6ip4 - Revision history

OCA at 09:48, 22 November 2023

2023-11-22T09:48:35Z

←Older revision		Revision as of 09:48, 22 November 2023
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	<StructureSection load='6ip4' size='340' side='right'caption='[[6ip4]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='6ip4' size='340' side='right'caption='[[6ip4]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ip4]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IP4 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6IP4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ip4]] 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=6IP4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6IP4 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=OGA:N-OXALYLGLYCINE'>OGA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN~~</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]] 2.6Å</td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=M3L:N-TRIMETHYLLYSINE'>M3L~~</scene></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=M3L:N-TRIMETHYLLYSINE'>M3L</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=OGA:N-OXALYLGLYCINE'>OGA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=6ip4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ip4 OCA], [~~http~~://pdbe.org/6ip4 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ip4 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ip4 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ip4 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=6ip4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ip4 OCA], [https://pdbe.org/6ip4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ip4 RCSB], [https://www.ebi.ac.uk/pdbsum/6ip4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ip4 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/JMJ13_ARATH JMJ13_ARATH] Histone demethylase that demethylates 'Lys-27' (H3K27me) of histone H3 with a specific activity for H3K27me3 and involved in the regulation of gene expression (PubMed:30899015). Acts as a temperature and photoperiod dependent flowering repressor (PubMed:30899015).<ref>PMID:30899015</ref>
	<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 6ip4" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6ip4" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Jumonji domain-containing protein 3D structures\|Jumonji domain-containing protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Arabidopsis thaliana]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Du, J]]	+	[[Category: Du J]]
-	[[Category: Hu, H]]	+	[[Category: Hu H]]
-	~~[[Category: Epigenetic]]~~	+
-	~~[[Category: Flowering]]~~	+
-	~~[[Category: Gene regulation]]~~	+
-	~~[[Category: Histone modification~~]]	+

OCA at 07:23, 10 April 2019

2019-04-10T07:23:34Z

←Older revision		Revision as of 07:23, 10 April 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6ip4 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of Arabidopsis thaliana JMJ13 catalytic domain in complex with NOG and an H3K27me3 peptide==
		+	<StructureSection load='6ip4' size='340' side='right'caption='[[6ip4]], [[Resolution\|resolution]] 2.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6ip4]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IP4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IP4 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=OGA:N-OXALYLGLYCINE'>OGA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=M3L:N-TRIMETHYLLYSINE'>M3L</scene></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=6ip4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ip4 OCA], [http://pdbe.org/6ip4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ip4 RCSB], [http://www.ebi.ac.uk/pdbsum/6ip4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ip4 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In plants, flowering time is controlled by environmental signals such as day-length and temperature, which regulate the floral pathway integrators, including FLOWERING LOCUS T (FT), by genetic and epigenetic mechanisms. Here, we identify an H3K27me3 demethylase, JUMONJI 13 (JMJ13), which regulates flowering time in Arabidopsis. Structural characterization of the JMJ13 catalytic domain in complex with its substrate peptide reveals that H3K27me3 is specifically recognized through hydrogen bonding and hydrophobic interactions. Under short-day conditions, the jmj13 mutant flowers early and has increased FT expression at high temperatures, but not at low temperatures. In contrast, jmj13 flowers early in long-day conditions regardless of temperature. Long-day condition and higher temperature induce the expression of JMJ13 and increase accumulation of JMJ13. Together, our data suggest that the H3K27me3 demethylase JMJ13 acts as a temperature- and photoperiod-dependent flowering repressor.

-	~~Authors~~:	+	The Arabidopsis H3K27me3 demethylase JUMONJI 13 is a temperature and photoperiod dependent flowering repressor.,Zheng S, Hu H, Ren H, Yang Z, Qiu Q, Qi W, Liu X, Chen X, Cui X, Li S, Zhou B, Sun D, Cao X, Du J Nat Commun. 2019 Mar 21;10(1):1303. doi: 10.1038/s41467-019-09310-x. PMID:30899015<ref>PMID:30899015</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6ip4" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Du, J]]
		+	[[Category: Hu, H]]
		+	[[Category: Epigenetic]]
		+	[[Category: Flowering]]
		+	[[Category: Gene regulation]]
		+	[[Category: Histone modification]]

OCA at 05:07, 5 December 2018

2018-12-05T05:07:57Z

←Older revision		Revision as of 05:07, 5 December 2018
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6ip4 is ON HOLD	+	The entry 6ip4 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6ip4" [edit=sysop:move=sysop]

2018-11-07T10:46:15Z

Protected "6ip4" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:46, 7 November 2018

OCA: New page: '''Unreleased structure''' The entry 6ip4 is ON HOLD Authors: Description: Category: Unreleased Structures

2018-11-07T10:46:14Z

New page: '''Unreleased structure''' The entry 6ip4 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6ip4 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]