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| | ==Vaccinia virus D8L IMV envelope protein in complex with Fab of murine IgG2a LA5== | | ==Vaccinia virus D8L IMV envelope protein in complex with Fab of murine IgG2a LA5== |
| - | <StructureSection load='4etq' size='340' side='right' caption='[[4etq]], [[Resolution|resolution]] 2.10Å' scene=''> | + | <StructureSection load='4etq' size='340' side='right'caption='[[4etq]], [[Resolution|resolution]] 2.10Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[4etq]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus] and [http://en.wikipedia.org/wiki/Vaccinia_virus Vaccinia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ETQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ETQ FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[4etq]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus] and [https://en.wikipedia.org/wiki/Vaccinia_virus Vaccinia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ETQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ETQ FirstGlance]. <br> |
| - | </td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene><br> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1Å</td></tr> |
| - | <tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4ebq|4ebq]], [[4e9o|4e9o]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene></td></tr> |
| - | <tr><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">IgG2a, IGHV1S127*01 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus]), IgG2a, IGKV4-55*01 germ line ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus]), D8L, VACAC2_124, VACCL3_124, VAC_DPP17_124 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10245 Vaccinia virus])</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=4etq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4etq OCA], [https://pdbe.org/4etq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4etq RCSB], [https://www.ebi.ac.uk/pdbsum/4etq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4etq ProSAT]</span></td></tr> |
| - | <tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4etq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4etq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4etq RCSB], [http://www.ebi.ac.uk/pdbsum/4etq PDBsum]</span></td></tr>
| + | </table> |
| - | <table> | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/Q1M1K6_9POXV Q1M1K6_9POXV] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | 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 4etq" style="background-color:#fffaf0;"></div> |
| | | | |
| | ==See Also== | | ==See Also== |
| - | *[[Monoclonal Antibody|Monoclonal Antibody]] | + | *[[Monoclonal Antibodies 3D structures|Monoclonal Antibodies 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| | + | [[Category: Large Structures]] |
| | [[Category: Mus musculus]] | | [[Category: Mus musculus]] |
| | [[Category: Vaccinia virus]] | | [[Category: Vaccinia virus]] |
| - | [[Category: Matho, M H.]] | + | [[Category: Matho MH]] |
| - | [[Category: Zajonc, D M.]] | + | [[Category: Zajonc DM]] |
| - | [[Category: Beta sheet]]
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| - | [[Category: Carbonic anhydrase fold]]
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| - | [[Category: Cdr]]
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| - | [[Category: Chondroitin-sulfate binding site]]
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| - | [[Category: Constant domain]]
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| - | [[Category: Delta 262]]
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| - | [[Category: Hypervariable region]]
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| - | [[Category: Igg domain]]
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| - | [[Category: Igg2a]]
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| - | [[Category: Immune system-viral protein complex]]
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| - | [[Category: Loose knot]]
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| - | [[Category: Neutralizing antibody]]
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| - | [[Category: Variable domain]]
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| Structural highlights
Function
Q1M1K6_9POXV
Publication Abstract from PubMed
Smallpox vaccine is considered a gold standard of vaccines, as it is the only one that has led to the complete eradication of an infectious disease from the human population. B cell responses are critical for the protective immunity induced by the vaccine, yet their targeted epitopes recognized in humans remain poorly described. Here we describe the biochemical and structural characterization of one of the immunodominant vaccinia virus (VACV) antigens D8 and its binding to the monoclonal antibody LA5, which is capable of neutralizing VACV in the presence of complement. Full length D8 ectodomain was found to form a tetramer. We determined the crystal structure of the LA5 Fab - monomeric D8 complex at a resolution of 2.1 A, as well as the unliganded structures of D8 and LA5-Fab at resolutions of 1.42 A and 1.6 A, respectively. D8 features a carbonic anhydrase (CAH) fold that has evolved to bind to the glycosaminoglycan (GAG) chondroitin sulfate (CS) on host cells. The central positively charged crevice of D8 was predicted as the CS binding site by automated docking experiments. Furthermore, sequence alignment of various poxvirus D8 orthologs revealed that this crevice is structurally conserved. The D8 epitope is formed by 23 discontinuous residues that are spread across 80% of the D8 protein sequence. Interestingly, LA5 binds with a high affinity lock-and-key mechanism above this crevice with an unusually large antibody - antigen interface, burying 2434 A(2) of protein surface.
Structural and biochemical characterization of the vaccinia virus envelope protein D8 and its recognition by the antibody LA5.,Matho MH, Maybeno M, Benhnia MR, Becker D, Meng X, Xiang Y, Crotty S, Peters B, Zajonc DM J Virol. 2012 May 23. PMID:22623786[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Matho MH, Maybeno M, Benhnia MR, Becker D, Meng X, Xiang Y, Crotty S, Peters B, Zajonc DM. Structural and biochemical characterization of the vaccinia virus envelope protein D8 and its recognition by the antibody LA5. J Virol. 2012 May 23. PMID:22623786 doi:10.1128/JVI.00836-12
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