4oln - Revision history

OCA at 12:40, 1 March 2024

2024-03-01T12:40:49Z

← Older revision		Revision as of 12:40, 1 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4oln]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OLN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4OLN FirstGlance]. <br>		<table><tr><td colspan='2'>[[4oln]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OLN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4OLN FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 1.7Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=4oln FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4oln OCA], [https://pdbe.org/4oln PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4oln RCSB], [https://www.ebi.ac.uk/pdbsum/4oln PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4oln 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=4oln FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4oln OCA], [https://pdbe.org/4oln PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4oln RCSB], [https://www.ebi.ac.uk/pdbsum/4oln PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4oln ProSAT]</span></td></tr>
	</table>		</table>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	Complex gene regulatory networks require transcription factors (TFs) to bind distinct DNA sequences. To understand how novel TF specificity evolves, we combined phylogenetic, biochemical, and biophysical approaches to interrogate how DNA recognition diversified in the steroid hormone receptor (SR) family. After duplication of the ancestral SR, three mutations in one copy radically weakened binding to the ancestral estrogen response element (ERE) and improved binding to a new set of DNA sequences (steroid response elements, SREs). They did so by establishing unfavorable interactions with ERE and abolishing unfavorable interactions with SRE; also required were numerous permissive substitutions, which nonspecifically improved cooperativity and affinity of DNA binding. Our findings indicate that negative determinants of binding play key roles in TFs' DNA selectivity and-with our prior work on the evolution of SR ligand specificity during the same interval-show how a specific new gene regulatory module evolved without interfering with the integrity of the ancestral module.

	Evolution of DNA specificity in a transcription factor family produced a new gene regulatory module.,McKeown AN, Bridgham JT, Anderson DW, Murphy MN, Ortlund EA, Thornton JW Cell. 2014 Sep 25;159(1):58-68. doi: 10.1016/j.cell.2014.09.003. PMID:25259920<ref>PMID:25259920</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 4oln" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 07:31, 25 January 2023

2023-01-25T07:31:38Z

← Older revision		Revision as of 07:31, 25 January 2023
Line 3:		Line 3:
	<StructureSection load='4oln' size='340' side='right'caption='[[4oln]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='4oln' size='340' side='right'caption='[[4oln]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4oln]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Synthetic_construct_sequences~~ Synthetic construct ~~sequences~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OLN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4OLN FirstGlance]. <br>		<table><tr><td colspan='2'>[[4oln]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OLN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4OLN FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</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=NA:SODIUM+ION'>NA</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">[[4ond\|4ond]], [[4oor\|4oor]]~~</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=4oln FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4oln OCA], [https://pdbe.org/4oln PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4oln RCSB], [https://www.ebi.ac.uk/pdbsum/4oln PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4oln 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=4oln FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4oln OCA], [~~http~~://pdbe.org/4oln PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4oln RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4oln PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4oln ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 22:		Line 21:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Synthetic construct ~~sequences~~]]		[[Category: Synthetic construct]]
	[[Category: Murphy~~, M N~~]]		[[Category: Murphy MN]]
	[[Category: Ortlund~~, E O]]~~		[[Category: Ortlund EO]]
	~~[[Category: Estrogen receptor]]~~
	~~[[Category: Nuclear receptor zinc finger]]~~
	~~[[Category: Steroid receptor dna binding]]~~
	~~[[Category: Transcription factor]]~~
	~~[[Category: Transcription-dna complex~~]]

OCA at 04:54, 13 February 2020

2020-02-13T04:54:53Z

← Older revision		Revision as of 04:54, 13 February 2020
Line 1:		Line 1:

	==Ancestral Steroid Receptor 1 in complex with estrogen response element DNA==		==Ancestral Steroid Receptor 1 in complex with estrogen response element DNA==
	<StructureSection load='4oln' size='340' side='right' caption='[[4oln]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='4oln' size='340' side='right'caption='[[4oln]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4oln]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Synthetic_construct_sequences Synthetic construct sequences]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OLN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4OLN FirstGlance]. <br>		<table><tr><td colspan='2'>[[4oln]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Synthetic_construct_sequences Synthetic construct sequences]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OLN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4OLN FirstGlance]. <br>
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: Synthetic construct sequences]]		[[Category: Synthetic construct sequences]]
	[[Category: Murphy, M N]]		[[Category: Murphy, M N]]

