5xzv - Revision history

OCA at 10:21, 27 March 2024

OCA — Wed, 27 Mar 2024 10:21:06 GMT

←Older revision		Revision as of 10:21, 27 March 2024
Line 3:		Line 3:
	<StructureSection load='5xzv' size='340' side='right'caption='[[5xzv]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='5xzv' size='340' side='right'caption='[[5xzv]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5xzv]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5XZV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5xzv]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5XZV FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID~~-~~ADENYLATE+ESTER'>ANP</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]] 3.1Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[http://en.wikipedia.org/wiki/Dual-specificity_kinase Dual-specificity kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.12.1 2.7.12.1]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</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=5xzv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xzv OCA], [~~http~~://pdbe.org/5xzv PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5xzv RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5xzv PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5xzv 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=5xzv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xzv OCA], [https://pdbe.org/5xzv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5xzv RCSB], [https://www.ebi.ac.uk/pdbsum/5xzv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5xzv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/RAD53_YEAST RAD53_YEAST]] Controls S-phase checkpoint as well as G1 and G2 DNA damage checkpoints. Phosphorylates proteins on serine, threonine, and tyrosine. Prevents entry into anaphase and mitotic exit after DNA damage via regulation of the Polo kinase CDC5. Seems to be involved in the phosphorylation of RPH1.<ref>PMID:8355715</ref> <ref>PMID:7958905</ref> <ref>PMID:10550056</ref> <ref>PMID:11809875</ref> <ref>PMID:15024067</ref>	+	[https://www.uniprot.org/uniprot/RAD53_YEAST RAD53_YEAST] Controls S-phase checkpoint as well as G1 and G2 DNA damage checkpoints. Phosphorylates proteins on serine, threonine, and tyrosine. Prevents entry into anaphase and mitotic exit after DNA damage via regulation of the Polo kinase CDC5. Seems to be involved in the phosphorylation of RPH1.<ref>PMID:8355715</ref> <ref>PMID:7958905</ref> <ref>PMID:10550056</ref> <ref>PMID:11809875</ref> <ref>PMID:15024067</ref>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	The vast majority of in vitro structural and functional studies of the activation mechanism of protein kinases use the kinase domain alone. Well-demonstrated effects of regulatory domains or allosteric factors are scarce for serine/threonine kinases. Here we use a site-specifically phosphorylated SCD1-FHA1-kinase three-domain construct of the serine/threonine kinase Rad53 to show the effect of phospho-priming, an in vivo regulatory mechanism, on the autophosphorylation intermediate and specificity. Unphosphorylated Rad53 is a flexible monomer in solution but is captured in an asymmetric enzyme:substrate complex in crystal with the two FHA domains separated from each other. Phospho-priming induces formation of a stable dimer via intermolecular pT-FHA binding in solution. Importantly, autophosphorylation of unprimed and phospho-primed Rad53 produced predominantly inactive pS350-Rad53 and active pT354-Rad53, respectively. The latter mechanism was also demonstrated in vivo. Our results show that, while Rad53 can display active conformations under various conditions, simulation of in vivo regulatory conditions confers functionally relevant autophosphorylation.	+
-		+
-	Phospho-Priming Confers Functionally Relevant Specificities for Rad53 Kinase Autophosphorylation.,Chen ES, Weng JH, Chen YH, Wang SC, Liu XX, Huang WC, Matsui T, Kawano Y, Liao JH, Lim LH, Bessho Y, Huang KF, Wu WJ, Tsai MD Biochemistry. 2017 Sep 26;56(38):5112-5124. doi: 10.1021/acs.biochem.7b00689., Epub 2017 Sep 15. PMID:28858528<ref>PMID:28858528</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 5xzv" style="background-color:#fffaf0;"></div~~>	+

	==See Also==		==See Also==
Line 26:		Line 17:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Dual-specificity kinase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Tsai, M D~~]]	+	[[Category: Saccharomyces cerevisiae S288C]]
-	[[Category: ~~Weng, J H~~]]	+	[[Category: Tsai MD]]
-	[[Category: ~~Checkpoint kinase]]~~	+	[[Category: Weng JH]]
-	~~[[Category: Fha domain]]~~	+
-	~~[[Category: Serine/threonine-protein kinase]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 07:01, 14 October 2020

OCA — Wed, 14 Oct 2020 07:01:58 GMT

←Older revision		Revision as of 07:01, 14 October 2020
Line 1:		Line 1:

