Characteristic motifs for families of allergenic proteins

Molecular Immunology

Volumn 46, Issue 4, 2009, Pages 559-568

  Ivanciuc, Ovidiu ^a   Garcia, Tzintzuni ^a   Torres, Miguel ^b   Schein, Catherine H ^a   Braun, Werner ^a  

^a University of Texas Medical Branch School of Medicine   (United States)

^b McAllen High School   (United States)

Author keywords

Allergen classification; Allergen motif; Allergy; Cross reactivity

Indexed keywords

AHPC PROTEIN; ALLERGEN; CHITIN DERIVATIVE; CUPIN; CYSTEINE PROTEINASE; ENOLASE; EPITOPE; GLOBIN; HEAT SHOCK PROTEIN 70; IMMUNOGLOBULIN E; LIPOCALIN; PAPAIN; PAPAIN FAMILY CYSTEINE PROTEASE; PATHOGENESIS RELATED PROTEIN BET V 1 FAMILY; PECTATE LYASE; POLLEN ANTIGEN; POLLEN PROTEIN; PROFILIN; PROTEINASE INHIBITOR; RIBONUCLEASE; RIBOSOME PROTEIN; SCP LIKE EXTRACELLULAR PROTEIN; SERUM ALBUMIN; SUBTILASE; SUBTILISIN; THAUMATIN; TRIACYLGLYCEROL LIPASE; TROPOMYOSIN; TRYPSIN; UNCLASSIFIED DRUG; UNINDEXED DRUG;

ALLERGENICITY; AMINO ACID SEQUENCE; ARTICLE; CROSS REACTION; DATA BASE; NUCLEOTIDE SEQUENCE; PHYSICAL CHEMISTRY; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN DOMAIN; PROTEIN FAMILY; PROTEIN MOTIF; PROTEIN STRUCTURE; SEED STORAGE; SEQUENCE ALIGNMENT; WEB BROWSER;

ALLERGENS; AMINO ACID MOTIFS; COMPUTATIONAL BIOLOGY; CROSS REACTIONS; DATABASES, PROTEIN; EPITOPES; HUMANS; IMMUNOGLOBULIN E; INFORMATION STORAGE AND RETRIEVAL; PROTEIN STRUCTURE, TERTIARY; SEQUENCE HOMOLOGY, AMINO ACID; SOFTWARE; STRUCTURE-ACTIVITY RELATIONSHIP;

EID: 58249118841     PISSN: 01615890     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.molimm.2008.07.034     Document Type: Article

References (90)

