2ww2: Difference between revisions

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-{{Seed}}
-[[Image:2ww2.jpg|left|200px]]
-<!--
+==Structure of the Family GH92 Inverting Mannosidase BT2199 from Bacteroides thetaiotaomicron VPI-5482==
-The line below this paragraph, containing "STRUCTURE_2ww2", creates the "Structure Box" on the page.
+<StructureSection load='2ww2' size='340' side='right'caption='[[2ww2]], [[Resolution|resolution]] 1.90&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'>[[2ww2]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron_VPI-5482 Bacteroides thetaiotaomicron VPI-5482]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WW2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2WW2 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]] 1.9&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SWA:1S-8AB-OCTAHYDRO-INDOLIZIDINE-1A,2A,8B-TRIOL'>SWA</scene></td></tr>
-{{STRUCTURE_2ww2|  PDB=2ww2  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2ww2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ww2 OCA], [https://pdbe.org/2ww2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ww2 RCSB], [https://www.ebi.ac.uk/pdbsum/2ww2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ww2 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q8A5N9_BACTN Q8A5N9_BACTN]
+== 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/ww/2ww2_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=2ww2 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Colonic bacteria, exemplified by Bacteroides thetaiotaomicron, play a key role in maintaining human health by harnessing large families of glycoside hydrolases (GHs) to exploit dietary polysaccharides and host glycans as nutrients. Such GH family expansion is exemplified by the 23 family GH92 glycosidases encoded by the B. thetaiotaomicron genome. Here we show that these are alpha-mannosidases that act via a single displacement mechanism to utilize host N-glycans. The three-dimensional structure of two GH92 mannosidases defines a family of two-domain proteins in which the catalytic center is located at the domain interface, providing acid (glutamate) and base (aspartate) assistance to hydrolysis in a Ca(2+)-dependent manner. The three-dimensional structures of the GH92s in complex with inhibitors provide insight into the specificity, mechanism and conformational itinerary of catalysis. Ca(2+) plays a key catalytic role in helping distort the mannoside away from its ground-state (4)C(1) chair conformation toward the transition state.
-===STRUCTURE OF THE FAMILY GH92 INVERTING MANNOSIDASE BT2199 FROM BACTEROIDES THETAIOTAOMICRON VPI-5482===
+Mechanistic insights into a Ca2+-dependent family of alpha-mannosidases in a human gut symbiont.,Zhu Y, Suits MD, Thompson AJ, Chavan S, Dinev Z, Dumon C, Smith N, Moremen KW, Xiang Y, Siriwardena A, Williams SJ, Gilbert HJ, Davies GJ Nat Chem Biol. 2010 Feb;6(2):125-32. Epub 2009 Dec 27. PMID:20081828<ref>PMID:20081828</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2ww2" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-WW2 is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron Bacteroides thetaiotaomicron]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WW2 OCA].
+*[[Mannosidase 3D structures|Mannosidase 3D structures]]
-[[Category: Bacteroides thetaiotaomicron]]
+== References ==
-[[Category: Davies, G J.]]
+<references/>
-[[Category: Gilbert, H J.]]
+__TOC__
-[[Category: Suits, M D.L.]]
+</StructureSection>
-[[Category: Thompson, A.]]
+[[Category: Bacteroides thetaiotaomicron VPI-5482]]
-[[Category: Zhu, Y.]]
+[[Category: Large Structures]]
-[[Category: Bt2199]]
+[[Category: Davies GJ]]
-[[Category: Gh92]]
+[[Category: Gilbert HJ]]
-[[Category: Glycoside hydrolase family 92]]
+[[Category: Suits MDL]]
-[[Category: Hydrolase]]
+[[Category: Thompson A]]
+[[Category: Zhu Y]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 30 14:41:13 2009''