2wy3: Difference between revisions

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-{{STRUCTURE_2wy3|  PDB=2wy3  |  SCENE=  }}
-===STRUCTURE OF THE HCMV UL16-MICB COMPLEX ELUCIDATES SELECT BINDING OF A VIRAL IMMUNOEVASIN TO DIVERSE NKG2D LIGANDS===
-{{ABSTRACT_PUBMED_20090832}}
-==Function==
+==Structure of the HCMV UL16-MICB complex elucidates select binding of a viral immunoevasin to diverse NKG2D ligands==
-[[http://www.uniprot.org/uniprot/UL16P_HCMVA UL16P_HCMVA]] Plays a role in escape from host immune response. Blocks the interaction between the host NKG2D receptor with the ligands ULBP1 and ULBP2. ULBPs activate multiple signaling pathways in primary NK cells, resulting in the production of cytokines and chemokines. The sequestration of diverse NKG2D ligands in the endoplasmic reticulum and cis-Golgi apparatus of cells by UL16 inhibits the activation of NK cells.<ref>PMID:12847260</ref><ref>PMID:12782710</ref>
+<StructureSection load='2wy3' size='340' side='right'caption='[[2wy3]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2wy3]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Human_herpesvirus_5_strain_AD169 Human herpesvirus 5 strain AD169]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WY3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2WY3 FirstGlance]. <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]] 1.8&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PEU:2,5,8,11,14,17,20,23,26,29,32,35,38,41,44,47,50,53,56,59,62,65,68,71,74,77,80-HEPTACOSAOXADOOCTACONTAN-82-OL'>PEU</scene></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=2wy3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wy3 OCA], [https://pdbe.org/2wy3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2wy3 RCSB], [https://www.ebi.ac.uk/pdbsum/2wy3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2wy3 ProSAT]</span></td></tr>
+</table>
+== Disease ==
+[https://www.uniprot.org/uniprot/MICB_HUMAN MICB_HUMAN] Genetic variations in MICA are a cause of susceptibility to rheumatoid arthritis (RA) [MIM:[https://omim.org/entry/180300 180300]. It is a systemic inflammatory disease with autoimmune features and a complex genetic component. It primarily affects the joints and is characterized by inflammatory changes in the synovial membranes and articular structures, widespread fibrinoid degeneration of the collagen fibers in mesenchymal tissues, and by atrophy and rarefaction of bony structures. Note=The MICB*004 allele is associated with rheumatoid arthritis.  Note=Genetic variation in MICB is associated with cytomegalovirus and herpes simplex virus I seropositivity and this may be associated with schizophrenia risk.
+== Function ==
+[https://www.uniprot.org/uniprot/MICB_HUMAN MICB_HUMAN] Seems to have no role in antigen presentation. Acts as a stress-induced self-antigen that is recognized by gamma delta T cells. Ligand for the KLRK1/NKG2D receptor. Binding to KLRK1 leads to cell lysis.<ref>PMID:9497295</ref> <ref>PMID:11491531</ref>
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/wy/2wy3_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2wy3 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The activating immunoreceptor NKG2D promotes elimination of infected or malignant cells by cytotoxic lymphocytes through engagement of stress-induced MHC class I-related ligands. The human cytomegalovirus (HCMV)-encoded immunoevasin UL16 subverts NKG2D-mediated immune responses by retaining a select group of diverse NKG2D ligands inside the cell. We report here the crystal structure of UL16 in complex with the NKG2D ligand MICB at 1.8 A resolution, revealing the molecular basis for the promiscuous, but highly selective, binding of UL16 to unrelated NKG2D ligands. The immunoglobulin-like UL16 protein utilizes a three-stranded beta-sheet to engage the alpha-helical surface of the MHC class I-like MICB platform domain. Intriguingly, residues at the center of this beta-sheet mimic a central binding motif employed by the structurally unrelated C-type lectin-like NKG2D to facilitate engagement of diverse NKG2D ligands. Using surface plasmon resonance, we find that UL16 binds MICB, ULBP1, and ULBP2 with similar affinities that lie in the nanomolar range (12-66 nM). The ability of UL16 to bind its ligands depends critically on the presence of a glutamine (MICB) or closely related glutamate (ULBP1 and ULBP2) at position 169. An arginine residue at this position however, as found for example in MICA or ULBP3, would cause steric clashes with UL16 residues. The inability of UL16 to bind MICA and ULBP3 can therefore be attributed to single substitutions at key NKG2D ligand locations. This indicates that selective pressure exerted by viral immunoevasins such as UL16 contributed to the diversification of NKG2D ligands.
-==About this Structure==
+Structure of the HCMV UL16-MICB complex elucidates select binding of a viral immunoevasin to diverse NKG2D ligands.,Muller S, Zocher G, Steinle A, Stehle T PLoS Pathog. 2010 Jan 15;6(1):e1000723. PMID:20090832<ref>PMID:20090832</ref>
-[[2wy3]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [http://en.wikipedia.org/wiki/Human_herpesvirus_5_strain_ad169 Human herpesvirus 5 strain ad169]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WY3 OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<ref group="xtra">PMID:020090832</ref><references group="xtra"/><references/>
+</div>
+<div class="pdbe-citations 2wy3" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Homo sapiens]]
-[[Category: Human herpesvirus 5 strain ad169]]
+[[Category: Human herpesvirus 5 strain AD169]]
-[[Category: Mueller, S.]]
+[[Category: Large Structures]]
-[[Category: Stehle, T.]]
+[[Category: Mueller S]]
-[[Category: Steinle, A.]]
+[[Category: Stehle T]]
-[[Category: Zocher, G.]]
+[[Category: Steinle A]]
-[[Category: Cell membrane]]
+[[Category: Zocher G]]
-[[Category: Convergent evolution]]
-[[Category: Cytolysis]]
-[[Category: Immune response]]
-[[Category: Immune system-viral protein complex]]
-[[Category: Immunoglobulin domain]]
-[[Category: Innate immunity]]
-[[Category: Membrane]]
-[[Category: Natural killer cell]]
-[[Category: Nk cell]]
-[[Category: Nkg2d]]
-[[Category: Structural mimicry]]
-[[Category: Transmembrane]]
-[[Category: Ulbp]]
-[[Category: Viral immune evasion]]