2p5r

From Proteopedia

(Difference between revisions)

Revision as of 15:16, 17 June 2021

Crystal structure of the poplar glutathione peroxidase 5 in the oxidized form

Structural highlights

2p5r is a 2 chain structure with sequence from Populus balsamifera subsp. trichocarpa x populus deltoides. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Related:	2p5q
Gene:	PtGPX5 (Populus balsamifera subsp. trichocarpa x Populus deltoides)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

Glutathione peroxidases (GPXs) are a group of enzymes that regulate the levels of reactive oxygen species in cells and tissues, and protect them against oxidative damage. Contrary to most of their counterparts in animal cells, the higher plant GPX homologues identified so far possess cysteine instead of selenocysteine in their active site. Interestingly, the plant GPXs are not dependent on glutathione but rather on thioredoxin as their in vitro electron donor. We have determined the crystal structures of the reduced and oxidized form of Populus trichocarpaxdeltoides GPX5 (PtGPX5), using a selenomethionine derivative. PtGPX5 exhibits an overall structure similar to that of the known animal GPXs. PtGPX5 crystallized in the assumed physiological dimeric form, displaying a pseudo ten-stranded beta sheet core. Comparison of both redox structures indicates that a drastic conformational change is necessary to bring the two distant cysteine residues together to form an intramolecular disulfide bond. In addition, a computer model of a complex of PtGPX5 and its in vitro recycling partner thioredoxin h1 is proposed on the basis of the crystal packing of the oxidized form enzyme. A possible role of PtGPX5 as a heavy-metal sink is also discussed.

Crystal structures of a poplar thioredoxin peroxidase that exhibits the structure of glutathione peroxidases: insights into redox-driven conformational changes.,Koh CS, Didierjean C, Navrot N, Panjikar S, Mulliert G, Rouhier N, Jacquot JP, Aubry A, Shawkataly O, Corbier C J Mol Biol. 2007 Jul 13;370(3):512-29. Epub 2007 Apr 19. PMID:17531267^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Koh CS, Didierjean C, Navrot N, Panjikar S, Mulliert G, Rouhier N, Jacquot JP, Aubry A, Shawkataly O, Corbier C. Crystal structures of a poplar thioredoxin peroxidase that exhibits the structure of glutathione peroxidases: insights into redox-driven conformational changes. J Mol Biol. 2007 Jul 13;370(3):512-29. Epub 2007 Apr 19. PMID:17531267 doi:http://dx.doi.org/10.1016/j.jmb.2007.04.031

1 Structural highlights
2 Evolutionary Conservation
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2p5r"

@@ Line 1: / Line 1: @@
 ==Crystal structure of the poplar glutathione peroxidase 5 in the oxidized form==
-<StructureSection load='2p5r' size='340' side='right' caption='[[2p5r]], [[Resolution|resolution]] 2.45&Aring;' scene=''>
+<StructureSection load='2p5r' size='340' side='right'caption='[[2p5r]], [[Resolution|resolution]] 2.45&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2p5r]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Populus_balsamifera_subsp._trichocarpa_x_populus_deltoides Populus balsamifera subsp. trichocarpa x populus deltoides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P5R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P5R FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2p5r]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Populus_balsamifera_subsp._trichocarpa_x_populus_deltoides Populus balsamifera subsp. trichocarpa x populus deltoides]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P5R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2P5R FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2p5q|2p5q]]</td></tr>
+<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2p5q|2p5q]]</div></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PtGPX5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3695 Populus balsamifera subsp. trichocarpa x Populus deltoides])</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PtGPX5 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3695 Populus balsamifera subsp. trichocarpa x Populus deltoides])</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=2p5r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p5r OCA], [http://pdbe.org/2p5r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2p5r RCSB], [http://www.ebi.ac.uk/pdbsum/2p5r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2p5r ProSAT]</span></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=2p5r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p5r OCA], [https://pdbe.org/2p5r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2p5r RCSB], [https://www.ebi.ac.uk/pdbsum/2p5r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2p5r ProSAT]</span></td></tr>
 </table>
 == Evolutionary Conservation ==
@@ Line 13: / Line 13: @@
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/p5/2p5r_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/p5/2p5r_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 28: / Line 28: @@
 </div>
 <div class="pdbe-citations 2p5r" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Glutathione peroxidase|Glutathione peroxidase]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
+[[Category: Large Structures]]
 [[Category: Populus balsamifera subsp. trichocarpa x populus deltoides]]
 [[Category: Aubry, A]]

2p5r

From Proteopedia

Revision as of 15:16, 17 June 2021

Crystal structure of the poplar glutathione peroxidase 5 in the oxidized form

Structural highlights

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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