2vq1: Difference between revisions

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[[Image:2vq1.png|left|200px]]


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==anti trimeric Lewis X Fab54-5C10-A==
The line below this paragraph, containing "STRUCTURE_2vq1", creates the "Structure Box" on the page.
<StructureSection load='2vq1' size='340' side='right'caption='[[2vq1]], [[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'>[[2vq1]] 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=2VQ1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VQ1 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>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AZI:AZIDE+ION'>AZI</scene>, <scene name='pdbligand=GLY:GLYCINE'>GLY</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
{{STRUCTURE_2vq1|  PDB=2vq1  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2vq1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vq1 OCA], [https://pdbe.org/2vq1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vq1 RCSB], [https://www.ebi.ac.uk/pdbsum/2vq1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vq1 ProSAT]</span></td></tr>
</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/vq/2vq1_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=2vq1 ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Lewis X trisaccharides normally function as essential cell-cell interaction mediators. However, oligomers of Lewis X trisaccharides expressed by the parasite Schistosoma mansoni seem to be related to its evasion of the immune response of its human host. Here we show that monoclonal antibody 54-5C10-A, which is used to diagnose schistosomiasis in humans, interacts with oligomers of at least three Lewis X trisaccharides, but not with monomeric Lewis X. We describe the sequence and the 2.5 A crystal structure of its Fab fragment and infer a possible mode of binding of the polymeric Lewis X from docking studies. Our studies indicate a radically different mode of binding compared to Fab 291-2G3-A, which is specific for monomeric Lewis X, thus providing a structural explanation of the diagnostic success of 54-5C10-A.


===ANTI TRIMERIC LEWIS X FAB54-5C10-A===
Characterization of a diagnostic Fab fragment binding trimeric Lewis X.,de Geus DC, van Roon AM, Thomassen EA, Hokke CH, Deelder AM, Abrahams JP Proteins. 2009 Aug 1;76(2):439-47. PMID:19173313<ref>PMID:19173313</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
The line below this paragraph, {{ABSTRACT_PUBMED_19173313}}, adds the Publication Abstract to the page
<div class="pdbe-citations 2vq1" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 19173313 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_19173313}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
[[2vq1]] 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=2VQ1 OCA].
 
==Reference==
<ref group="xtra">PMID:019173313</ref><references group="xtra"/>
[[Category: Mus musculus]]
[[Category: Mus musculus]]
[[Category: Abrahams, J P.]]
[[Category: Abrahams JP]]
[[Category: Deelder, A M.]]
[[Category: Deelder AM]]
[[Category: Geus, D C.De.]]
[[Category: Hokke CH]]
[[Category: Hokke, C H.]]
[[Category: Thomassen EAJ]]
[[Category: Roon, A M.M Van.]]
[[Category: De Geus DC]]
[[Category: Thomassen, E A.J.]]
[[Category: Van Roon AMM]]
[[Category: Carbohydrate recognition]]
[[Category: Diagnosis]]
[[Category: Immune system]]
[[Category: Monoclonal antibody]]
[[Category: Receptor]]
[[Category: Schistosomiasis]]

Latest revision as of 04:27, 21 November 2024

anti trimeric Lewis X Fab54-5C10-Aanti trimeric Lewis X Fab54-5C10-A

Structural highlights

2vq1 is a 4 chain structure with sequence from Mus musculus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.5Å
Ligands:, ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

Lewis X trisaccharides normally function as essential cell-cell interaction mediators. However, oligomers of Lewis X trisaccharides expressed by the parasite Schistosoma mansoni seem to be related to its evasion of the immune response of its human host. Here we show that monoclonal antibody 54-5C10-A, which is used to diagnose schistosomiasis in humans, interacts with oligomers of at least three Lewis X trisaccharides, but not with monomeric Lewis X. We describe the sequence and the 2.5 A crystal structure of its Fab fragment and infer a possible mode of binding of the polymeric Lewis X from docking studies. Our studies indicate a radically different mode of binding compared to Fab 291-2G3-A, which is specific for monomeric Lewis X, thus providing a structural explanation of the diagnostic success of 54-5C10-A.

Characterization of a diagnostic Fab fragment binding trimeric Lewis X.,de Geus DC, van Roon AM, Thomassen EA, Hokke CH, Deelder AM, Abrahams JP Proteins. 2009 Aug 1;76(2):439-47. PMID:19173313[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

  1. ↑ de Geus DC, van Roon AM, Thomassen EA, Hokke CH, Deelder AM, Abrahams JP. Characterization of a diagnostic Fab fragment binding trimeric Lewis X. Proteins. 2009 Aug 1;76(2):439-47. PMID:19173313 doi:10.1002/prot.22356

2vq1, resolution 2.50Å

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