2ct1 - Revision history

OCA at 11:30, 22 May 2024

OCA — Wed, 22 May 2024 11:30:29 GMT

←Older revision		Revision as of 11:30, 22 May 2024
Line 1:		Line 1:

	==Solution Structure of the zinc finger domain of Transcriptional repressor CTCF protein==		==Solution Structure of the zinc finger domain of Transcriptional repressor CTCF protein==
-	<StructureSection load='2ct1' size='340' side='right'caption='[[2ct1~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='2ct1' size='340' side='right'caption='[[2ct1]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ct1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CT1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CT1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ct1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CT1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CT1 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<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">Solution NMR</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~Ctcf ([https~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=2ct1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ct1 OCA], [https://pdbe.org/2ct1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ct1 RCSB], [https://www.ebi.ac.uk/pdbsum/2ct1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ct1 ProSAT], [https://www.topsan.org/Proteins/RSGI/2ct1 TOPSAN]</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=2ct1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ct1 OCA], [https://pdbe.org/2ct1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ct1 RCSB], [https://www.ebi.ac.uk/pdbsum/2ct1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ct1 ProSAT], [https://www.topsan.org/Proteins/RSGI/2ct1 TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/CTCF_HUMAN CTCF_HUMAN]] Chromatin binding factor that binds to DNA sequence specific sites. Involved in transcriptional regulation by binding to chromatin insulators and preventing interaction between promoter and nearby enhancers and silencers. Acts as transcriptional repressor binding to promoters of vertebrate MYC gene and BAG1 gene. Also binds to the PLK and PIM1 promoters. Acts as a transcriptional activator of APP. Regulates APOA1/C3/A4/A5 gene cluster and controls MHC class II gene expression. Plays an essential role in oocyte and preimplantation embryo development by activating or repressing transcription. Seems to act as tumor suppressor. Plays a critical role in the epigenetic regulation. Participates in the allele-specific gene expression at the imprinted IGF2/H19 gene locus. On the maternal allele, binding within the H19 imprinting control region (ICR) mediates maternally inherited higher-order chromatin conformation to restrict enhancer access to IGF2. Plays a critical role in gene silencing over considerable distances in the genome. Preferentially interacts with unmethylated DNA, preventing spreading of CpG methylation and maintaining methylation-free zones. Inversely, binding to target sites is prevented by CpG methylation. Plays a important role in chromatin remodeling. Can dimerize when it is bound to different DNA sequences, mediating long-range chromatin looping. Mediates interchromosomal association between IGF2/H19 and WSB1/NF1 and may direct distant DNA segments to a common transcription factory. Causes local loss of histone acetylation and gain of histone methylation in the beta-globin locus, without affecting transcription. When bound to chromatin, it provides an anchor point for nucleosomes positioning. Seems to be essential for homologous X-chromosome pairing. May participate with Tsix in establishing a regulatable epigenetic switch for X chromosome inactivation. May play a role in preventing the propagation of stable methylation at the escape genes from X- inactivation. Involved in sister chromatid cohesion. Associates with both centromeres and chromosomal arms during metaphase and required for cohesin localization to CTCF sites. Regulates asynchronous replication of IGF2/H19.<ref>PMID:8649389</ref> <ref>PMID:9591631</ref> <ref>PMID:11743158</ref> <ref>PMID:16815976</ref> <ref>PMID:17827499</ref> <ref>PMID:18413740</ref> <ref>PMID:18347100</ref> <ref>PMID:18654629</ref> <ref>PMID:18550811</ref> <ref>PMID:19322193</ref>	+	[https://www.uniprot.org/uniprot/CTCF_HUMAN CTCF_HUMAN] Chromatin binding factor that binds to DNA sequence specific sites. Involved in transcriptional regulation by binding to chromatin insulators and preventing interaction between promoter and nearby enhancers and silencers. Acts as transcriptional repressor binding to promoters of vertebrate MYC gene and BAG1 gene. Also binds to the PLK and PIM1 promoters. Acts as a transcriptional activator of APP. Regulates APOA1/C3/A4/A5 gene cluster and controls MHC class II gene expression. Plays an essential role in oocyte and preimplantation embryo development by activating or repressing transcription. Seems to act as tumor suppressor. Plays a critical role in the epigenetic regulation. Participates in the allele-specific gene expression at the imprinted IGF2/H19 gene locus. On the maternal allele, binding within the H19 imprinting control region (ICR) mediates maternally inherited higher-order chromatin conformation to restrict enhancer access to IGF2. Plays a critical role in gene silencing over considerable distances in the genome. Preferentially interacts with unmethylated DNA, preventing spreading of CpG methylation and maintaining methylation-free zones. Inversely, binding to target sites is prevented by CpG methylation. Plays a important role in chromatin remodeling. Can dimerize when it is bound to different DNA sequences, mediating long-range chromatin looping. Mediates interchromosomal association between IGF2/H19 and WSB1/NF1 and may direct distant DNA segments to a common transcription factory. Causes local loss of histone acetylation and gain of histone methylation in the beta-globin locus, without affecting transcription. When bound to chromatin, it provides an anchor point for nucleosomes positioning. Seems to be essential for homologous X-chromosome pairing. May participate with Tsix in establishing a regulatable epigenetic switch for X chromosome inactivation. May play a role in preventing the propagation of stable methylation at the escape genes from X- inactivation. Involved in sister chromatid cohesion. Associates with both centromeres and chromosomal arms during metaphase and required for cohesin localization to CTCF sites. Regulates asynchronous replication of IGF2/H19.<ref>PMID:8649389</ref> <ref>PMID:9591631</ref> <ref>PMID:11743158</ref> <ref>PMID:16815976</ref> <ref>PMID:17827499</ref> <ref>PMID:18413740</ref> <ref>PMID:18347100</ref> <ref>PMID:18654629</ref> <ref>PMID:18550811</ref> <ref>PMID:19322193</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 24:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Inoue, M]]	+	[[Category: Inoue M]]
-	[[Category: Kigawa, T]]	+	[[Category: Kigawa T]]
-	[[Category: Koshiba, S]]	+	[[Category: Koshiba S]]
-	[[Category: Miyamoto, K]]	+	[[Category: Miyamoto K]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Yokoyama S]]
-	[[Category: Yokoyama, S]]	+
-	~~[[Category: Ccctc-binding factor]]~~	+
-	~~[[Category: National project on protein structural and functional analyse]]~~	+
-	~~[[Category: Nppsfa]]~~	+
-	~~[[Category: Rsgi]]~~	+
-	~~[[Category: Transcription]]~~	+
-	~~[[Category: Transcriptional repressor ctcf]]~~	+
-	~~[[Category: Zinc finger~~]]	+

