1yep

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{{STRUCTURE_1yep| PDB=1yep | SCENE= }}
 
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===Structural and biochemical analysis of the link between enzymatic activity and olgomerization in AhpC, a bacterial peroxiredoxin.===
 
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{{ABSTRACT_PUBMED_16060667}}
 
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==Function==
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==Structural and biochemical analysis of the link between enzymatic activity and olgomerization in AhpC, a bacterial peroxiredoxin.==
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[[http://www.uniprot.org/uniprot/AHPC_SALTY AHPC_SALTY]] Directly reduces alkyl hydroperoxides with the use of electrons donated by the 57 kDa flavoprotein alkyl hydroperoxide reductase.
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<StructureSection load='1yep' size='340' side='right'caption='[[1yep]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1yep]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium Salmonella enterica subsp. enterica serovar Typhimurium]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1kyg 1kyg]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YEP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YEP 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]] 2.5&#8491;</td></tr>
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<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>
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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=1yep FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yep OCA], [https://pdbe.org/1yep PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yep RCSB], [https://www.ebi.ac.uk/pdbsum/1yep PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yep ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/AHPC_SALTY AHPC_SALTY] Directly reduces alkyl hydroperoxides with the use of electrons donated by the 57 kDa flavoprotein alkyl hydroperoxide reductase.
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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/ye/1yep_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=1yep 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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Peroxiredoxins (Prxs) make up a ubiquitous class (proposed EC 1.11.1.15) of cysteine-dependent peroxidases with roles in oxidant protection and signal transduction. An intriguing biophysical property of typical 2-Cys Prxs is the redox-dependent modulation of their oligomeric state between decamers and dimers at physiological concentrations. The functional consequences of this linkage are unknown, but on the basis of structural considerations, we hypothesized that decamer-building (dimer-dimer) interactions serve to stabilize a loop that forms the peroxidatic active site. Here, we address this important issue by studying mutations of Thr77 at the decamer-building interface of AhpC from Salmonella typhimurium. Ultracentrifugation studies revealed that two of the substitutions (T77I and T77D) successfully disrupted the decamer, while the third (T77V) actually enhanced decamer stability. Crystal structures of the decameric forms of all three mutant proteins provide a rationale for their properties. A new assay allowed the first ever measurement of the true k(cat) and K(m) values of wild-type AhpC with H(2)O(2), placing the catalytic efficiency at 4 x 10(7) M(-)(1) s(-)(1). T77V had slightly higher activity than wild-type enzyme, and both T77I and T77D exhibited ca. 100-fold lower catalytic efficiency, indicating that the decameric structure is quite important for, but not essential to, activity. The interplay between decamer formation and active site loop dynamics is emphasized by a decreased susceptibility of T77I and T77D to peroxide-mediated inactivation, and by an increase in the crystallographic B-factors in the active site loop, rather than at the site of the mutation, in the T77D variant.
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==About this Structure==
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Analysis of the link between enzymatic activity and oligomeric state in AhpC, a bacterial peroxiredoxin.,Parsonage D, Youngblood DS, Sarma GN, Wood ZA, Karplus PA, Poole LB Biochemistry. 2005 Aug 9;44(31):10583-92. PMID:16060667<ref>PMID:16060667</ref>
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[[1yep]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_typhimurium Salmonella enterica subsp. enterica serovar typhimurium]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1kyg 1kyg]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YEP 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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<ref group="xtra">PMID:016060667</ref><references group="xtra"/><references/>
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</div>
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[[Category: Peroxiredoxin]]
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<div class="pdbe-citations 1yep" style="background-color:#fffaf0;"></div>
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[[Category: Salmonella enterica subsp. enterica serovar typhimurium]]
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== References ==
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[[Category: Karplus, P A.]]
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<references/>
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[[Category: Parsonage, D.]]
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__TOC__
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[[Category: Poole, L B.]]
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</StructureSection>
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[[Category: Sarma, G N.]]
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[[Category: Large Structures]]
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[[Category: Wood, Z A.]]
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[[Category: Salmonella enterica subsp. enterica serovar Typhimurium]]
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[[Category: Youngblood, D S.]]
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[[Category: Karplus PA]]
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[[Category: Ahpc]]
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[[Category: Parsonage D]]
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[[Category: Oxidoreductase]]
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[[Category: Poole LB]]
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[[Category: Peroxidase]]
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[[Category: Sarma GN]]
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[[Category: Peroxiredoxin]]
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[[Category: Wood ZA]]
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[[Category: Youngblood DS]]

Current revision

Structural and biochemical analysis of the link between enzymatic activity and olgomerization in AhpC, a bacterial peroxiredoxin.

PDB ID 1yep

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