7vmi - Revision history

OCA at 17:28, 29 November 2023

2023-11-29T17:28:18Z

←Older revision		Revision as of 17:28, 29 November 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7vmi]] is a 5 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=7VMI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7VMI FirstGlance]. <br>		<table><tr><td colspan='2'>[[7vmi]] is a 5 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=7VMI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7VMI FirstGlance]. <br>
-	</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=7vmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7vmi OCA], [https://pdbe.org/7vmi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7vmi RCSB], [https://www.ebi.ac.uk/pdbsum/7vmi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7vmi ProSAT]</span></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]] 1.8Å</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=7vmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7vmi OCA], [https://pdbe.org/7vmi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7vmi RCSB], [https://www.ebi.ac.uk/pdbsum/7vmi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7vmi ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 7vmi" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7vmi" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Histone deacetylase 3D structures\|Histone deacetylase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 10:21, 14 December 2022

2022-12-14T10:21:22Z

←Older revision		Revision as of 10:21, 14 December 2022
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	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/HDT3_ARATH HDT3_ARATH]] Probably mediates the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. Involved in the modulation of abscisic acid and stress-responsive genes.<ref>PMID:12694598</ref> <ref>PMID:16553900</ref>	+	[https://www.uniprot.org/uniprot/HDT3_ARATH HDT3_ARATH] Probably mediates the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. Involved in the modulation of abscisic acid and stress-responsive genes.<ref>PMID:12694598</ref> <ref>PMID:16553900</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 07:40, 21 September 2022

2022-09-21T07:40:27Z

←Older revision		Revision as of 07:40, 21 September 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7vmi is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of Arabidopsis thaliana HDT3==
		+	<StructureSection load='7vmi' size='340' side='right'caption='[[7vmi]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[7vmi]] is a 5 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=7VMI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7VMI FirstGlance]. <br>
		+	</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=7vmi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7vmi OCA], [https://pdbe.org/7vmi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7vmi RCSB], [https://www.ebi.ac.uk/pdbsum/7vmi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7vmi ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/HDT3_ARATH HDT3_ARATH]] Probably mediates the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. Involved in the modulation of abscisic acid and stress-responsive genes.<ref>PMID:12694598</ref> <ref>PMID:16553900</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Histone acetyltransferase (HAT)- and histone deacetylase (HDAC)-mediated histone acetylation and deacetylation regulate nucleosome dynamics and gene expression. HDACs are classified into different families, with HD-tuins or HDTs being specific to plants. HDTs show some sequence similarity to nucleoplasmins, the histone chaperones that aid in binding, storing, and loading H2A/H2B dimers to assemble nucleosomes. Here, we solved the crystal structure of the N-terminal domain (NTD) of all four HDTs (HDT1, HDT2, HDT3, and HDT4) from Arabidopsis (Arabidopsis thaliana). The NTDs form a nucleoplasmin fold, exist as pentamers in solution, and are resistant to protease treatment, high temperature, salt, and urea conditions. Structurally, HDTs do not form a decamer, unlike certain classical nucleoplasmins. The HDT NTD requires an additional A2 acidic tract C-terminal to the nucleoplasmin domain for interaction with histone H3/H4 and H2A/H2B oligomers. We also report the in-solution structures of HDT2 pentamers in complex with histone oligomers. Our study provides a detailed structural and in vitro functional characterization of HDTs, revealing them to be nucleoplasmin family histone chaperones. The experimental confirmation that HDTs are nucleoplasmins may spark new interest in this enigmatic family of proteins.

-	~~Authors~~:	+	Plant-specific HDT family histone deacetylases are nucleoplasmins.,Bobde RC, Kumar A, Vasudevan D Plant Cell. 2022 Sep 7. pii: 6693634. doi: 10.1093/plcell/koac275. PMID:36069647<ref>PMID:36069647</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 7vmi" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Arabidopsis thaliana]]
		+	[[Category: Large Structures]]
		+	[[Category: Bobde RC]]
		+	[[Category: Kumar A]]
		+	[[Category: Vasudevan D]]

OCA at 05:20, 10 November 2021

2021-11-10T05:20:03Z

←Older revision		Revision as of 05:20, 10 November 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7vmi is ON HOLD	+	The entry 7vmi is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7vmi" [edit=sysop:move=sysop]

2021-10-20T15:14:24Z

Protected "7vmi" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:14, 20 October 2021

OCA: New page: '''Unreleased structure''' The entry 7vmi is ON HOLD Authors: Description: Category: Unreleased Structures

2021-10-20T15:14:23Z

New page: '''Unreleased structure''' The entry 7vmi is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7vmi is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]