6ip0 - Revision history

OCA at 10:34, 27 March 2024

OCA — Wed, 27 Mar 2024 10:34:30 GMT

←Older revision		Revision as of 10:34, 27 March 2024
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	<StructureSection load='6ip0' size='340' side='right'caption='[[6ip0]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='6ip0' size='340' side='right'caption='[[6ip0]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ip0]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IP0 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6IP0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ip0]] is a 1 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=6IP0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6IP0 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</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]] 2.4Å</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=6ip0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ip0 OCA], [~~http~~://pdbe.org/6ip0 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ip0 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ip0 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ip0 ProSAT]</span></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=NI:NICKEL+(II)+ION'>NI</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'>[https://proteopedia.org/fgij/fg.htm?mol=6ip0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ip0 OCA], [https://pdbe.org/6ip0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ip0 RCSB], [https://www.ebi.ac.uk/pdbsum/6ip0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ip0 ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[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>
-	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.	+

-	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>	+	==See Also==
-		+	*[[Jumonji domain-containing protein 3D structures\|Jumonji domain-containing protein 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe~~-~~citations 6ip0" style="background~~-~~color:#fffaf0;"></div>~~	+
	== 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: Arabidopsis]]~~	+
-	~~[[Category: Epigenetic]]~~	+
-	~~[[Category: Flowering]]~~	+
-	~~[[Category: Gene regulation]]~~	+
-	~~[[Category: H3k27me3]]~~	+
-	~~[[Category: Histone modification~~]]	+

OCA at 07:23, 10 April 2019

OCA — Wed, 10 Apr 2019 07:23:13 GMT

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

-	~~The entry~~ 6ip0 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of Arabidopsis thaliana JMJ13 catalytic domain in complex with AKG==
		+	<StructureSection load='6ip0' size='340' side='right'caption='[[6ip0]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6ip0]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IP0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IP0 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</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=6ip0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ip0 OCA], [http://pdbe.org/6ip0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ip0 RCSB], [http://www.ebi.ac.uk/pdbsum/6ip0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ip0 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 6ip0" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Du, J]]
		+	[[Category: Hu, H]]
		+	[[Category: Arabidopsis]]
		+	[[Category: Epigenetic]]
		+	[[Category: Flowering]]
		+	[[Category: Gene regulation]]
		+	[[Category: H3k27me3]]
		+	[[Category: Histone modification]]

OCA at 05:07, 5 December 2018

OCA — Wed, 05 Dec 2018 05:07:54 GMT

←Older revision		Revision as of 05:07, 5 December 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6ip0 is ON HOLD	+	The entry 6ip0 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6ip0" [edit=sysop:move=sysop]

OCA — Wed, 07 Nov 2018 10:45:55 GMT

Protected "6ip0" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:45, 7 November 2018

OCA: New page: '''Unreleased structure''' The entry 6ip0 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 07 Nov 2018 10:45:54 GMT

New page: '''Unreleased structure''' The entry 6ip0 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6ip0 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]