4xrs - Revision history

OCA at 10:50, 10 January 2024

OCA — Wed, 10 Jan 2024 10:50:43 GMT

←Older revision		Revision as of 10:50, 10 January 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4xrs]] is a 8 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=4XRS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XRS FirstGlance]. <br>		<table><tr><td colspan='2'>[[4xrs]] is a 8 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=4XRS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XRS FirstGlance]. <br>
-	</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=4xrs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xrs OCA], [https://pdbe.org/4xrs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xrs RCSB], [https://www.ebi.ac.uk/pdbsum/4xrs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xrs ProSAT]</span></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]] 3.5Å</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=4xrs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xrs OCA], [https://pdbe.org/4xrs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xrs RCSB], [https://www.ebi.ac.uk/pdbsum/4xrs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xrs ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==

OCA at 17:49, 26 April 2023

OCA — Wed, 26 Apr 2023 17:49:00 GMT

←Older revision		Revision as of 17:49, 26 April 2023
Line 3:		Line 3:
	<StructureSection load='4xrs' size='340' side='right'caption='[[4xrs]], [[Resolution\|resolution]] 3.50Å' scene=''>		<StructureSection load='4xrs' size='340' side='right'caption='[[4xrs]], [[Resolution\|resolution]] 3.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4xrs]] is a 8 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=4XRS OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4XRS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4xrs]] is a 8 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=4XRS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XRS FirstGlance]. <br>
-	</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]), DLX3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	</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=4xrs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xrs OCA], [https://pdbe.org/4xrs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xrs RCSB], [https://www.ebi.ac.uk/pdbsum/4xrs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xrs 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=4xrs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xrs OCA], [~~http~~://pdbe.org/4xrs PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4xrs RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4xrs PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4xrs ProSAT]</span></td></tr>	+
	</table>		</table>
	== Disease ==		== Disease ==
-	[[http://www.uniprot.org/uniprot/DLX3_HUMAN DLX3_HUMAN]] Tricho-dento-osseous syndrome;Hypomaturation-hypoplastic amelogenesis imperfecta with taurodontism. The disease is caused by mutations affecting the gene represented in this entry. The disease is caused by mutations affecting the gene represented in this entry. [[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/DLX3_HUMAN DLX3_HUMAN]] Likely to play a regulatory role in the development of the ventral forebrain. May play a role in craniofacial patterning and morphogenesis. [[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 ==
Line 24:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Dave, K]]	+	[[Category: Synthetic construct]]
-	[[Category: Enge, M]]	+	[[Category: Dave K]]
-	[[Category: Jorma, A]]	+	[[Category: Enge M]]
-	[[Category: Kivioja, T]]	+	[[Category: Jorma A]]
-	[[Category: Morgunova, E]]	+	[[Category: Kivioja T]]
-	[[Category: Nitta~~, K R~~]]	+	[[Category: Morgunova E]]
-	[[Category: Popov, A]]	+	[[Category: Nitta KR]]
-	[[Category: Taipale, J]]	+	[[Category: Popov A]]
-	[[Category: Yin, Y]]	+	[[Category: Taipale J]]
-	~~[[Category: Dna]]~~	+	[[Category: Yin Y]]
-	~~[[Category: Heterodimer]]~~	+
-	~~[[Category: Transcription~~]]	+

OCA at 07:52, 3 April 2019

OCA — Wed, 03 Apr 2019 07:52:16 GMT

←Older revision		Revision as of 07:52, 3 April 2019
Line 1:		Line 1:
		+
	==Heterodimeric complex of transcription factors MEIS1 and DLX3 on specific DNA==		==Heterodimeric complex of transcription factors MEIS1 and DLX3 on specific DNA==
-	<StructureSection load='4xrs' size='340' side='right' caption='[[4xrs]], [[Resolution\|resolution]] 3.50Å' scene=''>	+	<StructureSection load='4xrs' size='340' side='right'caption='[[4xrs]], [[Resolution\|resolution]] 3.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4xrs]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XRS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XRS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4xrs]] is a 8 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=4XRS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XRS FirstGlance]. <br>
-	</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=4xrs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xrs OCA], [http://pdbe.org/4xrs PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xrs RCSB], [http://www.ebi.ac.uk/pdbsum/4xrs PDBsum]</span></td></tr>	+	</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]), DLX3 ([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=4xrs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xrs OCA], [http://pdbe.org/4xrs PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xrs RCSB], [http://www.ebi.ac.uk/pdbsum/4xrs PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4xrs ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
Line 22:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Dave, K]]		[[Category: Dave, K]]
	[[Category: Enge, M]]		[[Category: Enge, M]]

