8djs - Revision history

OCA at 15:03, 13 August 2026

2026-08-13T15:03:32Z

@@ Line 10: / Line 10: @@
 == Function ==
 [https://www.uniprot.org/uniprot/C5WNL8_SORBI C5WNL8_SORBI]
 __TOC__
 </StructureSection>

OCA at 10:10, 25 October 2023

2023-10-25T10:10:31Z

← Older revision		Revision as of 10:10, 25 October 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[8djs]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Sorghum_bicolor Sorghum bicolor]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8DJS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8DJS FirstGlance]. <br>		<table><tr><td colspan='2'>[[8djs]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Sorghum_bicolor Sorghum bicolor]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8DJS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8DJS FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ASC:ASCORBIC+ACID'>ASC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 1.19Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ASC:ASCORBIC+ACID'>ASC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=8djs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8djs OCA], [https://pdbe.org/8djs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8djs RCSB], [https://www.ebi.ac.uk/pdbsum/8djs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8djs 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=8djs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8djs OCA], [https://pdbe.org/8djs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8djs RCSB], [https://www.ebi.ac.uk/pdbsum/8djs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8djs ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:31, 18 January 2023

2023-01-18T07:31:40Z

← Older revision		Revision as of 07:31, 18 January 2023
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	~~'''Unreleased structure'''~~

	~~The entry~~ 8djs is ~~ON HOLD until Paper~~ Publication		==Cytosolic ascorbate peroxidase from Sorghum bicolor - one ascorbate complex==
			<StructureSection load='8djs' size='340' side='right'caption='[[8djs]], [[Resolution\|resolution]] 1.19Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[8djs]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Sorghum_bicolor Sorghum bicolor]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8DJS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8DJS FirstGlance]. <br>
			</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ASC:ASCORBIC+ACID'>ASC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=8djs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8djs OCA], [https://pdbe.org/8djs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8djs RCSB], [https://www.ebi.ac.uk/pdbsum/8djs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8djs ProSAT]</span></td></tr>
			</table>
			== Function ==
			[https://www.uniprot.org/uniprot/C5WNL8_SORBI C5WNL8_SORBI]
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			In planta, H2O2 is produced as a by-product of enzymatic reactions and during defense responses. Ascorbate peroxidase (APX) is a key enzyme involved in scavenging cytotoxic H2O2. Here, we report the crystal structure of cytosolic APX from sorghum (Sorghum bicolor) (Sobic.001G410200). While the overall structure of SbAPX was similar to that of other APXs, SbAPX uniquely displayed four bound ascorbates rather than one. In addition to the É£-heme pocket identified in other APXs, ascorbates were bound at the delta-meso and two solvent-exposed pockets. Consistent with the presence of multiple binding sites, our results indicated that the H2O2-dependent oxidation of ascorbate displayed positive cooperativity. Bound ascorbate at two surface sites established an intricate proton network with ascorbate at the É£-heme edge and delta-meso sites. Based on crystal structures, steady-state kinetics and site-directed mutagenesis results, both ascorbate molecules at the É£-heme edge and the one at the surface are expected to participate in the oxidation reaction. We provide evidence that the H2O2-dependent oxidation of ascorbate by APX produces a C2-hydrated bicyclic hemiketal form of dehydroascorbic acid at the É£-heme edge, indicating two successive electron transfers from a single bound ascorbate. In addition, the delta-meso site was shared with several organic compounds, including p-coumaric acid and other phenylpropanoids, for the potential radicalization reaction. Site-directed mutagenesis of the critical residue at the É£-heme edge (R172A) only partially reduced polymerization activity. Thus, APX removes stress-generated H2O2 with ascorbates, and also uses this same H2O2 to potentially fortify cell walls via oxidative polymerization of phenylpropanoids in response to stress.

	~~Authors:~~ Zhang, B., Kang, C.		A sorghum ascorbate peroxidase with four binding sites has activity against ascorbate and phenylpropanoids.,Zhang B, Lewis JA, Vermerris W, Sattler SE, Kang C Plant Physiol. 2022 Dec 28:kiac604. doi: 10.1093/plphys/kiac604. PMID:36575825<ref>PMID:36575825</ref>

	~~Description~~: ~~Cytosolic ascorbate peroxidase from Sorghum bicolor -one ascorbate complex~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	[[Category: ~~Unreleased~~ Structures]]		</div>
	[[Category: ~~Zhang, B~~]]		<div class="pdbe-citations 8djs" style="background-color:#fffaf0;"></div>
	[[Category: Kang, C]]		== References ==
			<references/>
			__TOC__
			</StructureSection>
			[[Category: Large Structures]]
			[[Category: Sorghum bicolor]]
			[[Category: Kang C]]
			[[Category: Zhang B]]

OCA at 04:00, 10 August 2022

2022-08-10T04:00:19Z

← Older revision		Revision as of 04:00, 10 August 2022
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 8djs is ON HOLD		The entry 8djs is ON HOLD until Paper Publication

	Authors: Zhang, B., Kang, C.		Authors: Zhang, B., Kang, C.

OCA: Protected "8djs" [edit=sysop:move=sysop]

2022-07-13T04:16:19Z

Protected "8djs" [edit=sysop:move=sysop]

← Older revision	Revision as of 04:16, 13 July 2022
(No difference)

OCA: New page: '''Unreleased structure''' The entry 8djs is ON HOLD Authors: Zhang, B., Kang, C. Description: Cytosolic ascorbate peroxidase from Sorghum bicolor -one ascorbate complex [[Category: Un...

2022-07-13T04:16:18Z

New page: '''Unreleased structure''' The entry 8djs is ON HOLD Authors: Zhang, B., Kang, C. Description: Cytosolic ascorbate peroxidase from Sorghum bicolor -one ascorbate complex [[Category: Un...

New page

'''Unreleased structure'''

The entry 8djs is ON HOLD

Authors: Zhang, B., Kang, C.

Description: Cytosolic ascorbate peroxidase from Sorghum bicolor -one ascorbate complex
[[Category: Unreleased Structures]]
[[Category: Zhang, B]]
[[Category: Kang, C]]