1yb4: Difference between revisions

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[[Image:1yb4.gif|left|200px]]


{{Structure
==Crystal Structure of the Tartronic Semialdehyde Reductase from Salmonella typhimurium LT2==
|PDB= 1yb4 |SIZE=350|CAPTION= <scene name='initialview01'>1yb4</scene>, resolution 2.40&Aring;
<StructureSection load='1yb4' size='340' side='right'caption='[[1yb4]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND= <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>
<table><tr><td colspan='2'>[[1yb4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium_str._LT2 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YB4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YB4 FirstGlance]. <br>
|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/2-hydroxy-3-oxopropionate_reductase 2-hydroxy-3-oxopropionate reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.60 1.1.1.60] </span>
</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>
|GENE=
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
|DOMAIN=<span class='plainlinks'>[http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=pfam03446 NAD_binding_2], [http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=COG2084 MmsB]</span>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1yb4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yb4 OCA], [https://pdbe.org/1yb4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yb4 RCSB], [https://www.ebi.ac.uk/pdbsum/1yb4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yb4 ProSAT], [https://www.topsan.org/Proteins/MCSG/1yb4 TOPSAN]</span></td></tr>
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yb4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yb4 OCA], [http://www.ebi.ac.uk/pdbsum/1yb4 PDBsum], [http://www.fli-leibniz.de/cgi-bin/ImgLib.pl?CODE=1kfv JenaLib], [http://www.rcsb.org/pdb/explore.do?structureId=1yb4 RCSB]</span>
</table>
}}
== 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/yb/1yb4_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=1yb4 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.


'''Crystal Structure of the Tartronic Semialdehyde Reductase from 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>
1YB4 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Salmonella_typhimurium_lt2 Salmonella typhimurium lt2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YB4 OCA].
<div class="pdbe-citations 1yb4" style="background-color:#fffaf0;"></div>
[[Category: 2-hydroxy-3-oxopropionate reductase]]
== References ==
[[Category: Salmonella typhimurium lt2]]
<references/>
[[Category: Single protein]]
__TOC__
[[Category: Collart, F.]]
</StructureSection>
[[Category: Joachimiak, A.]]
[[Category: Large Structures]]
[[Category: Kim, Y.]]
[[Category: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]]
[[Category: MCSG, Midwest Center for Structural Genomics.]]
[[Category: Collart F]]
[[Category: Wu, R.]]
[[Category: Joachimiak A]]
[[Category: mcsg]]
[[Category: Kim Y]]
[[Category: oxidoreductase]]
[[Category: Wu R]]
[[Category: protein structure initiative]]
[[Category: psi]]
[[Category: salmonella typhimurium lt2]]
[[Category: structural genomic]]
[[Category: tartronic semialdehyde reductase]]
[[Category: the midwest center for structural genomic]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 26 06:14:24 2008''
Retrieved from "https://proteopedia.org/1yb4"