3w0g - Revision history

OCA at 12:44, 8 November 2023

OCA — Wed, 08 Nov 2023 12:44:33 GMT

←Older revision		Revision as of 12:44, 8 November 2023
Line 3:		Line 3:
	<StructureSection load='3w0g' size='340' side='right'caption='[[3w0g]], [[Resolution\|resolution]] 1.94Å' scene=''>		<StructureSection load='3w0g' size='340' side='right'caption='[[3w0g]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3w0g]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Buffalo_rat Buffalo rat~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W0G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3W0G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3w0g]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W0G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3W0G FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=W07:(2S)-3-{4~~-[~~2-(4-{~~[~~(2R)-2-HYDROXY-3,3-DIMETHYLBUTYL~~]~~OXY}PHENYL)PROPAN-2-YL~~]~~PHENOXY}PROPANE-~~1~~,2-DIOL'>W07</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]] 1.94Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;'>~~[[~~3w0h\|3w0h]]~~, ~~[[3w0i\|3w0i~~]], ~~[[3w0j\|3w0j]]</div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=W07:(2S)-3-{4-[2-(4-{[(2R)-2-HYDROXY-3,3-DIMETHYLBUTYL]OXY}PHENYL)PROPAN-2-YL]PHENOXY}PROPANE-1,2-DIOL'>W07</scene></td></tr>
-	~~<tr id='gene~~'>~~<td class="sblockLbl"><b>[[Gene\|Gene:]]~~</b>~~</td><td class="sblockDat">Nr1i1, Vdr ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])~~</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=3w0g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0g OCA], [https://pdbe.org/3w0g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3w0g RCSB], [https://www.ebi.ac.uk/pdbsum/3w0g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3w0g 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=3w0g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0g OCA], [https://pdbe.org/3w0g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3w0g RCSB], [https://www.ebi.ac.uk/pdbsum/3w0g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3w0g ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/VDR_RAT VDR_RAT]] Nuclear hormone receptor. Transcription factor that mediates the action of vitamin D3 by controlling the expression of hormone sensitive genes. Regulates transcription of hormone sensitive genes via its association with the WINAC complex, a chromatin-remodeling complex. Recruited to promoters via its interaction with the WINAC complex subunit BAZ1B/WSTF, which mediates the interaction with acetylated histones, an essential step for VDR-promoter association. Plays a central role in calcium homeostasis.<ref>PMID:17227670</ref> [[https://www.uniprot.org/uniprot/MED1_HUMAN MED1_HUMAN]] Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.<ref>PMID:9653119</ref> <ref>PMID:10406464</ref> <ref>PMID:12218053</ref> <ref>PMID:12037571</ref> <ref>PMID:11867769</ref> <ref>PMID:12556447</ref> <ref>PMID:14636573</ref> <ref>PMID:15471764</ref> <ref>PMID:15340084</ref> <ref>PMID:15989967</ref> <ref>PMID:16574658</ref>	+	[https://www.uniprot.org/uniprot/VDR_RAT VDR_RAT] Nuclear hormone receptor. Transcription factor that mediates the action of vitamin D3 by controlling the expression of hormone sensitive genes. Regulates transcription of hormone sensitive genes via its association with the WINAC complex, a chromatin-remodeling complex. Recruited to promoters via its interaction with the WINAC complex subunit BAZ1B/WSTF, which mediates the interaction with acetylated histones, an essential step for VDR-promoter association. Plays a central role in calcium homeostasis.<ref>PMID:17227670</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Buffalo rat~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Asano, L]]	+	[[Category: Rattus norvegicus]]
-	[[Category: Ito, I]]	+	[[Category: Asano L]]
-	[[Category: Kuwabara, N]]	+	[[Category: Ito I]]
-	[[Category: Miyachi, H]]	+	[[Category: Kuwabara N]]
-	[[Category: Shimizu, T]]	+	[[Category: Miyachi H]]
-	[[Category: Waku, T]]	+	[[Category: Shimizu T]]
-	[[Category: Yanagisawa, J]]	+	[[Category: Waku T]]
-	~~[[Category: Gene regulation]]~~	+	[[Category: Yanagisawa J]]
-	~~[[Category: Transcription~~]]	+

OCA at 05:16, 3 August 2022

OCA — Wed, 03 Aug 2022 05:16:51 GMT

←Older revision		Revision as of 05:16, 3 August 2022
Line 1:		Line 1:

