5zk1 - Revision history

OCA at 08:58, 22 November 2023

OCA — Wed, 22 Nov 2023 08:58:27 GMT

←Older revision		Revision as of 08:58, 22 November 2023
Line 3:		Line 3:
	<StructureSection load='5zk1' size='340' side='right'caption='[[5zk1]], [[Resolution\|resolution]] 3.05Å' scene=''>		<StructureSection load='5zk1' size='340' side='right'caption='[[5zk1]], [[Resolution\|resolution]] 3.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zk1]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZK1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5ZK1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zk1]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens], [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus] 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=5ZK1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ZK1 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">X-ray diffraction, [[Resolution\|Resolution]] 3.05Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5zk1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zk1 OCA], [~~http~~://pdbe.org/5zk1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5zk1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5zk1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5zk1 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=5zk1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zk1 OCA], [https://pdbe.org/5zk1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5zk1 RCSB], [https://www.ebi.ac.uk/pdbsum/5zk1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5zk1 ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
-	[~~[http~~://www.uniprot.org/uniprot/CREB1_HUMAN CREB1_HUMAN]] Melanoma of soft part. Angiomatoid fibrous histiocytoma (AFH) [MIM:[~~http~~://omim.org/entry/612160 612160]]: A distinct variant of malignant fibrous histiocytoma that typically occurs in children and adolescents and is manifest by nodular subcutaneous growth. Characteristic microscopic features include lobulated sheets of histiocyte-like cells intimately associated with areas of hemorrhage and cystic pseudovascular spaces, as well as a striking cuffing of inflammatory cells, mimicking a lymph node metastasis. Note=The gene represented in this entry may be involved in disease pathogenesis. A chromosomal aberration involving CREB1 is found in a patient with angiomatoid fibrous histiocytoma. Translocation t(2;22)(q33;q12) with CREB1 generates a EWSR1/CREB1 fusion gene that is most common genetic abnormality in this tumor type. Note=A CREB1 mutation has been found in a patient with multiple congenital anomalies consisting of agenesis of the corpus callosum, cerebellar hypoplasia, severe neonatal respiratory distress refractory to surfactant, thymus hypoplasia, and thyroid follicular hypoplasia (PubMed:22267179).	+	[https://www.uniprot.org/uniprot/CREB1_HUMAN CREB1_HUMAN] Melanoma of soft part. Angiomatoid fibrous histiocytoma (AFH) [MIM:[https://omim.org/entry/612160 612160]: A distinct variant of malignant fibrous histiocytoma that typically occurs in children and adolescents and is manifest by nodular subcutaneous growth. Characteristic microscopic features include lobulated sheets of histiocyte-like cells intimately associated with areas of hemorrhage and cystic pseudovascular spaces, as well as a striking cuffing of inflammatory cells, mimicking a lymph node metastasis. Note=The gene represented in this entry may be involved in disease pathogenesis. A chromosomal aberration involving CREB1 is found in a patient with angiomatoid fibrous histiocytoma. Translocation t(2;22)(q33;q12) with CREB1 generates a EWSR1/CREB1 fusion gene that is most common genetic abnormality in this tumor type. Note=A CREB1 mutation has been found in a patient with multiple congenital anomalies consisting of agenesis of the corpus callosum, cerebellar hypoplasia, severe neonatal respiratory distress refractory to surfactant, thymus hypoplasia, and thyroid follicular hypoplasia (PubMed:22267179).
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/CRTC2_MOUSE CRTC2_MOUSE]] Transcriptional coactivator for CREB1 which activates transcription through both consensus and variant cAMP response element (CRE) sites. Acts as a coactivator, in the SIK/TORC signaling pathway, being active when dephosphorylated and acts independently of CREB1 'Ser-133' phosphorylation. Enhances the interaction of CREB1 with TAF4. Regulates gluconeogenesis as a component of the LKB1/AMPK/TORC2 signaling pathway. Regulates the expression of specific genes such as the steroidogenic gene, StAR. Potent coactivator of PPARGC1A and inducer of mitochondrial biogenesis in muscle cells (By similarity).<ref>PMID:16148943</ref> <ref>PMID:16308421</ref> [[http://www.uniprot.org/uniprot/CREB1_HUMAN CREB1_HUMAN]] Phosphorylation-dependent transcription factor that stimulates transcription upon binding to the DNA cAMP response element (CRE), a sequence present in many viral and cellular promoters. Transcription activation is enhanced by the TORC coactivators which act independently of Ser-133 phosphorylation. Involved in different cellular processes including the synchronization of circadian rhythmicity and the differentiation of adipose cells.	+	[https://www.uniprot.org/uniprot/CREB1_HUMAN CREB1_HUMAN] Phosphorylation-dependent transcription factor that stimulates transcription upon binding to the DNA cAMP response element (CRE), a sequence present in many viral and cellular promoters. Transcription activation is enhanced by the TORC coactivators which act independently of Ser-133 phosphorylation. Involved in different cellular processes including the synchronization of circadian rhythmicity and the differentiation of adipose cells.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 28:		Line 28:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Valencia-Swain, J~~]]	+	[[Category: Mus musculus]]
-	[[Category: ~~Xiang, S~~]]	+	[[Category: Synthetic construct]]
-	[[Category: ~~Zhai, L]]~~	+	[[Category: Valencia-Swain J]]
-	~~[[Category: Co~~-~~activator~~]]	+	[[Category: Xiang S]]
-	[[Category: ~~Cre~~]]	+	[[Category: Zhai L]]
-	[[Category: ~~Creb]]~~	+
-	~~[[Category: Crtc]]~~	+
-	~~[[Category: Transcription factor]]~~	+
-	~~[[Category: Transcription-dna complex~~]]	+

