2z9s

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(New page: 200px<br /><applet load="2z9s" size="350" color="white" frame="true" align="right" spinBox="true" caption="2z9s, resolution 2.9&Aring;" /> '''Crystal Structure Ana...)
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[[Image:2z9s.gif|left|200px]]<br /><applet load="2z9s" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="2z9s, resolution 2.9&Aring;" />
 
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'''Crystal Structure Analysis of rat HBP23/Peroxiredoxin I, Cys52Ser mutant'''<br />
 
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==Overview==
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==Crystal Structure Analysis of rat HBP23/Peroxiredoxin I, Cys52Ser mutant==
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Rat HBP23/Prx I belongs to the 2-Cys peroxiredoxin type I family, and, exhibits peroxidase activity coupled with reduced thioredoxin (Trx) as an, electron donor. We analyzed the dimer-oligomer interconversion of, wild-type and mutant HBP23/Prx I by gel filtration, and found that the, Cys52Ser and Cys173Ser mutants existed mostly as decamers, while the wild, type was a mixture of various forms, favoring the decamer at higher, protein concentration, lower ionic salt concentration, and in the presence, of DTT. The Cys83Ser mutant was predominantly dimeric, in agreement with a, previous crystallographic analysis. X-Ray diffraction analysis of the, decameric Cys52Ser mutant revealed a toroidal structure (diameter ~130 A, inside diameter ~55 A, thickness ~45 A). In contrast to human Prx I, which, was recently reported to exist predominantly as the decamer with, Cys83-Cys83 disulfide bonds at all dimer-dimer interfaces, rat HBP23/Prx I, has a Cys83-Cys83 disulfide bond at only one dimer-dimer interface (S-S, separation of ~2.1 A), while the interactions at the other interfaces, (mean S-S separation of 3.6 A) appear to involve hydrophobic and van der, Waals forces. This finding is consistent with gel filtration analyses, showing that the protein readily inter-converts between dimer and, oligomeric forms. The Cys83Ser mutant exhibited similar peroxidase, activity to the wild type, which is exclusively dimeric, in the Trx/Trx, reductase system. At higher concentrations, where the protein was mostly, decameric, less efficient attack of reduced Trx was observed in a 14C-IAA, incorporation experiment. We suggest that the dimer-decamer, interconversion may have a regulatory role.
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<StructureSection load='2z9s' size='340' side='right'caption='[[2z9s]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2z9s]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z9S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Z9S FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.9&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2z9s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z9s OCA], [https://pdbe.org/2z9s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2z9s RCSB], [https://www.ebi.ac.uk/pdbsum/2z9s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2z9s ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/PRDX1_RAT PRDX1_RAT] Involved in redox regulation of the cell. Reduces peroxides with reducing equivalents provided through the thioredoxin system but not from glutaredoxin. May play an important role in eliminating peroxides generated during metabolism. Might participate in the signaling cascades of growth factors and tumor necrosis factor-alpha by regulating the intracellular concentrations of H(2)O(2). Reduces an intramolecular disulfide bond in GDPD5 that gates the ability to GDPD5 to drive postmitotic motor neuron differentiation (By similarity).
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/z9/2z9s_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=2z9s ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Rat heme-binding protein 23 (HBP23)/peroxiredoxin (Prx I) belongs to the 2-Cys peroxiredoxin type I family and exhibits peroxidase activity coupled with reduced thioredoxin (Trx) as an electron donor. We analyzed the dimer-oligomer interconversion of wild-type and mutant HBP23/Prx I by gel filtration and found that the C52S and C173S mutants existed mostly as decamers, whereas the wild type was a mixture of various forms, favoring the decamer at higher protein concentration and lower ionic salt concentration and in the presence of dithiothreitol. The C83S mutant was predominantly dimeric, in agreement with a previous crystallographic analysis (Hirotsu, S., Abe, Y., Okada, K., Nagahara, N., Hori, H., Nishino, T., and Hakoshima, T. (1999) Proc. Natl. Acad. Sci. U. S. A. 96, 12333-12338). X-ray diffraction analysis of the decameric C52S mutant revealed a toroidal structure (diameter, approximately 130A; inside diameter, approximately 55A; thickness, approximately 45A). In contrast to human Prx I, which was recently reported to exist predominantly as the decamer with Cys(83)-Cys(83) disulfide bonds at all dimer-dimer interfaces, rat HBP23/Prx I has a Cys(83)-Cys(83) disulfide bond at only one dimer-dimer interface (S-S separation of approximately 2.1A), whereas the interactions at the other interfaces (mean S-S separation of 3.6A) appear to involve hydrophobic and van der Waals forces. This finding is consistent with gel filtration analyses showing that the protein readily interconverts between dimer and oligomeric forms. The C83S mutant exhibited similar peroxidase activity to the wild type, which is exclusively dimeric, in the Trx/Trx reductase system. At higher concentrations, where the protein was mostly decameric, less efficient attack of reduced Trx was observed in a [(14)C]iodoacetamide incorporation experiment. We suggest that the dimerdecamer interconversion may have a regulatory role.
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==About this Structure==
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Dimer-oligomer interconversion of wild-type and mutant rat 2-Cys peroxiredoxin: disulfide formation at dimer-dimer interfaces is not essential for decamerization.,Matsumura T, Okamoto K, Iwahara S, Hori H, Takahashi Y, Nishino T, Abe Y J Biol Chem. 2008 Jan 4;283(1):284-93. Epub 2007 Nov 1. PMID:17974571<ref>PMID:17974571</ref>
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2Z9S is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Active as [http://en.wikipedia.org/wiki/Peroxiredoxin Peroxiredoxin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.15 1.11.1.15] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Z9S OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Dimer-oligomer interconversion of wild-type and mutant rat 2-Cys peroxiredoxin: disulfide formation at dimer-dimer interface is not essential for decamerization., Matsumura T, Okamoto K, Iwahara SI, Hori H, Takahashi Y, Nishino T, Abe Y, J Biol Chem. 2007 Nov 1;. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17974571 17974571]
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</div>
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[[Category: Peroxiredoxin]]
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<div class="pdbe-citations 2z9s" style="background-color:#fffaf0;"></div>
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[[Category: Rattus norvegicus]]
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[[Category: Single protein]]
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[[Category: Abe, Y.]]
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[[Category: Matsumura, T.]]
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[[Category: Nishino, T.]]
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[[Category: Okamoto, K.]]
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[[Category: 2-cys type peroxiredoxin]]
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[[Category: cytoplasm]]
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[[Category: decamer]]
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[[Category: hbp23]]
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[[Category: oxidoreductase]]
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[[Category: peroxidase]]
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[[Category: peroxiredoxin]]
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[[Category: phosphorylation]]
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[[Category: redox-active center]]
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[[Category: thiol-specific antioxidant protein]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 10:46:46 2008''
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==See Also==
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*[[Peroxiredoxin 3D structures|Peroxiredoxin 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
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[[Category: Rattus norvegicus]]
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[[Category: Abe Y]]
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[[Category: Matsumura T]]
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[[Category: Nishino T]]
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[[Category: Okamoto K]]

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Crystal Structure Analysis of rat HBP23/Peroxiredoxin I, Cys52Ser mutant

PDB ID 2z9s

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