OCA at 11:49, 3 February 2021

OCA — Wed, 03 Feb 2021 11:49:42 GMT

←Older revision		Revision as of 11:49, 3 February 2021
Line 1:		Line 1:

	==Solution Structure of the zinc finger domain of Transcriptional repressor CTCF protein==		==Solution Structure of the zinc finger domain of Transcriptional repressor CTCF protein==
-	<StructureSection load='2ct1' size='340' side='right' caption='[[2ct1]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='2ct1' size='340' side='right'caption='[[2ct1]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ct1]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CT1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2CT1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ct1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CT1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CT1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ctcf ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ctcf ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=2ct1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ct1 OCA], [~~http~~://pdbe.org/2ct1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2ct1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2ct1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2ct1 ProSAT], [~~http~~://www.topsan.org/Proteins/RSGI/2ct1 TOPSAN]</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=2ct1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ct1 OCA], [https://pdbe.org/2ct1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ct1 RCSB], [https://www.ebi.ac.uk/pdbsum/2ct1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ct1 ProSAT], [https://www.topsan.org/Proteins/RSGI/2ct1 TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/CTCF_HUMAN CTCF_HUMAN]] Chromatin binding factor that binds to DNA sequence specific sites. Involved in transcriptional regulation by binding to chromatin insulators and preventing interaction between promoter and nearby enhancers and silencers. Acts as transcriptional repressor binding to promoters of vertebrate MYC gene and BAG1 gene. Also binds to the PLK and PIM1 promoters. Acts as a transcriptional activator of APP. Regulates APOA1/C3/A4/A5 gene cluster and controls MHC class II gene expression. Plays an essential role in oocyte and preimplantation embryo development by activating or repressing transcription. Seems to act as tumor suppressor. Plays a critical role in the epigenetic regulation. Participates in the allele-specific gene expression at the imprinted IGF2/H19 gene locus. On the maternal allele, binding within the H19 imprinting control region (ICR) mediates maternally inherited higher-order chromatin conformation to restrict enhancer access to IGF2. Plays a critical role in gene silencing over considerable distances in the genome. Preferentially interacts with unmethylated DNA, preventing spreading of CpG methylation and maintaining methylation-free zones. Inversely, binding to target sites is prevented by CpG methylation. Plays a important role in chromatin remodeling. Can dimerize when it is bound to different DNA sequences, mediating long-range chromatin looping. Mediates interchromosomal association between IGF2/H19 and WSB1/NF1 and may direct distant DNA segments to a common transcription factory. Causes local loss of histone acetylation and gain of histone methylation in the beta-globin locus, without affecting transcription. When bound to chromatin, it provides an anchor point for nucleosomes positioning. Seems to be essential for homologous X-chromosome pairing. May participate with Tsix in establishing a regulatable epigenetic switch for X chromosome inactivation. May play a role in preventing the propagation of stable methylation at the escape genes from X- inactivation. Involved in sister chromatid cohesion. Associates with both centromeres and chromosomal arms during metaphase and required for cohesin localization to CTCF sites. Regulates asynchronous replication of IGF2/H19.