ArticleMolecular immunology2008
Comprehensive 3D-modeling of allergenic proteins and amino acid composition of potential conformational IgE epitopes.
Article in Molecular immunology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
32 citing papers in PubMed, 73 citations in OpenAlex.
- Toward Consensus Epitopes B and T of Tropomyosin Involved in Cross-Reactivity across Diverse Allergens: An In Silico Study.Biomedicines · 2024Article
- The updated Structural Database of Allergenic Proteins (SDAP 2.0) provides 3D models for allergens and incorporated bioinformatics tools.The journal of allergy and clinical immunology. Global · 2023Article
- Still SDAPing Along: 20 Years of the Structural Database of Allergenic Proteins.Frontiers in allergy · 2022Article
- The COMPARE Database: A Public Resource for Allergen Identification, Adapted for Continuous Improvement.Frontiers in allergy · 2021Article
- Hydrogen/deuterium exchange memory NMR reveals structural epitopes involved in IgE cross-reactivity of allergenic lipid transfer proteins.The Journal of biological chemistry · 2020Article
- Identification B and T-Cell epitopes and functional exposed amino acids of S protein as a potential vaccine candidate against SARS-CoV-2/COVID-19.Microbial pathogenesis · 2020Article
- IgE Epitope Profiling for Allergy Diagnosis and Therapy - Parallel Analysis of a Multitude of Potential Linear Epitopes Using a High Throughput Screening Platform.Frontiers in immunology · 2020Article
- Homology modeling and epitope prediction of Der f 33.Brazilian journal of medical and biological research = Revista brasileira de pesquisas medicas e biologica · 2018Article
- Cross-React: a new structural bioinformatics method for predicting allergen cross-reactivity.Bioinformatics (Oxford, England) · 2017Article
- Conformational IgE epitopes of peanut allergens Ara h 2 and Ara h 6.Clinical and experimental allergy : journal of the British Society for Allergy and Clinical Immunology · 2016Article
- Article
- In Silico Prediction of T and B Cell Epitopes of Der f 25 in Dermatophagoides farinae.International journal of genomics · 2014Article
- Structural functionality, catalytic mechanism modeling and molecular allergenicity of phenylcoumaran benzylic ether reductase, an olive pollen (Ole e 12) allergen.Journal of computer-aided molecular design · 2013Article
- Assessment of 3D models for allergen research.Proteins · 2013Article
- Base of the measles virus fusion trimer head receives the signal that triggers membrane fusion.The Journal of biological chemistry · 2012Article
- Simplifying complex sequence information: a PCP-consensus protein binds antibodies against all four Dengue serotypes.Vaccine · 2012Article
- Effects of autoclaving and high pressure on allergenicity of hazelnut proteins.Journal of clinical bioinformatics · 2012Article
- Engineering proteins with enhanced mechanical stability by force-specific sequence motifs.Proteins · 2012Article
- Physicochemical property consensus sequences for functional analysis, design of multivalent antigens and targeted antivirals.BMC bioinformatics · 2012Article
- Article
Corrections and comments
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Authors and funding
7 authors at 3 institutions in 2 countries.
Funding
Abstract
Similarities in sequences and 3D structures of allergenic proteins provide vital clues to identify clinically relevant immunoglobulin E (IgE) cross-reactivities. However, experimental 3D structures are available in the Protein Data Bank for only 5% (45/829) of all allergens catalogued in the Structural Database of Allergenic Proteins (SDAP, http://fermi.utmb.edu/SDAP). Here, an automated procedure was used to prepare 3D-models of all allergens where there was no experimentally determined 3D structure or high identity (95%) to another protein of known 3D structure. After a final selection by quality criteria, 433 reliable 3D models were retained and are available from our SDAP Website. The new 3D models extensively enhance our knowledge of allergen structures. As an example of their use, experimentally derived "continuous IgE epitopes" were mapped on 3 experimentally determined structures and 13 of our 3D-models of allergenic proteins. Large portions of these continuous sequences are not entirely on the surface and therefore cannot interact with IgE or other proteins. Only the surface exposed residues are constituents of "conformational IgE epitopes" which are not in all cases continuous in sequence. The surface exposed parts of the experimental determined continuous IgE epitopes showed a distinct statistical distribution as compared to their presence in typical protein-protein interfaces. The amino acids Ala, Ser, Asn, Gly and particularly Lys have a high propensity to occur in IgE binding sites. The 3D-models will facilitate further analysis of the common properties of IgE binding sites of allergenic proteins.
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