OCA at 16:57, 18 October 2023

OCA — Wed, 18 Oct 2023 16:57:11 GMT

←Older revision		Revision as of 16:57, 18 October 2023
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-	====	+	==Rev1 Ternary Complex with dGTP and Ca2+==
-	<StructureSection load='7t19' size='340' side='right'caption='[[7t19]]' scene=''>	+	<StructureSection load='7t19' size='340' side='right'caption='[[7t19]], [[Resolution\|resolution]] 2.01Å' 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= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7t19]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae] 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=7T19 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7T19 FirstGlance]. <br>
-	</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=7t19 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7t19 OCA], [https://pdbe.org/7t19 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7t19 RCSB], [https://www.ebi.ac.uk/pdbsum/7t19 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7t19 ProSAT]</span></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]] 2.01Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=DGT:2-DEOXYGUANOSINE-5-TRIPHOSPHATE'>DGT</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=7t19 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7t19 OCA], [https://pdbe.org/7t19 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7t19 RCSB], [https://www.ebi.ac.uk/pdbsum/7t19 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7t19 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/REV1_YEAST REV1_YEAST] Deoxycytidyl transferase involved in DNA repair. Transfers a dCMP residue from dCTP to the 3'-end of a DNA primer in a template-dependent reaction. May assist in the first step in the bypass of abasic lesions by the insertion of a nucleotide opposite the lesion. Required for normal induction of mutations by physical and chemical agents. Involved in mitochondrial DNA mutagenesis.<ref>PMID:8751446</ref> <ref>PMID:11316789</ref> <ref>PMID:16452144</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Rev1 is a translesion DNA synthesis (TLS) polymerase involved in the bypass of adducted-guanine bases and abasic sites during DNA replication. During damage bypass, Rev1 utilizes a protein-template mechanism of DNA synthesis, where the templating DNA base is evicted from the Rev1 active site and replaced by an arginine side chain that preferentially binds incoming dCTP. Here, we utilize X-ray crystallography and molecular dynamics simulations to obtain structural insight into the dCTP specificity of Rev1. We show the Rev1 R324 protein-template forms sub-optimal hydrogen bonds with incoming dTTP, dGTP, and dATP that prevents Rev1 from adopting a catalytically competent conformation. Additionally, we show the Rev1 R324 protein-template forms optimal hydrogen bonds with incoming rCTP. However, the incoming rCTP adopts an altered sugar pucker, which prevents the formation of a catalytically competent Rev1 active site. This work provides novel insight into the mechanisms for nucleotide discrimination by the TLS polymerase Rev1.
		+
		+	Mechanism of nucleotide discrimination by the translesion synthesis polymerase Rev1.,Weaver TM, Click TH, Khoang TH, Todd Washington M, Agarwal PK, Freudenthal BD Nat Commun. 2022 May 24;13(1):2876. doi: 10.1038/s41467-022-30577-0. PMID:35610266<ref>PMID:35610266</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7t19" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Saccharomyces cerevisiae]]
		+	[[Category: Synthetic construct]]
		+	[[Category: Freudenthal BD]]
		+	[[Category: Weaver TM]]

OCA at 07:59, 25 May 2022

OCA — Wed, 25 May 2022 07:59:24 GMT

←Older revision		Revision as of 07:59, 25 May 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7t19 ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='7t19' size='340' side='right'caption='[[7t19]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~:	+	</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=7t19 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7t19 OCA], [https://pdbe.org/7t19 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7t19 RCSB], [https://www.ebi.ac.uk/pdbsum/7t19 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7t19 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 09:19, 5 January 2022

OCA — Wed, 05 Jan 2022 09:19:25 GMT

←Older revision		Revision as of 09:19, 5 January 2022
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7t19 is ON HOLD	+	The entry 7t19 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7t19" [edit=sysop:move=sysop]

OCA — Wed, 08 Dec 2021 08:38:40 GMT

Protected "7t19" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:38, 8 December 2021

OCA: New page: '''Unreleased structure''' The entry 7t19 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 08 Dec 2021 08:38:39 GMT

New page: '''Unreleased structure''' The entry 7t19 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7t19 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

7t19 - Revision history

OCA at 16:57, 18 October 2023

OCA at 07:59, 25 May 2022

OCA at 09:19, 5 January 2022

OCA: Protected "7t19" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 7t19 is ON HOLD Authors: Description: Category: Unreleased Structures