In: 3rd edn. Proc Natl Acad Sci USA. 90:1993;p. 7000–7004
  15. Araga S, LeBoeuf RD, Blalock JE. Prevention of experimental autoimmune myasthenia gravis by manipulation of the immune network with a complementary peptide for the acetyl choline receptor. In: 3rd edn. Proc Natl Acad Sci USA. 90:1993;p. 8747–8751
  16. Rosenblatt M. Peptide hormone antagonists that are effective in vivo. Lessons from parathyroid hormone. New Engl J Med. 1986;315:1004–1013
  17. Jerne NK. Towards a network theory of the immune system. Ann Immunol C. 1974;125:373–389
  18. Smith LR, Bost KL, Blalock JE. Generation of idiotypic and anti-idiotypic antibodies by immunization with peptides encoded by complementary RNA: a possible molecular basis for the network theory. J Immunol. 1987;138:7–9
  19. Garcia KC, Desiderio SV, Ronco PM, Verroust PJ, Amzel LM. Recognition of angiotensin II: antibodies at different levels of an idiotypic network are superimposable. Science. 1992;257:528–531
  20. Zaghouani H, Steinman R, Nonacs R, Shah H, Gerhard W, Bona C. Presentation of a viral T cell epitope expressed in the CDR3 region of a self immunoglobulin molecule. Science. 1993;259:224–227
  21. Zhou P, Thiele DJ. Rapid transcriptional autoregulation of a yeast metalloregulatory transcription factor is essential for high-level copper detoxification. Genes Dev. 1993;7:1824–1835
  22. Yang H-Y, Lieska N, Glick R, Shao D, Pappas GD. Expression of 300-kilodalton intermediate filament-associated protein distinguishes human glioma cells from normal astrocytes. In: 3rd edn. Proc Natl Acad Sci USA. 90:1993;p. 8534–8537
  23. Gallie BL. Retinoblastoma gene mutations in human cancer. New Engl J Med. 1994;330:786–787
  24. Ewen ME, Xing Y, Lawrence JB, Livingston DM. Molecular cloning, chromosomal mapping, and expression of the cDNA for p107, a retinoblastoma gene product-related protein. Cell. 1991;66:1155–1164
  25. Hannon GJ, Demetrick D, Beach D. Isolation of the Rb-related p130 through its interaction with CDK2 and cyclins. Genes Dev. 1993;7:2378–2391
  26. Zhu L, van den Heuvel S, Helin K, et al.  Inhibition of cell proliferation by pl07, a relative of the retinoblastoma protein. Genes Dev. 1993;7:1111–1125
  27. Schneider JW, Gu W, Zhu L, Mahdavi V, Nadal-Ginard B. Reversal of terminal differentiation mediated by p107 in Rb-/-muscle cells. Science. 1994;264:1467–1471
  28. Kamtekar S, Schiffer JM, Xiong H, Babik JM, Hecht MH. Protein design by binary patterning of polar and nonpolar amino acids. Science. 1993;262:1680–1685
  29. Blalock JE. Complementarity of peptides specified by ‘sense’ and ‘antisense’ strands of DNA. Trends Biotechnol. 1991;8:140–144
  30. Vousden K. Interactions of human papillomavirus transforming proteins with the products of tumor suppressor genes. FASEB J. 1993;7:872–879
  31. Lengyel P. Tumor-suppressor genes: news about the interferon connection. In: 3rd edn. Proc Natl Acad Sci USA. 90:1993;p. 5893–5895
  32. Morimoto RI. Cells in stress: transcriptional activation of heat shock genes. Science. 1993;259:1409–1410
  33. Kumar R, Atlas I. Interferon a induces the expression of retinoblastoma gene product in human Burkitt lymphoma Daudi cells: role in growth regulation. In: 3rd edn. Proc Natl Acad Sci USA. 89:1992;p. 6599–6603
