2ql2 - Revision history

OCA at 11:35, 30 August 2023

2023-08-30T11:35:22Z

← Older revision		Revision as of 11:35, 30 August 2023
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	<StructureSection load='2ql2' size='340' side='right'caption='[[2ql2]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2ql2' size='340' side='right'caption='[[2ql2]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2ql2]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Lk3_transgenic_mice Lk3 transgenic mice~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QL2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QL2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ql2]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QL2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QL2 FirstGlance]. <br>
	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>Tcf3 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~10090 LK3 transgenic mice])~~, ~~Neurod1, Neurod (~~[~~https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax~~.~~cgi?mode=Info&srchmode=~~5&~~id=10090 LK3 transgenic mice])~~</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]] 2.5Å</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=2ql2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ql2 OCA], [https://pdbe.org/2ql2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ql2 RCSB], [https://www.ebi.ac.uk/pdbsum/2ql2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ql2 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=2ql2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ql2 OCA], [https://pdbe.org/2ql2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ql2 RCSB], [https://www.ebi.ac.uk/pdbsum/2ql2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ql2 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/~~NDF1_MOUSE NDF1_MOUSE~~]~~] Acts as a transcriptional activator~~: ~~mediates transcriptional activation by binding to E box~~-~~containing promoter consensus core sequences 5'~~-~~CANNTG~~-~~3'. Associates with the p300/CBP transcription coactivator complex to stimulate transcription of the secretin gene as well as the gene encoding the cyclin~~-~~dependent kinase inhibitor CDKN1A. Contributes to the regulation of several~~ cell ~~differentiation pathways~~, like ~~those that promote the formation of~~ early ~~retinal ganglion cells, inner ear sensory neurons, granule cells forming either the cerebellum or the dentate gyrus~~ cell ~~layer of the hippocampus, endocrine islet cells of the pancreas and enteroendocrine cells of the small intestine~~. Together with ~~PAX6 or SIX3~~, ~~is required for the regulation of amacrine cell fate specification. Also~~ required for ~~dendrite morphogenesis and maintenance in~~ the ~~cerebellar cortex. Associates with chromatin~~ to ~~enhancer regulatory elements in genes encoding key transcriptional regulators of neurogenesis.<ref>PMID~~:~~9308961</ref> <ref>PMID~~:~~9512516</ref> <ref>PMID~~:~~10398678</ref> <ref>PMID~~:~~10639171</ref> <ref>PMID~~:~~11152640</ref> <ref>PMID~~:~~11861467</ref> <ref>PMID~~:~~11970861</ref> <ref>PMID~~:~~12810726</ref>~~ <ref>PMID:~~14697366~~</ref> <ref>PMID:~~15797719~~</ref> <ref>PMID:~~18007592~~</ref> <ref>PMID:~~18339630~~</ref> ~~<ref>PMID~~:~~19200230</ref> <ref>PMID:19759004</ref> <ref>PMID:21593321</ref>~~		[https://www.uniprot.org/uniprot/TFE2_MOUSE TFE2_MOUSE] Transcriptional regulator involved in the initiation of neuronal differentiation and mesenchymal to epithelial transition (PubMed:15226298, PubMed:18214987). Heterodimers between TCF3 and tissue-specific basic helix-loop-helix (bHLH) proteins play major roles in determining tissue-specific cell fate during embryogenesis, like muscle or early B-cell differentiation (PubMed:18214987). Together with TCF15, required for the mesenchymal to epithelial transition (PubMed:11309385, PubMed:15226298). Dimers bind DNA on E-box motifs: 5'-CANNTG-3' (PubMed:15226298, PubMed:18214987, PubMed:30426815). Binds to the kappa-E2 site in the kappa immunoglobulin gene enhancer (By similarity). Binds to IEB1 and IEB2, which are short DNA sequences in the insulin gene transcription control region (PubMed:2181401).[UniProtKB:P15923]<ref>PMID:11309385</ref> <ref>PMID:15226298</ref> <ref>PMID:18214987</ref> <ref>PMID:2181401</ref> Facilitates ATOH7 binding to DNA at the consensus sequence 5'-CAGGTG-3', and positively regulates transcriptional activity.[UniProtKB:P15923]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Lk3 transgenic mice~~]]		[[Category: Mus musculus]]
	[[Category: Guanga~~, G P~~]]		[[Category: Guanga GP]]
	[[Category: Longo, A]]		[[Category: Longo A]]
	[[Category: Rose~~, R B]]~~		[[Category: Rose RB]]
	~~[[Category: Activator]]~~
	~~[[Category: Basic-helix-loop-helix]]~~
	~~[[Category: Cytoplasm]]~~
	~~[[Category: Developmental protein]]~~
	~~[[Category: Differentiation]]~~
	~~[[Category: Dna-binding]]~~
	~~[[Category: Heterodimer]]~~
	~~[[Category: Neurogenesis]]~~
	~~[[Category: Nucleus]]~~
	~~[[Category: Phosphoprotein]]~~
	~~[[Category: Phosphorylation]]~~
	~~[[Category: Protein-dna complex]]~~
	~~[[Category: Transcription]]~~
	~~[[Category: Transcription regulation]]~~
	~~[[Category: Transcription-dna complex~~]]