	==Crystal Structure of Rat VDR Ligand Binding Domain in Complex with Novel Nonsecosteroidal Ligands==		==Crystal Structure of Rat VDR Ligand Binding Domain in Complex with Novel Nonsecosteroidal Ligands==
-	<StructureSection load='3w0g' size='340' side='right' caption='[[3w0g]], [[Resolution\|resolution]] 1.94Å' scene=''>	+	<StructureSection load='3w0g' size='340' side='right'caption='[[3w0g]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3w0g]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W0G OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3W0G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3w0g]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W0G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3W0G FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=W07:(2S)-3-{4-[2-(4-{[(2R)-2-HYDROXY-3,3-DIMETHYLBUTYL]OXY}PHENYL)PROPAN-2-YL]PHENOXY}PROPANE-1,2-DIOL'>W07</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=W07:(2S)-3-{4-[2-(4-{[(2R)-2-HYDROXY-3,3-DIMETHYLBUTYL]OXY}PHENYL)PROPAN-2-YL]PHENOXY}PROPANE-1,2-DIOL'>W07</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3w0h\|3w0h]], [[3w0i\|3w0i]], [[3w0j\|3w0j]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3w0h\|3w0h]], [[3w0i\|3w0i]], [[3w0j\|3w0j]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Nr1i1, Vdr ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Nr1i1, Vdr ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=3w0g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0g OCA], [~~http~~://pdbe.org/3w0g PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3w0g RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3w0g PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3w0g 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=3w0g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0g OCA], [https://pdbe.org/3w0g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3w0g RCSB], [https://www.ebi.ac.uk/pdbsum/3w0g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3w0g ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/VDR_RAT VDR_RAT]] Nuclear hormone receptor. Transcription factor that mediates the action of vitamin D3 by controlling the expression of hormone sensitive genes. Regulates transcription of hormone sensitive genes via its association with the WINAC complex, a chromatin-remodeling complex. Recruited to promoters via its interaction with the WINAC complex subunit BAZ1B/WSTF, which mediates the interaction with acetylated histones, an essential step for VDR-promoter association. Plays a central role in calcium homeostasis.<ref>PMID:17227670</ref> [[~~http~~://www.uniprot.org/uniprot/MED1_HUMAN MED1_HUMAN]] Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.<ref>PMID:9653119</ref> <ref>PMID:10406464</ref> <ref>PMID:12218053</ref> <ref>PMID:12037571</ref> <ref>PMID:11867769</ref> <ref>PMID:12556447</ref> <ref>PMID:14636573</ref> <ref>PMID:15471764</ref> <ref>PMID:15340084</ref> <ref>PMID:15989967</ref> <ref>PMID:16574658</ref>	+	[[https://www.uniprot.org/uniprot/VDR_RAT VDR_RAT]] Nuclear hormone receptor. Transcription factor that mediates the action of vitamin D3 by controlling the expression of hormone sensitive genes. Regulates transcription of hormone sensitive genes via its association with the WINAC complex, a chromatin-remodeling complex. Recruited to promoters via its interaction with the WINAC complex subunit BAZ1B/WSTF, which mediates the interaction with acetylated histones, an essential step for VDR-promoter association. Plays a central role in calcium homeostasis.<ref>PMID:17227670</ref> [[https://www.uniprot.org/uniprot/MED1_HUMAN MED1_HUMAN]] Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.<ref>PMID:9653119</ref> <ref>PMID:10406464</ref> <ref>PMID:12218053</ref> <ref>PMID:12037571</ref> <ref>PMID:11867769</ref> <ref>PMID:12556447</ref> <ref>PMID:14636573</ref> <ref>PMID:15471764</ref> <ref>PMID:15340084</ref> <ref>PMID:15989967</ref> <ref>PMID:16574658</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 3w0g" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3w0g" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Vitamin D receptor 3D structures\|Vitamin D receptor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 25:		Line 28:
	</StructureSection>		</StructureSection>
	[[Category: Buffalo rat]]		[[Category: Buffalo rat]]
		+	[[Category: Large Structures]]
	[[Category: Asano, L]]		[[Category: Asano, L]]
	[[Category: Ito, I]]		[[Category: Ito, I]]

