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5e1r

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Crystal structure of pecan (carya illinoinensis) vicilin, a new food allergen

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Categories: Carya illinoinensis | Large Structures | Zhang YZ

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 <StructureSection load='5e1r' size='340' side='right'caption='[[5e1r]], [[Resolution|resolution]] 2.65&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5e1r]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Caril Caril]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E1R OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5E1R FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5e1r]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Carya_illinoinensis Carya illinoinensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E1R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5E1R FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.651&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pec2a1a, pec3a1a, pec4a1a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=32201 CARIL])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5e1r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e1r OCA], [http://pdbe.org/5e1r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5e1r RCSB], [http://www.ebi.ac.uk/pdbsum/5e1r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5e1r ProSAT]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5e1r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e1r OCA], [https://pdbe.org/5e1r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5e1r RCSB], [https://www.ebi.ac.uk/pdbsum/5e1r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5e1r ProSAT]</span></td></tr>
 </table>
-<div style="background-color:#fffaf0;">
+== Function ==
-== Publication Abstract from PubMed ==
+[https://www.uniprot.org/uniprot/VCL_CARIL VCL_CARIL] Seed storage protein.<ref>PMID:25084379</ref> <ref>PMID:27128197</ref>
-The 7S vicilin and 11S legumin seed storage globulins belong to the cupin protein superfamily and are major food allergens in many foods from the "big eight" food allergen groups. Here, for the first time, pecan vicilin was found to be a food allergen. Western blot experiments revealed that 30% of 27 sera used in this study and 24% of the sera from 25 patients with double-blind, placebo controlled clinical pecan allergy contained IgE antibodies specific to pecan vicilin. This allergen consists of a low-complexity region at its N-terminal and a structured domain at the C-terminal that contains two cupin motifs and forms homotrimers. The crystal structure of recombinant pecan vicilin was determined. The refined structure gave R/Rfree values of 0.218/0.262 for all data to 2.65 A. There were two trimeric biological units in the crystallographic asymmetric unit. Pecan vicilin is also a copper protein. These data may facilitate the understanding of the nutritional value and the allergenicity relevance of the copper binding property of seed storage proteins in tree nuts.
-Identification and Characterization of a New Pecan [Carya illinoinensis (Wangenh.) K. Koch] Allergen, Car i 2.,Zhang Y, Lee B, Du WX, Lyu SC, Nadeau KC, Grauke LJ, Zhang Y, Wang S, Fan Y, Yi J, McHugh TH J Agric Food Chem. 2016 May 25;64(20):4146-51. doi: 10.1021/acs.jafc.6b00884., Epub 2016 May 10. PMID:27128197<ref>PMID:27128197</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 5e1r" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Caril]]
+[[Category: Carya illinoinensis]]
 [[Category: Large Structures]]
-[[Category: Zhang, Y Z]]
+[[Category: Zhang YZ]]
-[[Category: Allergen]]
-[[Category: Food allergy]]
-[[Category: Vicilin]]

5e1r

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Crystal structure of pecan (carya illinoinensis) vicilin, a new food allergen

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