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New page: left|200px<br /><applet load="2pp0" size="350" color="white" frame="true" align="right" spinBox="true" caption="2pp0, resolution 2.20Å" /> '''Crystal structure of...
 
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[[Image:2pp0.jpg|left|200px]]<br /><applet load="2pp0" size="350" color="white" frame="true" align="right" spinBox="true"
caption="2pp0, resolution 2.20&Aring;" />
'''Crystal structure of L-talarate/galactarate dehydratase from Salmonella typhimurium LT2'''<br />


==Overview==
==Crystal structure of L-talarate/galactarate dehydratase from Salmonella typhimurium LT2==
We assigned l-talarate dehydratase (TalrD) and galactarate dehydratase, (GalrD) functions to a group of orthologous proteins in the, mechanistically diverse enolase superfamily, focusing our characterization, on the protein encoded by the Salmonella typhimurium LT2 genome, (GI:16766982; STM3697). Like the homologous mandelate racemase, l-fuconate, dehydratase, and d-tartrate dehydratase, the active site of TalrD/GalrD, contains a general acid/base Lys 197 at the end of the second beta-strand, in the (beta/alpha)7beta-barrel domain, Asp 226, Glu 252, and Glu 278 as, ligands for the essential Mg2+ at the ends of the third, fourth, and fifth, beta-strands, a general acid/base His 328-Asp 301 dyad at the ends of the, seventh and sixth beta-strands, and an electrophilic Glu 348 at the end of, the eighth beta-strand. We discovered the function of STM3697 by screening, a library of acid sugars; it catalyzes the efficient dehydration of both, l-talarate (kcat = 2.1 s-1, kcat/Km = 9.1 x 103 M-1 s-1) and galactarate, (kcat = 3.5 s-1, kcat/Km = 1.1 x 104 M-1 s-1). Because l-talarate is a, previously unknown metabolite, we demonstrated that S. typhimurium LT2 can, utilize l-talarate as carbon source. Insertional disruption of the gene, encoding STM3697 abolishes this phenotype; this disruption also, diminishes, but does not eliminate, the ability of the organism to utilize, galactarate as carbon source. The dehydration of l-talarate is accompanied, by competing epimerization to galactarate; little epimerization to, l-talarate is observed in the dehydration of galactarate. On the basis of, (1) structures of the wild type enzyme complexed with l-lyxarohydroxamate, an analogue of the enolate intermediate, and of the K197A mutant complexed, with l-glucarate, a substrate for exchange of the alpha-proton, and (2), incorporation of solvent deuterium into galactarate in competition with, dehydration, we conclude that Lys 197 functions as the, galactarate-specific base and His 328 functions as the l-talarate-specific, base. The epimerization of l-talarate to galactarate that competes with, dehydration can be rationalized by partitioning of the enolate, intermediate between dehydration (departure of the 3-OH group catalyzed by, the conjugate acid of His 328) and epimerization (protonation on C2 by the, conjugate acid of Lys 197). The promiscuous catalytic activities, discovered for STM3697 highlight the evolutionary potential of a, "conserved" active site architecture.
<StructureSection load='2pp0' size='340' side='right'caption='[[2pp0]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[2pp0]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium Salmonella enterica subsp. enterica serovar Typhimurium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PP0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PP0 FirstGlance]. <br>
2PP0 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Salmonella_typhimurium Salmonella typhimurium] with <scene name='pdbligand=GOL:'>GOL</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PP0 OCA].  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#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></td></tr>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2pp0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pp0 OCA], [https://pdbe.org/2pp0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2pp0 RCSB], [https://www.ebi.ac.uk/pdbsum/2pp0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2pp0 ProSAT]</span></td></tr>
Evolution of Enzymatic Activities in the Enolase Superfamily: l-Talarate/Galactarate Dehydratase from Salmonella typhimurium LT2(,)., Yew WS, Fedorov AA, Fedorov EV, Almo SC, Gerlt JA, Biochemistry. 2007 Jul 25;. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17649980 17649980]
</table>
[[Category: Salmonella typhimurium]]
== Function ==
[[Category: Single protein]]
[https://www.uniprot.org/uniprot/TAGAD_SALTY TAGAD_SALTY] Catalyzes the efficient dehydration of both L-talarate and galactarate to 5-keto-4-deoxy-D-glucarate. Also catalyzes the epimerization of L-talarate to galactarate; epimerization occurs in competition with dehydration. Is required for the utilization of L-talarate as a carbon source. Also functions in galactarate utilization. Is not active on other acid sugars.<ref>PMID:17649980</ref>
[[Category: Almo, S.C.]]
== Evolutionary Conservation ==
[[Category: Fedorov, A.A.]]
[[Image:Consurf_key_small.gif|200px|right]]
[[Category: Fedorov, E.V.]]
Check<jmol>
[[Category: Gerlt, J.A.]]
  <jmolCheckbox>
[[Category: Yew, W.S.]]
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pp/2pp0_consurf.spt"</scriptWhenChecked>
[[Category: GOL]]
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
[[Category: crystal structure]]
    <text>to colour the structure by Evolutionary Conservation</text>
[[Category: enolase superfamily]]
  </jmolCheckbox>
[[Category: l-talarate/galactarate dehydratase]]
</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=2pp0 ConSurf].
[[Category: lyase]]
<div style="clear:both"></div>
 
== References ==
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 11:23:30 2008''
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Salmonella enterica subsp. enterica serovar Typhimurium]]
[[Category: Almo SC]]
[[Category: Fedorov AA]]
[[Category: Fedorov EV]]
[[Category: Gerlt JA]]
[[Category: Yew WS]]

Latest revision as of 09:11, 21 February 2024

Crystal structure of L-talarate/galactarate dehydratase from Salmonella typhimurium LT2

2pp0, resolution 2.20Å

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