5x8s - Revision history

OCA at 07:55, 22 November 2023

2023-11-22T07:55:51Z

←Older revision		Revision as of 07:55, 22 November 2023
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	<StructureSection load='5x8s' size='340' side='right'caption='[[5x8s]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='5x8s' size='340' side='right'caption='[[5x8s]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5x8s]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Hylobates_concolor_leucogenys Hylobates concolor leucogenys~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X8S OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5X8S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5x8s]] is a 2 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=5X8S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5X8S FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=6Q5:Ursolic+acid'>6Q5</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]] 2.2Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5x8x\|5x8x]], [[5x8u\|5x8u]], [[5x8w\|5x8w]], [[5x8q\|5x8q]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6Q5:Ursolic+acid'>6Q5</scene></td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~"><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">RORC, NR1F3, RORG, RZRG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=61853 Hylobates concolor leucogenys])~~</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=5x8s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x8s OCA], [https://pdbe.org/5x8s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5x8s RCSB], [https://www.ebi.ac.uk/pdbsum/5x8s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5x8s 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=5x8s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x8s OCA], [~~http~~://pdbe.org/5x8s PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5x8s RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5x8s PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5x8s ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~RORG_HUMAN RORG_HUMAN~~]] Possible nuclear receptor for hydroxycholesterols, the binding of which strongly promotes coactivators recruitment. Essential for thymopoiesis and the development of several secondary lymphoid tissues, including lymph nodes. Involved in lineage specification of uncommitted CD4(+) T-helper cells into Th17 cells. Regulate the expression of several components of the circadian clock.	+	[https://www.uniprot.org/uniprot/G1RH57_NOMLE G1RH57_NOMLE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Hylobates concolor leucogenys~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Adachi, T]]	+	[[Category: Adachi T]]
-	[[Category: Doi, S]]	+	[[Category: Doi S]]
-	[[Category: Murase, K]]	+	[[Category: Murase K]]
-	[[Category: Noguchi, M]]	+	[[Category: Noguchi M]]
-	[[Category: Nomura, A]]	+	[[Category: Nomura A]]
-	[[Category: Yamaguchi, K]]	+	[[Category: Yamaguchi K]]
-	~~[[Category: Binary complex]]~~	+
-	~~[[Category: Inhibitor]]~~	+
-	~~[[Category: Nuclear receptor]]~~	+
-	~~[[Category: Transferase-inhibitor complex~~]]	+

OCA at 10:30, 17 June 2020

2020-06-17T10:30:40Z

←Older revision		Revision as of 10:30, 17 June 2020
Line 1:		Line 1:

	==Crystal Structure of the mutant Human ROR gamma Ligand Binding Domain With Ursolic acid.==		==Crystal Structure of the mutant Human ROR gamma Ligand Binding Domain With Ursolic acid.==
-	<StructureSection load='5x8s' size='340' side='right' caption='[[5x8s]], [[Resolution\|resolution]] 2.20Å' scene=''>	+	<StructureSection load='5x8s' size='340' side='right'caption='[[5x8s]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5x8s]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X8S OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5X8S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5x8s]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Hylobates_concolor_leucogenys Hylobates concolor leucogenys]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X8S OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5X8S FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6Q5:Ursolic+acid'>6Q5</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6Q5:Ursolic+acid'>6Q5</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5x8x\|5x8x]], [[5x8u\|5x8u]], [[5x8w\|5x8w]], [[5x8q\|5x8q]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5x8x\|5x8x]], [[5x8u\|5x8u]], [[5x8w\|5x8w]], [[5x8q\|5x8q]]</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=5x8s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x8s OCA], [http://pdbe.org/5x8s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x8s RCSB], [http://www.ebi.ac.uk/pdbsum/5x8s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x8s ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RORC, NR1F3, RORG, RZRG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=61853 Hylobates concolor leucogenys])</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=5x8s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x8s OCA], [http://pdbe.org/5x8s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x8s RCSB], [http://www.ebi.ac.uk/pdbsum/5x8s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x8s ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RORG_HUMAN RORG_HUMAN]] Possible nuclear receptor for hydroxycholesterols, the binding of which strongly promotes coactivators recruitment. Essential for thymopoiesis and the development of several secondary lymphoid tissues, including lymph nodes. Involved in lineage specification of uncommitted CD4(+) T-helper cells into Th17 cells. Regulate the expression of several components of the circadian clock.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Hylobates concolor leucogenys]]
		+	[[Category: Large Structures]]
	[[Category: Adachi, T]]		[[Category: Adachi, T]]
	[[Category: Doi, S]]		[[Category: Doi, S]]

OCA at 09:10, 3 August 2017

2017-08-03T09:10:38Z

←Older revision		Revision as of 09:10, 3 August 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5x8s is ~~ON HOLD until Paper~~ Publication	+	==Crystal Structure of the mutant Human ROR gamma Ligand Binding Domain With Ursolic acid.==
		+	<StructureSection load='5x8s' size='340' side='right' caption='[[5x8s]], [[Resolution\|resolution]] 2.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5x8s]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X8S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5X8S FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6Q5:Ursolic+acid'>6Q5</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5x8x\|5x8x]], [[5x8u\|5x8u]], [[5x8w\|5x8w]], [[5x8q\|5x8q]]</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=5x8s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x8s OCA], [http://pdbe.org/5x8s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x8s RCSB], [http://www.ebi.ac.uk/pdbsum/5x8s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x8s ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Retinoid-related orphan receptor gamma (RORgamma) directly controls the differentiation of Th17 cell and the production of interleukin-17, which plays an integral role in autoimmune diseases. To obtain insight into RORgamma, we have determined the first crystal structure of a ternary complex containing RORgamma ligand-binding domain (LBD) bound with a novel synthetic inhibitor and a repressor peptide, 22-mer peptide from silencing mediator of retinoic acid and thyroid hormone receptor (SMRT). Comparison of a binary complex of nonliganded (apo) RORgamma-LBD with a nuclear receptor co-activator (NCoA-1) peptide has shown that our inhibitor displays a unique mechanism different from those caused by natural inhibitor, ursolic acid (UA). The compound unprecedentedly induces indirect disruption of a hydrogen bond between His479 on helix 11 (H11) and Tyr502 on H12, which is crucial for active conformation. This crystallographic study will allow us to develop novel synthetic compounds for autoimmune disease therapy.