OCA at 08:23, 25 June 2021

2021-06-25T08:23:47Z

← Older revision		Revision as of 08:23, 25 June 2021
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	==Crystal Structure of the basic-helix-loop-helix domains of the heterodimer E47/NeuroD1 bound to DNA==		==Crystal Structure of the basic-helix-loop-helix domains of the heterodimer E47/NeuroD1 bound to DNA==
	<StructureSection load='2ql2' size='340' side='right' caption='[[2ql2]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2ql2' size='340' side='right'caption='[[2ql2]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2ql2]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QL2 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2QL2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ql2]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QL2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QL2 FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Tcf3 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), Neurod1, Neurod ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Tcf3 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), Neurod1, Neurod ([https://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=2ql2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ql2 OCA], [~~http~~://pdbe.org/2ql2 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2ql2 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2ql2 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2ql2 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=2ql2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ql2 OCA], [https://pdbe.org/2ql2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ql2 RCSB], [https://www.ebi.ac.uk/pdbsum/2ql2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ql2 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/NDF1_MOUSE NDF1_MOUSE]] Acts as a transcriptional activator: mediates transcriptional activation by binding to E box-containing promoter consensus core sequences 5'-CANNTG-3'. Associates with the p300/CBP transcription coactivator complex to stimulate transcription of the secretin gene as well as the gene encoding the cyclin-dependent kinase inhibitor CDKN1A. Contributes to the regulation of several cell differentiation pathways, like those that promote the formation of early retinal ganglion cells, inner ear sensory neurons, granule cells forming either the cerebellum or the dentate gyrus cell layer of the hippocampus, endocrine islet cells of the pancreas and enteroendocrine cells of the small intestine. Together with PAX6 or SIX3, is required for the regulation of amacrine cell fate specification. Also required for dendrite morphogenesis and maintenance in the cerebellar cortex. Associates with chromatin to enhancer regulatory elements in genes encoding key transcriptional regulators of neurogenesis.<ref>PMID:9308961</ref> <ref>PMID:9512516</ref> <ref>PMID:10398678</ref> <ref>PMID:10639171</ref> <ref>PMID:11152640</ref> <ref>PMID:11861467</ref> <ref>PMID:11970861</ref> <ref>PMID:12810726</ref> <ref>PMID:14697366</ref> <ref>PMID:15797719</ref> <ref>PMID:18007592</ref> <ref>PMID:18339630</ref> <ref>PMID:19200230</ref> <ref>PMID:19759004</ref> <ref>PMID:21593321</ref>		[[https://www.uniprot.org/uniprot/NDF1_MOUSE NDF1_MOUSE]] Acts as a transcriptional activator: mediates transcriptional activation by binding to E box-containing promoter consensus core sequences 5'-CANNTG-3'. Associates with the p300/CBP transcription coactivator complex to stimulate transcription of the secretin gene as well as the gene encoding the cyclin-dependent kinase inhibitor CDKN1A. Contributes to the regulation of several cell differentiation pathways, like those that promote the formation of early retinal ganglion cells, inner ear sensory neurons, granule cells forming either the cerebellum or the dentate gyrus cell layer of the hippocampus, endocrine islet cells of the pancreas and enteroendocrine cells of the small intestine. Together with PAX6 or SIX3, is required for the regulation of amacrine cell fate specification. Also required for dendrite morphogenesis and maintenance in the cerebellar cortex. Associates with chromatin to enhancer regulatory elements in genes encoding key transcriptional regulators of neurogenesis.<ref>PMID:9308961</ref> <ref>PMID:9512516</ref> <ref>PMID:10398678</ref> <ref>PMID:10639171</ref> <ref>PMID:11152640</ref> <ref>PMID:11861467</ref> <ref>PMID:11970861</ref> <ref>PMID:12810726</ref> <ref>PMID:14697366</ref> <ref>PMID:15797719</ref> <ref>PMID:18007592</ref> <ref>PMID:18339630</ref> <ref>PMID:19200230</ref> <ref>PMID:19759004</ref> <ref>PMID:21593321</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</div>		</div>
	<div class="pdbe-citations 2ql2" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2ql2" style="background-color:#fffaf0;"></div>

