3tvm: Difference between revisions

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<StructureSection load='3tvm' size='340' side='right'caption='[[3tvm]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
<StructureSection load='3tvm' size='340' side='right'caption='[[3tvm]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3tvm]] is a 8 chain structure with sequence from [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=3TVM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3TVM FirstGlance]. <br>
<table><tr><td colspan='2'>[[3tvm]] is a 8 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=3TVM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3TVM FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=07P:N-[(2S,3R)-10-[(1R,2R)-2-DECYLCYCLOPROPYL]-1-(ALPHA-D-GALACTOPYRANOSYLOXY)-3-HYDROXYDECAN-2-YL]HEXACOSANAMIDE'>07P</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</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]] 2.8&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3rzc|3rzc]], [[3t1f|3t1f]], [[3ta3|3ta3]]</div></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=07P:N-[(2S,3R)-10-[(1R,2R)-2-DECYLCYCLOPROPYL]-1-(ALPHA-D-GALACTOPYRANOSYLOXY)-3-HYDROXYDECAN-2-YL]HEXACOSANAMIDE'>07P</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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">Cd1.1, CD1d, Cd1d1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), beta-2-microglobulin ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), Valpha14 (mouse variable domain, human constant domain) ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), Vbeta8.2 (mouse variable domain, human constant domain) ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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=3tvm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tvm OCA], [https://pdbe.org/3tvm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3tvm RCSB], [https://www.ebi.ac.uk/pdbsum/3tvm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3tvm 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=3tvm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tvm OCA], [https://pdbe.org/3tvm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3tvm RCSB], [https://www.ebi.ac.uk/pdbsum/3tvm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3tvm 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 (NKT) cells recognize glycolipids presented by CD1d. The first antigen described, alpha-galactosyl ceramide (alphaGalCer), is a potential anticancer agent whose activity depends upon IFN-gamma secretion. We report two analogs of alphaGalCer based on a naturally occurring glycosphingolipid, plakoside A. These compounds induce enhanced IFN-gamma that correlates with detergent-resistant binding to CD1d and an increased stability of the lipid-CD1d complexes on antigen-presenting cells. Structural analysis on one of the analogs indicates that it is more deeply bound inside the CD1d groove, suggesting tighter lipid-CD1d interactions. To our knowledge, this is the first example in which structural information provides an explanation for the increased lipid-CD1d stability, likely responsible for the Th1 bias. We provide insights into the mechanism of IFN-gamma-inducing compounds, and because our compounds activate human NKT cells, they could have therapeutic utility.
 
Glycolipids that Elicit IFN-gamma-Biased Responses from Natural Killer T Cells.,Tyznik AJ, Farber E, Girardi E, Birkholz A, Li Y, Chitale S, So R, Arora P, Khurana A, Wang J, Porcelli SA, Zajonc DM, Kronenberg M, Howell AR Chem Biol. 2011 Dec 23;18(12):1620-30. PMID:22195564<ref>PMID:22195564</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3tvm" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Homo sapiens]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Lk3 transgenic mice]]
[[Category: Mus musculus]]
[[Category: Girardi, E]]
[[Category: Girardi E]]
[[Category: Li, Y]]
[[Category: Li Y]]
[[Category: Zajonc, D M]]
[[Category: Zajonc DM]]
[[Category: Antigen presentation]]
[[Category: Glycolipid]]
[[Category: Immune system]]
[[Category: Nkt cell]]
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