OCA at 21:20, 28 October 2020

OCA — Wed, 28 Oct 2020 21:20:48 GMT

←Older revision		Revision as of 21:20, 28 October 2020
Line 1:		Line 1:

	==Crystal Structure of the CRTC2(SeMet)-CREB-CRE complex==		==Crystal Structure of the CRTC2(SeMet)-CREB-CRE complex==
-	<StructureSection load='5zk1' size='340' side='right' caption='[[5zk1]], [[Resolution\|resolution]] 3.05Å' scene=''>	+	<StructureSection load='5zk1' size='340' side='right'caption='[[5zk1]], [[Resolution\|resolution]] 3.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5zk1]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZK1 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5ZK1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5zk1]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZK1 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5ZK1 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='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=5zk1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zk1 OCA], [http://pdbe.org/5zk1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zk1 RCSB], [http://www.ebi.ac.uk/pdbsum/5zk1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zk1 ProSAT]</span></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=5zk1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zk1 OCA], [http://pdbe.org/5zk1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zk1 RCSB], [http://www.ebi.ac.uk/pdbsum/5zk1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zk1 ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
Line 21:		Line 21:
	</div>		</div>
	<div class="pdbe-citations 5zk1" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5zk1" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[CREB-binding protein 3D structures\|CREB-binding protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Valencia-Swain, J]]		[[Category: Valencia-Swain, J]]
	[[Category: Xiang, S]]		[[Category: Xiang, S]]

OCA at 05:45, 20 June 2018

OCA — Wed, 20 Jun 2018 05:45:01 GMT

←Older revision		Revision as of 05:45, 20 June 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	The entry ~~5zk1~~ is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Crystal Structure of the CRTC2(SeMet)-CREB-CRE complex==
		+	<StructureSection load='5zk1' size='340' side='right' caption='[[5zk1]], [[Resolution\|resolution]] 3.05Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5zk1]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZK1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ZK1 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>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=5zk1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zk1 OCA], [http://pdbe.org/5zk1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zk1 RCSB], [http://www.ebi.ac.uk/pdbsum/5zk1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zk1 ProSAT]</span></td></tr>
		+	</table>
		+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/CREB1_HUMAN CREB1_HUMAN]] Melanoma of soft part. Angiomatoid fibrous histiocytoma (AFH) [MIM:[http://omim.org/entry/612160 612160]]: A distinct variant of malignant fibrous histiocytoma that typically occurs in children and adolescents and is manifest by nodular subcutaneous growth. Characteristic microscopic features include lobulated sheets of histiocyte-like cells intimately associated with areas of hemorrhage and cystic pseudovascular spaces, as well as a striking cuffing of inflammatory cells, mimicking a lymph node metastasis. Note=The gene represented in this entry may be involved in disease pathogenesis. A chromosomal aberration involving CREB1 is found in a patient with angiomatoid fibrous histiocytoma. Translocation t(2;22)(q33;q12) with CREB1 generates a EWSR1/CREB1 fusion gene that is most common genetic abnormality in this tumor type. Note=A CREB1 mutation has been found in a patient with multiple congenital anomalies consisting of agenesis of the corpus callosum, cerebellar hypoplasia, severe neonatal respiratory distress refractory to surfactant, thymus hypoplasia, and thyroid follicular hypoplasia (PubMed:22267179).
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CRTC2_MOUSE CRTC2_MOUSE]] Transcriptional coactivator for CREB1 which activates transcription through both consensus and variant cAMP response element (CRE) sites. Acts as a coactivator, in the SIK/TORC signaling pathway, being active when dephosphorylated and acts independently of CREB1 'Ser-133' phosphorylation. Enhances the interaction of CREB1 with TAF4. Regulates gluconeogenesis as a component of the LKB1/AMPK/TORC2 signaling pathway. Regulates the expression of specific genes such as the steroidogenic gene, StAR. Potent coactivator of PPARGC1A and inducer of mitochondrial biogenesis in muscle cells (By similarity).<ref>PMID:16148943</ref> <ref>PMID:16308421</ref> [[http://www.uniprot.org/uniprot/CREB1_HUMAN CREB1_HUMAN]] Phosphorylation-dependent transcription factor that stimulates transcription upon binding to the DNA cAMP response element (CRE), a sequence present in many viral and cellular promoters. Transcription activation is enhanced by the TORC coactivators which act independently of Ser-133 phosphorylation. Involved in different cellular processes including the synchronization of circadian rhythmicity and the differentiation of adipose cells.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The cAMP response element (CRE) binding protein (CREB) is central in the transcription regulation by cAMP, and the CREB-regulated transcriptional coactivators (CRTCs) play critical roles in CREB-mediated transcription activation. Upon stimulation, CRTCs translocate into the nucleus and complex with CREB on CRE promoters to activate target gene transcription. Their physiological importance is underscored by their function in energy balance, long-term memory, longevity and other processes. The CREB binding domain on CRTCs has been mapped, which interacts with the CREB basic leucine zipper domain that also mediates interaction with CRE-containing DNA. We report here crystal structures of a complex containing the CRTC2 CREB binding domain, the CREB basic leucine zipper domain and a CRE-containing DNA. The structures revealed that CRTC and CREB form a 2:2 complex on CRE-containing DNA, and CRTC interacts with both CREB and DNA through highly conserved residues. Structure-guided functional studies revealed that both interactions are crucial for the complex assembly and CREB stabilization on DNA. Interestingly, we found that the CRTC-DNA interaction confers selectivity toward the intrinsic DNA shape, which may play a role in selective transcription activation of the CRE genes.

