5fw4: Difference between revisions
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New page: '''Unreleased structure''' The entry 5fw4 is ON HOLD Authors: Rahmanpour, R., Rea, D., Jamshidi, S., Fulop, V., Bugg, T.D.H. Description: Structure of Thermobifida fusca DyP-type Perox... |
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==Structure of Thermobifida fusca DyP-type Peroxidase and Activity towards Kraft Lignin and Lignin Model Compounds== | |||
<StructureSection load='5fw4' size='340' side='right'caption='[[5fw4]], [[Resolution|resolution]] 1.80Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[5fw4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermobifida_fusca_YX Thermobifida fusca YX]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FW4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5FW4 FirstGlance]. <br> | |||
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</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=5fw4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fw4 OCA], [https://pdbe.org/5fw4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5fw4 RCSB], [https://www.ebi.ac.uk/pdbsum/5fw4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5fw4 ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/DYP_THEFY DYP_THEFY] Peroxidase that is able to convert a large number of compounds, but its physiological substrate is not known. Shows high reactivity towards anthraquinone dyes (e.g. Reactive Blue 19) and a modest activity towards standard peroxidase substrates (such as guaiacol and 2,6-dimethoxyphenol) and azo dyes (e.g. Reactive Blue 5). Is also able to oxidize aromatic sulfides enantioselectively, resulting in the corresponding (R)-sulfoxides, but with a poor efficiency. Does not display catalase activity.<ref>PMID:19967355</ref> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
A Dyp-type peroxidase enzyme from thermophilic cellulose degrader Thermobifida fusca (TfuDyP) was investigated for catalytic ability towards lignin oxidation. TfuDyP was characterised kinetically against a range of phenolic substrates, and a compound I reaction intermediate was observed via pre-steady state kinetic analysis at lambdamax 404 nm. TfuDyP showed reactivity towards Kraft lignin, and was found to oxidise a beta-aryl ether lignin model compound, forming an oxidised dimer. A crystal structure of TfuDyP was determined, to 1.8 A resolution, which was found to contain a diatomic oxygen ligand bound to the heme centre, positioned close to active site residues Asp-203 and Arg-315. The structure contains two channels providing access to the heme cofactor for organic substrates and hydrogen peroxide. Site-directed mutant D203A showed no activity towards phenolic substrates, but reduced activity towards ABTS, while mutant R315Q showed no activity towards phenolic substrates, nor ABTS. | |||
Structure of Thermobifida fusca DyP-type peroxidase and activity towards Kraft lignin and lignin model compounds.,Rahmanpour R, Rea D, Jamshidi S, Fulop V, Bugg TD Arch Biochem Biophys. 2016 Mar 15;594:54-60. doi: 10.1016/j.abb.2016.02.019. Epub, 2016 Feb 18. PMID:26901432<ref>PMID:26901432</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
[[Category: | </div> | ||
[[Category: | <div class="pdbe-citations 5fw4" style="background-color:#fffaf0;"></div> | ||
[[Category: Bugg | == References == | ||
[[Category: | <references/> | ||
[[Category: Jamshidi | __TOC__ | ||
[[Category: | </StructureSection> | ||
[[Category: Large Structures]] | |||
[[Category: Thermobifida fusca YX]] | |||
[[Category: Bugg TDH]] | |||
[[Category: Fulop V]] | |||
[[Category: Jamshidi S]] | |||
[[Category: Rahmanpour R]] | |||
[[Category: Rea D]] | |||
Latest revision as of 13:29, 26 July 2023
Structure of Thermobifida fusca DyP-type Peroxidase and Activity towards Kraft Lignin and Lignin Model Compounds
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