2w8s: Difference between revisions
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==CRYSTAL STRUCTURE OF A | |||
<StructureSection load='2w8s' size='340' side='right' caption='[[2w8s]], [[Resolution|resolution]] 2.40Å' scene=''> | ==CRYSTAL STRUCTURE OF A catalytically promiscuous PHOSPHONATE MONOESTER HYDROLASE FROM Burkholderia caryophylli== | ||
<StructureSection load='2w8s' size='340' side='right'caption='[[2w8s]], [[Resolution|resolution]] 2.40Å' scene=''> | |||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[2w8s]] is a 4 chain structure with sequence from [ | <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> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand= | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4Å</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> | |||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <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> | </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 == | == Evolutionary Conservation == | ||
[[Image:Consurf_key_small.gif|200px|right]] | [[Image:Consurf_key_small.gif|200px|right]] | ||
Check<jmol> | Check<jmol> | ||
<jmolCheckbox> | <jmolCheckbox> | ||
<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/w8/2w8s_consurf.spt"</scriptWhenChecked> | <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> | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | ||
<text>to colour the structure by Evolutionary Conservation</text> | <text>to colour the structure by Evolutionary Conservation</text> | ||
</jmolCheckbox> | </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/ | </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="clear:both"></div> | ||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
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From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
</div> | </div> | ||
<div class="pdbe-citations 2w8s" style="background-color:#fffaf0;"></div> | |||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: | [[Category: Large Structures]] | ||
[[Category: Hollfelder | [[Category: Trinickia caryophylli]] | ||
[[Category: Hyvonen | [[Category: Hollfelder F]] | ||
[[Category: Jonas | [[Category: Hyvonen M]] | ||
[[Category: Loo | [[Category: Jonas S]] | ||
[[Category: Van Loo B]] | |||
Latest revision as of 18:48, 13 December 2023
CRYSTAL STRUCTURE OF A catalytically promiscuous PHOSPHONATE MONOESTER HYDROLASE FROM Burkholderia caryophylliCRYSTAL STRUCTURE OF A catalytically promiscuous PHOSPHONATE MONOESTER HYDROLASE FROM Burkholderia caryophylli
Structural highlights
FunctionBCPMH_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).[1] [2] [3] 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 PubMedWe 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. 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[4] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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