TY - JOUR
T1 - Structural analysis of linear and conformational epitopes of allergens
AU - Ivanciuc, Ovidiu
AU - Schein, Catherine H.
AU - Garcia, Tzintzuni
AU - Oezguen, Numan
AU - Negi, Surendra S.
AU - Braun, Werner
N1 - Funding Information:
This work was supported by a contract from the US Food and Drug Administration (HHSF223200710011I) and grants from the National Institute of Health (R01 AI 064913), and the US Environmental Protection Agency under a STAR Research Assistance Agreement (No. RD 833137).
PY - 2009/8
Y1 - 2009/8
N2 - In many countries regulatory agencies have adopted safety guidelines, based on bioinformatics rules from the WHO/FAO and EFSA recommendations, to prevent potentially allergenic novel foods or agricultural products from reaching consumers. We created the Structural Database of Allergenic Proteins (SDAP, http://fermi.utmb.edu/SDAP/) to combine data that had previously been available only as flat files on Web pages or in the literature. SDAP was designed to be user friendly, to be of maximum use to regulatory agencies, clinicians, as well as to scientists interested in assessing the potential allergenic risk of a protein. We developed methods, unique to SDAP, to compare the physicochemical properties of discrete areas of allergenic proteins to known IgE epitopes. We developed a new similarity measure, the property distance (PD) value that can be used to detect related segments in allergens with clinical observed cross-reactivity. We have now expanded this work to obtain experimental validation of the PD index as a quantitative predictor of IgE cross-reactivity, by designing peptide variants with predetermined PD scores relative to known IgE epitopes. In complementary work we show how sequence motifs characteristic of allergenic proteins in protein families can be used as fingerprints for allergenicity.
AB - In many countries regulatory agencies have adopted safety guidelines, based on bioinformatics rules from the WHO/FAO and EFSA recommendations, to prevent potentially allergenic novel foods or agricultural products from reaching consumers. We created the Structural Database of Allergenic Proteins (SDAP, http://fermi.utmb.edu/SDAP/) to combine data that had previously been available only as flat files on Web pages or in the literature. SDAP was designed to be user friendly, to be of maximum use to regulatory agencies, clinicians, as well as to scientists interested in assessing the potential allergenic risk of a protein. We developed methods, unique to SDAP, to compare the physicochemical properties of discrete areas of allergenic proteins to known IgE epitopes. We developed a new similarity measure, the property distance (PD) value that can be used to detect related segments in allergens with clinical observed cross-reactivity. We have now expanded this work to obtain experimental validation of the PD index as a quantitative predictor of IgE cross-reactivity, by designing peptide variants with predetermined PD scores relative to known IgE epitopes. In complementary work we show how sequence motifs characteristic of allergenic proteins in protein families can be used as fingerprints for allergenicity.
KW - Linear and conformational epitopes
KW - Sequence and structural motifs
KW - Structural database of allergenic proteins (SDAP)
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U2 - 10.1016/j.yrtph.2008.11.007
DO - 10.1016/j.yrtph.2008.11.007
M3 - Article
C2 - 19121639
AN - SCOPUS:67650266532
SN - 0273-2300
VL - 54
SP - S11-S19
JO - Regulatory Toxicology and Pharmacology
JF - Regulatory Toxicology and Pharmacology
IS - 3 SUPPL.
ER -