3kym: Difference between revisions

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-{{Seed}}
-[[Image:3kym.png|left|200px]]
-<!--
+==Crystal structure of Li33 IgG2 di-Fab==
-The line below this paragraph, containing "STRUCTURE_3kym", creates the "Structure Box" on the page.
+<StructureSection load='3kym' size='340' side='right'caption='[[3kym]], [[Resolution|resolution]] 2.62&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'>[[3kym]] is a 16 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=3KYM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3KYM 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]] 2.62&#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=3kym FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kym OCA], [https://pdbe.org/3kym PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3kym RCSB], [https://www.ebi.ac.uk/pdbsum/3kym PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3kym ProSAT]</span></td></tr>
-{{STRUCTURE_3kym|  PDB=3kym  |  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/ky/3kym_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=3kym ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Monoclonal antibodies are a favorite drug platform of the biopharmaceutical industry. Currently, over 20 Mabs have been approved and several hundred others are in clinical trials. The anti-LINGO-1 Mab Li33 was selected from a large panel of antibodies by Fab phage display technology based on its extraordinary biological activity in promoting oligodendrocyte differentiation and myelination in vitro and in animal models of remyelination. However the Li33 Fab had poor solubility when converted into a full antibody in an IgG1 framework. A detailed analysis of the biochemical and structural features of the antibody revealed several possible reasons for its propensity to aggregate. Here we successfully applied three molecular approaches (isotype switching, targeted mutagenesis of CDR residues, and glycosylation site insertion mutagenesis) to address the solubility problem. Through these efforts we were able to improve the solubility of the Li33 Mab from 0.3 mg/mL to &gt;50 mg/mL and reduce aggregation to an acceptable level. These strategies can be readily applied to other proteins with solubility issues.
-===Crystal structure of Li33 IgG2 di-Fab===
+Improving the solubility of anti-LINGO-1 monoclonal antibody Li33 by isotype switching and targeted mutagenesis.,Pepinsky RB, Silvian L, Berkowitz SA, Farrington G, Lugovskoy A, Walus L, Eldredge J, Capili A, Mi S, Graff C, Garber E Protein Sci. 2010 Mar 2. PMID:20198683<ref>PMID:20198683</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3kym" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_20198683}}, 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 20198683 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_20198683}}
+__TOC__
+</StructureSection>
-==About this Structure==
-KYM is a 16 chains structure with 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=3KYM OCA].
-==Reference==
-<ref group="xtra">PMID:20198683</ref><references group="xtra"/>
 [[Category: Homo sapiens]]
-[[Category: Pepinsky, R B.]]
+[[Category: Large Structures]]
-[[Category: Silvian, L F.]]
+[[Category: Pepinsky RB]]
-[[Category: Walus, L.]]
+[[Category: Silvian LF]]
-[[Category: Igg2 monoclonal anti-lingo]]
+[[Category: Walus L]]
-[[Category: Immune system]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu May 20 09:04:18 2010''