3dwa: 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: @@
-{{Seed}}
-[[Image:3dwa.jpg|left|200px]]
-<!--
+==Crystal structure of the B-subunit of the AB5 toxin from E. coli==
-The line below this paragraph, containing "STRUCTURE_3dwa", creates the "Structure Box" on the page.
+<StructureSection load='3dwa' size='340' side='right'caption='[[3dwa]], [[Resolution|resolution]] 2.08&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'>[[3dwa]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DWA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DWA 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]] 2.084&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-{{STRUCTURE_3dwa|  PDB=3dwa  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3dwa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dwa OCA], [https://pdbe.org/3dwa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dwa RCSB], [https://www.ebi.ac.uk/pdbsum/3dwa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dwa ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q3ZTX8_ECOLX Q3ZTX8_ECOLX]
+== 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/dw/3dwa_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=3dwa ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+AB(5) toxins comprise an A subunit that corrupts essential eukaryotic cell functions, and pentameric B subunits that direct target-cell uptake after binding surface glycans. Subtilase cytotoxin (SubAB) is an AB(5) toxin secreted by Shiga toxigenic Escherichia coli (STEC), which causes serious gastrointestinal disease in humans. SubAB causes haemolytic uraemic syndrome-like pathology in mice through SubA-mediated cleavage of BiP/GRP78, an essential endoplasmic reticulum chaperone. Here we show that SubB has a strong preference for glycans terminating in the sialic acid N-glycolylneuraminic acid (Neu5Gc), a monosaccharide not synthesized in humans. Structures of SubB-Neu5Gc complexes revealed the basis for this specificity, and mutagenesis of key SubB residues abrogated in vitro glycan recognition, cell binding and cytotoxicity. SubAB specificity for Neu5Gc was confirmed using mouse tissues with a human-like deficiency of Neu5Gc and human cell lines fed with Neu5Gc. Despite lack of Neu5Gc biosynthesis in humans, assimilation of dietary Neu5Gc creates high-affinity receptors on human gut epithelia and kidney vasculature. This, and the lack of Neu5Gc-containing body fluid competitors in humans, confers susceptibility to the gastrointestinal and systemic toxicities of SubAB. Ironically, foods rich in Neu5Gc are the most common source of STEC contamination. Thus a bacterial toxin's receptor is generated by metabolic incorporation of an exogenous factor derived from food.
-===Crystal structure of the B-subunit of the AB5 toxin from E. coli===
+Incorporation of a non-human glycan mediates human susceptibility to a bacterial toxin.,Byres E, Paton AW, Paton JC, Lofling JC, Smith DF, Wilce MC, Talbot UM, Chong DC, Yu H, Huang S, Chen X, Varki NM, Varki A, Rossjohn J, Beddoe T Nature. 2008 Dec 4;456(7222):648-52. Epub 2008 Oct 29. PMID:18971931<ref>PMID:18971931</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-==About this Structure==
+</div>
-DWA is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DWA OCA].
+<div class="pdbe-citations 3dwa" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Escherichia coli]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Beddoe, T.]]
+[[Category: Beddoe T]]
-[[Category: Byres, E.]]
+[[Category: Byres E]]
-[[Category: Chen, X.]]
+[[Category: Chen X]]
-[[Category: Chong, D C.]]
+[[Category: Chong DC]]
-[[Category: Huang, S.]]
+[[Category: Huang S]]
-[[Category: Lofling, J C.]]
+[[Category: Lofling JC]]
-[[Category: Paton, A W.]]
+[[Category: Paton AW]]
-[[Category: Paton, J C.]]
+[[Category: Paton JC]]
-[[Category: Rossjohn, J.]]
+[[Category: Rossjohn J]]
-[[Category: Smith, D F.]]
+[[Category: Smith DF]]
-[[Category: Talbot, U M.]]
+[[Category: Talbot UM]]
-[[Category: Varki, A.]]
+[[Category: Varki A]]
-[[Category: Varki, N M.]]
+[[Category: Varki NM]]
-[[Category: Wilce, M C.J.]]
+[[Category: Wilce MCJ]]
-[[Category: Yu, H.]]
+[[Category: Yu H]]
-[[Category: Toxin]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov  5 12:47:35 2008''