6lsv

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure of JOX2 in complex with 2OG, Fe, and JA

Structural highlights

6lsv is a 2 chain structure with sequence from Arabidopsis thaliana. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.651Å
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

JOX2_ARATH 2-oxoglutarate-dependent dioxygenase involved in the oxidation of jasmonate (JA), a stress-induced phytohormone synthesized in response to attack by pathogens and herbivores, which triggers the activation of defense responses via the JA-mediated signaling pathway (PubMed:28760569, PubMed:28559313). Converts JA to 12-hydroxyjasmonate (12OH-JA), an inactive form of JA (PubMed:28760569, PubMed:28559313, PubMed:33516967). Is specific to free JA, and cannot oxidize the bioactive form jasmonoyl-L-isoleucine (JA-Ile) or other JA-amino acid conjugates (PubMed:28760569, PubMed:33516967). Prevents over-accumulation of JA and indirectly its bioactive form JA-Ile under stress response (PubMed:28760569, PubMed:28559313). Acts as negative regulator of JA-mediated defense signaling, by contributing to 12OH-JA accumulation, which represses JA defense responses upon infection by the fungal pathogen Botrytis cinerea (PubMed:28760569, PubMed:28559313). Acts as negative regulator of JA-mediated defense responses upon infestation by the herbivorous caterpillar Mamestra brassicae (PubMed:28559313). May be involved in the catabolism of cytotoxic polycyclic aromatic hydrocarbons (PAHs) (PubMed:27637093).^[1] ^[2] ^[3] ^[4]

Publication Abstract from PubMed

The jasmonic acid (JA) signaling pathway is used by plants to control wound responses. The persistent accumulation of JA inhibits plant growth, and the hydroxylation of JA to 12-hydroxy-JA by JASMONATE-INDUCED OXYGENASEs (JOXs, also named jasmonic acid oxidases) is therefore vital for plant growth, while structural details of JA recognition by JOXs are unknown. Here, we present the 2.65 A resolution X-ray crystal structure of Arabidopsis JOX2 in complex with its substrate JA and its co-substrates 2-oxoglutarate and Fe(II). JOX2 contains a distorted double-stranded beta helix (DSBH) core flanked by alpha helices and loops. JA is bound in the narrow substrate pocket by hydrogen bonds with the arginine triad R225, R350, and R354 and by hydrophobic interactions mainly with the phenylalanine triad F157, F317, and F346. The most critical residues for JA binding are F157 and R225, both from the DSBH core, which interact with the cyclopentane ring of JA. The spatial distribution of critical residues for JA binding and the shape of the substrate-binding pocket together define the substrate selectivity of the JOXs. Sequence alignment shows that these critical residues are conserved among JOXs from higher plants. Collectively, our study provides insights into the mechanism by which higher plants hydroxylate the hormone JA.

Structure-guided analysis of Arabidopsis JASMONATE-INDUCED OXYGENASE (JOX) 2 reveals key residues for recognition of jasmonic acid substrate by plant JOXs.,Zhang X, Wang D, Elberse J, Qi L, Shi W, Peng YL, Schuurink RC, Van den Ackerveken G, Liu J Mol Plant. 2021 May 3;14(5):820-828. doi: 10.1016/j.molp.2021.01.017. Epub 2021, Jan 28. PMID:33516967^[5]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Hernandez-Vega JC, Cady B, Kayanja G, Mauriello A, Cervantes N, Gillespie A, Lavia L, Trujillo J, Alkio M, Colon-Carmona A. Detoxification of polycyclic aromatic hydrocarbons (PAHs) in Arabidopsis thaliana involves a putative flavonol synthase. J Hazard Mater. 2017 Jan 5;321:268-280. doi: 10.1016/j.jhazmat.2016.08.058. Epub , 2016 Aug 24. PMID:27637093 doi:http://dx.doi.org/10.1016/j.jhazmat.2016.08.058
↑ Caarls L, Elberse J, Awwanah M, Ludwig NR, de Vries M, Zeilmaker T, Van Wees SCM, Schuurink RC, Van den Ackerveken G. Arabidopsis JASMONATE-INDUCED OXYGENASES down-regulate plant immunity by hydroxylation and inactivation of the hormone jasmonic acid. Proc Natl Acad Sci U S A. 2017 Jun 13;114(24):6388-6393. PMID:28559313 doi:10.1073/pnas.1701101114
↑ Smirnova E, Marquis V, Poirier L, Aubert Y, Zumsteg J, Ménard R, Miesch L, Heitz T. Jasmonic Acid Oxidase 2 Hydroxylates Jasmonic Acid and Represses Basal Defense and Resistance Responses against Botrytis cinerea Infection. Mol Plant. 2017 Sep 12;10(9):1159-1173. PMID:28760569 doi:10.1016/j.molp.2017.07.010
↑ Zhang X, Wang D, Elberse J, Qi L, Shi W, Peng YL, Schuurink RC, Van den Ackerveken G, Liu J. Structure-guided analysis of Arabidopsis JASMONATE-INDUCED OXYGENASE (JOX) 2 reveals key residues for recognition of jasmonic acid substrate by plant JOXs. Mol Plant. 2021 May 3;14(5):820-828. doi: 10.1016/j.molp.2021.01.017. Epub 2021, Jan 28. PMID:33516967 doi:http://dx.doi.org/10.1016/j.molp.2021.01.017
↑ Zhang X, Wang D, Elberse J, Qi L, Shi W, Peng YL, Schuurink RC, Van den Ackerveken G, Liu J. Structure-guided analysis of Arabidopsis JASMONATE-INDUCED OXYGENASE (JOX) 2 reveals key residues for recognition of jasmonic acid substrate by plant JOXs. Mol Plant. 2021 May 3;14(5):820-828. doi: 10.1016/j.molp.2021.01.017. Epub 2021, Jan 28. PMID:33516967 doi:http://dx.doi.org/10.1016/j.molp.2021.01.017

