3d8x: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-{{Seed}}
-[[Image:3d8x.png|left|200px]]
-<!--
+==Crystal Structure of Saccharomyces cerevisiae NDPPH Dependent Thioredoxin Reductase 1==
-The line below this paragraph, containing "STRUCTURE_3d8x", creates the "Structure Box" on the page.
+<StructureSection load='3d8x' size='340' side='right'caption='[[3d8x]], [[Resolution|resolution]] 2.80&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'>[[3d8x]] is a 2 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=3D8X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3D8X 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]] 2.8&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=NDP:NADPH+DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NDP</scene></td></tr>
-{{STRUCTURE_3d8x|  PDB=3d8x  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3d8x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3d8x OCA], [https://pdbe.org/3d8x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3d8x RCSB], [https://www.ebi.ac.uk/pdbsum/3d8x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3d8x ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/TRXB1_YEAST TRXB1_YEAST] Acts on thioredoxins 1 and 2.
+== 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/d8/3d8x_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=3d8x ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Thioredoxin reductase (TrxR) is a member of the pyridine nucleotide-disulfide oxidoreductase family of the flavoenzymes. It can use a dithiol-disulfide active-site to transfer reducing equivalents from NADPH to thioredoxin (Trx), via the cofactor FAD. In Saccharomyces cerevisiae, the cytoplasmic thioredoxin reductase Trr1 plays an important role in multiple cellular events under the control of transcription factor Yap1 and/or Rho5. Here we present the crystal structure of Trr1 at the resolution of 2.8 A, the first fungal TrxR structure. Structural analysis shows it shares a very similar overall structure to Escherichia coli TrxR. However, fine comparisons indicate some distinct differences at the Trx recognition sites. These differences might be responsible to the species-specific recognition of Trx, which has been demonstrated by previous biochemical assays.
-===Crystal Structure of Saccharomyces cerevisiae NADPH Dependent Thioredoxin Reductase 1===
+Crystal structure of Saccharomyces cerevisiae cytoplasmic thioredoxin reductase Trr1 reveals the structural basis for species-specific recognition of thioredoxin.,Zhang Z, Bao R, Zhang Y, Yu J, Zhou CZ, Chen Y Biochim Biophys Acta. 2009 Jan;1794(1):124-8. Epub 2008 Oct 1. PMID:18930846<ref>PMID:18930846</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3d8x" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_18930846}}, adds the Publication Abstract to the page
+*[[Thioredoxin reductase 3D structures|Thioredoxin reductase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 18930846 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_18930846}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-D8X 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=3D8X OCA].
-==Reference==
-Crystal structure of Saccharomyces cerevisiae cytoplasmic thioredoxin reductase Trr1 reveals the structural basis for species-specific recognition of thioredoxin., Zhang Z, Bao R, Zhang Y, Yu J, Zhou CZ, Chen Y, Biochim Biophys Acta. 2009 Jan;1794(1):124-8. Epub 2008 Oct 1. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18930846 18930846]
 [[Category: Saccharomyces cerevisiae]]
-[[Category: Single protein]]
+[[Category: Bao R]]
-[[Category: Thioredoxin-disulfide reductase]]
+[[Category: Chen YX]]
-[[Category: Pdbx_ordinal=, <PDBx:audit_author.]]
+[[Category: Yu J]]
-[[Category: Cytoplasm]]
+[[Category: Zhang ZY]]
-[[Category: Fad]]
+[[Category: Zhou C-Z]]
-[[Category: Flavoprotein]]
-[[Category: Modpipe model of a6z]]
-[[Category: Nadp]]
-[[Category: Nadph]]
-[[Category: Oxidoreductase]]
-[[Category: Redox-active center]]
-[[Category: Thioredoxin reductase]]
-[[Category: Yeast]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 14 20:28:11 2009''