OCA at 07:59, 22 November 2017

OCA — Wed, 22 Nov 2017 07:59:30 GMT

←Older revision		Revision as of 07:59, 22 November 2017
Line 20:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 3w0g" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 3w0g" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Vitamin D receptor\|Vitamin D receptor]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 14:23, 5 August 2016

OCA — Fri, 05 Aug 2016 14:23:17 GMT

←Older revision		Revision as of 14:23, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal Structure of Rat VDR Ligand Binding Domain in Complex with Novel Nonsecosteroidal Ligands==		==Crystal Structure of Rat VDR Ligand Binding Domain in Complex with Novel Nonsecosteroidal Ligands==
	<StructureSection load='3w0g' size='340' side='right' caption='[[3w0g]], [[Resolution\|resolution]] 1.94Å' scene=''>		<StructureSection load='3w0g' size='340' side='right' caption='[[3w0g]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3w0g]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Rattus_norvegicus Rattus norvegicus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W0G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3W0G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3w0g]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W0G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3W0G FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=W07:(2S)-3-{4-[2-(4-{[(2R)-2-HYDROXY-3,3-DIMETHYLBUTYL]OXY}PHENYL)PROPAN-2-YL]PHENOXY}PROPANE-1,2-DIOL'>W07</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=W07:(2S)-3-{4-[2-(4-{[(2R)-2-HYDROXY-3,3-DIMETHYLBUTYL]OXY}PHENYL)PROPAN-2-YL]PHENOXY}PROPANE-1,2-DIOL'>W07</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3w0h\|3w0h]], [[3w0i\|3w0i]], [[3w0j\|3w0j]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3w0h\|3w0h]], [[3w0i\|3w0i]], [[3w0j\|3w0j]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Nr1i1, Vdr ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 ~~Rattus norvegicus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Nr1i1, Vdr ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=3w0g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3w0g RCSB], [http://www.ebi.ac.uk/pdbsum/3w0g 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=3w0g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0g OCA], [http://pdbe.org/3w0g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3w0g RCSB], [http://www.ebi.ac.uk/pdbsum/3w0g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3w0g ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	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 3w0g" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 25:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rattus norvegicus~~]]	+	[[Category: Buffalo rat]]
	[[Category: Asano, L]]		[[Category: Asano, L]]
	[[Category: Ito, I]]		[[Category: Ito, I]]

OCA at 03:13, 25 December 2014

OCA — Thu, 25 Dec 2014 03:13:20 GMT

←Older revision		Revision as of 03:13, 25 December 2014
Line 8:		Line 8:
	<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=3w0g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3w0g RCSB], [http://www.ebi.ac.uk/pdbsum/3w0g 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=3w0g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3w0g RCSB], [http://www.ebi.ac.uk/pdbsum/3w0g PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/VDR_RAT VDR_RAT]] Nuclear hormone receptor. Transcription factor that mediates the action of vitamin D3 by controlling the expression of hormone sensitive genes. Regulates transcription of hormone sensitive genes via its association with the WINAC complex, a chromatin-remodeling complex. Recruited to promoters via its interaction with the WINAC complex subunit BAZ1B/WSTF, which mediates the interaction with acetylated histones, an essential step for VDR-promoter association. Plays a central role in calcium homeostasis.<ref>PMID:17227670</ref> [[http://www.uniprot.org/uniprot/MED1_HUMAN MED1_HUMAN]] Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.<ref>PMID:9653119</ref> <ref>PMID:10406464</ref> <ref>PMID:12218053</ref> <ref>PMID:12037571</ref> <ref>PMID:11867769</ref> <ref>PMID:12556447</ref> <ref>PMID:14636573</ref> <ref>PMID:15471764</ref> <ref>PMID:15340084</ref> <ref>PMID:15989967</ref> <ref>PMID:16574658</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 06:37, 21 December 2014

