3p9p: Difference between revisions

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<StructureSection load='3p9p' size='340' side='right'caption='[[3p9p]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
<StructureSection load='3p9p' size='340' side='right'caption='[[3p9p]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3p9p]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3P9P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3P9P FirstGlance]. <br>
<table><tr><td colspan='2'>[[3p9p]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3P9P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3P9P FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HDD:CIS-HEME+D+HYDROXYCHLORIN+GAMMA-SPIROLACTONE'>HDD</scene>, <scene name='pdbligand=HDE:CIS-HEME+D+HYDROXYCHLORIN+GAMMA-SPIROLACTONE+17R,+18S'>HDE</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</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]] 1.5&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3p9q|3p9q]], [[3p9r|3p9r]], [[3p9s|3p9s]]</div></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HDD:CIS-HEME+D+HYDROXYCHLORIN+GAMMA-SPIROLACTONE'>HDD</scene>, <scene name='pdbligand=HDE:CIS-HEME+D+HYDROXYCHLORIN+GAMMA-SPIROLACTONE+17R,+18S'>HDE</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">b1732, JW1721, katE ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Catalase Catalase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.6 1.11.1.6] </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=3p9p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3p9p OCA], [https://pdbe.org/3p9p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3p9p RCSB], [https://www.ebi.ac.uk/pdbsum/3p9p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3p9p 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=3p9p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3p9p OCA], [https://pdbe.org/3p9p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3p9p RCSB], [https://www.ebi.ac.uk/pdbsum/3p9p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3p9p ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[https://www.uniprot.org/uniprot/CATE_ECOLI CATE_ECOLI]] Decomposes hydrogen peroxide into water and oxygen; serves to protect cells from the toxic effects of hydrogen peroxide.  
[https://www.uniprot.org/uniprot/CATE_ECOLI CATE_ECOLI] Decomposes hydrogen peroxide into water and oxygen; serves to protect cells from the toxic effects of hydrogen peroxide.
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Heme-containing catalases have been extensively studied, revealing the roles of many residues, the existence of two heme orientations, flipped 180 degrees relative to one another along the propionate-vinyl axis, and the presence of both heme b and heme d. The focus of this report is a residue, situated adjacent to the vinyl groups of the heme at the entrance of the lateral channel, with an unusual main chain geometry that is conserved in all catalase structures so far determined. In Escherichia coli catalase HPII, the residue is Ile274, and replacing it with Gly, Ala, and Val, found at the same location in other catalases, results in a reduction in catalytic efficiency, a reduced intensity of the Soret absorbance band, and a mixture of heme orientations and species. The reduced turnover rates and higher H(2)O(2) concentrations required to attain equivalent reaction velocities are explained in terms of less efficient containment of substrate H(2)O(2) in the heme cavity arising from easier escape through the more open entrance to the lateral channel created by the smaller side chains of Gly and Ala. Inserting a Cys at position 274 resulted in the heme being covalently linked to the protein through a Cys-vinyl bond that is hypersensitive to X-ray irradiation being largely degraded within seconds of exposure to the X-ray beam. Two heme orientations, flipped along the propionate-vinyl axis, are found in the Ala, Val, and Cys variants.
 
Modulation of heme orientation and binding by a single residue in catalase HPII of Escherichia coli.,Jha V, Louis S, Chelikani P, Carpena X, Donald LJ, Fita I, Loewen PC Biochemistry. 2011 Mar 29;50(12):2101-10. Epub 2011 Mar 3. PMID:21332158<ref>PMID:21332158</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3p9p" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
*[[Catalase 3D structures|Catalase 3D structures]]
*[[Catalase 3D structures|Catalase 3D structures]]
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Catalase]]
[[Category: Escherichia coli K-12]]
[[Category: Ecoli]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Carpena, X]]
[[Category: Carpena X]]
[[Category: Chelikani, P]]
[[Category: Chelikani P]]
[[Category: Fita, I]]
[[Category: Fita I]]
[[Category: Jha, V]]
[[Category: Jha V]]
[[Category: Loewen, P C]]
[[Category: Loewen PC]]
[[Category: Louis, S]]
[[Category: Louis S]]
[[Category: Heme orientation]]
[[Category: I274a variant]]
[[Category: Oxidoreductase]]

Revision as of 16:29, 1 March 2024

Structure of I274V variant of E. coli KatEStructure of I274V variant of E. coli KatE

Structural highlights

3p9p is a 4 chain structure with sequence from Escherichia coli K-12. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.5Å
Ligands:, ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

CATE_ECOLI Decomposes hydrogen peroxide into water and oxygen; serves to protect cells from the toxic effects of hydrogen peroxide.

See Also

3p9p, resolution 1.50Å

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