<ref>PMID:8649389</ref> <ref>PMID:9591631</ref> <ref>PMID:11743158</ref> <ref>PMID:16815976</ref> <ref>PMID:17827499</ref> <ref>PMID:18413740</ref> <ref>PMID:18347100</ref> <ref>PMID:18654629</ref> <ref>PMID:18550811</ref> <ref>PMID:19322193</ref>	+	[[https://www.uniprot.org/uniprot/CTCF_HUMAN CTCF_HUMAN]] Chromatin binding factor that binds to DNA sequence specific sites. Involved in transcriptional regulation by binding to chromatin insulators and preventing interaction between promoter and nearby enhancers and silencers. Acts as transcriptional repressor binding to promoters of vertebrate MYC gene and BAG1 gene. Also binds to the PLK and PIM1 promoters. Acts as a transcriptional activator of APP. Regulates APOA1/C3/A4/A5 gene cluster and controls MHC class II gene expression. Plays an essential role in oocyte and preimplantation embryo development by activating or repressing transcription. Seems to act as tumor suppressor. Plays a critical role in the epigenetic regulation. Participates in the allele-specific gene expression at the imprinted IGF2/H19 gene locus. On the maternal allele, binding within the H19 imprinting control region (ICR) mediates maternally inherited higher-order chromatin conformation to restrict enhancer access to IGF2. Plays a critical role in gene silencing over considerable distances in the genome. Preferentially interacts with unmethylated DNA, preventing spreading of CpG methylation and maintaining methylation-free zones. Inversely, binding to target sites is prevented by CpG methylation. Plays a important role in chromatin remodeling. Can dimerize when it is bound to different DNA sequences, mediating long-range chromatin looping. Mediates interchromosomal association between IGF2/H19 and WSB1/NF1 and may direct distant DNA segments to a common transcription factory. Causes local loss of histone acetylation and gain of histone methylation in the beta-globin locus, without affecting transcription. When bound to chromatin, it provides an anchor point for nucleosomes positioning. Seems to be essential for homologous X-chromosome pairing. May participate with Tsix in establishing a regulatable epigenetic switch for X chromosome inactivation. May play a role in preventing the propagation of stable methylation at the escape genes from X- inactivation. Involved in sister chromatid cohesion. Associates with both centromeres and chromosomal arms during metaphase and required for cohesin localization to CTCF sites. Regulates asynchronous replication of IGF2/H19.<ref>PMID:8649389</ref> <ref>PMID:9591631</ref> <ref>PMID:11743158</ref> <ref>PMID:16815976</ref> <ref>PMID:17827499</ref> <ref>PMID:18413740</ref> <ref>PMID:18347100</ref> <ref>PMID:18654629</ref> <ref>PMID:18550811</ref> <ref>PMID:19322193</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 25:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Inoue, M]]		[[Category: Inoue, M]]
	[[Category: Kigawa, T]]		[[Category: Kigawa, T]]

OCA at 08:03, 23 May 2018

OCA — Wed, 23 May 2018 08:03:12 GMT

←Older revision		Revision as of 08:03, 23 May 2018
Line 1:		Line 1:
		+
	==Solution Structure of the zinc finger domain of Transcriptional repressor CTCF protein==		==Solution Structure of the zinc finger domain of Transcriptional repressor CTCF protein==
	<StructureSection load='2ct1' size='340' side='right' caption='[[2ct1]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2ct1' size='340' side='right' caption='[[2ct1]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ctcf ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ctcf ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=2ct1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ct1 OCA], [http://pdbe.org/2ct1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ct1 RCSB], [http://www.ebi.ac.uk/pdbsum/2ct1 PDBsum], [http://www.topsan.org/Proteins/RSGI/2ct1 TOPSAN]</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=2ct1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ct1 OCA], [http://pdbe.org/2ct1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ct1 RCSB], [http://www.ebi.ac.uk/pdbsum/2ct1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ct1 ProSAT], [http://www.topsan.org/Proteins/RSGI/2ct1 TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ct/2ct1_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ct/2ct1_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>

