1pv1: Difference between revisions

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{{Seed}}
[[Image:1pv1.png|left|200px]]


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==Crystal Structure Analysis of Yeast Hypothetical Protein: YJG8_YEAST==
The line below this paragraph, containing "STRUCTURE_1pv1", creates the "Structure Box" on the page.
<StructureSection load='1pv1' size='340' side='right'caption='[[1pv1]], [[Resolution|resolution]] 2.30&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'>[[1pv1]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PV1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PV1 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]] 2.3&#8491;</td></tr>
-->
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1pv1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pv1 OCA], [https://pdbe.org/1pv1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pv1 RCSB], [https://www.ebi.ac.uk/pdbsum/1pv1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pv1 ProSAT], [https://www.topsan.org/Proteins/NYSGXRC/1pv1 TOPSAN]</span></td></tr>
{{STRUCTURE_1pv1|  PDB=1pv1  |  SCENE=  }}
</table>
== Function ==
[https://www.uniprot.org/uniprot/SFGH_YEAST SFGH_YEAST] Serine hydrolase involved in the detoxification of formaldehyde.
== 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/pv/1pv1_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=1pv1 ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Saccharomyces cerevisiae expresses a 67.8 kDa homodimeric serine thioesterase, S-formylglutathione hydrolase (SFGH), that is 39.9% identical with human esterase D. Both enzymes possess significant carboxylesterase and S-formylglutathione thioesterase activity but are unusually resistant to organophosphate (OP) inhibitors. We determined the X-ray crystal structure of yeast (y) SFGH to 2.3 A resolution by multiwavelength anomalous dispersion and used the structure to guide site-specific mutagenesis experiments addressing substrate and inhibitor reactivity. Our results demonstrate a steric mechanism of OP resistance mediated by a single indole ring (W197) located in an enzyme "acyl pocket". The W197I substitution enhances ySFGH reactivity with paraoxon by &gt;1000-fold ( k i (W197I) = 16 +/- 2 mM (-1) h (-1)), thereby overcoming natural OP resistance. W197I increases the rate of OP inhibition under pseudo-first-order conditions but does not accelerate OP hydrolysis. The structure of the paraoxon-inhibited W197I variant was determined by molecular replacement (2.2 A); it revealed a stabilized sulfenic acid at Cys60. Wild-type (WT) ySFGH is inhibited by thiol reactive compounds and is sensitive to oxidation; thus, the cysteine sulfenic acid may play a role in the regulation of a "D-type" esterase. The structure of the W197I variant is the first reported cysteine sulfenic acid in a serine esterase. We constructed five Cys60/W197I variants and show that introducing a positive charge near the oxyanion hole, W197I/C60R or W197I/C60K, results in a further enhancement of the rates of phosphorylation with paraoxon ( k i = 42 or 80 mM (-1) h (-1), respectively) but does not affect the dephosphorylation of the enzyme. We also characterized three histidine substitutions near the oxyanion hole, G57H, L58H, and M162H, which significantly decrease esterase activity.


===Crystal Structure Analysis of Yeast Hypothetical Protein: YJG8_YEAST===
Structural characterization and reversal of the natural organophosphate resistance of a D-type esterase, Saccharomyces cerevisiae S-formylglutathione hydrolase.,Legler PM, Kumaran D, Swaminathan S, Studier FW, Millard CB Biochemistry. 2008 Sep 9;47(36):9592-601. Epub 2008 Aug 16. PMID:18707125<ref>PMID:18707125</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
==About this Structure==
</div>
1PV1 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PV1 OCA].
<div class="pdbe-citations 1pv1" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Saccharomyces cerevisiae]]
[[Category: Saccharomyces cerevisiae]]
[[Category: Single protein]]
[[Category: Burley SK]]
[[Category: Burley, S K.]]
[[Category: Eswaramoorthy S]]
[[Category: Eswaramoorthy, S.]]
[[Category: Kumaran D]]
[[Category: Kumaran, D.]]
[[Category: Millard C]]
[[Category: Millard, C.]]
[[Category: Swaminathan S]]
[[Category: NYSGXRC, New York Structural GenomiX Research Consortium.]]
[[Category: Swaminathan, S.]]
[[Category: Esterase]]
[[Category: Hypothetical]]
[[Category: New york structural genomix research consortium]]
[[Category: Nysgxrc]]
[[Category: Protein structure initiative]]
[[Category: Psi]]
[[Category: Structural genomic]]
 
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Retrieved from "https://proteopedia.org/1pv1"