1. Aalberse R.C. Structural biology of allergens. Journal of Allergy and Clinical Immunology 106 (2000) 228-238
2. Aalberse R.C. Assessment of allergen cross-reactivity. Clinical and Molecular Allergy 5 (2007) 2
3. Aalberse R.C., Akkerdaas J., and van Ree R. Cross-reactivity of IgE antibodies to allergens. Allergy 56 (2001) 478-490
4. Aalberse R.C., and Stadler B.M. In silico predictability of allergenicity: from amino acid sequence via 3D structure to allergenicity. Molecular Nutrition & Food Research 50 (2006) 625-627
5. Asturias J.A., Gomez-Bayon N., Eseverri J.L., and Martinez A. Par j 1 and Par j 2, the major allergens from Parietaria judaica pollen, have similar immunoglobulin E epitopes. Clinical and Experimental Allergy 33 (2003) 518-524
6. Ayuso R., Lehrer S.B., and Reese G. Identification of continuous, allergenic regions of the major shrimp allergen Pen a 1 (tropomyosin). International Archives of Allergy and Immunology 127 (2002) 27-37
7. Ayuso R., Reese G., Leong-Kee S., Plante M., and Lehrer S.B. Molecular basis of arthropod cross-reactivity: IgE-binding cross-reactive epitopes of shrimp, house dust mite and cockroach tropomyosins. International Archives of Allergy and Immunology 129 (2002) 38-48
8. Baur X., Aschauer H., Mazur G., Dewair M., Prelicz H., and Steigemann W. Structure, antigenic determinants of some clinically important insect allergens: chironomid hemoglobins. Science 233 (1986) 351-354
9. Beardslee T.A., Zeece M.G., Sarath G., and Markwell J.P. Soybean glycinin G1 acidic chain shares IgE epitopes with peanut allergen Ara h 3. International Archives of Allergy and Immunology 123 (2000) 299-307
10. Björklund A.K., Soeria-Atmadja D., Zorzet A., Hammerling U., and Gustafsson M.G. Supervised identification of allergen-representative peptides for in silico detection of potentially allergenic proteins. Bioinformatics 21 (2005) 39-50
11. Bohle B., Zwolfer B., Fischer G.F., Seppala U., Kinaciyan T., Bolwig C., Spangfort M.D., and Ebner C. Characterization of the human T cell response to antigen 5 from Vespula vulgaris (Ves v 5). Clinical and Experimental Allergy 35 (2005) 367-373
12. Bonds R.S., Midoro-Horiuti T., and Goldblum R. A structural basis for food allergy: the role of cross-reactivity. Current Opinion in Allergy and Clinical Immunology 8 (2008) 82-86
13. Breiteneder H., and Ebner C. Molecular and biochemical classification of plant-derived food allergens. Journal of Allergy and Clinical Immunology 106 (2000) 27-36
14. Breiteneder H., and Mills E.N.C. Nonspecific lipid-transfer proteins in plant foods and pollens: an important allergen class. Current Opinion in Allergy and Clinical Immunology 5 (2005) 275-279
15. Breiteneder H., and Mills E.N.C. Plant food allergens-structural and functional aspects of allergenicity. Biotechnology Advances 23 (2005) 395-399
16. Breiteneder H., and Mills E.N.C. Structural bioinformatic approaches to understand cross-reactivity. Molecular Nutrition & Food Research 50 (2006) 628-632
17. Breiteneder H., and Radauer C. A classification of plant food allergens. Journal of Allergy and Clinical Immunology 113 (2004) 821-830
18. Brusic V., and Petrovsky N. Bioinformatics for characterisation of allergens, allergenicity and allergic crossreactivity. Trends in Immunology 24 (2003) 225-228
19. Chapman M.D., Pomés A., Breiteneder H., and Ferreira F. Nomenclature and structural biology of allergens. Journal of Allergy and Clinical Immunology 119 (2007) 414-420
20. Chenna R., Sugawara H., Koike T., Lopez R., Gibson T.J., Higgins D.G., and Thompson J.D. Multiple sequence alignment with the Clustal series of programs. Nucleic Acids Research 31 (2003) 3497-3500
21. Chu K.H., Wong S.H., and Leung P.S.C. Tropomyosin is the major mollusc allergen: reverse transcriptase polymerase chain reaction, expression and IgE reactivity. Marine Biotechnology 2 (2000) 499-509
