5ego - Revision history

OCA at 06:26, 5 July 2023

OCA — Wed, 05 Jul 2023 06:26:14 GMT

←Older revision		Revision as of 06:26, 5 July 2023
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	<StructureSection load='5ego' size='340' side='right'caption='[[5ego]], [[Resolution\|resolution]] 2.54Å' scene=''>		<StructureSection load='5ego' size='340' side='right'caption='[[5ego]], [[Resolution\|resolution]] 2.54Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ego]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EGO OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5EGO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ego]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EGO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5EGO FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=5CM:5-METHYL~~-2~~-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</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]] 2.54Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~MEIS1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=5~~&id=9606 HUMAN]), HOXB13 ([http:~~/~~/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=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene></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=5ego FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ego OCA], [~~http~~://pdbe.org/5ego PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5ego RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5ego PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5ego 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=5ego FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ego OCA], [https://pdbe.org/5ego PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ego RCSB], [https://www.ebi.ac.uk/pdbsum/5ego PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ego ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
-	[~~[http~~://www.uniprot.org/uniprot/MEIS1_HUMAN MEIS1_HUMAN]] Disease susceptibility may be associated with variations affecting the gene represented in this entry.	+	[https://www.uniprot.org/uniprot/MEIS1_HUMAN MEIS1_HUMAN] Disease susceptibility may be associated with variations affecting the gene represented in this entry.
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/HXB13_HUMAN HXB13_HUMAN]] Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis. [[http://www.uniprot.org/uniprot/MEIS1_HUMAN MEIS1_HUMAN]] Acts as a transcriptional regulator of PAX6. Acts as a transcriptional activator of PF4 in complex with PBX1 or PBX2. Required for hematopoiesis, megakaryocyte lineage development and vascular patterning. May function as a cofactor for HOXA7 and HOXA9 in the induction of myeloid leukemias.<ref>PMID:12609849</ref>	+	[https://www.uniprot.org/uniprot/MEIS1_HUMAN MEIS1_HUMAN] Acts as a transcriptional regulator of PAX6. Acts as a transcriptional activator of PF4 in complex with PBX1 or PBX2. Required for hematopoiesis, megakaryocyte lineage development and vascular patterning. May function as a cofactor for HOXA7 and HOXA9 in the induction of myeloid leukemias.<ref>PMID:12609849</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Jolma, A]]	+	[[Category: Synthetic construct]]
-	[[Category: Morgunova, E]]	+	[[Category: Jolma A]]
-	[[Category: Popov, A]]	+	[[Category: Morgunova E]]
-	[[Category: Taipale, J]]	+	[[Category: Popov A]]
-	[[Category: Yin, Y]]	+	[[Category: Taipale J]]
-	~~[[Category: Bound to dna]]~~	+	[[Category: Yin Y]]
-	~~[[Category: Complex]]~~	+
-	~~[[Category: Heterodimer]]~~	+
-	~~[[Category: Transcription]]~~	+
-	~~[[Category: Transcription factor~~]]	+

OCA at 06:57, 22 April 2020

OCA — Wed, 22 Apr 2020 06:57:22 GMT

←Older revision		Revision as of 06:57, 22 April 2020
Line 1:		Line 1:

	==HOXB13-MEIS1 heterodimer bound to methylated DNA==		==HOXB13-MEIS1 heterodimer bound to methylated DNA==
-	<StructureSection load='5ego' size='340' side='right' caption='[[5ego]], [[Resolution\|resolution]] 2.54Å' scene=''>	+	<StructureSection load='5ego' size='340' side='right'caption='[[5ego]], [[Resolution\|resolution]] 2.54Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ego]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EGO OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5EGO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ego]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EGO OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5EGO FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene></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=5ego FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ego OCA], [http://pdbe.org/5ego PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ego RCSB], [http://www.ebi.ac.uk/pdbsum/5ego PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ego ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MEIS1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN]), HOXB13 ([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://proteopedia.org/fgij/fg.htm?mol=5ego FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ego OCA], [http://pdbe.org/5ego PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ego RCSB], [http://www.ebi.ac.uk/pdbsum/5ego PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ego ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
Line 20:		Line 21:
	</div>		</div>
	<div class="pdbe-citations 5ego" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5ego" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Hox protein\|Hox protein]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Jolma, A]]		[[Category: Jolma, A]]
	[[Category: Morgunova, E]]		[[Category: Morgunova, E]]