-	~~Authors: Noguchi~~, M., ~~Nomura~~, A., Murase, K., Doi, S., Yamaguchi, K., ~~Adachi~~, T.	+	Ternary complex of human RORgamma ligand-binding domain, inverse agonist and SMRT peptide shows a unique mechanism of corepressor recruitment.,Noguchi M, Nomura A, Murase K, Doi S, Yamaguchi K, Hirata K, Shiozaki M, Hirashima S, Kotoku M, Yamaguchi T, Katsuda Y, Steensma R, Li X, Tao H, Tse B, Fenn M, Babine R, Bradley E, Crowe P, Thacher S, Adachi T, Kamada M Genes Cells. 2017 Jun;22(6):535-551. doi: 10.1111/gtc.12494. Epub 2017 May 11. PMID:28493531<ref>PMID:28493531</ref>

-	~~Description: Crystal Structure~~ of the ~~mutant Human ROR gamma Ligand Binding Domain With Ursolic acid~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5x8s" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Adachi, T]]
	[[Category: Doi, S]]		[[Category: Doi, S]]
-	[[Category: Nomura, A]]
	[[Category: Murase, K]]		[[Category: Murase, K]]
-	[[Category: Adachi, T]]
	[[Category: Noguchi, M]]		[[Category: Noguchi, M]]
		+	[[Category: Nomura, A]]
	[[Category: Yamaguchi, K]]		[[Category: Yamaguchi, K]]
		+	[[Category: Binary complex]]
		+	[[Category: Inhibitor]]
		+	[[Category: Nuclear receptor]]
		+	[[Category: Transferase-inhibitor complex]]

OCA at 12:21, 5 April 2017

2017-04-05T12:21:55Z

←Older revision		Revision as of 12:21, 5 April 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5x8s is ON HOLD	+	The entry 5x8s is ON HOLD until Paper Publication

	Authors: Noguchi, M., Nomura, A., Murase, K., Doi, S., Yamaguchi, K., Adachi, T.		Authors: Noguchi, M., Nomura, A., Murase, K., Doi, S., Yamaguchi, K., Adachi, T.

OCA at 20:18, 15 March 2017

2017-03-15T20:18:50Z

←Older revision		Revision as of 20:18, 15 March 2017
Line 3:		Line 3:
	The entry 5x8s is ON HOLD		The entry 5x8s is ON HOLD

-	Authors: ~~Masato~~ Noguchi, ~~Akihiro~~ Nomura, ~~Ken~~ Murase, ~~Satoki~~ Doi, ~~Keishi~~ Yamaguchi, ~~Tsuyoshi~~ Adachi	+	Authors: Noguchi, M., Nomura, A., Murase, K., Doi, S., Yamaguchi, K., Adachi, T.

	Description: Crystal Structure of the mutant Human ROR gamma Ligand Binding Domain With Ursolic acid.		Description: Crystal Structure of the mutant Human ROR gamma Ligand Binding Domain With Ursolic acid.
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: ~~Masato Noguchi~~, ~~Akihiro~~ Nomura, ~~Ken~~ Murase, ~~Satoki Doi~~, ~~Keishi~~ Yamaguchi, ~~Tsuyoshi Adachi~~]]	+	[[Category: Doi, S]]
		+	[[Category: Nomura, A]]
		+	[[Category: Murase, K]]
		+	[[Category: Adachi, T]]
		+	[[Category: Noguchi, M]]
		+	[[Category: Yamaguchi, K]]

OCA: Protected "5x8s" [edit=sysop:move=sysop]

2017-03-09T15:54:55Z

Protected "5x8s" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:54, 9 March 2017

OCA: New page: '''Unreleased structure''' The entry 5x8s is ON HOLD Authors: Masato Noguchi, Akihiro Nomura, Ken Murase, Satoki Doi, Keishi Yamaguchi, Tsuyoshi Adachi Description: Crystal Structure o...

2017-03-09T15:54:53Z

New page: '''Unreleased structure''' The entry 5x8s is ON HOLD Authors: Masato Noguchi, Akihiro Nomura, Ken Murase, Satoki Doi, Keishi Yamaguchi, Tsuyoshi Adachi Description: Crystal Structure o...

New page

'''Unreleased structure'''

The entry 5x8s is ON HOLD

Authors: Masato Noguchi, Akihiro Nomura, Ken Murase, Satoki Doi, Keishi Yamaguchi, Tsuyoshi Adachi

Description: Crystal Structure of the mutant Human ROR gamma Ligand Binding Domain With Ursolic acid.
[[Category: Unreleased Structures]]
[[Category: Masato Noguchi, Akihiro Nomura, Ken Murase, Satoki Doi, Keishi Yamaguchi, Tsuyoshi Adachi]]