OCA at 21:58, 30 November 2015

OCA — Mon, 30 Nov 2015 21:58:40 GMT

←Older revision		Revision as of 21:58, 30 November 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Heterodimeric complex of transcription factors MEIS1 and DLX3 on specific DNA==
		+	<StructureSection load='4xrs' size='340' side='right' caption='[[4xrs]], [[Resolution\|resolution]] 3.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4xrs]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XRS OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XRS FirstGlance]. <br>
		+	</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=4xrs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xrs OCA], [http://pdbe.org/4xrs PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xrs RCSB], [http://www.ebi.ac.uk/pdbsum/4xrs PDBsum]</span></td></tr>
		+	</table>
		+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/DLX3_HUMAN DLX3_HUMAN]] Tricho-dento-osseous syndrome;Hypomaturation-hypoplastic amelogenesis imperfecta with taurodontism. The disease is caused by mutations affecting the gene represented in this entry. The disease is caused by mutations affecting the gene represented in this entry. [[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/DLX3_HUMAN DLX3_HUMAN]] Likely to play a regulatory role in the development of the ventral forebrain. May play a role in craniofacial patterning and morphogenesis. [[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 ==
		+	Gene expression is regulated by transcription factors (TFs), proteins that recognize short DNA sequence motifs. Such sequences are very common in the human genome, and an important determinant of the specificity of gene expression is the cooperative binding of multiple TFs to closely located motifs. However, interactions between DNA-bound TFs have not been systematically characterized. To identify TF pairs that bind cooperatively to DNA, and to characterize their spacing and orientation preferences, we have performed consecutive affinity-purification systematic evolution of ligands by exponential enrichment (CAP-SELEX) analysis of 9,400 TF-TF-DNA interactions. This analysis revealed 315 TF-TF interactions recognizing 618 heterodimeric motifs, most of which have not been previously described. The observed cooperativity occurred promiscuously between TFs from diverse structural families. Structural analysis of the TF pairs, including a novel crystal structure of MEIS1 and DLX3 bound to their identified recognition site, revealed that the interactions between the TFs were predominantly mediated by DNA. Most TF pair sites identified involved a large overlap between individual TF recognition motifs, and resulted in recognition of composite sites that were markedly different from the individual TF's motifs. Together, our results indicate that the DNA molecule commonly plays an active role in cooperative interactions that define the gene regulatory lexicon.

-	~~The entry 4xrs is ON HOLD until Paper Publication~~	+	DNA-dependent formation of transcription factor pairs alters their binding specificity.,Jolma A, Yin Y, Nitta KR, Dave K, Popov A, Taipale M, Enge M, Kivioja T, Morgunova E, Taipale J Nature. 2015 Nov 19;527(7578):384-8. doi: 10.1038/nature15518. Epub 2015 Nov 9. PMID:26550823<ref>PMID:26550823</ref>

-	~~Authors: Jorma~~, A.~~, Yin, Y~~.~~, Nitta, K.R., Dave, K., Enge, M., Kivioja, T., Popov, A., Morgunova, E., Taipale, J~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Heterodimeric complex of transcription factors MEIS1 and DLX3 on specific DNA~~	+	<div class="pdbe-citations 4xrs" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
-	[[Category: ~~Popov~~, A]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Dave, K]]
		+	[[Category: Enge, M]]
	[[Category: Jorma, A]]		[[Category: Jorma, A]]
-	[[Category: Nitta, K.R]]
-	[[Category: Enge, M]]
	[[Category: Kivioja, T]]		[[Category: Kivioja, T]]
		+	[[Category: Morgunova, E]]
		+	[[Category: Nitta, K R]]
		+	[[Category: Popov, A]]
		+	[[Category: Taipale, J]]
	[[Category: Yin, Y]]		[[Category: Yin, Y]]
-	[[Category: ~~Dave, K~~]]	+	[[Category: Dna]]
-	[[Category: ~~Taipale, J~~]]	+	[[Category: Heterodimer]]
-	[[Category: ~~Morgunova, E~~]]	+	[[Category: Transcription]]

OCA at 11:37, 18 February 2015

OCA — Wed, 18 Feb 2015 11:37:31 GMT

←Older revision		Revision as of 11:37, 18 February 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4xrs is ON HOLD	+	The entry 4xrs is ON HOLD until Paper Publication

	Authors: Jorma, A., Yin, Y., Nitta, K.R., Dave, K., Enge, M., Kivioja, T., Popov, A., Morgunova, E., Taipale, J.		Authors: Jorma, A., Yin, Y., Nitta, K.R., Dave, K., Enge, M., Kivioja, T., Popov, A., Morgunova, E., Taipale, J.

OCA at 14:45, 7 February 2015

OCA — Sat, 07 Feb 2015 14:45:21 GMT

←Older revision		Revision as of 14:45, 7 February 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4xrs is ON HOLD ~~until sometime in the future~~	+	The entry 4xrs is ON HOLD

	Authors: Jorma, A., Yin, Y., Nitta, K.R., Dave, K., Enge, M., Kivioja, T., Popov, A., Morgunova, E., Taipale, J.		Authors: Jorma, A., Yin, Y., Nitta, K.R., Dave, K., Enge, M., Kivioja, T., Popov, A., Morgunova, E., Taipale, J.

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

OCA — Wed, 28 Jan 2015 15:45:35 GMT

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

←Older revision

Revision as of 15:45, 28 January 2015

OCA: New page: '''Unreleased structure''' The entry 4xrs is ON HOLD until sometime in the future Authors: Jorma, A., Yin, Y., Nitta, K.R., Dave, K., Enge, M., Kivioja, T., Popov, A., Morgunova, E., Ta...

OCA — Wed, 28 Jan 2015 15:45:34 GMT

New page: '''Unreleased structure''' The entry 4xrs is ON HOLD until sometime in the future Authors: Jorma, A., Yin, Y., Nitta, K.R., Dave, K., Enge, M., Kivioja, T., Popov, A., Morgunova, E., Ta...

New page

'''Unreleased structure'''

The entry 4xrs is ON HOLD until sometime in the future

Authors: Jorma, A., Yin, Y., Nitta, K.R., Dave, K., Enge, M., Kivioja, T., Popov, A., Morgunova, E., Taipale, J.

Description: Heterodimeric complex of transcription factors MEIS1 and DLX3 on specific DNA
[[Category: Unreleased Structures]]
[[Category: Popov, A]]
[[Category: Jorma, A]]
[[Category: Nitta, K.R]]
[[Category: Enge, M]]
[[Category: Kivioja, T]]
[[Category: Yin, Y]]
[[Category: Dave, K]]
[[Category: Taipale, J]]
[[Category: Morgunova, E]]