5cem - Revision history

OCA at 12:20, 6 March 2024

2024-03-06T12:20:11Z

←Older revision		Revision as of 12:20, 6 March 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5cem]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CEM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CEM FirstGlance]. <br>		<table><tr><td colspan='2'>[[5cem]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CEM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CEM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.1Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=5cem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cem OCA], [https://pdbe.org/5cem PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5cem RCSB], [https://www.ebi.ac.uk/pdbsum/5cem PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5cem 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=5cem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cem OCA], [https://pdbe.org/5cem PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5cem RCSB], [https://www.ebi.ac.uk/pdbsum/5cem PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5cem ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/TRIB1_HUMAN TRIB1_HUMAN] Interacts with MAPK kinases and regulates activation of MAP kinases. May not display kinase activity.<ref>PMID:15299019</ref> <ref>PMID:15299019</ref>		[https://www.uniprot.org/uniprot/TRIB1_HUMAN TRIB1_HUMAN] Interacts with MAPK kinases and regulates activation of MAP kinases. May not display kinase activity.<ref>PMID:15299019</ref> <ref>PMID:15299019</ref>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	CCAAT-enhancer binding proteins (C/EBPs) are transcription factors that play a central role in the differentiation of myeloid cells and adipocytes. Tribbles pseudokinases govern levels of C/EBPs by recruiting them to the COP1 ubiquitin ligase for ubiquitination. Here, we present the first crystal structure of a Tribbles protein, which reveals a catalytically inactive TRIB1 pseudokinase domain with a unique adaptation in the alphaC helix. A second crystal structure and biophysical studies of TRIB1 with its C-terminal extension, which includes the COP1-binding motif, show that the C-terminal extension is sequestered at a site formed by the modified TRIB1 alphaC helix. In addition, we have identified and characterized the TRIB1 substrate-recognition sequence within C/EBPalpha, which is evolutionarily conserved in C/EBP transcription factors. Binding studies indicate that C/EBPalpha recruitment is weaker in the presence of the C-terminal COP1-binding motif, but the magnitude of this effect suggests that the two bind distinct rather directly overlapping binding sites.
-
-	Molecular Mechanism of CCAAT-Enhancer Binding Protein Recruitment by the TRIB1 Pseudokinase.,Murphy JM, Nakatani Y, Jamieson SA, Dai W, Lucet IS, Mace PD Structure. 2015 Nov 3;23(11):2111-21. doi: 10.1016/j.str.2015.08.017. Epub 2015, Oct 9. PMID:26455797<ref>PMID:26455797</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5cem" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:01, 14 June 2023

2023-06-14T12:01:41Z

←Older revision		Revision as of 12:01, 14 June 2023
Line 1:		Line 1:

	==Pseudokinase and C-terminal extension of Human Tribbles Homolog 1==		==Pseudokinase and C-terminal extension of Human Tribbles Homolog 1==
-	<StructureSection load='5cem' size='340' side='right' caption='[[5cem]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='5cem' size='340' side='right'caption='[[5cem]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5cem]] is a 1 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=5CEM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5CEM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5cem]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CEM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CEM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cek\|5cek]]</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=5cem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cem OCA], [https://pdbe.org/5cem PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5cem RCSB], [https://www.ebi.ac.uk/pdbsum/5cem PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5cem ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TRIB1, C8FW, GIG2, TRB1 ([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=5cem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cem OCA], [~~http~~://pdbe.org/5cem PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5cem RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5cem PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5cem ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/TRIB1_HUMAN TRIB1_HUMAN]] Interacts with MAPK kinases and regulates activation of MAP kinases. May not display kinase activity.<ref>PMID:15299019</ref> <ref>PMID:15299019</ref>	+	[https://www.uniprot.org/uniprot/TRIB1_HUMAN TRIB1_HUMAN] Interacts with MAPK kinases and regulates activation of MAP kinases. May not display kinase activity.<ref>PMID:15299019</ref> <ref>PMID:15299019</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
-	[[Category: ~~Mace, P D~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Nakatani, Y~~]]	+	[[Category: Mace PD]]
-	[[Category: ~~Kinase]]~~	+	[[Category: Nakatani Y]]
-	~~[[Category: Kinase-like]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 06:11, 1 November 2017

2017-11-01T06:11:03Z

←Older revision		Revision as of 06:11, 1 November 2017
Line 1:		Line 1:
		+
	==Pseudokinase and C-terminal extension of Human Tribbles Homolog 1==		==Pseudokinase and C-terminal extension of Human Tribbles Homolog 1==
	<StructureSection load='5cem' size='340' side='right' caption='[[5cem]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='5cem' size='340' side='right' caption='[[5cem]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5cem]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CEM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CEM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5cem]] is a 1 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=5CEM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CEM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cek\|5cek]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cek\|5cek]]</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=5cem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cem OCA], [http://pdbe.org/5cem PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5cem RCSB], [http://www.ebi.ac.uk/pdbsum/5cem PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TRIB1, C8FW, GIG2, TRB1 ([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=5cem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cem OCA], [http://pdbe.org/5cem PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5cem RCSB], [http://www.ebi.ac.uk/pdbsum/5cem PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5cem ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 22:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Mace, P D]]		[[Category: Mace, P D]]
	[[Category: Nakatani, Y]]		[[Category: Nakatani, Y]]