	~~==See Also==~~
	*[[Journal:JBSD:27\|Journal:JBSD:27]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: Lk3 transgenic mice]]		[[Category: Lk3 transgenic mice]]
	[[Category: Guanga, G P]]		[[Category: Guanga, G P]]

OCA at 11:26, 5 September 2018

2018-09-05T11:26:19Z

← Older revision		Revision as of 11:26, 5 September 2018
Line 1:		Line 1:

	==Crystal Structure of the basic-helix-loop-helix domains of the heterodimer E47/NeuroD1 bound to DNA==		==Crystal Structure of the basic-helix-loop-helix domains of the heterodimer E47/NeuroD1 bound to DNA==
	<StructureSection load='2ql2' size='340' side='right' caption='[[2ql2]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2ql2' size='340' side='right' caption='[[2ql2]], [[Resolution\|resolution]] 2.50Å' scene=''>
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	<table><tr><td colspan='2'>[[2ql2]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QL2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QL2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ql2]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QL2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QL2 FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Tcf3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), Neurod1, Neurod ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Tcf3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), Neurod1, Neurod ([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=2ql2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ql2 OCA], [http://pdbe.org/2ql2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ql2 RCSB], [http://www.ebi.ac.uk/pdbsum/2ql2 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=2ql2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ql2 OCA], [http://pdbe.org/2ql2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ql2 RCSB], [http://www.ebi.ac.uk/pdbsum/2ql2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ql2 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ql/2ql2_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ql/2ql2_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2ql2 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	[[Category: Activator]]		[[Category: Activator]]
	[[Category: Basic-helix-loop-helix]]		[[Category: Basic-helix-loop-helix]]
			[[Category: Cytoplasm]]
	[[Category: Developmental protein]]		[[Category: Developmental protein]]
	[[Category: Differentiation]]		[[Category: Differentiation]]

OCA at 10:15, 11 September 2015

2015-09-11T10:15:40Z

← Older revision		Revision as of 10:15, 11 September 2015
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	<StructureSection load='2ql2' size='340' side='right' caption='[[2ql2]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='2ql2' size='340' side='right' caption='[[2ql2]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2ql2]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Mus_musculus Mus musculus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QL2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QL2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ql2]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QL2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QL2 FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Tcf3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 ~~Mus musculus~~]), Neurod1, Neurod ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 ~~Mus musculus~~])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Tcf3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), Neurod1, Neurod ([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=2ql2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ql2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ql2 RCSB], [http://www.ebi.ac.uk/pdbsum/2ql2 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=2ql2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ql2 OCA], [http://pdbe.org/2ql2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ql2 RCSB], [http://www.ebi.ac.uk/pdbsum/2ql2 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	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 2ql2" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Mus musculus~~]]		[[Category: Lk3 transgenic mice]]
	[[Category: Guanga, G P]]		[[Category: Guanga, G P]]
	[[Category: Longo, A]]		[[Category: Longo, A]]