-	~~Authors: Xiang, S~~., ~~Zhai~~, L., Valencia-Swain, J.	+	Structural Insights into the CRTC2-CREB Complex Assembly on CRE.,Song Y, Zhai L, Valencia Swain J, Chen Y, Wang P, Chen L, Liu Y, Xiang S J Mol Biol. 2018 Jun 22;430(13):1926-1939. doi: 10.1016/j.jmb.2018.04.038. Epub, 2018 May 4. PMID:29733854<ref>PMID:29733854</ref>

-	~~Description: Crystal Structure~~ of the ~~CRTC2(SeMet)~~-~~CREB~~-~~CRE complex~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	~~[[Category: Zhai, L]]~~	+	<div class="pdbe-citations 5zk1" style="background-color:#fffaf0;"></div>
-	~~[[Category: Xiang, S]]~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Valencia-Swain, J]]		[[Category: Valencia-Swain, J]]
		+	[[Category: Xiang, S]]
		+	[[Category: Zhai, L]]
		+	[[Category: Co-activator]]
		+	[[Category: Cre]]
		+	[[Category: Creb]]
		+	[[Category: Crtc]]
		+	[[Category: Transcription factor]]
		+	[[Category: Transcription-dna complex]]

OCA at 03:49, 25 April 2018

OCA — Wed, 25 Apr 2018 03:49:06 GMT

←Older revision		Revision as of 03:49, 25 April 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5zk1 is ON HOLD	+	The entry 5zk1 is ON HOLD until Paper Publication

	Authors: Xiang, S., Zhai, L., Valencia-Swain, J.		Authors: Xiang, S., Zhai, L., Valencia-Swain, J.

OCA at 04:30, 4 April 2018

OCA — Wed, 04 Apr 2018 04:30:53 GMT

←Older revision		Revision as of 04:30, 4 April 2018
Line 3:		Line 3:
	The entry 5zk1 is ON HOLD		The entry 5zk1 is ON HOLD

-	Authors: Xiang, S., Zhai, L., Valencia Swain, J.	+	Authors: Xiang, S., Zhai, L., Valencia-Swain, J.

	Description: Crystal Structure of the CRTC2(SeMet)-CREB-CRE complex		Description: Crystal Structure of the CRTC2(SeMet)-CREB-CRE complex
Line 9:		Line 9:
	[[Category: Zhai, L]]		[[Category: Zhai, L]]
	[[Category: Xiang, S]]		[[Category: Xiang, S]]
-	[[Category: Valencia Swain, J]]	+	[[Category: Valencia-Swain, J]]

OCA: Protected "5zk1" [edit=sysop:move=sysop]

OCA — Wed, 28 Mar 2018 05:13:44 GMT

Protected "5zk1" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:13, 28 March 2018

OCA: New page: '''Unreleased structure''' The entry 5zk1 is ON HOLD Authors: Xiang, S., Zhai, L., Valencia Swain, J. Description: Crystal Structure of the CRTC2(SeMet)-CREB-CRE complex [[Category: Un...

OCA — Wed, 28 Mar 2018 05:13:43 GMT

New page: '''Unreleased structure''' The entry 5zk1 is ON HOLD Authors: Xiang, S., Zhai, L., Valencia Swain, J. Description: Crystal Structure of the CRTC2(SeMet)-CREB-CRE complex [[Category: Un...

New page

'''Unreleased structure'''

The entry 5zk1 is ON HOLD

Authors: Xiang, S., Zhai, L., Valencia Swain, J.

Description: Crystal Structure of the CRTC2(SeMet)-CREB-CRE complex
[[Category: Unreleased Structures]]
[[Category: Zhai, L]]
[[Category: Xiang, S]]
[[Category: Valencia Swain, J]]