5x6o - Revision history

OCA at 22:32, 10 April 2020

OCA — Fri, 10 Apr 2020 22:32:27 GMT

←Older revision		Revision as of 22:32, 10 April 2020
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	<SX load='5x6o' size='340' side='right' viewer='molstar' caption='[[5x6o]], [[Resolution\|resolution]] 3.90Å' scene=''>		<SX load='5x6o' size='340' side='right' viewer='molstar' caption='[[5x6o]], [[Resolution\|resolution]] 3.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5x6o]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X6O OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5X6O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5x6o]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X6O OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5X6O FirstGlance]. <br>
	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </span></td></tr>		</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </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=5x6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x6o OCA], [http://pdbe.org/5x6o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x6o RCSB], [http://www.ebi.ac.uk/pdbsum/5x6o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x6o 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=5x6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x6o OCA], [http://pdbe.org/5x6o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x6o RCSB], [http://www.ebi.ac.uk/pdbsum/5x6o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x6o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 20:09, 6 March 2020

OCA — Fri, 06 Mar 2020 20:09:27 GMT

←Older revision		Revision as of 20:09, 6 March 2020
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	==Intact ATR/Mec1-ATRIP/Ddc2 complex==		==Intact ATR/Mec1-ATRIP/Ddc2 complex==
-	<~~StructureSection~~ load='5x6o' size='340' side='right'caption='[[5x6o]], [[Resolution\|resolution]] 3.90Å' scene=''>	+	<SX load='5x6o' size='340' side='right' viewer='molstar' caption='[[5x6o]], [[Resolution\|resolution]] 3.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5x6o]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X6O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5X6O FirstGlance]. <br>		<table><tr><td colspan='2'>[[5x6o]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X6O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5X6O FirstGlance]. <br>
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	</div>		</div>
	<div class="pdbe-citations 5x6o" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5x6o" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Serine/threonine protein kinase 3D structures\|Serine/threonine protein kinase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Baker's yeast]]		[[Category: Baker's yeast]]
	[[Category: Large Structures]]		[[Category: Large Structures]]

OCA at 07:26, 6 November 2019

OCA — Wed, 06 Nov 2019 07:26:39 GMT

←Older revision		Revision as of 07:26, 6 November 2019
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	==Intact ATR/Mec1-ATRIP/Ddc2 complex==		==Intact ATR/Mec1-ATRIP/Ddc2 complex==
-	<StructureSection load='5x6o' size='340' side='right' caption='[[5x6o]], [[Resolution\|resolution]] 3.90Å' scene=''>	+	<StructureSection load='5x6o' size='340' side='right'caption='[[5x6o]], [[Resolution\|resolution]] 3.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5x6o]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Saccharomyces_cerevisiae_(strain_atcc_204508_/_s288c) Saccharomyces cerevisiae (strain atcc 204508 / s288c)~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X6O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5X6O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5x6o]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X6O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5X6O FirstGlance]. <br>
	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </span></td></tr>		</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </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=5x6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x6o OCA], [http://pdbe.org/5x6o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x6o RCSB], [http://www.ebi.ac.uk/pdbsum/5x6o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x6o 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=5x6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x6o OCA], [http://pdbe.org/5x6o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x6o RCSB], [http://www.ebi.ac.uk/pdbsum/5x6o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x6o ProSAT]</span></td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Baker's yeast]]
		+	[[Category: Large Structures]]
	[[Category: Non-specific serine/threonine protein kinase]]		[[Category: Non-specific serine/threonine protein kinase]]
	[[Category: Cai, G]]		[[Category: Cai, G]]

