2c7u: Difference between revisions

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-[[Image:2c7u.gif|left|200px]]
-<!--
-The line below this paragraph, containing "STRUCTURE_2c7u", creates the "Structure Box" on the page.
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
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-{{STRUCTURE_2c7u|  PDB=2c7u  |  SCENE=  }}
-'''CONFLICTING SELECTIVE FORCES AFFECT CD8 T-CELL RECEPTOR CONTACT SITES IN AN HLA-A2 IMMUNODOMINANT HIV EPITOPE.'''
+==Conflicting selective forces affect CD8 T-cell receptor contact sites in an HLA-A2 immunodominant HIV epitope.==
+<StructureSection load='2c7u' size='340' side='right'caption='[[2c7u]], [[Resolution|resolution]] 2.38&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2c7u]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Human_immunodeficiency_virus_1 Human immunodeficiency virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2C7U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2C7U 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]] 2.38&#8491;</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=2c7u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2c7u OCA], [https://pdbe.org/2c7u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2c7u RCSB], [https://www.ebi.ac.uk/pdbsum/2c7u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2c7u ProSAT]</span></td></tr>
+</table>
+== 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/c7/2c7u_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=2c7u ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Cytotoxic T lymphocytes (CTLs) are critical for the control of human immunodeficiency virus, but containment of virus replication can be undermined by mutations in CTL epitopes that lead to virus escape. We analyzed the evolution in vivo of an immunodominant, HLA-A2-restricted CTL epitope and found two principal, diametrically opposed evolutionary pathways that exclusively affect T cell-receptor contact residues. One pathway was characterized by acquisition of CTL escape mutations and the other by selection for wild-type amino acids. The pattern of CTL responses to epitope variants shaped which variant(s) prevailed in the virus population. The pathways notably influenced the amount of plasma virus, as patients with efficient CTL selection had lower plasma viral loads than did patients without efficient selection. Thus, viral escape from CTL responses does not necessarily correlate with disease progression.
-==Overview==
+Conflicting selective forces affect T cell receptor contacts in an immunodominant human immunodeficiency virus epitope.,Iversen AK, Stewart-Jones G, Learn GH, Christie N, Sylvester-Hviid C, Armitage AE, Kaul R, Beattie T, Lee JK, Li Y, Chotiyarnwong P, Dong T, Xu X, Luscher MA, MacDonald K, Ullum H, Klarlund-Pedersen B, Skinhoj P, Fugger L, Buus S, Mullins JI, Jones EY, van der Merwe PA, McMichael AJ Nat Immunol. 2006 Feb;7(2):179-89. Epub 2006 Jan 1. PMID:16388312<ref>PMID:16388312</ref>
-Cytotoxic T lymphocytes (CTLs) are critical for the control of human immunodeficiency virus, but containment of virus replication can be undermined by mutations in CTL epitopes that lead to virus escape. We analyzed the evolution in vivo of an immunodominant, HLA-A2-restricted CTL epitope and found two principal, diametrically opposed evolutionary pathways that exclusively affect T cell-receptor contact residues. One pathway was characterized by acquisition of CTL escape mutations and the other by selection for wild-type amino acids. The pattern of CTL responses to epitope variants shaped which variant(s) prevailed in the virus population. The pathways notably influenced the amount of plasma virus, as patients with efficient CTL selection had lower plasma viral loads than did patients without efficient selection. Thus, viral escape from CTL responses does not necessarily correlate with disease progression.
-==About this Structure==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-C7U is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2C7U OCA].
+</div>
+<div class="pdbe-citations 2c7u" style="background-color:#fffaf0;"></div>
-==Reference==
+==See Also==
-Conflicting selective forces affect T cell receptor contacts in an immunodominant human immunodeficiency virus epitope., Iversen AK, Stewart-Jones G, Learn GH, Christie N, Sylvester-Hviid C, Armitage AE, Kaul R, Beattie T, Lee JK, Li Y, Chotiyarnwong P, Dong T, Xu X, Luscher MA, MacDonald K, Ullum H, Klarlund-Pedersen B, Skinhoj P, Fugger L, Buus S, Mullins JI, Jones EY, van der Merwe PA, McMichael AJ, Nat Immunol. 2006 Feb;7(2):179-89. Epub 2006 Jan 1. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16388312 16388312]
+*[[Beta-2 microglobulin 3D structures|Beta-2 microglobulin 3D structures]]
+*[[MHC 3D structures|MHC 3D structures]]
+*[[MHC I 3D structures|MHC I 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Homo sapiens]]
-[[Category: Protein complex]]
+[[Category: Human immunodeficiency virus 1]]
-[[Category: Armitage, A E.]]
+[[Category: Large Structures]]
-[[Category: Beattie, T.]]
+[[Category: Armitage AE]]
-[[Category: Buus, S.]]
+[[Category: Beattie T]]
-[[Category: Chotiyarnwong, P.]]
+[[Category: Buus S]]
-[[Category: Christie, N.]]
+[[Category: Chotiyarnwong P]]
-[[Category: Dong, T.]]
+[[Category: Christie N]]
-[[Category: Fugger, J L.]]
+[[Category: Dong T]]
-[[Category: Iversen, A K.]]
+[[Category: Fugger JL]]
-[[Category: Jones, E Y.]]
+[[Category: Iversen AK]]
-[[Category: Kaul, R.]]
+[[Category: Jones EY]]
-[[Category: Klarlund-Pedersen, B.]]
+[[Category: Kaul R]]
-[[Category: Learn, G H.]]
+[[Category: Klarlund-Pedersen B]]
-[[Category: Lee, J K.]]
+[[Category: Learn GH]]
-[[Category: Li, Y.]]
+[[Category: Lee JK]]
-[[Category: Luscher, M A.]]
+[[Category: Li Y]]
-[[Category: Macdonald, K.]]
+[[Category: Luscher MA]]
-[[Category: Mcmichael, A J.]]
+[[Category: MacDonald K]]
-[[Category: Merwe, P A.Van Der.]]
+[[Category: McMichael AJ]]
-[[Category: Mullins, J I.]]
+[[Category: Mullins JI]]
-[[Category: Skinhoj, P.]]
+[[Category: Skinhoj P]]
-[[Category: Stewart-Jones, G.]]
+[[Category: Stewart-Jones G]]
-[[Category: Sylvester-Hviid, C.]]
+[[Category: Sylvester-Hviid C]]
-[[Category: Ullum, H.]]
+[[Category: Ullum H]]
-[[Category: Xu, X.]]
+[[Category: Xu X]]
-[[Category: Aid]]
+[[Category: Van der Merwe PA]]
-[[Category: Glycoprotein]]
-[[Category: Glycoprotein/peptide complex]]
-[[Category: Hiv]]
-[[Category: Hla-a2]]
-[[Category: Immune response]]
-[[Category: Immunoglobulin domain]]
-[[Category: Mhc]]
-[[Category: Mhc i]]
-[[Category: Polymorphism]]
-[[Category: Pyrrolidone carboxylic acid]]
-[[Category: Tcr]]
-[[Category: Transmembrane]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 21:24:05 2008''