5jin - Revision history

OCA at 18:53, 20 September 2023

OCA — Wed, 20 Sep 2023 18:53:19 GMT

←Older revision		Revision as of 18:53, 20 September 2023
Line 3:		Line 3:
	<StructureSection load='5jin' size='340' side='right'caption='[[5jin]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='5jin' size='340' side='right'caption='[[5jin]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jin]] 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=5JIN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5JIN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jin]] 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=5JIN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5JIN FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=SAM:S~~-~~ADENOSYLMETHIONINE'>SAM</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]] 1.85Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5jj0\|5jj0]], [[5jhn\|5jhn]], [[5jiy\|5jiy]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">EHMT2, BAT8, C6orf30, G9A, KMT1C, NG36 ([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'>[https://proteopedia.org/fgij/fg.htm?mol=5jin FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jin OCA], [https://pdbe.org/5jin PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5jin RCSB], [https://www.ebi.ac.uk/pdbsum/5jin PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5jin ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5jin FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jin OCA], [~~http~~://pdbe.org/5jin PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5jin RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5jin PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5jin ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/EHMT2_HUMAN EHMT2_HUMAN]] Histone methyltransferase that specifically mono- and dimethylates 'Lys-9' of histone H3 (H3K9me1 and H3K9me2, respectively) in euchromatin. H3K9me represents a specific tag for epigenetic transcriptional repression by recruiting HP1 proteins to methylated histones. Also mediates monomethylation of 'Lys-56' of histone H3 (H3K56me1) in G1 phase, leading to promote interaction between histone H3 and PCNA and regulating DNA replication. Also weakly methylates 'Lys-27' of histone H3 (H3K27me). Also required for DNA methylation, the histone methyltransferase activity is not required for DNA methylation, suggesting that these 2 activities function independently. Probably targeted to histone H3 by different DNA-binding proteins like E2F6, MGA, MAX and/or DP1. May also methylate histone H1. In addition to the histone methyltransferase activity, also methylates non-histone proteins: mediates dimethylation of 'Lys-373' of p53/TP53. Also methylates CDYL, WIZ, ACIN1, DNMT1, HDAC1, ERCC6, KLF12 and itself.<ref>PMID:8457211</ref> <ref>PMID:11316813</ref> <ref>PMID:18438403</ref> <ref>PMID:20118233</ref> <ref>PMID:22387026</ref>	+	[https://www.uniprot.org/uniprot/EHMT2_HUMAN EHMT2_HUMAN] Histone methyltransferase that specifically mono- and dimethylates 'Lys-9' of histone H3 (H3K9me1 and H3K9me2, respectively) in euchromatin. H3K9me represents a specific tag for epigenetic transcriptional repression by recruiting HP1 proteins to methylated histones. Also mediates monomethylation of 'Lys-56' of histone H3 (H3K56me1) in G1 phase, leading to promote interaction between histone H3 and PCNA and regulating DNA replication. Also weakly methylates 'Lys-27' of histone H3 (H3K27me). Also required for DNA methylation, the histone methyltransferase activity is not required for DNA methylation, suggesting that these 2 activities function independently. Probably targeted to histone H3 by different DNA-binding proteins like E2F6, MGA, MAX and/or DP1. May also methylate histone H1. In addition to the histone methyltransferase activity, also methylates non-histone proteins: mediates dimethylation of 'Lys-373' of p53/TP53. Also methylates CDYL, WIZ, ACIN1, DNMT1, HDAC1, ERCC6, KLF12 and itself.<ref>PMID:8457211</ref> <ref>PMID:11316813</ref> <ref>PMID:18438403</ref> <ref>PMID:20118233</ref> <ref>PMID:22387026</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bellon~~, S F~~]]	+	[[Category: Bellon SF]]
-	[[Category: Jayaram, H]]	+	[[Category: Jayaram H]]
-	[[Category: Poy, F]]	+	[[Category: Poy F]]
-	~~[[Category: Histone methyl transferase]]~~	+
-	~~[[Category: Histone peptide]]~~	+
-	~~[[Category: Set-domain]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 07:51, 10 June 2020

OCA — Wed, 10 Jun 2020 07:51:25 GMT

←Older revision		Revision as of 07:51, 10 June 2020
Line 1:		Line 1:

	==Structure of G9a SET-domain with Histone H3K9M mutant peptide and bound S-adenosylmethionine==		==Structure of G9a SET-domain with Histone H3K9M mutant peptide and bound S-adenosylmethionine==
-	<StructureSection load='5jin' size='340' side='right' caption='[[5jin]], [[Resolution\|resolution]] 1.85Å' scene=''>	+	<StructureSection load='5jin' size='340' side='right'caption='[[5jin]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jin]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JIN OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5JIN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jin]] 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=5JIN OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5JIN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5jj0\|5jj0]], [[5jhn\|5jhn]], [[5jiy\|5jiy]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5jj0\|5jj0]], [[5jhn\|5jhn]], [[5jiy\|5jiy]]</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=5jin FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jin OCA], [http://pdbe.org/5jin PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jin RCSB], [http://www.ebi.ac.uk/pdbsum/5jin PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jin ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">EHMT2, BAT8, C6orf30, G9A, KMT1C, NG36 ([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://proteopedia.org/fgij/fg.htm?mol=5jin FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jin OCA], [http://pdbe.org/5jin PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jin RCSB], [http://www.ebi.ac.uk/pdbsum/5jin PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jin ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 5jin" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5jin" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Histone methyltransferase 3D structures\|Histone methyltransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Bellon, S F]]		[[Category: Bellon, S F]]
	[[Category: Jayaram, H]]		[[Category: Jayaram, H]]

