4mzg - Revision history

OCA at 10:22, 28 December 2022

OCA — Wed, 28 Dec 2022 10:22:01 GMT

←Older revision		Revision as of 10:22, 28 December 2022
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	==Crystal structure of human Spindlin1 bound to histone H3K4me3 peptide==		==Crystal structure of human Spindlin1 bound to histone H3K4me3 peptide==
-	<StructureSection load='4mzg' size='340' side='right' caption='[[4mzg]], [[Resolution\|resolution]] 1.70Å' scene=''>	+	<StructureSection load='4mzg' size='340' side='right'caption='[[4mzg]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4mzg]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4MZG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4MZG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4mzg]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4MZG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4MZG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=M3L:N-TRIMETHYLLYSINE'>M3L</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</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'>[https://proteopedia.org/fgij/fg.htm?mol=4mzg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4mzg OCA], [https://pdbe.org/4mzg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4mzg RCSB], [https://www.ebi.ac.uk/pdbsum/4mzg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4mzg ProSAT]</span></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4mzf\|4mzf]], [[4mzh\|4mzh]]</td></tr>~~	+
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SPIN1, OCR, SPIN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])~~</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=4mzg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4mzg OCA], [~~http~~://pdbe.org/4mzg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4mzg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4mzg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4mzg ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~SPIN1_HUMAN SPIN1_HUMAN~~]~~] May play a role in cell-cycle regulation during the transition from gamete to embryo (By similarity).~~	+	[https://www.uniprot.org/uniprot/H32_HUMAN H32_HUMAN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 4mzg" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4mzg" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Spindlin\|Spindlin]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
-	[[Category: ~~Ding, X~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Li, H]]~~	+	[[Category: Ding X]]
-	~~[[Category: Su,~~ X]]	+	[[Category: Li H]]
-	[[Category: ~~Gene regulation~~]]	+	[[Category: Su X]]
-	[[Category: ~~Histone h3]]~~	+
-	~~[[Category: Nuclear]]~~	+
-	~~[[Category: Wnt signal~~]]	+

OCA at 00:08, 5 August 2016

OCA — Fri, 05 Aug 2016 00:08:39 GMT

←Older revision		Revision as of 00:08, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of human Spindlin1 bound to histone H3K4me3 peptide==		==Crystal structure of human Spindlin1 bound to histone H3K4me3 peptide==
	<StructureSection load='4mzg' size='340' side='right' caption='[[4mzg]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='4mzg' size='340' side='right' caption='[[4mzg]], [[Resolution\|resolution]] 1.70Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4mzf\|4mzf]], [[4mzh\|4mzh]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4mzf\|4mzf]], [[4mzh\|4mzh]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SPIN1, OCR, SPIN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SPIN1, OCR, SPIN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=4mzg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4mzg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4mzg RCSB], [http://www.ebi.ac.uk/pdbsum/4mzg PDBsum]</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=4mzg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4mzg OCA], [http://pdbe.org/4mzg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4mzg RCSB], [http://www.ebi.ac.uk/pdbsum/4mzg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4mzg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4mzg" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 21:02, 24 December 2014

OCA — Wed, 24 Dec 2014 21:02:49 GMT

←Older revision		Revision as of 21:02, 24 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4mzg\| PDB=4mzg \| SCENE= }}~~	+	==Crystal structure of human Spindlin1 bound to histone H3K4me3 peptide==
-	===Crystal structure of human Spindlin1 bound to histone H3K4me3 peptide===	+	<StructureSection load='4mzg' size='340' side='right' caption='[[4mzg]], [[Resolution\|resolution]] 1.70Å' scene=''>
-	~~{{ABSTRACT_PUBMED_24589551}}~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4mzg]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4MZG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4MZG FirstGlance]. <br>
-	==Function==	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</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='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4mzf\|4mzf]], [[4mzh\|4mzh]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SPIN1, OCR, SPIN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=4mzg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4mzg OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4mzg RCSB], [http://www.ebi.ac.uk/pdbsum/4mzg PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
	[[http://www.uniprot.org/uniprot/SPIN1_HUMAN SPIN1_HUMAN]] May play a role in cell-cycle regulation during the transition from gamete to embryo (By similarity).		[[http://www.uniprot.org/uniprot/SPIN1_HUMAN SPIN1_HUMAN]] May play a role in cell-cycle regulation during the transition from gamete to embryo (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Histone modification patterns and their combinatorial readout have emerged as a fundamental mechanism for epigenetic regulation. Here we characterized Spindlin1 as a histone effector that senses a cis-tail histone H3 methylation pattern involving trimethyllysine 4 (H3K4me3) and asymmetric dimethylarginine 8 (H3R8me2a) marks. Spindlin1 consists of triple tudor-like Spin/Ssty repeats. Cocrystal structure determination established concurrent recognition of H3K4me3 and H3R8me2a by Spin/Ssty repeats 2 and 1, respectively. Both H3K4me3 and H3R8me2a are recognized using an "insertion cavity" recognition mode, contributing to a methylation state-specific layer of regulation. In vivo functional studies suggest that Spindlin1 activates Wnt/beta-catenin signaling downstream from protein arginine methyltransferase 2 (PRMT2) and the MLL complex, which together are capable of generating a specific H3 "K4me3-R8me2a" pattern. Mutagenesis of Spindlin1 reader pockets impairs activation of Wnt target genes. Taken together, our work connects a histone "lysine-arginine" methylation pattern readout by Spindlin1-to-Wnt signaling at the transcriptional level.