OCA at 15:02, 25 December 2014

2014-12-25T15:02:22Z

← Older revision		Revision as of 15:02, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2ql2]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QL2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QL2 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ql2]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QL2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QL2 FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Tcf3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus]), Neurod1, Neurod ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Tcf3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus]), Neurod1, Neurod ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>
	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ql2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ql2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ql2 RCSB], [http://www.ebi.ac.uk/pdbsum/2ql2 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=2ql2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ql2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ql2 RCSB], [http://www.ebi.ac.uk/pdbsum/2ql2 PDBsum]</span></td></tr>
	<table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/NDF1_MOUSE NDF1_MOUSE]] Acts as a transcriptional activator: mediates transcriptional activation by binding to E box-containing promoter consensus core sequences 5'-CANNTG-3'. Associates with the p300/CBP transcription coactivator complex to stimulate transcription of the secretin gene as well as the gene encoding the cyclin-dependent kinase inhibitor CDKN1A. Contributes to the regulation of several cell differentiation pathways, like those that promote the formation of early retinal ganglion cells, inner ear sensory neurons, granule cells forming either the cerebellum or the dentate gyrus cell layer of the hippocampus, endocrine islet cells of the pancreas and enteroendocrine cells of the small intestine. Together with PAX6 or SIX3, is required for the regulation of amacrine cell fate specification. Also required for dendrite morphogenesis and maintenance in the cerebellar cortex. Associates with chromatin to enhancer regulatory elements in genes encoding key transcriptional regulators of neurogenesis.<ref>PMID:9308961</ref> <ref>PMID:9512516</ref> <ref>PMID:10398678</ref> <ref>PMID:10639171</ref> <ref>PMID:11152640</ref> <ref>PMID:11861467</ref> <ref>PMID:11970861</ref> <ref>PMID:12810726</ref> <ref>PMID:14697366</ref> <ref>PMID:15797719</ref> <ref>PMID:18007592</ref> <ref>PMID:18339630</ref> <ref>PMID:19200230</ref> <ref>PMID:19759004</ref> <ref>PMID:21593321</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Guanga, G P.]]		[[Category: Guanga, G P]]
	[[Category: Longo, A.]]		[[Category: Longo, A]]
	[[Category: Rose, R B.]]		[[Category: Rose, R B]]
	[[Category: Activator]]		[[Category: Activator]]
	[[Category: Basic-helix-loop-helix]]		[[Category: Basic-helix-loop-helix]]

OCA at 20:17, 30 September 2014

2014-09-30T20:17:36Z

← Older revision		Revision as of 20:17, 30 September 2014
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	[[Image:~~2ql2~~.~~png~~\|~~left~~\|~~200px~~]]		==Crystal Structure of the basic-helix-loop-helix domains of the heterodimer E47/NeuroD1 bound to DNA==
			<StructureSection load='2ql2' size='340' side='right' caption='[[2ql2]], [[Resolution\|resolution]] 2.50Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2ql2]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QL2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2QL2 FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Tcf3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus]), Neurod1, Neurod ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>
			<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ql2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ql2 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ql2 RCSB], [http://www.ebi.ac.uk/pdbsum/2ql2 PDBsum]</span></td></tr>
			<table>
			== Evolutionary Conservation ==
			[[Image:Consurf_key_small.gif\|200px\|right]]
			Check<jmol>
			<jmolCheckbox>
			<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ql/2ql2_consurf.spt"</scriptWhenChecked>
			<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
			<text>to colour the structure by Evolutionary Conservation</text>
			</jmolCheckbox>
			</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
			<div style="clear:both"></div>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The ubiquitous class I basic helix-loop-helix (bHLH) factor E47 forms heterodimers with multiple tissue specific class II bHLH proteins to regulate distinct differentiation pathways. In order to define how class I- class II heterodimer partners are selected, we determined the crystal structure of the E47-NeuroD1-bHLH dimer in complex with the insulin promoter E-box sequence. Purification of the bHLH domain of E47-NeuroD1 indicates that E47 heterodimers are stable in solution. The interactions between E47 and NeuroD1 in the heterodimer are comparable to the interactions between E47 monomers in the homodimer, including hydrogen bonding, buried hydrophobic surface, and packing interactions. This is consistent with a model in which E47-NeuroD1 heterodimers are favored due to the instability of NeuroD1 homodimers. Although E47-NeuroD1 is oriented uniquely on the E-box sequence (CATCTG) within the promoter of the insulin gene, no direct contacts are observed with the central base pairs within this E-box sequence. We propose that concerted domain motions allow E47 to form specific base contacts in solution. NeuroD1 is restrained from adopting the same base contacts by an additional phosphate backbone interaction by the neurogenic-specific residue His115. Orienting E47-NeuroD1 on promoters may foster protein-protein contacts essential to initiate transcription.

	~~{{STRUCTURE_2ql2\| PDB=2ql2 \| SCENE= }}~~		Crystal structure of E47-NeuroD1/beta2 bHLH domain-DNA complex: heterodimer selectivity and DNA recognition.,Longo A, Guanga GP, Rose RB Biochemistry. 2008 Jan 8;47(1):218-29. Epub 2007 Dec 11. PMID:18069799<ref>PMID:18069799</ref>

	~~===Crystal Structure~~ of the ~~basic-helix-loop-helix domains~~ of ~~the heterodimer E47~~/~~NeuroD1 bound to DNA===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>

	~~{{ABSTRACT_PUBMED_18069799}}~~		==See Also==
			*[[Journal:JBSD:27\|Journal:JBSD:27]]
	==~~About this Structure~~==		== References ==
	[[~~2ql2]] is a 8 chain structure with sequence from [http~~:~~//en.wikipedia.org/wiki/Mus_musculus Mus musculus~~]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QL2 OCA~~].		<references/>
			__TOC__
	==~~Reference~~==		</StructureSection>
	<~~ref group="xtra">PMID:018069799<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Guanga, G P.]]		[[Category: Guanga, G P.]]

