3hi5: Difference between revisions

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-{{Seed}}
-[[Image:3hi5.png|left|200px]]
-<!--
+==Crystal structure of Fab fragment of AL-57==
-The line below this paragraph, containing "STRUCTURE_3hi5", creates the "Structure Box" on the page.
+<StructureSection load='3hi5' size='340' side='right'caption='[[3hi5]], [[Resolution|resolution]] 2.50&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'>[[3hi5]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HI5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HI5 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]] 2.5&#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=3hi5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hi5 OCA], [https://pdbe.org/3hi5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hi5 RCSB], [https://www.ebi.ac.uk/pdbsum/3hi5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hi5 ProSAT]</span></td></tr>
-{{STRUCTURE_3hi5|  PDB=3hi5  |  SCENE=  }}
+</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/hi/3hi5_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=3hi5 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The activity of integrin LFA-1 (alpha(L)beta(2)) to its ligand ICAM-1 is regulated through the conformational changes of its ligand-binding domain, the I domain of alpha(L) chain, from an inactive, low-affinity closed form (LA), to an intermediate-affinity form (IA), and then finally, to a high-affinity open form (HA). A ligand-mimetic human monoclonal antibody AL-57 (activated LFA-1 clone 57) was identified by phage display to specifically recognize the affinity-upregulated I domain. Here, we describe the crystal structures of the Fab fragment of AL-57 in complex with IA, as well as in its unligated form. We discuss the structural features conferring AL-57's strong selectivity for the high affinity, open conformation of the I domain. The AL-57-binding site overlaps the ICAM-1 binding site on the I domain. Furthermore, an antibody Asp mimics an ICAM Glu by forming a coordination to the metal-ion dependent adhesion site (MIDAS). The structure also reveals better shape complementarity and a more hydrophobic interacting interface in AL-57 binding than in ICAM-1 binding. The results explain AL-57's antagonistic mimicry of LFA-1's natural ligands, the ICAM molecules.
-===Crystal structure of Fab fragment of AL-57===
+Structural basis of activation-dependent binding of ligand-mimetic antibody AL-57 to integrin LFA-1.,Zhang H, Liu JH, Yang W, Springer T, Shimaoka M, Wang JH Proc Natl Acad Sci U S A. 2009 Oct 27;106(43):18345-50. Epub 2009 Sep 23. PMID:19805116<ref>PMID:19805116</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3hi5" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_19805116}}, adds the Publication Abstract to the page
+*[[Antibody 3D structures|Antibody 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 19805116 is the PubMed ID number.
+*[[Sandbox 20009|Sandbox 20009]]
--->
+*[[3D structures of human antibody|3D structures of human antibody]]
-{{ABSTRACT_PUBMED_19805116}}
+== References ==
+<references/>
-==About this Structure==
+__TOC__
-HI5 is a 2 chains 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=3HI5 OCA].
+</StructureSection>
-==Reference==
-<ref group="xtra">PMID:19805116</ref><references group="xtra"/>
 [[Category: Homo sapiens]]
-[[Category: Wang, J.]]
+[[Category: Large Structures]]
-[[Category: Zhang, H.]]
+[[Category: Wang J]]
-[[Category: Cell adhesion]]
+[[Category: Zhang H]]
-[[Category: Fab fragment]]
-[[Category: I domain]]
-[[Category: Immune system]]
-[[Category: Integrin]]
-[[Category: Ligand mimetic]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 11 22:54:58 2009''