1tp9: 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: @@
 ==PRX D (type II) from Populus tremula==
-<StructureSection load='1tp9' size='340' side='right' caption='[[1tp9]], [[Resolution|resolution]] 1.62&Aring;' scene=''>
+<StructureSection load='1tp9' size='340' side='right'caption='[[1tp9]], [[Resolution|resolution]] 1.62&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1tp9]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Poptr Poptr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TP9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1TP9 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1tp9]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Populus_trichocarpa Populus trichocarpa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TP9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1TP9 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.62&#8491;</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1tp9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tp9 OCA], [http://pdbe.org/1tp9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1tp9 RCSB], [http://www.ebi.ac.uk/pdbsum/1tp9 PDBsum]</span></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=1tp9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tp9 OCA], [https://pdbe.org/1tp9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1tp9 RCSB], [https://www.ebi.ac.uk/pdbsum/1tp9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1tp9 ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/PRX2_POPTR PRX2_POPTR] Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Can reduce H(2)O(2) and short chain organic, fatty acid, and phospholipid hydroperoxides. Plays a role in cell protection against oxidative stress by detoxifying peroxides.<ref>PMID:15032877</ref> <ref>PMID:18230180</ref>
 == 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/tp/1tp9_consurf.spt"</scriptWhenChecked>
+     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/tp/1tp9_consurf.spt"</scriptWhenChecked>
      <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
      <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 16: / Line 20: @@
 </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=1tp9 ConSurf].
 <div style="clear:both"></div>
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-Peroxiredoxins (Prxs) constitute a family of thiol peroxidases that reduce hydrogen peroxide, peroxinitrite, and hydroperoxides using a strictly conserved cysteine. Very abundant in all organisms, Prxs are produced as diverse isoforms characterized by different catalytic mechanisms and various thiol-containing reducing agents. The oligomeric state of Prxs and the link with their functionality is a subject of intensive research. We present here a combined X-ray and nuclear magnetic resonance (NMR) study of a plant Prx that belongs to the D-Prx (type II) subfamily. The Populus trichocarpa Prx is the first Prx shown to be regenerated in vitro by both the glutaredoxin and thioredoxin systems. The crystal structure and solution NMR provide evidence that the reduced protein is a specific noncovalent homodimer both in the crystal and in solution. The dimer interface is roughly perpendicular to the plane of the central beta sheet and differs from the interface of A- and B-Prx dimers, where proteins associate in the plane parallel to the beta sheet. The homodimer interface involves residues strongly conserved in the D (type II) Prxs, suggesting that all Prxs of this family can homodimerize. The study provides a new insight into the Prx oligomerism and the basis for protein-protein and enzyme-substrate interaction studies by NMR.
-Crystal structure and solution NMR dynamics of a D (type II) peroxiredoxin glutaredoxin and thioredoxin dependent: a new insight into the peroxiredoxin oligomerism.,Echalier A, Trivelli X, Corbier C, Rouhier N, Walker O, Tsan P, Jacquot JP, Aubry A, Krimm I, Lancelin JM Biochemistry. 2005 Feb 15;44(6):1755-67. PMID:15697201<ref>PMID:15697201</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 1tp9" style="background-color:#fffaf0;"></div>
 ==See Also==
-*[[Peroxiredoxin|Peroxiredoxin]]
+*[[Peroxiredoxin 3D structures|Peroxiredoxin 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Poptr]]
+[[Category: Large Structures]]
-[[Category: Corbier, C]]
+[[Category: Populus trichocarpa]]
-[[Category: Echalier, A]]
+[[Category: Corbier C]]
-[[Category: Jacquot, J P]]
+[[Category: Echalier A]]
-[[Category: Krimm, I]]
+[[Category: Jacquot JP]]
-[[Category: Lancelin, J M]]
+[[Category: Krimm I]]
-[[Category: Rouhier, N]]
+[[Category: Lancelin JM]]
-[[Category: Trivelli, X]]
+[[Category: Rouhier N]]
-[[Category: Tsan, P]]
+[[Category: Trivelli X]]
-[[Category: Walker, O]]
+[[Category: Tsan P]]
-[[Category: Oligomer]]
+[[Category: Walker O]]
-[[Category: Oxidoreductase]]
-[[Category: Peroxiredoxin]]
-[[Category: Thioredoxin fold]]