OCA: Protected "2ql2" [edit=sysop:move=sysop]

2013-01-07T23:13:23Z

Protected "2ql2" [edit=sysop:move=sysop]

← Older revision	Revision as of 23:13, 7 January 2013
(No difference)

OCA at 23:13, 7 January 2013

2013-01-07T23:13:21Z

← Older revision		Revision as of 23:13, 7 January 2013
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	~~{{Seed}}~~
	[[Image:2ql2.png\|left\|200px]]		[[Image:2ql2.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_2ql2", creates the "Structure Box" on the page.~~
	~~You may change the PDB parameter (which sets the PDB file loaded into the applet)~~
	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded),~~
	~~or leave the SCENE parameter empty for the default display.~~
	~~-->~~
	{{STRUCTURE_2ql2\| PDB=2ql2 \| SCENE= }}		{{STRUCTURE_2ql2\| PDB=2ql2 \| SCENE= }}

	===Crystal Structure of the basic-helix-loop-helix domains of the heterodimer E47/NeuroD1 bound to DNA===		===Crystal Structure of the basic-helix-loop-helix domains of the heterodimer E47/NeuroD1 bound to DNA===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_18069799}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 18069799 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_18069799}}		{{ABSTRACT_PUBMED_18069799}}

	==About this Structure==		==About this Structure==
	~~2QL2~~ is a 8 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QL2 OCA].		[[2ql2]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QL2 OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~18069799~~</ref><references group="xtra"/>		<ref group="xtra">PMID:018069799</ref><references group="xtra"/>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Guanga, G P.]]		[[Category: Guanga, G P.]]
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	[[Category: Activator]]		[[Category: Activator]]
	[[Category: Basic-helix-loop-helix]]		[[Category: Basic-helix-loop-helix]]
	~~[[Category: Cytoplasm]]~~
	[[Category: Developmental protein]]		[[Category: Developmental protein]]
	[[Category: Differentiation]]		[[Category: Differentiation]]
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	[[Category: Transcription]]		[[Category: Transcription]]
	[[Category: Transcription regulation]]		[[Category: Transcription regulation]]
	[[Category: Transcription/dna complex]]		[[Category: Transcription-dna complex]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 19:42:02 2009''~~

OCA at 17:42, 17 February 2009

2009-02-17T17:42:04Z

← Older revision		Revision as of 17:42, 17 February 2009
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	==Reference==		==Reference==
	~~Crystal structure of E47-NeuroD1/beta2 bHLH domain-DNA complex: heterodimer selectivity and DNA recognition., Longo A, Guanga GP, Rose RB, Biochemistry. 2008 Jan 8;47(1):218-29. Epub 2007 Dec 11.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18069799 18069799]~~		<ref group="xtra">PMID:18069799</ref><references group="xtra"/>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Guanga, G P.]]		[[Category: Guanga, G P.]]
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	[[Category: Transcription/dna complex]]		[[Category: Transcription/dna complex]]

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Dec 10 15~~:44:~~42 2008~~''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 19:42:02 2009''

OCA at 13:44, 10 December 2008

2008-12-10T13:44:43Z

← Older revision		Revision as of 13:44, 10 December 2008
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	Crystal structure of E47-NeuroD1/beta2 bHLH domain-DNA complex: heterodimer selectivity and DNA recognition., Longo A, Guanga GP, Rose RB, Biochemistry. 2008 Jan 8;47(1):218-29. Epub 2007 Dec 11. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18069799 18069799]		Crystal structure of E47-NeuroD1/beta2 bHLH domain-DNA complex: heterodimer selectivity and DNA recognition., Longo A, Guanga GP, Rose RB, Biochemistry. 2008 Jan 8;47(1):218-29. Epub 2007 Dec 11. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18069799 18069799]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: ~~Pdbx_ordinal=~~, ~~<PDBx~~:~~audit_author~~.]]		[[Category: Guanga, G P.]]
			[[Category: Longo, A.]]
			[[Category: Rose, R B.]]
	[[Category: Activator]]		[[Category: Activator]]
	[[Category: Basic-helix-loop-helix]]		[[Category: Basic-helix-loop-helix]]
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	[[Category: Transcription/dna complex]]		[[Category: Transcription/dna complex]]

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Fri~~ Dec ~~5 09~~:46:16 2008''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 10 15:44:42 2008''