8pnv: Difference between revisions
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==Cryo-EM structure of styrene oxide isomerase== | |||
<StructureSection load='8pnv' size='340' side='right'caption='[[8pnv]], [[Resolution|resolution]] 2.05Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[8pnv]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_sp._VLB120 Pseudomonas sp. VLB120] and [https://en.wikipedia.org/wiki/Vicugna_pacos Vicugna pacos]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8PNV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8PNV FirstGlance]. <br> | |||
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 2.048Å</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></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=8pnv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8pnv OCA], [https://pdbe.org/8pnv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8pnv RCSB], [https://www.ebi.ac.uk/pdbsum/8pnv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8pnv ProSAT]</span></td></tr> | |||
</table> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Membrane-bound styrene oxide isomerase (SOI) catalyses the Meinwald rearrangement-a Lewis-acid-catalysed isomerization of an epoxide to a carbonyl compound-and has been used in single and cascade reactions. However, the structural information that explains its reaction mechanism has remained elusive. Here we determine cryo-electron microscopy (cryo-EM) structures of SOI bound to a single-domain antibody with and without the competitive inhibitor benzylamine, and elucidate the catalytic mechanism using electron paramagnetic resonance spectroscopy, functional assays, biophysical methods and docking experiments. We find ferric haem b bound at the subunit interface of the trimeric enzyme through H58, where Fe(III) acts as the Lewis acid by binding to the epoxide oxygen. Y103 and N64 and a hydrophobic pocket binding the oxygen of the epoxide and the aryl group, respectively, position substrates in a manner that explains the high regio-selectivity and stereo-specificity of SOI. Our findings can support extending the range of epoxide substrates and be used to potentially repurpose SOI for the catalysis of new-to-nature Fe-based chemical reactions. | |||
Structural basis of the Meinwald rearrangement catalysed by styrene oxide isomerase.,Khanppnavar B, Choo JPS, Hagedoorn PL, Smolentsev G, Stefanic S, Kumaran S, Tischler D, Winkler FK, Korkhov VM, Li Z, Kammerer RA, Li X Nat Chem. 2024 May 14. doi: 10.1038/s41557-024-01523-y. PMID:38744914<ref>PMID:38744914</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
[[Category: | </div> | ||
<div class="pdbe-citations 8pnv" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Large Structures]] | |||
[[Category: Pseudomonas sp. VLB120]] | |||
[[Category: Vicugna pacos]] | |||
[[Category: Khanppnavar B]] | |||
[[Category: Korkhov B]] | |||
[[Category: Li X]] | |||
Latest revision as of 08:26, 12 June 2024
Cryo-EM structure of styrene oxide isomeraseCryo-EM structure of styrene oxide isomerase
Structural highlights
Publication Abstract from PubMedMembrane-bound styrene oxide isomerase (SOI) catalyses the Meinwald rearrangement-a Lewis-acid-catalysed isomerization of an epoxide to a carbonyl compound-and has been used in single and cascade reactions. However, the structural information that explains its reaction mechanism has remained elusive. Here we determine cryo-electron microscopy (cryo-EM) structures of SOI bound to a single-domain antibody with and without the competitive inhibitor benzylamine, and elucidate the catalytic mechanism using electron paramagnetic resonance spectroscopy, functional assays, biophysical methods and docking experiments. We find ferric haem b bound at the subunit interface of the trimeric enzyme through H58, where Fe(III) acts as the Lewis acid by binding to the epoxide oxygen. Y103 and N64 and a hydrophobic pocket binding the oxygen of the epoxide and the aryl group, respectively, position substrates in a manner that explains the high regio-selectivity and stereo-specificity of SOI. Our findings can support extending the range of epoxide substrates and be used to potentially repurpose SOI for the catalysis of new-to-nature Fe-based chemical reactions. Structural basis of the Meinwald rearrangement catalysed by styrene oxide isomerase.,Khanppnavar B, Choo JPS, Hagedoorn PL, Smolentsev G, Stefanic S, Kumaran S, Tischler D, Winkler FK, Korkhov VM, Li Z, Kammerer RA, Li X Nat Chem. 2024 May 14. doi: 10.1038/s41557-024-01523-y. PMID:38744914[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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