1vpd: Difference between revisions

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


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==X-Ray Crystal Structure of Tartronate Semialdehyde Reductase [Salmonella Typhimurium LT2]==
The line below this paragraph, containing "STRUCTURE_1vpd", creates the "Structure Box" on the page.
<StructureSection load='1vpd' size='340' side='right'caption='[[1vpd]], [[Resolution|resolution]] 1.65&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'>[[1vpd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium Salmonella enterica subsp. enterica serovar Typhimurium]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1tea 1tea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VPD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1VPD 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]] 1.65&#8491;</td></tr>
-->
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene></td></tr>
{{STRUCTURE_1vpd|  PDB=1vpd  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1vpd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vpd OCA], [https://pdbe.org/1vpd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1vpd RCSB], [https://www.ebi.ac.uk/pdbsum/1vpd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1vpd ProSAT], [https://www.topsan.org/Proteins/MCSG/1vpd TOPSAN]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q8ZLV8_SALTY Q8ZLV8_SALTY]
== 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/vp/1vpd_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=1vpd ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Tartronate semialdehyde reductases (TSRs), also known as 2-hydroxy-3-oxopropionate reductases, catalyze the reduction of tartronate semialdehyde using NAD as cofactor in the final stage of D: -glycerate biosynthesis. These enzymes belong to family of structurally and mechanically related beta-hydroxyacid dehydrogenases which differ in substrate specificity and catalyze reactions in specific metabolic pathways. Here, we present the crystal structure of GarR a TSR from Salmonella typhimurium determined by the single-wavelength anomalous diffraction method and refined to 1.65 A resolution. The active site of the enzyme contains L: -tartrate which most likely mimics a position of a glycerate which is a product of the enzyme reaction. The analysis of the TSR structure shows also a putative NADPH binding site in the enzyme.


===X-Ray Crystal Structure of Tartronate Semialdehyde Reductase [Salmonella Typhimurium LT2]===
X-Ray crystal structure of GarR-tartronate semialdehyde reductase from Salmonella typhimurium.,Osipiuk J, Zhou M, Moy S, Collart F, Joachimiak A J Struct Funct Genomics. 2009 Jan 28. PMID:19184529<ref>PMID:19184529</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
==About this Structure==
</div>
1VPD is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Salmonella_typhimurium Salmonella typhimurium]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1tea 1tea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VPD OCA].
<div class="pdbe-citations 1vpd" style="background-color:#fffaf0;"></div>
[[Category: Salmonella typhimurium]]
== References ==
[[Category: Collart, F.]]
<references/>
[[Category: Joachimiak, A.]]
__TOC__
[[Category: MCSG, Midwest Center for Structural Genomics.]]
</StructureSection>
[[Category: Moy, S.]]
[[Category: Large Structures]]
[[Category: Osipiuk, J.]]
[[Category: Salmonella enterica subsp. enterica serovar Typhimurium]]
[[Category: Zhou, M.]]
[[Category: Collart F]]
[[Category: Mcsg]]
[[Category: Joachimiak A]]
[[Category: Midwest center for structural genomic]]
[[Category: Moy S]]
[[Category: Protein structure initiative]]
[[Category: Osipiuk J]]
[[Category: Psi]]
[[Category: Zhou M]]
[[Category: Reductase]]
[[Category: Structural genomic]]
[[Category: Tartronate]]
 
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Latest revision as of 00:05, 28 December 2023

X-Ray Crystal Structure of Tartronate Semialdehyde Reductase [Salmonella Typhimurium LT2]

1vpd, resolution 1.65Å

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