OCA at 08:27, 22 November 2017

2017-11-22T08:27:20Z

← Older revision		Revision as of 08:27, 22 November 2017
Line 3:		Line 3:
	<StructureSection load='4oln' size='340' side='right' caption='[[4oln]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='4oln' size='340' side='right' caption='[[4oln]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4oln]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OLN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4OLN FirstGlance]. <br>		<table><tr><td colspan='2'>[[4oln]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Synthetic_construct_sequences Synthetic construct sequences]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OLN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4OLN FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</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"><scene name='pdbligand=NA:SODIUM+ION'>NA</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">[[4ond\|4ond]], [[4oor\|4oor]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ond\|4ond]], [[4oor\|4oor]]</td></tr>
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Synthetic construct sequences]]
	[[Category: Murphy, M N]]		[[Category: Murphy, M N]]
	[[Category: Ortlund, E O]]		[[Category: Ortlund, E O]]

OCA at 15:54, 11 August 2016

2016-08-11T15:54:01Z

← Older revision		Revision as of 15:54, 11 August 2016
Line 1:		Line 1:

	==Ancestral Steroid Receptor 1 in complex with estrogen response element DNA==		==Ancestral Steroid Receptor 1 in complex with estrogen response element DNA==
	<StructureSection load='4oln' size='340' side='right' caption='[[4oln]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='4oln' size='340' side='right' caption='[[4oln]], [[Resolution\|resolution]] 1.70Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</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"><scene name='pdbligand=NA:SODIUM+ION'>NA</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">[[4ond\|4ond]], [[4oor\|4oor]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ond\|4ond]], [[4oor\|4oor]]</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=4oln FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4oln OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4oln RCSB], [http://www.ebi.ac.uk/pdbsum/4oln 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=4oln FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4oln OCA], [http://pdbe.org/4oln PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4oln RCSB], [http://www.ebi.ac.uk/pdbsum/4oln PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4oln ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	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 4oln" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 10:09, 25 January 2015

2015-01-25T10:09:25Z

← Older revision		Revision as of 10:09, 25 January 2015
Line 19:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Murphy, M N.]]		[[Category: Murphy, M N]]
	[[Category: Ortlund, E O.]]		[[Category: Ortlund, E O]]
	[[Category: Estrogen receptor]]		[[Category: Estrogen receptor]]
	[[Category: Nuclear receptor zinc finger]]		[[Category: Nuclear receptor zinc finger]]

OCA at 11:10, 29 October 2014

2014-10-29T11:10:19Z

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+==Ancestral Steroid Receptor 1 in complex with estrogen response element DNA==
-The entry 4oln is ON HOLD  until Paper Publication
+Evolution of DNA specificity in a transcription factor family produced a new gene regulatory module.,McKeown AN, Bridgham JT, Anderson DW, Murphy MN, Ortlund EA, Thornton JW Cell. 2014 Sep 25;159(1):58-68. doi: 10.1016/j.cell.2014.09.003. PMID:25259920<ref>PMID:25259920</ref>
-Authors: Ortlund, E.O., Murphy, M.N.
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
-Description: Ancestral Steroid Receptor 1 in complex with estrogen response element DNA
+== References ==

OCA at 06:17, 30 April 2014

2014-04-30T06:17:48Z

← Older revision		Revision as of 06:17, 30 April 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 4oln is ON HOLD		The entry 4oln is ON HOLD until Paper Publication

	Authors: Ortlund, E.O., Murphy, M.N.		Authors: Ortlund, E.O., Murphy, M.N.

	Description: Ancestral Steroid Receptor 1 in complex with estrogen response element DNA		Description: Ancestral Steroid Receptor 1 in complex with estrogen response element DNA

OCA at 04:51, 13 February 2014

2014-02-13T04:51:10Z

← Older revision		Revision as of 04:51, 13 February 2014
Line 3:		Line 3:
	The entry 4oln is ON HOLD		The entry 4oln is ON HOLD

	Authors: Ortlund, E.O., Murphy, M.		Authors: Ortlund, E.O., Murphy, M.N.

	Description: Ancestral Steroid Receptor 1 in complex with estrogen response element DNA		Description: Ancestral Steroid Receptor 1 in complex with estrogen response element DNA

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

2014-02-05T10:31:49Z

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

← Older revision	Revision as of 10:31, 5 February 2014
(No difference)