OCA at 02:15, 13 July 2016

OCA — Wed, 13 Jul 2016 02:15:31 GMT

←Older revision		Revision as of 02:15, 13 July 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5jin is ~~ON HOLD~~	+	==Structure of G9a SET-domain with Histone H3K9M mutant peptide and bound S-adenosylmethionine==
		+	<StructureSection load='5jin' size='340' side='right' caption='[[5jin]], [[Resolution\|resolution]] 1.85Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5jin]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JIN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JIN FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5jj0\|5jj0]], [[5jhn\|5jhn]], [[5jiy\|5jiy]]</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=5jin FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jin OCA], [http://pdbe.org/5jin PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jin RCSB], [http://www.ebi.ac.uk/pdbsum/5jin PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jin ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/EHMT2_HUMAN EHMT2_HUMAN]] Histone methyltransferase that specifically mono- and dimethylates 'Lys-9' of histone H3 (H3K9me1 and H3K9me2, respectively) in euchromatin. H3K9me represents a specific tag for epigenetic transcriptional repression by recruiting HP1 proteins to methylated histones. Also mediates monomethylation of 'Lys-56' of histone H3 (H3K56me1) in G1 phase, leading to promote interaction between histone H3 and PCNA and regulating DNA replication. Also weakly methylates 'Lys-27' of histone H3 (H3K27me). Also required for DNA methylation, the histone methyltransferase activity is not required for DNA methylation, suggesting that these 2 activities function independently. Probably targeted to histone H3 by different DNA-binding proteins like E2F6, MGA, MAX and/or DP1. May also methylate histone H1. In addition to the histone methyltransferase activity, also methylates non-histone proteins: mediates dimethylation of 'Lys-373' of p53/TP53. Also methylates CDYL, WIZ, ACIN1, DNMT1, HDAC1, ERCC6, KLF12 and itself.<ref>PMID:8457211</ref> <ref>PMID:11316813</ref> <ref>PMID:18438403</ref> <ref>PMID:20118233</ref> <ref>PMID:22387026</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Lysine to methionine (K-to-M) mutations in genes encoding histone H3 are thought to drive a subset of pediatric brain and bone cancers. These high-frequency K-to-M mutations occur at sites of methylation on histone H3, and tumors containing the mutant histones exhibit a global loss of specific histone methylation marks. Previous studies showed that K-to-M mutant histones, also known as oncohistones, are potent orthosteric inhibitors of specific Su(var)3-9, Enhancer-of-zeste, Trithorax (SET) domain methyltransferases. However, the biochemical and biophysical details of the interaction between K-to-M mutant histones and the respective SET domain methyltransferases are currently unknown. Here, we use the histone H3K9-directed methyltransferase G9a as a model to explore the mechanism of inhibition by K-to-M oncohistones. X-ray cocrystal structures revealed that the K9M residue of histone H3 occupies the active site cavity of G9a, and kinetic analysis indicates competitive inhibition of G9a by histone H3K9M. Additionally, we find that the cofactor S-adenosyl methionine (SAM) is necessary for stable interaction between G9a and H3K9M histone. Consistent with the formation of a ternary complex, we find that the inhibitory peptide is uncompetitive with regard to SAM. These data and others indicate that K-to-M oncohistones promote global loss of specific lysine methylation through sequestration and inhibition of SAM-bound SET domain methyltransferases.

-	~~Authors: Jayaram~~, H., Bellon, S.F., ~~Poy, F~~.	+	S-adenosyl methionine is necessary for inhibition of the methyltransferase G9a by the lysine 9 to methionine mutation on histone H3.,Jayaram H, Hoelper D, Jain SU, Cantone N, Lundgren SM, Poy F, Allis CD, Cummings R, Bellon S, Lewis PW Proc Natl Acad Sci U S A. 2016 May 31;113(22):6182-7. doi:, 10.1073/pnas.1605523113. Epub 2016 May 16. PMID:27185940<ref>PMID:27185940</ref>

-	~~Description: Structure~~ of ~~G9a SET-domain with Histone H3K9M mutant peptide and bound~~ S~~-adenosylmethionine~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: ~~Poy~~, F]]	+	<div class="pdbe-citations 5jin" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Bellon, S F]]
	[[Category: Jayaram, H]]		[[Category: Jayaram, H]]
-	[[Category: ~~Bellon~~, S.F]]	+	[[Category: Poy, F]]
		+	[[Category: Histone methyl transferase]]
		+	[[Category: Histone peptide]]
		+	[[Category: Set-domain]]
		+	[[Category: Transferase]]

OCA: Protected "5jin" [edit=sysop:move=sysop]

OCA — Wed, 11 May 2016 02:07:41 GMT

Protected "5jin" [edit=sysop:move=sysop]

←Older revision

Revision as of 02:07, 11 May 2016

OCA: New page: '''Unreleased structure''' The entry 5jin is ON HOLD Authors: Jayaram, H., Bellon, S.F., Poy, F. Description: Structure of G9a SET-domain with Histone H3K9M mutant peptide and bound S-...

OCA — Wed, 11 May 2016 02:07:40 GMT

New page: '''Unreleased structure''' The entry 5jin is ON HOLD Authors: Jayaram, H., Bellon, S.F., Poy, F. Description: Structure of G9a SET-domain with Histone H3K9M mutant peptide and bound S-...

New page

'''Unreleased structure'''

The entry 5jin is ON HOLD

Authors: Jayaram, H., Bellon, S.F., Poy, F.

Description: Structure of G9a SET-domain with Histone H3K9M mutant peptide and bound S-adenosylmethionine
[[Category: Unreleased Structures]]
[[Category: Poy, F]]
[[Category: Jayaram, H]]
[[Category: Bellon, S.F]]