6y23 - Revision history

OCA at 13:17, 24 January 2024

2024-01-24T13:17:37Z

←Older revision		Revision as of 13:17, 24 January 2024
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	<StructureSection load='6y23' size='340' side='right'caption='[[6y23]], [[Resolution\|resolution]] 2.58Å' scene=''>		<StructureSection load='6y23' size='340' side='right'caption='[[6y23]], [[Resolution\|resolution]] 2.58Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6y23]] is a 3 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=6Y23 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6Y23 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6y23]] is a 3 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=6Y23 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6Y23 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]] 2.58Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>DDR1, CAK, EDDR1, NEP, NTRK4, PTK3A, RTK6, TRKE ([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=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[http://en.wikipedia.org/wiki/Receptor_protein-tyrosine_kinase Receptor protein-tyrosine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.10.1 2.7.10.1]~~ </~~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=6y23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6y23 OCA], [https://pdbe.org/6y23 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6y23 RCSB], [https://www.ebi.ac.uk/pdbsum/6y23 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6y23 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=6y23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6y23 OCA], [~~http~~://pdbe.org/6y23 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6y23 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6y23 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6y23 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/DDR1_HUMAN DDR1_HUMAN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6y23" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6y23" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Epithelial discoidin domain-containing receptor\|Epithelial discoidin domain-containing receptor]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Receptor protein-tyrosine kinase]]~~	+	[[Category: Hohenester E]]
-	[[Category: Hohenester, E]]	+	[[Category: Leitinger B]]
-	[[Category: Leitinger, B]]	+	[[Category: Sammon D]]
-	[[Category: Sammon, D]]	+
-	~~[[Category: Cell signalling]]~~	+
-	~~[[Category: Collagen]]~~	+
-	~~[[Category: Kinase]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 10:20, 16 September 2020

2020-09-16T10:20:30Z

←Older revision		Revision as of 10:20, 16 September 2020
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	==DDR1 kinase autoinhibited by its juxtamembrane region==		==DDR1 kinase autoinhibited by its juxtamembrane region==
-	<StructureSection load='6y23' size='340' side='right'caption='[[6y23]]' scene=''>	+	<StructureSection load='6y23' size='340' side='right'caption='[[6y23]], [[Resolution\|resolution]] 2.58Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Y23 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6Y23 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6y23]] is a 3 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=6Y23 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6Y23 FirstGlance]. <br>
-	</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=6y23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6y23 OCA], [http://pdbe.org/6y23 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6y23 RCSB], [http://www.ebi.ac.uk/pdbsum/6y23 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6y23 ProSAT]</span></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='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DDR1, CAK, EDDR1, NEP, NTRK4, PTK3A, RTK6, TRKE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Receptor_protein-tyrosine_kinase Receptor protein-tyrosine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.10.1 2.7.10.1] </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=6y23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6y23 OCA], [http://pdbe.org/6y23 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6y23 RCSB], [http://www.ebi.ac.uk/pdbsum/6y23 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6y23 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Discoidin domain receptor 1 (DDR1) is a collagen-activated receptor tyrosine kinase with important functions in organogenesis and tissue homeostasis. Aberrant DDR1 activity contributes to the progression of human diseases, including fibrosis and cancer. How DDR1 activity is regulated is poorly understood. We investigated the function of the long intracellular juxtamembrane (JM) region of human DDR1 and found that the kinase-proximal segment, JM4, is an important regulator of kinase activity. Crystal structure analysis revealed that JM4 forms a hairpin that penetrates the kinase active site, reinforcing autoinhibition by the activation loop. Using in vitro enzymology with soluble kinase constructs, we established that release from autoinhibition occurs in two distinct steps: rapid autophosphorylation of the JM4 tyrosines, Tyr569 and Tyr586, followed by slower autophosphorylation of activation loop tyrosines. Mutation of JM4 tyrosines abolished collagen-induced DDR1 activation in cells. The insights may be used to develop allosteric, DDR1-specific, kinase inhibitors.
		+
		+	Two-step release of kinase autoinhibition in discoidin domain receptor 1.,Sammon D, Hohenester E, Leitinger B Proc Natl Acad Sci U S A. 2020 Sep 8;117(36):22051-22060. doi:, 10.1073/pnas.2007271117. Epub 2020 Aug 24. PMID:32839343<ref>PMID:32839343</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6y23" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hohenester E]]	+	[[Category: Receptor protein-tyrosine kinase]]
-	[[Category: Leitinger B]]	+	[[Category: Hohenester, E]]
-	[[Category: Sammon D]]	+	[[Category: Leitinger, B]]
		+	[[Category: Sammon, D]]
		+	[[Category: Cell signalling]]
		+	[[Category: Collagen]]
		+	[[Category: Kinase]]
		+	[[Category: Transferase]]

OCA at 06:51, 2 September 2020

2020-09-02T06:51:34Z

←Older revision		Revision as of 06:51, 2 September 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6y23 is ~~ON HOLD until Paper Publication~~	+	==DDR1 kinase autoinhibited by its juxtamembrane region==
-		+	<StructureSection load='6y23' size='340' side='right'caption='[[6y23]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Y23 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6Y23 FirstGlance]. <br>
-	~~Description~~:	+	</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=6y23 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6y23 OCA], [http://pdbe.org/6y23 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6y23 RCSB], [http://www.ebi.ac.uk/pdbsum/6y23 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6y23 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Hohenester E]]
		+	[[Category: Leitinger B]]
		+	[[Category: Sammon D]]

OCA: Protected "6y23" [edit=sysop:move=sysop]

2020-02-26T08:16:32Z

Protected "6y23" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:16, 26 February 2020

OCA: New page: '''Unreleased structure''' The entry 6y23 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

2020-02-26T08:16:30Z

New page: '''Unreleased structure''' The entry 6y23 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6y23 is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]