-	~~==About this Structure==~~	+	Molecular basis underlying histone H3 lysine-arginine methylation pattern readout by Spin/Ssty repeats of Spindlin1.,Su X, Zhu G, Ding X, Lee SY, Dou Y, Zhu B, Wu W, Li H Genes Dev. 2014 Mar 15;28(6):622-36. doi: 10.1101/gad.233239.113. Epub 2014 Mar, 3. PMID:24589551<ref>PMID:24589551</ref>
-	~~[[4mzg]] is a 4 chain structure~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.ac.~~il/oca-bin/ocashort?id=4MZG OCA]~~.	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:024589551</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
-	[[Category: Ding, X.]]	+	== References ==
-	[[Category: Li, H.]]	+	<references/>
-	[[Category: Su, X.]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Ding, X]]
		+	[[Category: Li, H]]
		+	[[Category: Su, X]]
	[[Category: Gene regulation]]		[[Category: Gene regulation]]
	[[Category: Histone h3]]		[[Category: Histone h3]]
	[[Category: Nuclear]]		[[Category: Nuclear]]
	[[Category: Wnt signal]]		[[Category: Wnt signal]]

OCA at 09:27, 26 March 2014

OCA — Wed, 26 Mar 2014 09:27:36 GMT

←Older revision		Revision as of 09:27, 26 March 2014
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4mzg\| PDB=4mzg \| SCENE= }}
		+	===Crystal structure of human Spindlin1 bound to histone H3K4me3 peptide===
		+	{{ABSTRACT_PUBMED_24589551}}

-	~~The entry 4mzg is ON HOLD~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/SPIN1_HUMAN SPIN1_HUMAN]] May play a role in cell-cycle regulation during the transition from gamete to embryo (By similarity).

-	~~Authors~~: ~~Su, X~~.~~, Ding, X~~.~~, Li, H~~.	+	==About this Structure==
		+	[[4mzg]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4MZG OCA].

-	~~Description~~: ~~Crystal Structure of SP1 in the H3 bound state~~	+	==Reference==
		+	<ref group="xtra">PMID:024589551</ref><references group="xtra"/><references/>
		+	[[Category: Ding, X.]]
		+	[[Category: Li, H.]]
		+	[[Category: Su, X.]]
		+	[[Category: Gene regulation]]
		+	[[Category: Histone h3]]
		+	[[Category: Nuclear]]
		+	[[Category: Wnt signal]]

OCA at 06:12, 23 October 2013

OCA — Wed, 23 Oct 2013 06:12:47 GMT

←Older revision		Revision as of 06:12, 23 October 2013
Line 3:		Line 3:
	The entry 4mzg is ON HOLD		The entry 4mzg is ON HOLD

-	Authors: ~~Xiaonan~~ Su, ~~Xiaozhe~~ Ding, ~~Haitao~~ Li	+	Authors: Su, X., Ding, X., Li, H.

	Description: Crystal Structure of SP1 in the H3 bound state		Description: Crystal Structure of SP1 in the H3 bound state

OCA: Protected "4mzg" [edit=sysop:move=sysop]

OCA — Thu, 10 Oct 2013 05:51:37 GMT

Protected "4mzg" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:51, 10 October 2013

OCA: New page: '''Unreleased structure''' The entry 4mzg is ON HOLD Authors: Xiaonan Su, Xiaozhe Ding, Haitao Li Description: Crystal Structure of SP1 in the H3 bound state

OCA — Thu, 10 Oct 2013 05:51:35 GMT

New page: '''Unreleased structure''' The entry 4mzg is ON HOLD Authors: Xiaonan Su, Xiaozhe Ding, Haitao Li Description: Crystal Structure of SP1 in the H3 bound state

New page

'''Unreleased structure'''

The entry 4mzg is ON HOLD

Authors: Xiaonan Su, Xiaozhe Ding, Haitao Li

Description: Crystal Structure of SP1 in the H3 bound state