  34. Berg JM. Sp1 and the subfamily of zinc finger proteins with guanine-rich binding sites. In: 3rd edn. Proc Natl Acad Sci USA. 89:1992;p. 11109–11110
  35. Draper DE. Protein-DNA complexes: the cost of recognition. In: 3rd edn. Proc Natl Acad Sci USA. 90:1993;p. 7429–7430
  36. Lee SS, Kang C. Two base pairs at -9 and -8 distinguish between the bacteriophage T7 and SP6 promoters. J Biol Chem. 1993;268:19299–19304
  37. Ptashne M. Gene regulation by proteins acting nearby and at a distance. Nature. 1986;322:697–701
  38. Ptashne M. How eukaryotic transcriptional activators work. Nature. 1988;335:683–689
  39. Qin S, Cobbold SP, Pope H, et al.  ‘Infectious’ transplantation tolerance. Science. 1993;259:974–977
  40. Rhodes SJ, Chen R, DiMattia GE, et al.  A tissue-specific enhancer confers Pit-l-dependent morphogen inducibility and autoregulation on the pit-1 gene. Genes Dev. 1993;7:913–932
  41. Amon A, Tyers M, Futcher B, Nasmyth K. Mechanisms that help the yeast cell cycle clock tick: G2 cyclins transcriptionally activate G2 cyclins and repress G1 cyclins. Cell. 1993;74:993–1007
  42. Bost KL, Smith EM, Blalock JE. Similarity between the corticotropin (ACTH) receptor and a peptide encoded by an RNA that is complementary to ACTH mRNA. In: 3rd edn. Proc Natl Acad Sci USA. 82:1985;p. 1372–1375
  43. Brentani RR, Ribeiro SS, Potocnjak P, Pasqualini R, Lopes JD, Nakaie CR. Characterization of the cellular receptor for fibronectin through the hydropathic complementarity approach. In: 3rd edn. Proc Natl Acad Sci USA. 85:1988;p. 364–367
  44. Kang C-Y, Brunck TK, Kieber-Emmons T, Blalock JE, Kohler H. Inhibition of self-binding antibodies (autobodies) by a VH-derived peptide. Science. 1988;240:1034–1036
  45. Ghiso J, Saball E, Leoni J, Rostagno A, Frangione B. Binding of cystatin C to C4: The importance of sense-antisense peptides in their interaction. In: 3rd edn. Proc Natl Acad Sci USA. 87:1990;p. 1288–1291
  46. Palla E, Bensi G, Solito E, et al.  Loop substitution as a tool to identify active sites of interleukin-1β. J Biel Chem. 1993;268:13486–13492
  47. Tropsha A, Kizer JS, Chaiken IM. Making sense from antisense: a review of experimental data and developing ideas on sense-antisense peptide recognition. J Mol Recognit. 1992;5:43–54
  48. Wendtner CM, Radulescu RT. Prediction of homologous binding sites on RB and p107 common for viral oncoproteins and cellular ligands. J Mol Recognit. 1992;5:125–132
  49. Radulescu RT, Wendtner CM. Proposed interaction between insulin and retinoblastoma protein. J Mol Recognit. 1992;5:133–137
  50. Radulescu RT, Wendtner CM. Hormone and growth factor subunits: a novel perception of cell growth regulation. J Endocrinol. 1993;139:1–7
  51. Atassi MZ, Manshouri T. Design of peptide enzymes (pepzymes): Surface-simulation synthetic peptides that mimic the chymotrypsin and trypsin active sites exhibit the activity and specificity of the respective enzyme. In: 3rd edn. Proc Natl Acad Sci USA. 90:1993;p. 8282–8286
  52. Balass M, Heldman Y, Cabilly S, Givol D, Katchalski-Katzir E, Fuchs S. Identification of a hexapeptide that mimics a conformation-dependent binding-site of acetylcholine recep tor by use of a phage-epitope library. In: 3rd edn. Proc Natl Acad Sci USA. 90:1993;p. 10638–10642