OCA — Sun, 21 Dec 2014 06:37:23 GMT

←Older revision		Revision as of 06:37, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3w0g\| PDB=3w0g \| SCENE= }}~~	+	==Crystal Structure of Rat VDR Ligand Binding Domain in Complex with Novel Nonsecosteroidal Ligands==
-	===Crystal Structure of Rat VDR Ligand Binding Domain in Complex with Novel Nonsecosteroidal Ligands===	+	<StructureSection load='3w0g' size='340' side='right' caption='[[3w0g]], [[Resolution\|resolution]] 1.94Å' scene=''>
-	{{~~ABSTRACT_PUBMED_23462137~~}}	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3w0g]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W0G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3W0G FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=W07:(2S)-3-{4-[2-(4-{[(2R)-2-HYDROXY-3,3-DIMETHYLBUTYL]OXY}PHENYL)PROPAN-2-YL]PHENOXY}PROPANE-1,2-DIOL'>W07</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3w0h\|3w0h]], [[3w0i\|3w0i]], [[3w0j\|3w0j]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Nr1i1, Vdr ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Rattus norvegicus])</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=3w0g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w0g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3w0g RCSB], [http://www.ebi.ac.uk/pdbsum/3w0g PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Non-secosteroidal ligands for vitamin D receptor (VDR) have been developed for the agonist with non-calcemic profiles. Here, we provide the structural mechanism of VDR agonism by novel non-secosteroidal ligands. All ligands had the similar efficacy, while two had the higher potency. Crystallographic analyses revealed that all ligands interacted with helix H10 and the loop between helices H6 and H7 in a similar manner, but also that the two ligands with higher potency had different interaction modes. This study suggests that distinct ligand potency depend upon differences in the formation and rearrangement of hydrogen-bond networks induced by each ligand.

-	~~==Function==~~	+	Structural basis for vitamin D receptor agonism by novel non-secosteroidal ligands.,Asano L, Ito I, Kuwabara N, Waku T, Yanagisawa J, Miyachi H, Shimizu T FEBS Lett. 2013 Apr 2;587(7):957-63. doi: 10.1016/j.febslet.2013.02.028. Epub, 2013 Feb 24. PMID:23462137<ref>PMID:23462137</ref>
-	~~[[http://www.uniprot.org/uniprot/VDR_RAT VDR_RAT]] Nuclear hormone~~ receptor~~. Transcription factor that mediates the action of vitamin D3~~ by ~~controlling the expression of hormone sensitive genes. Regulates transcription of hormone sensitive genes via its association with the WINAC complex, a chromatin~~-~~remodeling complex~~. ~~Recruited to promoters via its interaction with the WINAC complex subunit BAZ1B/WSTF~~, ~~which mediates the interaction with acetylated histones~~, ~~an essential step for VDR~~-~~promoter association~~. ~~Plays a central role in calcium homeostasis~~.~~<ref>PMID:17227670</ref> [[http:/~~/~~www~~.~~uniprot~~.~~org/uniprot/MED1_HUMAN MED1_HUMAN]] Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes~~. ~~Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery~~. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.~~<ref>~~PMID:9653119</ref> <ref>PMID:10406464</ref> <ref>PMID:12218053</ref> <ref>PMID:12037571</ref> <ref>PMID:11867769</ref> <ref>PMID:12556447</ref> <ref>PMID:14636573</ref> <ref>PMID:15471764</ref> <ref>PMID:15340084</ref> <ref>PMID:15989967</ref> <ref>PMID:~~16574658~~</ref>	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3w0g]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Rattus_norvegicus Rattus norvegicus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3W0G OCA].~~	+	</div>

-	==~~Reference~~==	+	==See Also==
-	~~<ref group~~=~~"xtra">PMID:023462137</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	*[[Vitamin D receptor\|Vitamin D receptor]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Rattus norvegicus]]		[[Category: Rattus norvegicus]]
-	[[Category: Asano, L.]]	+	[[Category: Asano, L]]
-	[[Category: Ito, I.]]	+	[[Category: Ito, I]]
-	[[Category: Kuwabara, N.]]	+	[[Category: Kuwabara, N]]
-	[[Category: Miyachi, H.]]	+	[[Category: Miyachi, H]]
-	[[Category: Shimizu, T.]]	+	[[Category: Shimizu, T]]
-	[[Category: Waku, T.]]	+	[[Category: Waku, T]]
-	[[Category: Yanagisawa, J.]]	+	[[Category: Yanagisawa, J]]
	[[Category: Gene regulation]]		[[Category: Gene regulation]]
	[[Category: Transcription]]		[[Category: Transcription]]

