7bi1: Difference between revisions
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<StructureSection load='7bi1' size='340' side='right'caption='[[7bi1]], [[Resolution|resolution]] 1.50Å' scene=''> | <StructureSection load='7bi1' size='340' side='right'caption='[[7bi1]], [[Resolution|resolution]] 1.50Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[7bi1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/ | <table><tr><td colspan='2'>[[7bi1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Glycine_max Glycine max]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BI1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BI1 FirstGlance]. <br> | ||
</td></tr><tr id=' | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5Å</td></tr> | ||
<tr id=' | <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=K:POTASSIUM+ION'>K</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=7bi1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bi1 OCA], [https://pdbe.org/7bi1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bi1 RCSB], [https://www.ebi.ac.uk/pdbsum/7bi1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bi1 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=7bi1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bi1 OCA], [https://pdbe.org/7bi1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bi1 RCSB], [https://www.ebi.ac.uk/pdbsum/7bi1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bi1 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/Q43758_SOYBN Q43758_SOYBN] | |||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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</div> | </div> | ||
<div class="pdbe-citations 7bi1" style="background-color:#fffaf0;"></div> | <div class="pdbe-citations 7bi1" style="background-color:#fffaf0;"></div> | ||
==See Also== | |||
*[[Ascorbate peroxidase 3D structures|Ascorbate peroxidase 3D structures]] | |||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Glycine | [[Category: Glycine max]] | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Kwon | [[Category: Kwon H]] | ||
[[Category: Moody | [[Category: Moody PCE]] | ||
[[Category: Raven | [[Category: Raven EL]] | ||
[[Category: Sugimoto | [[Category: Sugimoto H]] | ||
[[Category: Tosha | [[Category: Tosha T]] | ||
Latest revision as of 15:28, 1 February 2024
XFEL crystal structure of soybean ascorbate peroxidase compound IIXFEL crystal structure of soybean ascorbate peroxidase compound II
Structural highlights
FunctionPublication Abstract from PubMedOxygen activation in all heme enzymes requires the formation of high oxidation states of iron, usually referred to as ferryl heme. There are two known intermediates: Compound I and Compound II. The nature of the ferryl heme - and whether it is an Fe IV =O or Fe IV -OH species - is important for controlling reactivity across groups of heme enzymes. The most recent evidence for Compound I indicates that the ferryl heme is an unprotonated Fe IV =O species. For Compound II, the nature of the ferryl heme is not unambiguously established. Here, we report 1.06 A and 1.50 A crystal structures for Compound II intermediates in cytochrome c peroxidase (C c P) and ascorbate peroxidase (APX), collected using the X-ray free electron laser at SACLA. The structures reveal differences between the two peroxidases. The iron-oxygen bond length in C c P (1.76 A) is notably shorter than in APX (1.87 A). The results indicate that the ferryl species is finely tuned across Compound I and Compound II species in closely related peroxidase enzymes. We propose that this fine-tuning is linked to the functional need for proton delivery to the heme. XFEL Crystal Structures of Peroxidase Compound II.,Kwon H, Basran J, Pathak C, Hussain M, Freeman SL, Fielding AJ, Bailey AJ, Stefanou N, Sparkes HA, Tosha T, Yamashita K, Hirata K, Murakami H, Ueno G, Ago H, Tono K, Yamamoto M, Sawai H, Shiro Y, Sugimoto H, Raven E, Moody PCE Angew Chem Int Ed Engl. 2021 Apr 7. doi: 10.1002/anie.202103010. PMID:33826799[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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