5y95 - Revision history

OCA at 19:25, 29 May 2024

2024-05-29T19:25:43Z

←Older revision		Revision as of 19:25, 29 May 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5y95]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y95 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5Y95 FirstGlance]. <br>		<table><tr><td colspan='2'>[[5y95]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y95 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5Y95 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8TL:propan-2-yl+(3R,6S,9aS)-3-ethyl-8-(3-methylbutyl)-6-(2-methylsulfanylethyl)-4,7-bis(oxidanylidene)-9,9a-dihydro-6H-pyrazino[2,1-c][1,2,4]oxadiazine-1-carboxylate'>8TL</scene></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8TL:propan-2-yl+(3R,6S,9aS)-3-ethyl-8-(3-methylbutyl)-6-(2-methylsulfanylethyl)-4,7-bis(oxidanylidene)-9,9a-dihydro-6H-pyrazino[2,1-c][1,2,4]oxadiazine-1-carboxylate'>8TL</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=5y95 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y95 OCA], [https://pdbe.org/5y95 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5y95 RCSB], [https://www.ebi.ac.uk/pdbsum/5y95 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5y95 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=5y95 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y95 OCA], [https://pdbe.org/5y95 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5y95 RCSB], [https://www.ebi.ac.uk/pdbsum/5y95 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5y95 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 10:32, 14 June 2023

2023-06-14T10:32:41Z

←Older revision		Revision as of 10:32, 14 June 2023
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	==Haddock model of mSIN3B PAH1 domain==		==Haddock model of mSIN3B PAH1 domain==
-	<StructureSection load='5y95' size='340' side='right' caption='[[5y95~~]], [[NMR_Ensembles_of_Models \| 10 NMR models~~]]' scene=''>	+	<StructureSection load='5y95' size='340' side='right'caption='[[5y95]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5y95]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Lk3_transgenic_mice Lk3 transgenic mice~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y95 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5Y95 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5y95]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y95 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5Y95 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8TL:propan-2-yl+(3R,6S,9aS)-3-ethyl-8-(3-methylbutyl)-6-(2-methylsulfanylethyl)-4,7-bis(oxidanylidene)-9,9a-dihydro-6H-pyrazino[2,1-c][1,2,4]oxadiazine-1-carboxylate'>8TL</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8TL:propan-2-yl+(3R,6S,9aS)-3-ethyl-8-(3-methylbutyl)-6-(2-methylsulfanylethyl)-4,7-bis(oxidanylidene)-9,9a-dihydro-6H-pyrazino[2,1-c][1,2,4]oxadiazine-1-carboxylate'>8TL</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2cr7\|2cr7]]</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=5y95 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y95 OCA], [https://pdbe.org/5y95 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5y95 RCSB], [https://www.ebi.ac.uk/pdbsum/5y95 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5y95 ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sin3b, Kiaa0700 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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=5y95 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y95 OCA], [~~http~~://pdbe.org/5y95 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5y95 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5y95 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5y95 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/SIN3B_MOUSE SIN3B_MOUSE]] Acts as a transcriptional repressor. Interacts with MXI1 to repress MYC responsive genes and antagonize MYC oncogenic activities. Interacts with MAD-MAX heterodimers by binding to MAD. The heterodimer then represses transcription by tethering SIN3B to DNA. Also forms a complex with FOXK1 which represses transcription.<ref>PMID:7889570</ref> <ref>PMID:10620510</ref>	+	[https://www.uniprot.org/uniprot/SIN3B_MOUSE SIN3B_MOUSE] Acts as a transcriptional repressor. Interacts with MXI1 to repress MYC responsive genes and antagonize MYC oncogenic activities. Interacts with MAD-MAX heterodimers by binding to MAD. The heterodimer then represses transcription by tethering SIN3B to DNA. Also forms a complex with FOXK1 which represses transcription.<ref>PMID:7889570</ref> <ref>PMID:10620510</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Lk3 transgenic mice~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Hirao, Y~~]]	+	[[Category: Mus musculus]]
-	[[Category: ~~Kurita, J]]~~	+	[[Category: Hirao Y]]
-	~~[[Category: Nishimura,~~ Y]]	+	[[Category: Kurita J]]
-	[[Category: ~~Complex~~]]	+	[[Category: Nishimura Y]]
-	[[Category: ~~Gene regulation]]~~	+
-	~~[[Category: Haddock model~~]]	+