22. Comstock S.S., McGranahan G., Peterson W.R., and Teuber S.S. Extensive in vitro cross-reactivity to seed storage proteins is present among walnut (Juglans) cultivars and species. Clinical and Experimental Allergy 34 (2004) 1583-1590
23. Czerwinski E.W., Midoro-Horiuti T., White M.A., Brooks E.G., and Goldblum R.M. Crystal structure of Jun a 1, the major cedar pollen allergen from Juniperus ashei, reveals a parallel beta-helical core. Journal of Biological Chemistry 280 (2005) 3740-3746
24. Ebner C., Hoffmann-Sommergruber K., and Breiteneder H. Plant food allergens homologous to pathogenesis-related proteins. Allergy 56 (2001) 43-44
25. Egger M., Mutschlechner S., Wopfner N., Gadermaier G., Briza P., and Ferreira F. Pollen-food syndromes associated with weed pollinosis: an update from the molecular point of view. Allergy 61 (2006) 461-476
26. Fernandes J., Reshef A., Patton L., Ayuso R., Reese G., and Lehrer S.B. Immunoglobulin E antibody reactivity to the major shrimp allergen, tropomyosin, in unexposed Orthodox Jews. Clinical and Experimental Allergy 33 (2003) 956-961
27. Fiers M., Kleter G.A., Nijland H., Peijnenburg A., Nap J.P., and van Ham R. Allermatch (TM), a webtool for the prediction of potential allergenicity according to current FAO/WHO Codex alimentarius guidelines. Bmc Bioinformatics 5 (2004)
28. Finn R.D., Mistry J., Schuster-Böckler B., Griffiths-Jones S., Hollich V., Lassmann T., Moxon S., Marshall M., Khanna A., Durbin R., Eddy S.R., Sonnhammer E.L.L., and Bateman A. Pfam: clans, web tools and services. Nucleic Acids Research 34 (2006) D247-D251
29. Furmonaviciene R., Sutton B.J., Glaser F., Laughton C.A., Jones N., Sewell H.F., and Shakib F. An attempt to define allergen-specific molecular surface features: a bioinformatic approach. Bioinformatics 21 (2005) 4201-4204
30. Glaspole I.N., de Leon M.P., Rolland J.M., and O'Hehir R.E. Characterization of the T-cell epitopes of a major peanut allergen, Ara h 2. Allergy 60 (2005) 35-40
31. Goetz D.W., Whisman B.A., and Goetz A.D. Cross-reactivity among edible nuts: double immunodiffusion, crossed immunoelectrophoresis and human specific IgE serologic surveys. Annals of Allergy Asthma & Immunology 95 (2005) 45-52
32. Goodman R.E. Practical and predictive bioinformatics methods for the identification of potentially cross-reactive protein matches. Molecular Nutrition & Food Research 50 (2006) 655-660
33. Helm R.M., Cockrell G., Connaughton C., Sampson H.A., Bannon G.A., Beilinson V., Nielsen N.C., and Burks A.W. A soybean G2 glycinin allergen. 2. Epitope mapping and three-dimensional modeling. International Archives of Allergy and Immunology 123 (2000) 213-219
34. Hemmer W., Focke M., Götz M., and Jarisch R. Sensitization to Ficus benjamina: relationship to natural rubber latex allergy and identification of foods implicated in the ficus-fruit syndrome. Clinical and Experimental Allergy 34 (2004) 1251-1258
35. Hileman R.E., Silvanovich A., Goodman R.E., Rice E.A., Holleschak G., Astwood J.D., and Hefle S.L. Bioinformatic methods for allergenicity assessment using a comprehensive allergen database. International Archives of Allergy and Immunology 128 (2002) 280-291
36. Ivanciuc O., Oezguen N., Mathura V.S., Schein C.H., Xu Y., and Braun W. Using property based sequence motifs and 3D modeling to determine structure and functional regions of proteins. Curr Med Chem 11 (2004) 583-593
37. Ivanciuc O., Schein C.H., and Braun W. Data mining of sequences and 3D structures of allergenic proteins. Bioinformatics 18 (2002) 1358-1364
38. Ivanciuc O., Schein C.H., and Braun W. SDAP: database and computational tools for allergenic proteins. Nucleic Acids Research 31 (2003) 359-362
