1uz6: Difference between revisions

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-[[Image:1uz6.jpg|left|200px]]
- {{Structure
+==anti-Lewis X Fab fragment uncomplexed==
-|PDB= 1uz6 |SIZE=350|CAPTION= <scene name='initialview01'>1uz6</scene>, resolution 2.05&Aring;
+<StructureSection load='1uz6' size='340' side='right'caption='[[1uz6]], [[Resolution|resolution]] 2.05&Aring;' scene=''>
-|SITE= <scene name='pdbsite=AC1:So4+Binding+Site+For+Chain+V'>AC1</scene>
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>
+<table><tr><td colspan='2'>[[1uz6]] is a 8 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=1UZ6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UZ6 FirstGlance]. <br>
-|ACTIVITY=
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.05&#8491;</td></tr>
-|GENE=
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-|DOMAIN=
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1uz6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uz6 OCA], [https://pdbe.org/1uz6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1uz6 RCSB], [https://www.ebi.ac.uk/pdbsum/1uz6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1uz6 ProSAT]</span></td></tr>
-|RELATEDENTRY=
+</table>
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1uz6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uz6 OCA], [http://www.ebi.ac.uk/pdbsum/1uz6 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1uz6 RCSB]</span>
+== 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/uz/1uz6_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=1uz6 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The Lewis X trisaccharide is pivotal in mediating specific cell-cell interactions. Monoclonal antibody 291-2G3-A, which was generated from mice infected with schistosomes, has been shown to recognize the Lewis X trisaccharide. Here we describe the structure of the Fab fragment of 291-2G3-A, with Lewis X, to 1.8 A resolution. The crystallographic analysis revealed that the antigen binding site is a rather shallow binding pocket, and residues from all six complementary determining regions of the antibody contact all sugar residues. The high specificity of the binding pocket does not result in high affinity; the K(D) determined by isothermal calorimetry is 11 microM. However, this affinity is in the same range as for other sugar-antibody complexes. The detailed understanding of the antibody-Lewis X interaction revealed by the crystal structure may be helpful in the design of better diagnostic tools for schistosomiasis and for studying Lewis X-mediated cell-cell interactions by antibody interference.
-'''ANTI-LEWIS X FAB FRAGMENT UNCOMPLEXED'''
+Structure of an anti-Lewis X Fab fragment in complex with its Lewis X antigen.,van Roon AM, Pannu NS, de Vrind JP, van der Marel GA, van Boom JH, Hokke CH, Deelder AM, Abrahams JP Structure. 2004 Jul;12(7):1227-36. PMID:15242599<ref>PMID:15242599</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1uz6" style="background-color:#fffaf0;"></div>
-==Overview==
+==See Also==
-The Lewis X trisaccharide is pivotal in mediating specific cell-cell interactions. Monoclonal antibody 291-2G3-A, which was generated from mice infected with schistosomes, has been shown to recognize the Lewis X trisaccharide. Here we describe the structure of the Fab fragment of 291-2G3-A, with Lewis X, to 1.8 A resolution. The crystallographic analysis revealed that the antigen binding site is a rather shallow binding pocket, and residues from all six complementary determining regions of the antibody contact all sugar residues. The high specificity of the binding pocket does not result in high affinity; the K(D) determined by isothermal calorimetry is 11 microM. However, this affinity is in the same range as for other sugar-antibody complexes. The detailed understanding of the antibody-Lewis X interaction revealed by the crystal structure may be helpful in the design of better diagnostic tools for schistosomiasis and for studying Lewis X-mediated cell-cell interactions by antibody interference.
+*[[Antibody 3D structures|Antibody 3D structures]]
+*[[Sandbox 20009|Sandbox 20009]]
-==About this Structure==
+*[[3D structures of non-human antibody|3D structures of non-human antibody]]
-UZ6 is a [[Single protein]] structure of 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=1UZ6 OCA].
+== References ==
+<references/>
-==Reference==
+__TOC__
-Structure of an anti-Lewis X Fab fragment in complex with its Lewis X antigen., van Roon AM, Pannu NS, de Vrind JP, van der Marel GA, van Boom JH, Hokke CH, Deelder AM, Abrahams JP, Structure. 2004 Jul;12(7):1227-36. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15242599 15242599]
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Mus musculus]]
-[[Category: Single protein]]
+[[Category: Abrahams JP]]
-[[Category: Abrahams, J P.]]
+[[Category: De Vrind JPM]]
-[[Category: Boom, J H.Van.]]
+[[Category: Deelder AM]]
-[[Category: Deelder, A M.]]
+[[Category: Hokke CH]]
-[[Category: Hokke, C H.]]
+[[Category: Pannu NS]]
-[[Category: Marel, G A.Van Der.]]
+[[Category: Van Boom JH]]
-[[Category: Pannu, N S.]]
+[[Category: Van Der marel GA]]
-[[Category: Roon, A M.M Van.]]
+[[Category: Van Roon AMM]]
-[[Category: Vrind, J P.M De.]]
-[[Category: anti-carbohydrate]]
-[[Category: antibody]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 00:17:26 2008''