OCA at 19:53, 30 November 2015

2015-11-30T19:53:38Z

←Older revision		Revision as of 19:53, 30 November 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Pseudokinase and C-terminal extension of Human Tribbles Homolog 1==
		+	<StructureSection load='5cem' size='340' side='right' caption='[[5cem]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5cem]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CEM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CEM FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cek\|5cek]]</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=5cem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cem OCA], [http://pdbe.org/5cem PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5cem RCSB], [http://www.ebi.ac.uk/pdbsum/5cem PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TRIB1_HUMAN TRIB1_HUMAN]] Interacts with MAPK kinases and regulates activation of MAP kinases. May not display kinase activity.<ref>PMID:15299019</ref> <ref>PMID:15299019</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	CCAAT-enhancer binding proteins (C/EBPs) are transcription factors that play a central role in the differentiation of myeloid cells and adipocytes. Tribbles pseudokinases govern levels of C/EBPs by recruiting them to the COP1 ubiquitin ligase for ubiquitination. Here, we present the first crystal structure of a Tribbles protein, which reveals a catalytically inactive TRIB1 pseudokinase domain with a unique adaptation in the alphaC helix. A second crystal structure and biophysical studies of TRIB1 with its C-terminal extension, which includes the COP1-binding motif, show that the C-terminal extension is sequestered at a site formed by the modified TRIB1 alphaC helix. In addition, we have identified and characterized the TRIB1 substrate-recognition sequence within C/EBPalpha, which is evolutionarily conserved in C/EBP transcription factors. Binding studies indicate that C/EBPalpha recruitment is weaker in the presence of the C-terminal COP1-binding motif, but the magnitude of this effect suggests that the two bind distinct rather directly overlapping binding sites.

-	~~The entry 5cem is ON HOLD until Paper Publication~~	+	Molecular Mechanism of CCAAT-Enhancer Binding Protein Recruitment by the TRIB1 Pseudokinase.,Murphy JM, Nakatani Y, Jamieson SA, Dai W, Lucet IS, Mace PD Structure. 2015 Nov 3;23(11):2111-21. doi: 10.1016/j.str.2015.08.017. Epub 2015, Oct 9. PMID:26455797<ref>PMID:26455797</ref>

-	~~Authors: Mace~~, P.D.~~, Nakatani, Y~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~:	+	<div class="pdbe-citations 5cem" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Mace, P D]]
	[[Category: Nakatani, Y]]		[[Category: Nakatani, Y]]
-	[[Category: ~~Mace, P.D~~]]	+	[[Category: Kinase]]
		+	[[Category: Kinase-like]]
		+	[[Category: Transferase]]

OCA at 13:20, 29 July 2015

2015-07-29T13:20:30Z

←Older revision		Revision as of 13:20, 29 July 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Mace, P.D., Nakatani, Y.		Authors: Mace, P.D., Nakatani, Y.

OCA at 13:03, 22 July 2015

2015-07-22T13:03:05Z

←Older revision		Revision as of 13:03, 22 July 2015
Line 3:		Line 3:
	The entry 5cem is ON HOLD		The entry 5cem is ON HOLD

-	Authors: Mace, P.D.,, Nakatani, Y.	+	Authors: Mace, P.D., Nakatani, Y.

	Description:		Description:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: , Nakatani, Y]]	+	[[Category: Nakatani, Y]]
	[[Category: Mace, P.D]]		[[Category: Mace, P.D]]

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

2015-07-15T12:28:42Z

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

←Older revision

Revision as of 12:28, 15 July 2015

OCA: New page: '''Unreleased structure''' The entry 5cem is ON HOLD Authors: Mace, P.D.,, Nakatani, Y. Description: Category: Unreleased Structures Category: , Nakatani, Y [[Category: Mace, ...

2015-07-15T12:28:41Z

New page: '''Unreleased structure''' The entry 5cem is ON HOLD Authors: Mace, P.D.,, Nakatani, Y. Description: Category: Unreleased Structures Category: , Nakatani, Y [[Category: Mace, ...

New page

'''Unreleased structure'''

The entry 5cem is ON HOLD

Authors: Mace, P.D.,, Nakatani, Y.

Description:
[[Category: Unreleased Structures]]
[[Category: , Nakatani, Y]]
[[Category: Mace, P.D]]