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| | <StructureSection load='3to4' size='340' side='right'caption='[[3to4]], [[Resolution|resolution]] 3.10Å' scene=''> | | <StructureSection load='3to4' size='340' side='right'caption='[[3to4]], [[Resolution|resolution]] 3.10Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3to4]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human] and [https://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TO4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3TO4 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3to4]] is a 4 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=3TO4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3TO4 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AGH:N-{(1S,2R,3S)-1-[(ALPHA-D-GALACTOPYRANOSYLOXY)METHYL]-2,3-DIHYDROXYHEPTADECYL}HEXACOSANAMIDE'>AGH</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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]] 3.1Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3he6|3he6]], [[3he7|3he7]]</div></td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AGH:N-{(1S,2R,3S)-1-[(ALPHA-D-GALACTOPYRANOSYLOXY)METHYL]-2,3-DIHYDROXYHEPTADECYL}HEXACOSANAMIDE'>AGH</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Cd1d1, Cd1.1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), B2m, RP23-34E24.5-001, mCG_11606 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</td></tr>
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| | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3to4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3to4 OCA], [https://pdbe.org/3to4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3to4 RCSB], [https://www.ebi.ac.uk/pdbsum/3to4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3to4 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=3to4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3to4 OCA], [https://pdbe.org/3to4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3to4 RCSB], [https://www.ebi.ac.uk/pdbsum/3to4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3to4 ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[https://www.uniprot.org/uniprot/CD1D1_MOUSE CD1D1_MOUSE]] Antigen-presenting protein that binds self and non-self glycolipids and presents them to T-cell receptors on natural killer T-cells.<ref>PMID:11754812</ref> <ref>PMID:16314439</ref> <ref>PMID:16007091</ref> [[https://www.uniprot.org/uniprot/B2MG_MOUSE B2MG_MOUSE]] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.
| + | [https://www.uniprot.org/uniprot/CD1D1_MOUSE CD1D1_MOUSE] Antigen-presenting protein that binds self and non-self glycolipids and presents them to T-cell receptors on natural killer T-cells.<ref>PMID:11754812</ref> <ref>PMID:16314439</ref> <ref>PMID:16007091</ref> |
| - | <div style="background-color:#fffaf0;">
| + | |
| - | == Publication Abstract from PubMed ==
| + | |
| - | Natural killer T cell antigen receptors (NKT TCRs) recognize lipid-based antigens (Ags) presented by CD1d. Although the TCR alpha-chain is invariant, NKT TCR Vbeta exhibits greater diversity, with one (Vbeta11) and three (Vbeta8, Vbeta7, and Vbeta2) Vbeta chains in humans and mice, respectively. With the exception of the Vbeta2 NKT TCR, NKT TCRs possess canonical tyrosine residues within complementarity determining region (CDR) 2beta that are critical for CD1d binding. Thus, how Vbeta2 NKT TCR docks with CD1d-Ag was unclear. Despite the absence of the CDR2beta-encoded tyrosine residues, we show that the Vbeta2 NKT TCR engaged CD1d-Ag in a similar manner and with a comparable affinity and energetic footprint to the manner observed for the Vbeta8.2 and Vbeta7 NKT TCRs. Accordingly, the germline-encoded regions of the TCR beta-chain do not exclusively dictate the innate NKT TCR-CD1d-Ag docking mode. Nevertheless, clear fine specificity differences for the CD1d-Ag existed between the Vbeta2 NKT TCR and the Vbeta8.2 and Vbeta7 NKT TCRs, with the Vbeta2 NKT TCR exhibiting greater sensitivity to modifications to the glycolipid Ag. Furthermore, within the Vbeta2 NKT TCR-CD1d-alphaGalCer complex, the CDR2beta loop mediated fewer contacts with CD1d, whereas the CDR1beta and CDR3beta loops contacted CD1d to a much greater extent compared with most Vbeta11, Vbeta8.2, and Vbeta7 NKT TCRs. Accordingly, there is a greater interplay between the germline- and nongermline-encoded loops within the TCR beta-chain of the Vbeta2 NKT TCR that enables CD1d-Ag ligation.
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| - | | + | |
| - | Vbeta2 natural killer T cell antigen receptor-mediated recognition of CD1d-glycolipid antigen.,Patel O, Pellicci DG, Uldrich AP, Sullivan LC, Bhati M, McKnight M, Richardson SK, Howell AR, Mallevaey T, Zhang J, Bedel R, Besra GS, Brooks AG, Kjer-Nielsen L, McCluskey J, Porcelli SA, Gapin L, Rossjohn J, Godfrey DI Proc Natl Acad Sci U S A. 2011 Nov 22;108(47):19007-12. Epub 2011 Nov 7. PMID:22065767<ref>PMID:22065767</ref>
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| - | | + | |
| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
| + | |
| - | </div>
| + | |
| - | <div class="pdbe-citations 3to4" style="background-color:#fffaf0;"></div>
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| | | | |
| | ==See Also== | | ==See Also== |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Human]] | + | [[Category: Homo sapiens]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Lk3 transgenic mice]] | + | [[Category: Mus musculus]] |
| - | [[Category: Patel, O]] | + | [[Category: Patel O]] |
| - | [[Category: Rossjohn, J]] | + | [[Category: Rossjohn J]] |
| - | [[Category: Immune system]]
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| - | [[Category: Mouse cd1d]]
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| - | [[Category: Mouse nkt]]
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