1q9o: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-[[Image:1q9o.png|left|200px]]
-{{STRUCTURE_1q9o|  PDB=1q9o  |  SCENE=  }}
+==S45-18 Fab Unliganded==
+<StructureSection load='1q9o' size='340' side='right'caption='[[1q9o]], [[Resolution|resolution]] 1.79&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1q9o]] is a 4 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=1Q9O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Q9O 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]] 1.79&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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=1q9o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q9o OCA], [https://pdbe.org/1q9o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1q9o RCSB], [https://www.ebi.ac.uk/pdbsum/1q9o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1q9o ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/I6L985_MOUSE I6L985_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/q9/1q9o_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=1q9o ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+High-resolution structures reveal how a germline antibody can recognize a range of clinically relevant carbohydrate epitopes. The germline response to a carbohydrate immunogen can be critical to survivability, with selection for antibody gene segments that both confer protection against common pathogens and retain the flexibility to adapt to new disease organisms. We show here that antibody S25-2 binds several distinct inner-core epitopes of bacterial lipopolysaccharides (LPSs) by linking an inherited monosaccharide residue binding site with a subset of complementarity-determining regions (CDRs) of limited flexibility positioned to recognize the remainder of an array of different epitopes. This strategy allows germline antibodies to adapt to different epitopes while minimizing entropic penalties associated with the immobilization of labile CDRs upon binding of antigen, and provides insight into the link between the genetic origin of individual CDRs and their respective roles in antigen recognition.
-===S45-18 Fab Unliganded===
+Germline antibody recognition of distinct carbohydrate epitopes.,Nguyen HP, Seto NO, MacKenzie CR, Brade L, Kosma P, Brade H, Evans SV Nat Struct Biol. 2003 Dec;10(12):1019-25. Epub 2003 Nov 16. PMID:14625588<ref>PMID:14625588</ref>
-{{ABSTRACT_PUBMED_14625588}}
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
-==About this Structure==
+<div class="pdbe-citations 1q9o" style="background-color:#fffaf0;"></div>
-[[1q9o]] is a 4 chain structure with sequence 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=1Q9O OCA].
 ==See Also==
-*[[Antibody|Antibody]]
+*[[Antibody 3D structures|Antibody 3D structures]]
+*[[Sandbox 20009|Sandbox 20009]]
-==Reference==
+*[[3D structures of non-human antibody|3D structures of non-human antibody]]
-<ref group="xtra">PMID:014625588</ref><references group="xtra"/>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Mus musculus]]
-[[Category: Brade, H.]]
+[[Category: Brade H]]
-[[Category: Brade, L.]]
+[[Category: Brade L]]
-[[Category: Evans, S V.]]
+[[Category: Evans SV]]
-[[Category: Kosma, P.]]
+[[Category: Kosma P]]
-[[Category: MacKenzie, C R.]]
+[[Category: MacKenzie CR]]
-[[Category: Nguyen, H P.]]
+[[Category: Nguyen HP]]
-[[Category: Seto, N O.]]
+[[Category: Seto NO]]
-[[Category: Anti-carbohydrate]]
-[[Category: Anti-lp]]
-[[Category: Antibody]]
-[[Category: Antigen-binding fragment]]
-[[Category: Fab]]
-[[Category: Immune system]]
-[[Category: Immunoglobulin]]