39. Jenkins J.A., Griffiths-Jones S., Shewry P.R., Breiteneder H., and Mills E.N.C. Structural relatedness of plant food allergens with specific reference to cross-reactive allergens: an in silico analysis. Journal of Allergy and Clinical Immunology 115 (2005) 163-170
40. Jeong K.Y., Hong C.S., and Yong T.S. Allergenic tropomyosins and their cross-reactivities. Protein and Peptide Letters 13 (2006) 835-845
41. Kazemi-Shirazi L., Pauli G., Purohit A., Spitzauer S., Froschl R., Hoffmann-Sommergruber K., Breiteneder H., Scheiner O., Kraft D., and Valenta R. Quantitative IgE inhibition experiments with purified recombinant allergens indicate pollen-derived allergens as the sensitizing agents responsible for many forms of plant food allergy. Journal of Allergy and Clinical Immunology 105 (2000) 116-125
42. Ladics G.S., Bardina L., Cressman R.F., Mattsson J.L., and Sampson H.A. Lack of cross-reactivity between the Bacillus thuringiensis derived protein Cry1F in maize grain and dust mite Der p7 protein with human sera positive for Der p7-IgE. Regulatory Toxicology and Pharmacology 44 (2006) 136-143
43. Li K.B., Issac P., and Krishnan A. Predicting allergenic proteins using wavelet transform. Bioinformatics 20 (2004) 2572-2578
44. Mari A. Importance of databases in experimental and clinical allergology. International Archives of Allergy and Immunology 138 (2005) 88-96
45. Marti P., Truffer R., Stadler M.B., Keller-Gautschi E., Crameri R., Mari A., Schmid-Grendelmeier P., Miescher S.M., Stadler B.M., and Vogel M. Allergen motifs and the prediction of allergenicity. Immunology Letters 109 (2007) 47-55
46. Mathura V.S., Schein C.H., and Braun W. Identifying property based sequence motifs in protein families and superfamilies: application to DNase-1 related endonucleases. Bioinformatics 19 (2003) 1381-1390
47. Midoro-Horiuti T., Brooks E.G., and Goldblum R.M. Pathogenesis-related proteins of plants as allergens. Annals of Allergy Asthma & Immunology 87 (2001) 261-271
48. Midoro-Horiuti T., Goldblum R.M., Kurosky A., Wood T.G., Schein C.H., and Brooks E.G. Molecular cloning of the mountain cedar (Juniperus ashei) pollen major allergen, Jun a 1. Journal of Allergy and Clinical Immunology 104 (1999) 613-617
49. Midoro-Horiuti T., Mathura V., Schein C.H., Braun W., Yu S.N., Watanabe M., Lee J.C., Brooks E.G., and Goldblum R.M. Major linear IgE epitopes of mountain cedar pollen allergen Jun a 1 map to the pectate lyase catalytic site. Molecular Immunology 40 (2003) 555-562
50. Midoro-Horiuti T., Schein C.H., Mathura V., Braun W., Czerwinski E.W., Togawa A., Kondo Y., Oka T., Watanabe M., and Goldblum R.M. Structural basis for epitope sharing between group 1 allergens of cedar pollen. Molecular Immunology 43 (2006) 509-518
51. Mirza O., Henriksen A., Ipsen H., Larsen J.N., Wissenbach M., Spangfort M.D., and Gajhede M. Dominant epitopes and allergic cross-reactivity: complex formation between a Fab fragment of a monoclonal murine IgG antibody and the major allergen from birch pollen Bet v 1. Journal of Immunology 165 (2000) 331-338
52. Mittag D., Batori V., Neudecker P., Wiche R., Friis E.P., Ballmer-Weber B.K., Vieths S., and Roggen E.L. A novel approach for investigation of specific and cross-reactive IgE epitopes on Bet v 1 and homologous food allergens in individual patients. Molecular Immunology 43 (2006) 268-278
53. Mittag D., Vieths S., Vogel L., Wagner-Loew D., Starke A., Hunziker P., Becker W.M., and Ballmer-Weber B.K. Birch pollen-related food allergy to legumes: identification and characterization of the Bet v 1 homologue in mungbean (Vigna radiata), Vig r 1. Clinical and Experimental Allergy 35 (2005) 1049-1055
54. Oezguen N., Zhou B., Negi S.S., Ivanciuc O., Schein C.H., Labesse G., and Braun W. Comprehensive 3D-modeling of allergenic proteins and amino acid composition of potential conformational IgE epitopes. Molecular Immunology 45 (2008) 3740-3747