OCA at 06:25, 10 October 2013

OCA — Thu, 10 Oct 2013 06:25:28 GMT

←Older revision		Revision as of 06:25, 10 October 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_3w0g\| PDB=3w0g \| SCENE= }}
		+	===Crystal Structure of Rat VDR Ligand Binding Domain in Complex with Novel Nonsecosteroidal Ligands===
		+	{{ABSTRACT_PUBMED_23462137}}

-	~~The entry 3w0g~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/VDR_RAT VDR_RAT]] Nuclear hormone receptor. Transcription factor that mediates the action of vitamin D3 by controlling the expression of hormone sensitive genes. Regulates transcription of hormone sensitive genes via its association with the WINAC complex, a chromatin-remodeling complex. Recruited to promoters via its interaction with the WINAC complex subunit BAZ1B/WSTF, which mediates the interaction with acetylated histones, an essential step for VDR-promoter association. Plays a central role in calcium homeostasis.<ref>PMID:17227670</ref> [[http://www.uniprot.org/uniprot/MED1_HUMAN MED1_HUMAN]] Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.<ref>PMID:9653119</ref> <ref>PMID:10406464</ref> <ref>PMID:12218053</ref> <ref>PMID:12037571</ref> <ref>PMID:11867769</ref> <ref>PMID:12556447</ref> <ref>PMID:14636573</ref> <ref>PMID:15471764</ref> <ref>PMID:15340084</ref> <ref>PMID:15989967</ref> <ref>PMID:16574658</ref>

-	~~Authors~~: ~~Shimizu, T~~.~~, Asano, L~~.~~, Kuwabara, N~~.~~, Ito, I~~.~~, Waku, T~~.~~, Yanagisawa, J~~.~~, Miyachi, H~~.	+	==About this Structure==
		+	[[3w0g]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W0G OCA].

-	~~Description~~: ~~Crystal Structure of Rat VDR Ligand Binding Domain in Complex with Novel Nonsecosteroidal Ligands~~	+	==Reference==
		+	<ref group="xtra">PMID:023462137</ref><references group="xtra"/><references/>
		+	[[Category: Rattus norvegicus]]
		+	[[Category: Asano, L.]]
		+	[[Category: Ito, I.]]
		+	[[Category: Kuwabara, N.]]
		+	[[Category: Miyachi, H.]]
		+	[[Category: Shimizu, T.]]
		+	[[Category: Waku, T.]]
		+	[[Category: Yanagisawa, J.]]
		+	[[Category: Gene regulation]]
		+	[[Category: Transcription]]

OCA at 10:34, 19 June 2013

OCA — Wed, 19 Jun 2013 10:34:05 GMT

←Older revision		Revision as of 10:34, 19 June 2013
Line 3:		Line 3:
	The entry 3w0g is ON HOLD until Paper Publication		The entry 3w0g is ON HOLD until Paper Publication

-	Authors: ~~Shinizu~~, T., Asano, L., Kuwabara, N., Ito, I., Waku, T., Yanagisawa, J., Miyachi, H.	+	Authors: Shimizu, T., Asano, L., Kuwabara, N., Ito, I., Waku, T., Yanagisawa, J., Miyachi, H.

	Description: Crystal Structure of Rat VDR Ligand Binding Domain in Complex with Novel Nonsecosteroidal Ligands		Description: Crystal Structure of Rat VDR Ligand Binding Domain in Complex with Novel Nonsecosteroidal Ligands

OCA at 09:50, 13 February 2013

OCA — Wed, 13 Feb 2013 09:50:32 GMT

←Older revision		Revision as of 09:50, 13 February 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3w0g is ON HOLD	+	The entry 3w0g is ON HOLD until Paper Publication

-	Authors: Shinizu, T, Asano,L, Kuwabara, N, Ito, I, Waku, T, Yanagisawa, J, Miyachi, H	+	Authors: Shinizu, T., Asano, L., Kuwabara, N., Ito, I., Waku, T., Yanagisawa, J., Miyachi, H.

	Description: Crystal Structure of Rat VDR Ligand Binding Domain in Complex with Novel Nonsecosteroidal Ligands		Description: Crystal Structure of Rat VDR Ligand Binding Domain in Complex with Novel Nonsecosteroidal Ligands

OCA: Protected "3w0g" [edit=sysop:move=sysop]

OCA — Thu, 08 Nov 2012 13:10:29 GMT

Protected "3w0g" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:10, 8 November 2012