OCA at 07:57, 6 December 2017

2017-12-06T07:57:56Z

←Older revision		Revision as of 07:57, 6 December 2017
Line 3:		Line 3:
	<StructureSection load='5y95' size='340' side='right' caption='[[5y95]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>		<StructureSection load='5y95' size='340' side='right' caption='[[5y95]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5y95]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y95 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Y95 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5y95]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y95 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Y95 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8TL:propan-2-yl+(3R,6S,9aS)-3-ethyl-8-(3-methylbutyl)-6-(2-methylsulfanylethyl)-4,7-bis(oxidanylidene)-9,9a-dihydro-6H-pyrazino[2,1-c][1,2,4]oxadiazine-1-carboxylate'>8TL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8TL:propan-2-yl+(3R,6S,9aS)-3-ethyl-8-(3-methylbutyl)-6-(2-methylsulfanylethyl)-4,7-bis(oxidanylidene)-9,9a-dihydro-6H-pyrazino[2,1-c][1,2,4]oxadiazine-1-carboxylate'>8TL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2cr7\|2cr7]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2cr7\|2cr7]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Sin3b, Kiaa0700 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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=5y95 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y95 OCA], [http://pdbe.org/5y95 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5y95 RCSB], [http://www.ebi.ac.uk/pdbsum/5y95 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5y95 ProSAT]</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=5y95 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y95 OCA], [http://pdbe.org/5y95 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5y95 RCSB], [http://www.ebi.ac.uk/pdbsum/5y95 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5y95 ProSAT]</span></td></tr>
	</table>		</table>
Line 23:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Lk3 transgenic mice]]
	[[Category: Hirao, Y]]		[[Category: Hirao, Y]]
	[[Category: Kurita, J]]		[[Category: Kurita, J]]

OCA at 09:14, 4 October 2017

2017-10-04T09:14:47Z

←Older revision		Revision as of 09:14, 4 October 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5y95 is ~~ON HOLD~~	+	==Haddock model of mSIN3B PAH1 domain==
		+	<StructureSection load='5y95' size='340' side='right' caption='[[5y95]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5y95]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y95 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Y95 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8TL:propan-2-yl+(3R,6S,9aS)-3-ethyl-8-(3-methylbutyl)-6-(2-methylsulfanylethyl)-4,7-bis(oxidanylidene)-9,9a-dihydro-6H-pyrazino[2,1-c][1,2,4]oxadiazine-1-carboxylate'>8TL</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2cr7\|2cr7]]</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=5y95 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y95 OCA], [http://pdbe.org/5y95 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5y95 RCSB], [http://www.ebi.ac.uk/pdbsum/5y95 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5y95 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SIN3B_MOUSE SIN3B_MOUSE]] Acts as a transcriptional repressor. Interacts with MXI1 to repress MYC responsive genes and antagonize MYC oncogenic activities. Interacts with MAD-MAX heterodimers by binding to MAD. The heterodimer then represses transcription by tethering SIN3B to DNA. Also forms a complex with FOXK1 which represses transcription.<ref>PMID:7889570</ref> <ref>PMID:10620510</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The neuron-restrictive silencing factor NRSF/REST binds to neuron-restrictive silencing elements in neuronal genes and recruits corepressors such as mSin3 to inhibit epigenetically neuronal gene expression. Because dysregulation of NRSF/REST is related to neuropathic pain, here, we have designed compounds to target neuropathic pain based on the mSin3-binding helix structure of NRSF/REST and examined their ability to bind to mSin3 by NMR. One compound, mS-11, binds strongly to mSin3 with a binding mode similar to that of NRSF/REST. In a mouse model of neuropathic pain, mS-11 was found to ameliorate abnormal pain behavior and to reverse lost peripheral morphine analgesia. Furthermore, even in the less well epigenetically defined case of fibromyalgia, mS-11 ameliorated symptoms in a mouse model, suggesting that fibromyalgia is related to the dysfunction of NRSF/REST. Taken together, these findings show that the chemically optimized mimetic mS-11 can inhibit mSin3-NRSF/REST binding and successfully reverse lost peripheral and central morphine analgesia in mouse models of pain.

-	~~Authors:~~ Kurita, J., Hirao, Y., ~~Nishimura~~, Y.	+	A mimetic of the mSin3-binding helix of NRSF/REST ameliorates abnormal pain behavior in chronic pain models.,Ueda H, Kurita JI, Neyama H, Hirao Y, Kouji H, Mishina T, Kasai M, Nakano H, Yoshimori A, Nishimura Y Bioorg Med Chem Lett. 2017 Oct 15;27(20):4705-4709. doi:, 10.1016/j.bmcl.2017.09.006. Epub 2017 Sep 7. PMID:28927787<ref>PMID:28927787</ref>

-	~~Description: Haddock model~~ of ~~mSIN3B PAH1 domain~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Kurita, J]]~~	+	<div class="pdbe-citations 5y95" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Hirao, Y]]		[[Category: Hirao, Y]]
		+	[[Category: Kurita, J]]
	[[Category: Nishimura, Y]]		[[Category: Nishimura, Y]]
		+	[[Category: Complex]]
		+	[[Category: Gene regulation]]
		+	[[Category: Haddock model]]

OCA: Protected "5y95" [edit=sysop:move=sysop]

2017-09-27T16:17:15Z

Protected "5y95" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:17, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5y95 is ON HOLD Authors: Kurita, J., Hirao, Y., Nishimura, Y. Description: Haddock model of mSIN3B PAH1 domain Category: Unreleased Structures ...

2017-09-27T16:17:14Z

New page: '''Unreleased structure''' The entry 5y95 is ON HOLD Authors: Kurita, J., Hirao, Y., Nishimura, Y. Description: Haddock model of mSIN3B PAH1 domain Category: Unreleased Structures ...

New page

'''Unreleased structure'''

The entry 5y95 is ON HOLD

Authors: Kurita, J., Hirao, Y., Nishimura, Y.

Description: Haddock model of mSIN3B PAH1 domain
[[Category: Unreleased Structures]]
[[Category: Kurita, J]]
[[Category: Hirao, Y]]
[[Category: Nishimura, Y]]