55. Pearson W.R. Using the FASTA program to search protein and DNA sequence databases. Methods in Molecular Biology 25 (1994) 365-389
56. Rabjohn P., Helm E.M., Stanley J.S., West C.M., Sampson H.A., Burks A.W., and Bannon G.A. Molecular cloning and epitope analysis of the peanut allergen Ara h 3. Journal of Clinical Investigation 103 (1999) 535-542
57. Radauer C., and Breiteneder H. Pollen allergens are restricted to few protein families and show distinct patterns of species distribution. Journal of Allergy and Clinical Immunology 117 (2006) 141-147
58. Radauer C., Bublin M., Wagner S., Mari A., and Breiteneder H. Allergens are distributed into few protein families and possess a restricted number of biochemical functions. Journal of Allergy and Clinical Immunology 121 (2008) 847-52 e7
59. Reese G., Ayuso R., and Lehrer S.B. Tropomyosin: an invertebrate pan-allergen. International Archives of Allergy and Immunology 119 (1999) 247-258
60. Reese G., Schicktanz S., Lauer I., Randow S., Lüttkopf D., Vogel L., Lehrer S.B., and Vieths S. Structural, immunological and functional properties of natural recombinant Pen a 1, the major allergen of Brown Shrimp, Penaeus aztecus. Clinical and Experimental Allergy 36 (2006) 517-524
61. Riaz T., Hor H.L., Krishnan A., Tang F., and Li K.B. WebAllergen: a web server for predicting allergenic proteins. Bioinformatics 21 (2005) 2570-2571
62. Robotham J.M., Teuber S.S., Sathe S.K., and Roux K.H. Linear IgE epitope mapping of the English walnut (Juglans regia) major food allergen, Jug r 1. Journal of Allergy and Clinical Immunology 109 (2002) 143-149
63. Robotham J.M., Wang F., Seamon V., Teuber S.S., Sathe S.K., Sampson H.A., Beyer K., Seavy M., and Roux K.H. Ana o 3, an important cashew nut (Anacardium occidentale L.) allergen of the 2S albumin family. Journal of Allergy and Clinical Immunology 115 (2005) 1284-1290
64. Saha S., and Raghava G.P.S. AlgPred: prediction of allergenic proteins and mapping of IgE epitopes. Nucleic Acids Research 34 (2006) W202-W209
65. Salcedo G., Sanchez-Monge R., Diaz-Perales A., Garcia-Casado G., and Barber D. Plant non-specific lipid transfer proteins as food and pollen allergens. Clinical and Experimental Allergy 34 (2004) 1336-1341
66. Schein C.H., Ivanciuc O., and Braun W. Common physical-chemical properties correlate with similar structure of the IgE epitopes of peanut allergens. Journal of Agricultural and Food Chemistry 53 (2005) 8752-8759
67. Schein C.H., Ivanciuc O., and Braun W. Structural database of allergenic proteins (SDAP). In: Maleki S.J., Burks A.W., and Helm R.M. (Eds). Food Allergy (2006), ASM Press, Washington, DC 257-283
68. Schein C.H., Ivanciuc O., and Braun W. Bioinformatics approaches to classifying allergens and predicting cross-reactivity. Immunology and Allergy Clinics of North America 27 (2007) 1-27
69. Schein C.H., Özgün N., Izumi T., and Braun W. Total sequence decomposition distinguishes functional modules, "molegos" in apurinic/apyrimidinic endonucleases. BMC Bioinformatics 3 (2002) 37
70. Schein C.H., Zhou B., and Braun W. Stereophysicochemical variability plots highlight conserved antigenic areas in Flaviviruses. Virology Journal 2 (2005) 40
71. Schein C.H., Zhou B., Oezguen N., Mathura V.S., and Braun W. Molego-based definition of the architecture and specificity of metal-binding sites. Proteins: Structure, Function, and Bioinformatics 58 (2005) 200-210
72. Schwietz L.A., Goetz D.W., Whisman B.A., and Reid M.J. Cross-reactivity among conifer pollens. Annals of Allergy Asthma & Immunology 84 (2000) 87-93
73. Shanti K.N., Martin B.M., Nagpal S., Metcalfe D.D., and Rao P.V.S. Identification of tropomyosin as the major shrimp allergen and characterization of its IgE-binding epitopes. Journal of Immunology 151 (1993) 5354-5363
