1lk2: Difference between revisions

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-[[Image:1lk2.gif|left|200px]]
- {{Structure
+==1.35A crystal structure of H-2Kb complexed with the GNYSFYAL peptide==
-|PDB= 1lk2 |SIZE=350|CAPTION= <scene name='initialview01'>1lk2</scene>, resolution 1.35&Aring;
+<StructureSection load='1lk2' size='340' side='right'caption='[[1lk2]], [[Resolution|resolution]] 1.35&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene> and <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>
+<table><tr><td colspan='2'>[[1lk2]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LK2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LK2 FirstGlance]. <br>
-|ACTIVITY=
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.35&#8491;</td></tr>
-|GENE=
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=1lk2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lk2 OCA], [https://pdbe.org/1lk2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1lk2 RCSB], [https://www.ebi.ac.uk/pdbsum/1lk2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1lk2 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/HA1B_MOUSE HA1B_MOUSE] Involved in the presentation of foreign antigens to the immune system.
+== 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/lk/1lk2_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=1lk2 ConSurf].
+<div style="clear:both"></div>
-'''1.35A crystal structure of H-2Kb complexed with the GNYSFYAL peptide'''
+==See Also==
+*[[Beta-2 microglobulin 3D structures|Beta-2 microglobulin 3D structures]]
+*[[MHC 3D structures|MHC 3D structures]]
-==Overview==
+*[[MHC I 3D structures|MHC I 3D structures]]
-We identify and consider some characteristics of a peptide antagonist for the Ag-specific receptor on 2C cells (the 2C TCR). The peptide, GNYSFYAL (called GNY), binds to H-2K(b), and a very high-resolution crystal structure of the GNY-K(b) complex at 1.35 A is described. Although the GNY peptide does not bind to L(d), the potency of GNY-K(b) as an antagonist is evident from its ability to specifically inhibit 2C TCR-mediated reactions to an allogenic agonist complex (QLSPFPFDL-L(d)), as well as to a syngeneic agonist complex (SIYRYYGL-K(b)). The crystal structure and the activities of alanine-substituted peptide variants point to the properties of the peptide P4 side chain and the conformation of the Tyr-P6 side chain as the structural determinants of GNYSFYAL antagonist activity.
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-LK2 is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LK2 OCA].
-==Reference==
-A peptide that antagonizes TCR-mediated reactions with both syngeneic and allogeneic agonists: functional and structural aspects., Rudolph MG, Shen LQ, Lamontagne SA, Luz JG, Delaney JR, Ge Q, Cho BK, Palliser D, McKinley CA, Chen J, Wilson IA, Eisen HN, J Immunol. 2004 Mar 1;172(5):2994-3002. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/14978103 14978103]
 [[Category: Mus musculus]]
-[[Category: Protein complex]]
+[[Category: Eisen H]]
-[[Category: Eisen, H.]]
+[[Category: Luz JG]]
-[[Category: Luz, J G.]]
+[[Category: Rudolph MG]]
-[[Category: Rudolph, M G.]]
+[[Category: Wilson IA]]
-[[Category: Wilson, I A.]]
-[[Category: MPD]]
-[[Category: MRD]]
-[[Category: NAG]]
-[[Category: PO4]]
-[[Category: anisotropic and tls refinement]]
-[[Category: class i mhc-peptide complex]]
-[[Category: high resolution]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 12:31:45 2008''