2ol3: Difference between revisions

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-{{Seed}}
-[[Image:2ol3.png|left|200px]]
-<!--
+==crystal structure of BM3.3 ScFV TCR in complex with PBM8-H-2KBM8 MHC class I molecule==
-The line below this paragraph, containing "STRUCTURE_2ol3", creates the "Structure Box" on the page.
+<StructureSection load='2ol3' size='340' side='right'caption='[[2ol3]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[2ol3]] is a 5 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=2OL3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OL3 FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.9&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-{{STRUCTURE_2ol3|  PDB=2ol3  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2ol3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ol3 OCA], [https://pdbe.org/2ol3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ol3 RCSB], [https://www.ebi.ac.uk/pdbsum/2ol3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ol3 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q5R1F1_MOUSE Q5R1F1_MOUSE]
+== 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/ol/2ol3_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=2ol3 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Binding degeneracy is thought to constitute a fundamental property of the T-cell antigen receptor (TCR), yet its structural basis is poorly understood. We determined the crystal structure of a complex involving the BM3.3 TCR and a peptide (pBM8) bound to the H-2K(bm8) major histocompatibility complex (MHC) molecule, and compared it with the structures of the BM3.3 TCR bound to H-2K(b) molecules loaded with two peptides that had a minimal level of primary sequence identity with pBM8. Our findings provide a refined structural view of the basis of BM3.3 TCR cross-reactivity and a structural explanation for the long-standing paradox that a TCR antigen-binding site can be both specific and degenerate. We also measured the thermodynamic features and biological penalties that incurred during cross-recognition. Our data illustrate the difficulty for a given TCR in adapting to distinct peptide-MHC surfaces while still maintaining affinities that result in functional in vivo responses. Therefore, when induction of protective effector T cells is used as the ultimate criteria for adaptive immunity, TCRs are probably much less degenerate than initially assumed.
-===crystal structure of BM3.3 ScFV TCR in complex with PBM8-H-2KBM8 MHC class I molecule===
+How much can a T-cell antigen receptor adapt to structurally distinct antigenic peptides?,Mazza C, Auphan-Anezin N, Gregoire C, Guimezanes A, Kellenberger C, Roussel A, Kearney A, van der Merwe PA, Schmitt-Verhulst AM, Malissen B EMBO J. 2007 Apr 4;26(7):1972-83. Epub 2007 Mar 15. PMID:17363906<ref>PMID:17363906</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2ol3" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_17363906}}, adds the Publication Abstract to the page
+*[[Beta-2 microglobulin 3D structures|Beta-2 microglobulin 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 17363906 is the PubMed ID number.
+*[[T-cell receptor 3D structures|T-cell receptor 3D structures]]
--->
+== References ==
-{{ABSTRACT_PUBMED_17363906}}
+<references/>
+__TOC__
-==About this Structure==
+</StructureSection>
-OL3 is a 5 chains 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=2OL3 OCA]. Relevant biological numbers for this protein at [http://bionumbers.hms.harvard.edu/search.aspx?log=y&task=searchbytrmorg&trm=%22mhc+class+I%22&org=%25 B10NUMB3R5]
+[[Category: Large Structures]]
-==Reference==
-<ref group="xtra">PMID:17363906</ref><references group="xtra"/>
 [[Category: Mus musculus]]
-[[Category: Auphan-Anezin, N.]]
+[[Category: Auphan-Anezin N]]
-[[Category: Gregoire, C.]]
+[[Category: Gregoire C]]
-[[Category: Guimezanes, A.]]
+[[Category: Guimezanes A]]
-[[Category: Kearney, A.]]
+[[Category: Kearney A]]
-[[Category: Kellenberger, C.]]
+[[Category: Kellenberger C]]
-[[Category: Malissen, B.]]
+[[Category: Malissen B]]
-[[Category: Mazza, C.]]
+[[Category: Mazza C]]
-[[Category: Merwe, P A.Van der.]]
+[[Category: Roussel A]]
-[[Category: Roussel, A.]]
+[[Category: Schmitt-Verhulst AM]]
-[[Category: Schmitt-Verhulst, A M.]]
+[[Category: Van der Merwe PA]]
-[[Category: Class i mhc]]
-[[Category: H-2kbm8]]
-[[Category: Immune system]]
-[[Category: T cell receptor]]
-[[Category: Tcr-pmhc complex]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon May 25 08:19:32 2009''