1it9: Difference between revisions

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-{{Seed}}
-[[Image:1it9.png|left|200px]]
-<!--
+==CRYSTAL STRUCTURE OF AN ANTIGEN-BINDING FRAGMENT FROM A HUMANIZED VERSION OF THE ANTI-HUMAN FAS ANTIBODY HFE7A==
-The line below this paragraph, containing "STRUCTURE_1it9", creates the "Structure Box" on the page.
+<StructureSection load='1it9' size='340' side='right'caption='[[1it9]], [[Resolution|resolution]] 2.80&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'>[[1it9]] is a 2 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=1IT9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IT9 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]] 2.8&#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=1it9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1it9 OCA], [https://pdbe.org/1it9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1it9 RCSB], [https://www.ebi.ac.uk/pdbsum/1it9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1it9 ProSAT]</span></td></tr>
-{{STRUCTURE_1it9|  PDB=1it9  |  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/it/1it9_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=1it9 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Binding of Fas ligand to Fas induces apoptosis. The Fas-Fas ligand system plays important roles in many biological processes, including the elimination of autoreactive lymphoid cells. We have previously obtained the mouse anti-Fas antibody HFE7A (m-HFE7A), which specifically induces apoptosis in inflammatory cells. In order to apply m-HFE7A for human therapy, we performed antibody humanization of m-HFE7A by grafting the mouse complementarity-determining regions (CDRs) to a human antibody. Five versions of humanized HFE7A (h-HFE7A) demonstrated the same antigen-binding affinity and same competition-binding activity against Fas as the chimeric HFE7A. Furthermore, these h-HFE7As induced the same degree of apoptosis in WR19L12a cells that express human Fas on their surface as chimeric HFE7A does. To further probe the structural basis for antibody humanization, we determined the three-dimensional structure of the h-HFE7A antigen-binding fragment (Fab) by X-ray crystallography and compared it with the crystal structure of the parent m-HFE7A Fab previously determined. The main-chain conformation in each h-HFE7A CDR is almost identical to that in m-HFE7A with root mean square (rms) deviations of 0.14-0.77 A. However, a significant segmental shift was observed in the CDR-L1 loop. Together with the high temperature factors of the CDR-L1 residues, both the loops are flexible, suggesting that the CDR-L1 loop would undergo conformational change upon binding to the antigen. Our results indicate that the humanization of m-HFE7A succeeded in maintaining the main-chain conformation as well as the flexibility of the CDR loop.
-===CRYSTAL STRUCTURE OF AN ANTIGEN-BINDING FRAGMENT FROM A HUMANIZED VERSION OF THE ANTI-HUMAN FAS ANTIBODY HFE7A===
+Humanization of the mouse anti-Fas antibody HFE7A and crystal structure of the humanized HFE7A Fab fragment.,Haruyama H, Ito S, Miyadai K, Takahashi T, Kawaida R, Takayama T, Hanzawa H, Hata T, Yamaguchi J, Yoshida-Kato H, Ichikawa K, Ohsumi J, Yonehara S, Serizawa N Biol Pharm Bull. 2002 Dec;25(12):1537-45. PMID:12499636<ref>PMID:12499636</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1it9" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_12499636}}, adds the Publication Abstract to the page
+*[[Monoclonal Antibodies 3D structures|Monoclonal Antibodies 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 12499636 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_12499636}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-IT9 is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Mus_musculus_and_homo_sapiens Mus musculus and homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IT9 OCA].
+[[Category: Mus musculus]]
+[[Category: Hanzawa H]]
-==Reference==
+[[Category: Haruyama H]]
-<ref group="xtra">PMID:12499636</ref><references group="xtra"/>
+[[Category: Hata T]]
-[[Category: Mus musculus and homo sapiens]]
+[[Category: Ito S]]
-[[Category: Hanzawa, H.]]
+[[Category: Miyadai K]]
-[[Category: Haruyama, H.]]
+[[Category: Serizawa N]]
-[[Category: Hata, T.]]
+[[Category: Takahashi T]]
-[[Category: Ito, S.]]
+[[Category: Takayama T]]
-[[Category: Miyadai, K.]]
-[[Category: Serizawa, N.]]
-[[Category: Takahashi, T.]]
-[[Category: Takayama, T.]]
-[[Category: Agonistic_antibody]]
-[[Category: Anti_fa]]
-[[Category: Antibody_humanization]]
-[[Category: Apoptosis]]
-[[Category: Fab]]
-[[Category: Immunoglobulin]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 16:27:20 2009''