5a2l: Difference between revisions
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==Crystal structure of scFv-SM3 in complex with APD-CGalNAc-RP== | ==Crystal structure of scFv-SM3 in complex with APD-CGalNAc-RP== | ||
<StructureSection load='5a2l' size='340' side='right' caption='[[5a2l]], [[Resolution|resolution]] 1.79Å' scene=''> | <StructureSection load='5a2l' size='340' side='right'caption='[[5a2l]], [[Resolution|resolution]] 1.79Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[5a2l]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A2L OCA]. For a <b>guided tour on the structure components</b> use [ | <table><tr><td colspan='2'>[[5a2l]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A2L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5A2L FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene> | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.79Å</td></tr> | ||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr> | |||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5a2l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5a2l OCA], [https://pdbe.org/5a2l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5a2l RCSB], [https://www.ebi.ac.uk/pdbsum/5a2l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5a2l ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/HVM32_MOUSE HVM32_MOUSE] [https://www.uniprot.org/uniprot/LV1E_MOUSE LV1E_MOUSE] | |||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
| Line 15: | Line 18: | ||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
</div> | </div> | ||
<div class="pdbe-citations 5a2l" style="background-color:#fffaf0;"></div> | |||
==See Also== | |||
*[[Antibody 3D structures|Antibody 3D structures]] | |||
*[[Monoclonal Antibodies 3D structures|Monoclonal Antibodies 3D structures]] | |||
*[[3D structures of non-human antibody|3D structures of non-human antibody]] | |||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Asensio | [[Category: Homo sapiens]] | ||
[[Category: Avenoza | [[Category: Large Structures]] | ||
[[Category: Bernardes | [[Category: Mus musculus]] | ||
[[Category: Busto | [[Category: Asensio JL]] | ||
[[Category: Castro-Lopez | [[Category: Avenoza A]] | ||
[[Category: Companon | [[Category: Bernardes GJL]] | ||
[[Category: Corzana | [[Category: Busto JH]] | ||
[[Category: Hurtado-Guerrero | [[Category: Castro-Lopez J]] | ||
[[Category: Jimenez-Barbero | [[Category: Companon I]] | ||
[[Category: Madariaga | [[Category: Corzana F]] | ||
[[Category: Martinez-Saez | [[Category: Hurtado-Guerrero R]] | ||
[[Category: Peregrina | [[Category: Jimenez-Barbero J]] | ||
[[Category: Salvado | [[Category: Madariaga D]] | ||
[[Category: Somovilla | [[Category: Martinez-Saez N]] | ||
[[Category: Valero-Gonzalez | [[Category: Peregrina JM]] | ||
[[Category: Salvado M]] | |||
[[Category: Somovilla VJ]] | |||
[[Category: Valero-Gonzalez J]] | |||
Latest revision as of 14:03, 10 January 2024
Crystal structure of scFv-SM3 in complex with APD-CGalNAc-RPCrystal structure of scFv-SM3 in complex with APD-CGalNAc-RP
Structural highlights
FunctionPublication Abstract from PubMedThe structural features of MUC1-like glycopeptides bearing the Tn antigen (alpha-O-GalNAc-Ser/Thr) in complex with an anti MUC-1 antibody are reported at atomic resolution. For the alpha-O-GalNAc-Ser derivative, the glycosidic linkage adopts a high-energy conformation, barely populated in the free state. This unusual structure (also observed in an alpha-S-GalNAc-Cys mimic) is stabilized by hydrogen bonds between the peptidic fragment and the sugar. The selection of a particular peptide structure by the antibody is thus propagated to the carbohydrate through carbohydrate/peptide contacts, which force a change in the orientation of the sugar moiety. This seems to be unfeasible in the alpha-O-GalNAc-Thr glycopeptide owing to the more limited flexibility of the side chain imposed by the methyl group. Our data demonstrate the non-equivalence of Ser and Thr O-glycosylation points in molecular recognition processes. These features provide insight into the occurrence in nature of the APDTRP epitope for anti-MUC1 antibodies. Deciphering the Non-Equivalence of Serine and Threonine O-Glycosylation Points: Implications for Molecular Recognition of the Tn Antigen by an anti-MUC1 Antibody.,Martinez-Saez N, Castro-Lopez J, Valero-Gonzalez J, Madariaga D, Companon I, Somovilla VJ, Salvado M, Asensio JL, Jimenez-Barbero J, Avenoza A, Busto JH, Bernardes GJ, Peregrina JM, Hurtado-Guerrero R, Corzana F Angew Chem Int Ed Engl. 2015 Jun 26. doi: 10.1002/anie.201502813. PMID:26118689[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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