OCA at 06:20, 20 December 2017

OCA — Wed, 20 Dec 2017 06:20:11 GMT

←Older revision		Revision as of 06:20, 20 December 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5x6o is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Intact ATR/Mec1-ATRIP/Ddc2 complex==
		+	<StructureSection load='5x6o' size='340' side='right' caption='[[5x6o]], [[Resolution\|resolution]] 3.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5x6o]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_(strain_atcc_204508_/_s288c) Saccharomyces cerevisiae (strain atcc 204508 / s288c)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X6O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5X6O FirstGlance]. <br>
		+	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Non-specific_serine/threonine_protein_kinase Non-specific serine/threonine protein kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.1 2.7.11.1] </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=5x6o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x6o OCA], [http://pdbe.org/5x6o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x6o RCSB], [http://www.ebi.ac.uk/pdbsum/5x6o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x6o ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ATR_YEAST ATR_YEAST]] Serine/threonine protein kinase which activates checkpoint signaling upon genotoxic stresses such as ionizing radiation (IR), ultraviolet light (UV), or DNA replication stalling, thereby acting as a DNA damage sensor. Recognizes the substrate consensus sequence [ST]-Q. Recruited in complex with protein LCD1 by the single-strand-binding protein complex RPA to DNA lesions in order to initiate the DNA repair by homologous recombination, after the MRX-complex and TEL1 are displaced. Phosphorylates LCD1 and RPA2, a subunit of RPA, involved in DNA replication, repair and recombination. Phosphorylates RAD9, CHK1 and RAD53, which leads to the activation of the CHK1 and RAD53 kinases involved in DNA damage repair cascade. Phosphorylates histone H2A to form H2AS128ph (gamma-H2A) at sites of DNA damage, also involved in the regulation of DNA damage response mechanism. Phosphorylates also SLX4 and RTT107 which are proteins involved in genome stability. Required for cell growth and meiotic recombination.<ref>PMID:11095737</ref> <ref>PMID:11140636</ref> <ref>PMID:11359899</ref> <ref>PMID:12181334</ref> <ref>PMID:12792653</ref> <ref>PMID:15369670</ref> <ref>PMID:15458641</ref> <ref>PMID:15975089</ref> <ref>PMID:16148046</ref> <ref>PMID:16365046</ref> <ref>PMID:8065923</ref> <ref>PMID:8553072</ref> [[http://www.uniprot.org/uniprot/LCD1_YEAST LCD1_YEAST]] Forms a complex with the serine/threonine kinase MEC1 which activates checkpoint signaling upon genotoxic stresses. The MEC1-LCD1 complex is recruited by the single-strand-binding protein complex RPA to DNA lesions in order to initiate the DNA repair by homologous recombination, after the MRX-complex and TEL1 are displaced. Required for the recruitment of MEC1 to DNA lesions, the activation of CHK1 and RAD53 kinases and phosphorylation of RAD9 in response to DNA damage. Required for cell growth and meiotic recombination.<ref>PMID:10950868</ref> <ref>PMID:11060031</ref> <ref>PMID:11154263</ref> <ref>PMID:11707419</ref> <ref>PMID:11983176</ref> <ref>PMID:12181334</ref> <ref>PMID:15369670</ref> <ref>PMID:16148046</ref> <ref>PMID:16365046</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The ataxia telangiectasia-mutated and Rad3-related (ATR) kinase is a master regulator of DNA damage response and replication stress in humans, but the mechanism of its activation remains unclear. ATR acts together with its partner ATRIP. Using cryo-electron microscopy, we determined the structure of intact Mec1-Ddc2 (the yeast homolog of ATR-ATRIP), which is poised for catalysis, at a resolution of 3.9 angstroms. Mec1-Ddc2 forms a dimer of heterodimers through the PRD and FAT domains of Mec1 and the coiled-coil domain of Ddc2. The PRD and Bridge domains in Mec1 constitute critical regulatory sites. The activation loop of Mec1 is inhibited by the PRD, revealing an allosteric mechanism of kinase activation. Our study clarifies the architecture of ATR-ATRIP and provides a structural framework for the understanding of ATR regulation.

-	~~Authors~~:	+	3.9 A structure of the yeast Mec1-Ddc2 complex, a homolog of human ATR-ATRIP.,Wang X, Ran T, Zhang X, Xin J, Zhang Z, Wu T, Wang W, Cai G Science. 2017 Dec 1;358(6367):1206-1209. doi: 10.1126/science.aan8414. PMID:29191911<ref>PMID:29191911</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5x6o" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Non-specific serine/threonine protein kinase]]
		+	[[Category: Cai, G]]
		+	[[Category: Ran, T]]
		+	[[Category: Wang, X]]
		+	[[Category: Atr/mec1]]
		+	[[Category: Dimeric]]
		+	[[Category: Kinase]]
		+	[[Category: Transferase]]
		+	[[Category: Transferase-dna binding protein complex]]

OCA at 05:44, 13 December 2017

OCA — Wed, 13 Dec 2017 05:44:56 GMT

←Older revision		Revision as of 05:44, 13 December 2017
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5x6o is ON HOLD	+	The entry 5x6o is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "5x6o" [edit=sysop:move=sysop]

OCA — Thu, 09 Mar 2017 15:49:24 GMT

Protected "5x6o" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:49, 9 March 2017

OCA: New page: '''Unreleased structure''' The entry 5x6o is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Thu, 09 Mar 2017 15:49:23 GMT

New page: '''Unreleased structure''' The entry 5x6o is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5x6o is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]