2w8s: Difference between revisions

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-{{Seed}}
-[[Image:2w8s.png|left|200px]]
-<!--
+==CRYSTAL STRUCTURE OF A catalytically promiscuous PHOSPHONATE MONOESTER HYDROLASE FROM Burkholderia caryophylli==
-The line below this paragraph, containing "STRUCTURE_2w8s", creates the "Structure Box" on the page.
+<StructureSection load='2w8s' size='340' side='right'caption='[[2w8s]], [[Resolution|resolution]] 2.40&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'>[[2w8s]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Trinickia_caryophylli Trinickia caryophylli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W8S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2W8S 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]] 2.4&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FGL:2-AMINOPROPANEDIOIC+ACID'>FGL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-{{STRUCTURE_2w8s|  PDB=2w8s  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2w8s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w8s OCA], [https://pdbe.org/2w8s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2w8s RCSB], [https://www.ebi.ac.uk/pdbsum/2w8s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2w8s ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/BCPMH_TRICW BCPMH_TRICW] Hydrolytic enzyme with a broad substrate specificity acting on phosphate diesters and phosphonate monoesters (PubMed:8824203, PubMed:20133613). Hydrolyzes phosphate mono- and triesters, sulfate monoesters and sulfonate monoesters (PubMed:20133613). Hydrolyzes glyphosate monoesters. Does not hydrolyze DNA or cGMP (PubMed:8824203). Hydrolyzes glyceryl glyphosate, but this substrate has a much lower affinity than the glyphosate monoesters (PubMed:8824203, PubMed:8771792).<ref>PMID:20133613</ref> <ref>PMID:8771792</ref> <ref>PMID:8824203</ref>
+== 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/w8/2w8s_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=2w8s ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+We report a catalytically promiscuous enzyme able to efficiently promote the hydrolysis of six different substrate classes. Originally assigned as a phosphonate monoester hydrolase (PMH) this enzyme exhibits substantial second-order rate accelerations ((k(cat)/K(M))/k(w)), ranging from 10(7) to as high as 10(19), for the hydrolyses of phosphate mono-, di-, and triesters, phosphonate monoesters, sulfate monoesters, and sulfonate monoesters. This substrate collection encompasses a range of substrate charges between 0 and -2, transition states of a different nature, and involves attack at two different reaction centers (P and S). Intrinsic reactivities (half-lives) range from 200 days to 10(5) years under near neutrality. The substantial rate accelerations for a set of relatively difficult reactions suggest that efficient catalysis is not necessarily limited to efficient stabilization of just one transition state. The crystal structure of PMH identifies it as a member of the alkaline phosphatase superfamily. PMH encompasses four of the native activities previously observed in this superfamily and extends its repertoire by two further activities, one of which, sulfonate monoesterase, has not been observed previously for a natural enzyme. PMH is thus one of the most promiscuous hydrolases described to date. The functional links between superfamily activities can be presumed to have played a role in functional evolution by gene duplication.
-===CRYSTAL STRUCTURE OF A CATALYTICALLY PROMISCUOUS PHOSPHONATE MONOESTER HYDROLASE FROM BURKHOLDERIA CARYOPHYLLI===
+An efficient, multiply promiscuous hydrolase in the alkaline phosphatase superfamily.,van Loo B, Jonas S, Babtie AC, Benjdia A, Berteau O, Hyvonen M, Hollfelder F Proc Natl Acad Sci U S A. 2010 Feb 16;107(7):2740-5. Epub 2010 Jan 27. PMID:20133613<ref>PMID:20133613</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_20133613}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 2w8s" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 20133613 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_20133613}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-W8S is a 4 chains structure with sequences from [http://en.wikipedia.org/wiki/Burkholderia_caryophylli Burkholderia caryophylli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W8S OCA].
+[[Category: Trinickia caryophylli]]
+[[Category: Hollfelder F]]
-==Reference==
+[[Category: Hyvonen M]]
-<ref group="xtra">PMID:20133613</ref><ref group="xtra">PMID:18793651</ref><references group="xtra"/>
+[[Category: Jonas S]]
-[[Category: Burkholderia caryophylli]]
+[[Category: Van Loo B]]
-[[Category: Hollfelder, F.]]
-[[Category: Hyvonen, M.]]
-[[Category: Jonas, S.]]
-[[Category: Loo, B Van.]]
-[[Category: Alkaline phosphatase superfamily]]
-[[Category: Catalytic promiscuity]]
-[[Category: Formylglycine]]
-[[Category: Hydrolase]]
-[[Category: Phosphodiesterase]]
-[[Category: Phosphonate monoester hydrolase]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 30 13:23:48 2010''