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/6lsv"

Categories: Arabidopsis thaliana | Large Structures | Liu J | Wang D | Zhang X

@@ Line 3: / Line 3: @@
 <StructureSection load='6lsv' size='340' side='right'caption='[[6lsv]], [[Resolution|resolution]] 2.65&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6lsv]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6LSV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6LSV FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6lsv]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6LSV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6LSV FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=JAA:{(1R,2R)-3-OXO-2-[(2Z)-PENT-2-EN-1-YL]CYCLOPENTYL}ACETIC+ACID'>JAA</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]] 2.651&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">At5g05600, MOP10.14 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=JAA:{(1R,2R)-3-OXO-2-[(2Z)-PENT-2-EN-1-YL]CYCLOPENTYL}ACETIC+ACID'>JAA</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=6lsv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6lsv OCA], [https://pdbe.org/6lsv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6lsv RCSB], [https://www.ebi.ac.uk/pdbsum/6lsv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6lsv ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/DIOX5_ARATH DIOX5_ARATH]] Involved in anthocyanin and protoanthocyanidin biosynthesis by catalyzing the oxidation of leucoanthocyanidins into anthocyanidins (By similarity). May be involved in the catabolism of cytotoxic polycyclic aromatic hydrocarbons (PAHs) (PubMed:27637093).[UniProtKB:Q96323]<ref>PMID:27637093</ref>
+[https://www.uniprot.org/uniprot/JOX2_ARATH JOX2_ARATH] 2-oxoglutarate-dependent dioxygenase involved in the oxidation of jasmonate (JA), a stress-induced phytohormone synthesized in response to attack by pathogens and herbivores, which triggers the activation of defense responses via the JA-mediated signaling pathway (PubMed:28760569, PubMed:28559313). Converts JA to 12-hydroxyjasmonate (12OH-JA), an inactive form of JA (PubMed:28760569, PubMed:28559313, PubMed:33516967). Is specific to free JA, and cannot oxidize the bioactive form jasmonoyl-L-isoleucine (JA-Ile) or other JA-amino acid conjugates (PubMed:28760569, PubMed:33516967). Prevents over-accumulation of JA and indirectly its bioactive form JA-Ile under stress response (PubMed:28760569, PubMed:28559313). Acts as negative regulator of JA-mediated defense signaling, by contributing to 12OH-JA accumulation, which represses JA defense responses upon infection by the fungal pathogen Botrytis cinerea (PubMed:28760569, PubMed:28559313). Acts as negative regulator of JA-mediated defense responses upon infestation by the herbivorous caterpillar Mamestra brassicae (PubMed:28559313). May be involved in the catabolism of cytotoxic polycyclic aromatic hydrocarbons (PAHs) (PubMed:27637093).<ref>PMID:27637093</ref> <ref>PMID:28559313</ref> <ref>PMID:28760569</ref> <ref>PMID:33516967</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 23: / Line 23: @@
 __TOC__
 </StructureSection>
-[[Category: Arath]]
+[[Category: Arabidopsis thaliana]]
 [[Category: Large Structures]]
-[[Category: Liu, J]]
+[[Category: Liu J]]
-[[Category: Wang, D]]
+[[Category: Wang D]]
-[[Category: Zhang, X]]
+[[Category: Zhang X]]
-[[Category: 2og oxygenase]]
-[[Category: Jasmonic acid]]
-[[Category: Plant protein]]

6lsv

From Proteopedia

Current revision

Crystal structure of JOX2 in complex with 2OG, Fe, and JA

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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