OCA at 21:44, 9 February 2016

OCA — Tue, 09 Feb 2016 21:44:38 GMT

←Older revision		Revision as of 21:44, 9 February 2016
Line 17:		Line 17:
	<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=2ct1 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	== References ==		== References ==

OCA at 02:19, 11 September 2015

OCA — Fri, 11 Sep 2015 02:19:29 GMT

←Older revision		Revision as of 02:19, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='2ct1' size='340' side='right' caption='[[2ct1]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2ct1' size='340' side='right' caption='[[2ct1]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ct1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CT1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CT1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ct1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CT1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CT1 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ctcf ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ctcf ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=2ct1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ct1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ct1 RCSB], [http://www.ebi.ac.uk/pdbsum/2ct1 PDBsum], [http://www.topsan.org/Proteins/RSGI/2ct1 TOPSAN]</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=2ct1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ct1 OCA], [http://pdbe.org/2ct1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ct1 RCSB], [http://www.ebi.ac.uk/pdbsum/2ct1 PDBsum], [http://www.topsan.org/Proteins/RSGI/2ct1 TOPSAN]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 23:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Inoue, M]]		[[Category: Inoue, M]]
	[[Category: Kigawa, T]]		[[Category: Kigawa, T]]

OCA at 09:44, 25 December 2014

OCA — Thu, 25 Dec 2014 09:44:18 GMT

←Older revision		Revision as of 09:44, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2ct1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CT1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CT1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ct1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CT1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CT1 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ctcf ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ctcf ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=2ct1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ct1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ct1 RCSB], [http://www.ebi.ac.uk/pdbsum/2ct1 PDBsum], [http://www.topsan.org/Proteins/RSGI/2ct1 TOPSAN]</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=2ct1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ct1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ct1 RCSB], [http://www.ebi.ac.uk/pdbsum/2ct1 PDBsum], [http://www.topsan.org/Proteins/RSGI/2ct1 TOPSAN]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CTCF_HUMAN CTCF_HUMAN]] Chromatin binding factor that binds to DNA sequence specific sites. Involved in transcriptional regulation by binding to chromatin insulators and preventing interaction between promoter and nearby enhancers and silencers. Acts as transcriptional repressor binding to promoters of vertebrate MYC gene and BAG1 gene. Also binds to the PLK and PIM1 promoters. Acts as a transcriptional activator of APP. Regulates APOA1/C3/A4/A5 gene cluster and controls MHC class II gene expression. Plays an essential role in oocyte and preimplantation embryo development by activating or repressing transcription. Seems to act as tumor suppressor. Plays a critical role in the epigenetic regulation. Participates in the allele-specific gene expression at the imprinted IGF2/H19 gene locus. On the maternal allele, binding within the H19 imprinting control region (ICR) mediates maternally inherited higher-order chromatin conformation to restrict enhancer access to IGF2. Plays a critical role in gene silencing over considerable distances in the genome. Preferentially interacts with unmethylated DNA, preventing spreading of CpG methylation and maintaining methylation-free zones. Inversely, binding to target sites is prevented by CpG methylation. Plays a important role in chromatin remodeling. Can dimerize when it is bound to different DNA sequences, mediating long-range chromatin looping. Mediates interchromosomal association between IGF2/H19 and WSB1/NF1 and may direct distant DNA segments to a common transcription factory. Causes local loss of histone acetylation and gain of histone methylation in the beta-globin locus, without affecting transcription. When bound to chromatin, it provides an anchor point for nucleosomes positioning. Seems to be essential for homologous X-chromosome pairing. May participate with Tsix in establishing a regulatable epigenetic switch for X chromosome inactivation. May play a role in preventing the propagation of stable methylation at the escape genes from X- inactivation. Involved in sister chromatid cohesion. Associates with both centromeres and chromosomal arms during metaphase and required for cohesin localization to CTCF sites. Regulates asynchronous replication of IGF2/H19.<ref>PMID:8649389</ref> <ref>PMID:9591631</ref> <ref>PMID:11743158</ref> <ref>PMID:16815976</ref> <ref>PMID:17827499</ref> <ref>PMID:18413740</ref> <ref>PMID:18347100</ref> <ref>PMID:18654629</ref> <ref>PMID:18550811</ref> <ref>PMID:19322193</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 17:		Line 19:
	</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/chain_selection.php?pdb_ID=2ata ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Inoue, M.]]	+	[[Category: Inoue, M]]
-	[[Category: Kigawa, T.]]	+	[[Category: Kigawa, T]]
-	[[Category: Koshiba, S.]]	+	[[Category: Koshiba, S]]
-	[[Category: Miyamoto, K.]]	+	[[Category: Miyamoto, K]]
-	[[Category: ~~RSGI, RIKEN~~ Structural ~~Genomics/Proteomics Initiative.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Yokoyama, S.]]	+	[[Category: Yokoyama, S]]
	[[Category: Ccctc-binding factor]]		[[Category: Ccctc-binding factor]]
	[[Category: National project on protein structural and functional analyse]]		[[Category: National project on protein structural and functional analyse]]
	[[Category: Nppsfa]]		[[Category: Nppsfa]]
-	[[Category: Riken structural genomics/proteomics initiative]]
	[[Category: Rsgi]]		[[Category: Rsgi]]
-	[[Category: Structural genomic]]
	[[Category: Transcription]]		[[Category: Transcription]]
	[[Category: Transcriptional repressor ctcf]]		[[Category: Transcriptional repressor ctcf]]
	[[Category: Zinc finger]]		[[Category: Zinc finger]]