	==Crystal structure of Rad53 1-466 in complex with AMP-PNP==		==Crystal structure of Rad53 1-466 in complex with AMP-PNP==
-	<StructureSection load='5xzv' size='340' side='right' caption='[[5xzv]], [[Resolution\|resolution]] 3.10Å' scene=''>	+	<StructureSection load='5xzv' size='340' side='right'caption='[[5xzv]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5xzv]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZV OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5XZV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5xzv]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZV OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5XZV FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dual-specificity_kinase Dual-specificity kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.12.1 2.7.12.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dual-specificity_kinase Dual-specificity kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.12.1 2.7.12.1] </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=5xzv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xzv OCA], [http://pdbe.org/5xzv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xzv RCSB], [http://www.ebi.ac.uk/pdbsum/5xzv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xzv 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=5xzv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xzv OCA], [http://pdbe.org/5xzv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xzv RCSB], [http://www.ebi.ac.uk/pdbsum/5xzv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xzv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5xzv" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5xzv" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Protein kinase Spk1\|Protein kinase Spk1]]
	== References ==		== References ==
	<references/>		<references/>
Line 24:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Dual-specificity kinase]]		[[Category: Dual-specificity kinase]]
		+	[[Category: Large Structures]]
	[[Category: Tsai, M D]]		[[Category: Tsai, M D]]
	[[Category: Weng, J H]]		[[Category: Weng, J H]]

OCA at 06:56, 11 October 2017

OCA — Wed, 11 Oct 2017 06:56:21 GMT

←Older revision		Revision as of 06:56, 11 October 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5xzv is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Crystal structure of Rad53 1-466 in complex with AMP-PNP==
		+	<StructureSection load='5xzv' size='340' side='right' caption='[[5xzv]], [[Resolution\|resolution]] 3.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5xzv]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XZV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XZV FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Dual-specificity_kinase Dual-specificity kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.12.1 2.7.12.1] </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=5xzv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xzv OCA], [http://pdbe.org/5xzv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xzv RCSB], [http://www.ebi.ac.uk/pdbsum/5xzv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xzv ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RAD53_YEAST RAD53_YEAST]] Controls S-phase checkpoint as well as G1 and G2 DNA damage checkpoints. Phosphorylates proteins on serine, threonine, and tyrosine. Prevents entry into anaphase and mitotic exit after DNA damage via regulation of the Polo kinase CDC5. Seems to be involved in the phosphorylation of RPH1.<ref>PMID:8355715</ref> <ref>PMID:7958905</ref> <ref>PMID:10550056</ref> <ref>PMID:11809875</ref> <ref>PMID:15024067</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The vast majority of in vitro structural and functional studies of the activation mechanism of protein kinases use the kinase domain alone. Well-demonstrated effects of regulatory domains or allosteric factors are scarce for serine/threonine kinases. Here we use a site-specifically phosphorylated SCD1-FHA1-kinase three-domain construct of the serine/threonine kinase Rad53 to show the effect of phospho-priming, an in vivo regulatory mechanism, on the autophosphorylation intermediate and specificity. Unphosphorylated Rad53 is a flexible monomer in solution but is captured in an asymmetric enzyme:substrate complex in crystal with the two FHA domains separated from each other. Phospho-priming induces formation of a stable dimer via intermolecular pT-FHA binding in solution. Importantly, autophosphorylation of unprimed and phospho-primed Rad53 produced predominantly inactive pS350-Rad53 and active pT354-Rad53, respectively. The latter mechanism was also demonstrated in vivo. Our results show that, while Rad53 can display active conformations under various conditions, simulation of in vivo regulatory conditions confers functionally relevant autophosphorylation.

-	~~Authors:~~ Weng, ~~J.H.~~, ~~Tsai~~, M.D.	+	Phospho-Priming Confers Functionally Relevant Specificities for Rad53 Kinase Autophosphorylation.,Chen ES, Weng JH, Chen YH, Wang SC, Liu XX, Huang WC, Matsui T, Kawano Y, Liao JH, Lim LH, Bessho Y, Huang KF, Wu WJ, Tsai MD Biochemistry. 2017 Sep 26;56(38):5112-5124. doi: 10.1021/acs.biochem.7b00689., Epub 2017 Sep 15. PMID:28858528<ref>PMID:28858528</ref>

-	~~Description: Crystal structure~~ of ~~Rad53 1~~-~~466 in complex with AMP~~-~~PNP~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Weng, J.H]]	+	<div class="pdbe-citations 5xzv" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Tsai, M.D~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Dual-specificity kinase]]
		+	[[Category: Tsai, M D]]
		+	[[Category: Weng, J H]]
		+	[[Category: Checkpoint kinase]]
		+	[[Category: Fha domain]]
		+	[[Category: Serine/threonine-protein kinase]]
		+	[[Category: Transferase]]

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

OCA — Wed, 27 Sep 2017 15:58:50 GMT

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

←Older revision

Revision as of 15:58, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5xzv is ON HOLD until Paper Publication Authors: Weng, J.H., Tsai, M.D. Description: Crystal structure of Rad53 1-466 in complex with AMP-PNP [[Cat...

OCA — Wed, 27 Sep 2017 15:58:49 GMT

New page: '''Unreleased structure''' The entry 5xzv is ON HOLD until Paper Publication Authors: Weng, J.H., Tsai, M.D. Description: Crystal structure of Rad53 1-466 in complex with AMP-PNP [[Cat...

New page

'''Unreleased structure'''

The entry 5xzv is ON HOLD until Paper Publication

Authors: Weng, J.H., Tsai, M.D.

Description: Crystal structure of Rad53 1-466 in complex with AMP-PNP
[[Category: Unreleased Structures]]
[[Category: Weng, J.H]]
[[Category: Tsai, M.D]]