3ogl: Difference between revisions

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 ==Structure of COI1-ASK1 in complex with JA-isoleucine and the JAZ1 degron==
-<StructureSection load='3ogl' size='340' side='right' caption='[[3ogl]], [[Resolution|resolution]] 3.18&Aring;' scene=''>
+<StructureSection load='3ogl' size='340' side='right'caption='[[3ogl]], [[Resolution|resolution]] 3.18&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3ogl]] is a 23 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3OGL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3OGL FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3ogl]] is a 23 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=3OGL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3OGL FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=7JA:N-({(1R,2S)-3-OXO-2-[(2Z)-PENT-2-EN-1-YL]CYCLOPENTYL}ACETYL)-L-ISOLEUCINE'>7JA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 3.18&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3ogm|3ogm]], [[3ogk|3ogk]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=7JA:N-({(1R,2S)-3-OXO-2-[(2Z)-PENT-2-EN-1-YL]CYCLOPENTYL}ACETYL)-L-ISOLEUCINE'>7JA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">SKP1A, ASK1, SKP1, UIP1, At1g75950, T4O12.17 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH]), COI1, FBL2, At2g39940, T28M21.10 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</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=3ogl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ogl OCA], [https://pdbe.org/3ogl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ogl RCSB], [https://www.ebi.ac.uk/pdbsum/3ogl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ogl ProSAT]</span></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ogl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ogl OCA], [http://pdbe.org/3ogl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ogl RCSB], [http://www.ebi.ac.uk/pdbsum/3ogl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ogl ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/SKP1A_ARATH SKP1A_ARATH]] Involved in ubiquitination and subsequent proteasomal degradation of target proteins. Together with CUL1, RBX1 and a F-box protein, it forms a SCF E3 ubiquitin ligase complex. The functional specificity of this complex depends of the type of F-box protein. In the SCF complex, it serves as an adapter that links the F-box protein to CUL1. SCF(UFO) is required for vegetative and floral organ development as well as for male gametogenesis. SCF(TIR1) is involved in auxin signaling pathway. SCF(COI1) regulates responses to jasmonates. SCF(EID1) and SCF(AFR) are implicated in phytochrome A light signaling. SCF(ADO1), SCF(ADO2), SCF(ADO3) are related to the circadian clock. SCF(ORE9) seems to be involved in senescence. SCF(EBF1/EBF2) may regulate ethylene signaling. Plays a role during embryogenesis and early postembryonic development, especially during cell elongation and division. Contributes to the correct chromosome segregation during tetrad formation.<ref>PMID:10528262</ref> <ref>PMID:10398681</ref> <ref>PMID:10500191</ref> <ref>PMID:11526079</ref> <ref>PMID:12970487</ref> <ref>PMID:14688296</ref>  [[http://www.uniprot.org/uniprot/COI1_ARATH COI1_ARATH]] Required for jasmonate-regulated plant fertility and defense processes, and for coronatine and/or other elicitors perceptions/responses. Seems to not be required for meiosis. Required for the regulation of some genes induced by wounding, but not for all. Component of SCF(COI1) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins (probably including the ribulose bisphosphate carboxylase small chain 1B RBCS-1B and the histone deacetylase HDA6). These SCF complexes play crucial roles in regulating response to jasmonate, and their interactions with the COP9 signalosome (CSN) appear to be important for their activity. Interacts with TIFY10A and inositol pentakisphosphate to form a high-affinity jasmonates coreceptor. Involved in the regulation of plant gene expression during plant-pathogen interactions with Pseudomonas syringae and Alternaria brassicicola.<ref>PMID:9582125</ref> <ref>PMID:12244256</ref> <ref>PMID:10810145</ref> <ref>PMID:12172836</ref> <ref>PMID:12172031</ref> <ref>PMID:12445118</ref> <ref>PMID:12724535</ref> <ref>PMID:12805591</ref> <ref>PMID:14756769</ref>