OCA at 09:00, 17 May 2017

OCA — Wed, 17 May 2017 09:00:23 GMT

←Older revision		Revision as of 09:00, 17 May 2017
Line 11:		Line 11:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/HXB13_HUMAN HXB13_HUMAN]] Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis. [[http://www.uniprot.org/uniprot/MEIS1_HUMAN MEIS1_HUMAN]] Acts as a transcriptional regulator of PAX6. Acts as a transcriptional activator of PF4 in complex with PBX1 or PBX2. Required for hematopoiesis, megakaryocyte lineage development and vascular patterning. May function as a cofactor for HOXA7 and HOXA9 in the induction of myeloid leukemias.<ref>PMID:12609849</ref>		[[http://www.uniprot.org/uniprot/HXB13_HUMAN HXB13_HUMAN]] Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis. [[http://www.uniprot.org/uniprot/MEIS1_HUMAN MEIS1_HUMAN]] Acts as a transcriptional regulator of PAX6. Acts as a transcriptional activator of PF4 in complex with PBX1 or PBX2. Required for hematopoiesis, megakaryocyte lineage development and vascular patterning. May function as a cofactor for HOXA7 and HOXA9 in the induction of myeloid leukemias.<ref>PMID:12609849</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The majority of CpG dinucleotides in the human genome are methylated at cytosine bases. However, active gene regulatory elements are generally hypomethylated relative to their flanking regions, and the binding of some transcription factors (TFs) is diminished by methylation of their target sequences. By analysis of 542 human TFs with methylation-sensitive SELEX (systematic evolution of ligands by exponential enrichment), we found that there are also many TFs that prefer CpG-methylated sequences. Most of these are in the extended homeodomain family. Structural analysis showed that homeodomain specificity for methylcytosine depends on direct hydrophobic interactions with the methylcytosine 5-methyl group. This study provides a systematic examination of the effect of an epigenetic DNA modification on human TF binding specificity and reveals that many developmentally important proteins display preference for mCpG-containing sequences.
		+
		+	Impact of cytosine methylation on DNA binding specificities of human transcription factors.,Yin Y, Morgunova E, Jolma A, Kaasinen E, Sahu B, Khund-Sayeed S, Das PK, Kivioja T, Dave K, Zhong F, Nitta KR, Taipale M, Popov A, Ginno PA, Domcke S, Yan J, Schubeler D, Vinson C, Taipale J Science. 2017 May 5;356(6337). pii: eaaj2239. doi: 10.1126/science.aaj2239. PMID:28473536<ref>PMID:28473536</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5ego" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 19:44, 9 December 2016

OCA — Fri, 09 Dec 2016 19:44:50 GMT

←Older revision		Revision as of 19:44, 9 December 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5ego is ~~ON HOLD until Paper Publication~~	+	==HOXB13-MEIS1 heterodimer bound to methylated DNA==
-		+	<StructureSection load='5ego' size='340' side='right' caption='[[5ego]], [[Resolution\|resolution]] 2.54Å' scene=''>
-	~~Authors~~: ~~Morgunova~~, E., ~~Yin, Y~~., ~~Jolma, A~~., ~~Popov, A~~., ~~Taipale, J~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5ego]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EGO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EGO FirstGlance]. <br>
-	~~Description~~: ~~HOXB13~~-~~MEIS1 heterodimer bound to methylated DNA~~	+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=5ego FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ego OCA], [http://pdbe.org/5ego PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ego RCSB], [http://www.ebi.ac.uk/pdbsum/5ego PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ego ProSAT]</span></td></tr>
		+	</table>
		+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/MEIS1_HUMAN MEIS1_HUMAN]] Disease susceptibility may be associated with variations affecting the gene represented in this entry.
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/HXB13_HUMAN HXB13_HUMAN]] Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis. [[http://www.uniprot.org/uniprot/MEIS1_HUMAN MEIS1_HUMAN]] Acts as a transcriptional regulator of PAX6. Acts as a transcriptional activator of PF4 in complex with PBX1 or PBX2. Required for hematopoiesis, megakaryocyte lineage development and vascular patterning. May function as a cofactor for HOXA7 and HOXA9 in the induction of myeloid leukemias.<ref>PMID:12609849</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Jolma, A]]
		+	[[Category: Morgunova, E]]
	[[Category: Popov, A]]		[[Category: Popov, A]]
-	[[Category: ~~Jolma~~, A]]	+	[[Category: Taipale, J]]
	[[Category: Yin, Y]]		[[Category: Yin, Y]]
-	[[Category: ~~Taipale, J~~]]	+	[[Category: Bound to dna]]
-	[[Category: ~~Morgunova, E~~]]	+	[[Category: Complex]]
		+	[[Category: Heterodimer]]
		+	[[Category: Transcription]]
		+	[[Category: Transcription factor]]

OCA at 22:18, 10 May 2016

OCA — Tue, 10 May 2016 22:18:29 GMT

←Older revision		Revision as of 22:18, 10 May 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Morgunova, E., Yin, Y., Jolma, A., Popov, A., Taipale, J.		Authors: Morgunova, E., Yin, Y., Jolma, A., Popov, A., Taipale, J.

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

OCA — Tue, 01 Dec 2015 02:48:33 GMT

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

←Older revision

Revision as of 02:48, 1 December 2015

OCA: New page: '''Unreleased structure''' The entry 5ego is ON HOLD Authors: Morgunova, E., Yin, Y., Jolma, A., Popov, A., Taipale, J. Description: HOXB13-MEIS1 heterodimer bound to methylated DNA [[...

OCA — Tue, 01 Dec 2015 02:48:31 GMT

New page: '''Unreleased structure''' The entry 5ego is ON HOLD Authors: Morgunova, E., Yin, Y., Jolma, A., Popov, A., Taipale, J. Description: HOXB13-MEIS1 heterodimer bound to methylated DNA [[...

New page

'''Unreleased structure'''

The entry 5ego is ON HOLD

Authors: Morgunova, E., Yin, Y., Jolma, A., Popov, A., Taipale, J.

Description: HOXB13-MEIS1 heterodimer bound to methylated DNA
[[Category: Unreleased Structures]]
[[Category: Popov, A]]
[[Category: Jolma, A]]
[[Category: Yin, Y]]
[[Category: Taipale, J]]
[[Category: Morgunova, E]]