  53. Mizoguchi H, O'Shea JJ, Longo DL, et al.  Alterations in signal transduction molecules in T lymphocytes from tumor-bearing mice. Science. 1992;258:1795–1798
  54. Nicola NA, Metcalf D. Subunit promiscuity among hemopoietic growth factor receptors. Cell. 1991;67:1–4
  55. Spiegel AM, Shenker A, Weinstein LS. Receptor-effector coupling by G proteins: implications for normal and abnormal signal transduction. Endocr Rev. 1992;13:536–565
  56. Kaetzel DM, Coyne DW, Fenstermaker RA. Transcriptional control of the platelet-derived growth factor subunit genes. Biofactors. 1993;4:71–81
  57. Scott ML, Fujita T, Lion H-C, Nolan GP, Baltimore D. The p65 subunit of NF-kB regulates IkB by two distinct mechanisms. Genes Dev. 1993;7:1266–1276
  58. Xiong Y, Zhang H, Beach D. Subunit rearrangement of cyclindependent kinases is associated with cellular transformation. Genes Dev. 1993;7:1572–1583
  59. Strittmatter WJ, Huang DY, Bhasin R, Roses AD, Goldgaber D. Avid binding of βA amyloid peptide to its own precursor. Exp Neurol. 1993;122:327–334
  60. James GL, Goldstein JL, Brown MS, et al.  Benzodiazepine peptidomimetics: potent inhibitors of ras famesylation in animal cells. Science. 1993;260:1937–1942
  61. Kleinert HD, Rosenberg SA, Baker WR, et al.  Discovery of a peptide-based renin inhibitor with oral bioavailability and efficacy. Science. 1992;257:1940–1943
  62. Friden PM, Walus LR, Watson P, et al.  Blood-brain barrier penetration and in vivo activity of an NGF conjugate. Science. 1993;259:373–377
  63. Zacksenhaus E, Bremner R, Phillips RA, Gallie BL. A bipartite nuclear localization signal in the retinoblastoma gene product and its importance for biological activity. Mol Cell Biol. 1993;13:4588–4599
  64. McClintock B. Nobel Lectures in Physiology or Medicine (1981–1990). In:  Frängsmyr T,  Lindsten J editor. Singapore: World Scientific Publishing Co. Pte. Ltd; 1993;p. 180–199
  65. Fields S, Song O-K. A novel genetic system to detect proteinprotein interactions. Nature. 1989;340:245–246
  66. Zervos AS, Gyuris J, Brent R. Mxil, a protein that specifically interacts with max to bind Myc-Max recognition sites. Cell. 1993;72:223–232
  67. Roemer K, Friedmann T. Modulation of cell proliferation and gene expression by a p53-estrogen receptor hybrid protein. In: 3rd edn. Proc Natl Acad Sci USA. 90:1993;p. 9252–9256
  68. Krämer R, Lehn J-M, Marquis-Rigault A. Self-recognition in helicate self-assembly: Spontaneous formation of helical metal complexes from mixtures of ligands and metal ions. In: 3rd edn. Proc Natl Acad Sci USA. 90:1993;p. 5394–5398
  69. Rouault TA, Tang CK, Kaptain S, et al.  Cloning of the cDNA encoding an RNA regulatory protein-the human ironresponsive element-binding protein. In: 3rd edn. Proc Natl Acad Sci USA. 87:1990;p. 7958–7962
  70. Rebar EJ, Pabo CO. Zinc finger phage: affinity selection of fingers with new DNA-binding specificities. Science. 1994;263:671–673
  71. Park K, Choe J, Osifchin NE, Templeton DJ, Robbins PD, Kim S-J. The human retinoblastoma susceptibility gene promoter is positively autoregulated by its own product. J Biol Chem. 1994;269:6083–6088
  72. Ron D. Inducible growth arrest: New mechanistic insights. In: 3rd edn. Proc Natl Acad Sci USA. 91:1994;p. 1985–1986

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Medical Hypotheses
Volume 44, Issue 1 , Pages 32-38 , January 1995