+[https://www.uniprot.org/uniprot/COI1_ARATH COI1_ARATH] Required for jasmonate-regulated plant fertility and defense processes, and for coronatine and/or other elicitors perceptions/responses. Seems to not be required for meiosis. Required for the regulation of some genes induced by wounding, but not for all. Component of SCF(COI1) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins (probably including the ribulose bisphosphate carboxylase small chain 1B RBCS-1B and the histone deacetylase HDA6). These SCF complexes play crucial roles in regulating response to jasmonate, and their interactions with the COP9 signalosome (CSN) appear to be important for their activity. Interacts with TIFY10A and inositol pentakisphosphate to form a high-affinity jasmonates coreceptor. Involved in the regulation of plant gene expression during plant-pathogen interactions with Pseudomonas syringae and Alternaria brassicicola.<ref>PMID:9582125</ref> <ref>PMID:12244256</ref> <ref>PMID:10810145</ref> <ref>PMID:12172836</ref> <ref>PMID:12172031</ref> <ref>PMID:12445118</ref> <ref>PMID:12724535</ref> <ref>PMID:12805591</ref> <ref>PMID:14756769</ref>
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-Jasmonates are a family of plant hormones that regulate plant growth, development and responses to stress. The F-box protein CORONATINE INSENSITIVE 1 (COI1) mediates jasmonate signalling by promoting hormone-dependent ubiquitylation and degradation of transcriptional repressor JAZ proteins. Despite its importance, the mechanism of jasmonate perception remains unclear. Here we present structural and pharmacological data to show that the true Arabidopsis jasmonate receptor is a complex of both COI1 and JAZ. COI1 contains an open pocket that recognizes the bioactive hormone (3R,7S)-jasmonoyl-l-isoleucine (JA-Ile) with high specificity. High-affinity hormone binding requires a bipartite JAZ degron sequence consisting of a conserved alpha-helix for COI1 docking and a loop region to trap the hormone in its binding pocket. In addition, we identify a third critical component of the jasmonate co-receptor complex, inositol pentakisphosphate, which interacts with both COI1 and JAZ adjacent to the ligand. Our results unravel the mechanism of jasmonate perception and highlight the ability of F-box proteins to evolve as multi-component signalling hubs.
-Jasmonate perception by inositol-phosphate-potentiated COI1-JAZ co-receptor.,Sheard LB, Tan X, Mao H, Withers J, Ben-Nissan G, Hinds TR, Kobayashi Y, Hsu FF, Sharon M, Browse J, He SY, Rizo J, Howe GA, Zheng N Nature. 2010 Nov 18;468(7322):400-5. Epub 2010 Oct 6. PMID:20927106<ref>PMID:20927106</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 3ogl" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Arath]]
+[[Category: Arabidopsis thaliana]]
-[[Category: Ben-Nissan, G]]
+[[Category: Large Structures]]
-[[Category: Browse, J]]
+[[Category: Ben-Nissan G]]
-[[Category: He, S Y]]
+[[Category: Browse J]]
-[[Category: Hinds, T R]]
+[[Category: He SY]]
-[[Category: Howe, G A]]
+[[Category: Hinds TR]]
-[[Category: Hsu, F]]
+[[Category: Howe GA]]
-[[Category: Mao, H]]
+[[Category: Hsu F]]
-[[Category: Rizo, J]]
+[[Category: Mao H]]
-[[Category: Sharon, M]]
+[[Category: Rizo J]]
-[[Category: Sheard, L B]]
+[[Category: Sharon M]]
-[[Category: Tan, X]]
+[[Category: Sheard LB]]
-[[Category: Withers, J]]
+[[Category: Tan X]]
-[[Category: Zheng, N]]
+[[Category: Withers J]]
-[[Category: Leucine-rich repeat]]
+[[Category: Zheng N]]
-[[Category: Protein binding]]
-[[Category: Scf]]
-[[Category: Ubiquitin ligase]]