74. Shin D.S., Compadre C.M., Maleki S.J., Kopper R.A., Sampson H., Huang S.K., Burks A.W., and Bannon G.A. Biochemical and structural analysis of the IgE binding sites on Ara h1, an abundant and highly allergenic peanut protein. Journal of Biological Chemistry 273 (1998) 13753-13759
75. Sone T., Dairiki K., Morikubo K., Shimizu K., Tsunoo H., Mori T., and Kino K. Identification of human T cell epitopes in Japanese cypress pollen allergen, Cha o 1, elucidates the intrinsic mechanism of cross-allergenicity between Cha o 1 and Cry j 1, the major allergen of Japanese cedar pollen, at the T cell level. Clinical and Experimental Allergy 35 (2005) 664-671
76. Sone T., Morikubo K., Miyahara M., Komiyama N., Shimizu K., Tsunoo H., and Kino K. T cell epitopes in Japanese cedar (Cryptomeria japonica) pollen allergens: choice of major T cell epitopes in Cry j 1 and Cry j 2 toward design of the peptide-based immunotherapeutics for the management of Japanese cedar pollinosis. Journal of Immunology 161 (1998) 448-457
77. Stadler M.B., and Stadler B.M. Allergenicity prediction by protein sequence. Faseb Journal 17 (2003) 1141-1143
78. Stanley J.S., King N., Burks A.W., Huang S.K., Sampson H., Cockrell G., Helm R.M., West C.M., and Bannon G.A. Identification and mutational analysis of the immunodominant IgE binding epitopes of the major peanut allergen Ara h 2. Archives of Biochemistry and Biophysics 342 (1997) 244-253
79. Tamura Y., Kawaguchi J., Serizawa N., Hirahara K., Shiraishi A., Nigi H., Taniguchi Y., Toda M., Inouye S., Takemori T., and Sakaguchi M. Analysis of sequential immunoglobulin E-binding epitope of Japanese cedar pollen allergen (Cry j 2) in humans, monkeys and mice. Clinical and Experimental Allergy 33 (2003) 211-217
80. Thomas, K., Bannon, G., Hefle, S., Herouet, C., Holsapple, M., Ladics, G., MacIntosh, S., Privalle, L., 2005. In silico methods for evaluating human allergenicity to novel proteins. International Bioinformatics Workshop Meeting Report, February 23-24, 2005. Toxicological Sciences 88, 307-310.
81. Venkatarajan M.S., and Braun W. New quantitative descriptors of amino acids based on multidimensional scaling of a large number of physical-chemical properties. Journal of Molecular Modeling 7 (2001) 445-453
82. Weber R.W. Cross-reactivity of pollen allergens: recommendations for immunotherapy vaccines. Current Opinion in Allergy and Clinical Immunology 5 (2005) 563-569
83. Wensing M., Akkerdaas J.H., van Leeuwen A., Stapel S.O., Bruijnzeel-Koomen C., Aalberse R.C., Bast B., Knulst A.C., and van Ree R. IgE to Bet v 1 and profilin: cross-reactivity patterns and clinical relevance. Journal of Allergy and Clinical Immunology 110 (2002) 435-442
84. WHO, 2000. Safety aspects of genetically modified foods of plant origin. Report of a Joint FAO/WHO Expert Consultation. World Health Organization, Geneva.
85. WHO, 2001. Evaluation of allergenicity of genetically modified foods. Report of a Joint FAO/WHO Expert Consultation. World Health Organization, Geneva.
86. WHO, 2003. Joint FAO/WHO food Standards Programme. Codex ad hoc intergovernmental task force on foods derived from biotechnology. http://www.codexalimentarius.net/. World Health Organization, Yokohama.
87. Wild L.G., and Lehrer S.B. Fish and shellfish allergy. Current Allergy and Asthma Reports 5 (2005) 74-79
88. Yoshioka H., Ohmoto T., Urisu A., Mine Y., and Adachi T. Expression and epitope analysis of the major allergenic protein Fag e 1 from buckwheat. Journal of Plant Physiology 161 (2004) 761-767
89. Zhang Y., Matsuo H., and Morita E. Cross-reactivity among shrimp, crab and scallops in a patient with a seafood allergy. Journal of Dermatology 33 (2006) 174-177
90. Zorzet A., Gustafsson M., and Hammerling U. Prediction of food protein allergenicity: a bioinformatic learning systems approach. In Silico Biology 2 (2004) 525-534