OCA at 00:45, 30 September 2014

OCA — Tue, 30 Sep 2014 00:45:21 GMT

←Older revision		Revision as of 00:45, 30 September 2014
Line 1:		Line 1:
-	~~[[Image:2ct1.png\|left\|200px]]~~	+	==Solution Structure of the zinc finger domain of Transcriptional repressor CTCF protein==
-		+	<StructureSection load='2ct1' size='340' side='right' caption='[[2ct1]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
-	~~{{STRUCTURE_2ct1\| PDB=2ct1 \| SCENE= }}~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[2ct1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CT1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CT1 FirstGlance]. <br>
-	===Solution Structure of the zinc finger domain of Transcriptional repressor CTCF protein===	+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
-		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Ctcf ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=2ct1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ct1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ct1 RCSB], [http://www.ebi.ac.uk/pdbsum/2ct1 PDBsum], [http://www.topsan.org/Proteins/RSGI/2ct1 TOPSAN]</span></td></tr>
-	==~~About this Structure~~==	+	<table>
-	[[2ct1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CT1 OCA].	+	== 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/ct/2ct1_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>
		+	__TOC__
		+	</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Inoue, M.]]		[[Category: Inoue, M.]]

OCA: Protected "2ct1" [edit=sysop:move=sysop]

OCA — Sun, 06 Jan 2013 10:05:56 GMT

Protected "2ct1" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:05, 6 January 2013

OCA at 10:05, 6 January 2013

OCA — Sun, 06 Jan 2013 10:05:50 GMT

←Older revision		Revision as of 10:05, 6 January 2013
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-	{{Seed}}
	[[Image:2ct1.png\|left\|200px]]		[[Image:2ct1.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2ct1", 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_2ct1\| PDB=2ct1 \| SCENE= }}		{{STRUCTURE_2ct1\| PDB=2ct1 \| SCENE= }}

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	==About this Structure==		==About this Structure==
-	~~2CT1~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CT1 OCA].	+	[[2ct1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CT1 OCA].
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Inoue, M.]]		[[Category: Inoue, M.]]
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	[[Category: Rsgi]]		[[Category: Rsgi]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
		+	[[Category: Transcription]]
	[[Category: Transcriptional repressor ctcf]]		[[Category: Transcriptional repressor ctcf]]
	[[Category: Zinc finger]]		[[Category: Zinc finger]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Nov 16 15:54:43 2008''

OCA at 13:54, 16 November 2008

OCA — Sun, 16 Nov 2008 13:54:44 GMT

←Older revision		Revision as of 13:54, 16 November 2008
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	==About this Structure==		==About this Structure==
-	2CT1 is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CT1 OCA].	+	2CT1 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CT1 OCA].
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Single protein]]
	[[Category: Inoue, M.]]		[[Category: Inoue, M.]]
	[[Category: Kigawa, T.]]		[[Category: Kigawa, T.]]
Line 32:		Line 31:
	[[Category: Zinc finger]]		[[Category: Zinc finger]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Sep 29 01~~:56:31 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Nov 16 15:54:43 2008''