2xgq - Revision history

OCA at 10:39, 16 August 2023

OCA — Wed, 16 Aug 2023 10:39:22 GMT

←Older revision		Revision as of 10:39, 16 August 2023
Line 3:		Line 3:
	<StructureSection load='2xgq' size='340' side='right'caption='[[2xgq]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='2xgq' size='340' side='right'caption='[[2xgq]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2xgq]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_18824 Atcc 18824~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XGQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2xgq]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XGQ FirstGlance]. <br>
-	</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>~~</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]] 2.7Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=8AG:8-[ACETYL(ANTHRACEN-2-YL)AMINO]-2-DEOXYGUANOSINE+5-(DIHYDROGEN+PHOSPHATE)'>8AG</scene>~~</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8AG:8-[ACETYL(ANTHRACEN-2-YL)AMINO]-2-DEOXYGUANOSINE+5-(DIHYDROGEN+PHOSPHATE)'>8AG</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2wtf\|2wtf]]~~, ~~[[1jih\|1jih]], [[2xgp\|2xgp]]~~<~~/div></td></tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7]~~ </~~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=2xgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xgq OCA], [https://pdbe.org/2xgq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xgq RCSB], [https://www.ebi.ac.uk/pdbsum/2xgq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xgq 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=2xgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xgq OCA], [https://pdbe.org/2xgq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xgq RCSB], [https://www.ebi.ac.uk/pdbsum/2xgq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xgq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/POLH_YEAST POLH_YEAST]] DNA polymerase specifically involved in DNA repair. Plays an important role in translesion synthesis, where the normal high fidelity DNA polymerases cannot proceed and DNA synthesis stalls. Plays an important role in the repair of UV-induced pyrimidine dimers. Depending on the context, it inserts the correct base, but causes frequent base transitions and transversions. Efficiently incorporates nucleotides opposite to other UV or oxidative DNA damages like O(6)-methylguanine, 7,8-dihydro-8-oxoguanine, 2,6-diamino-4-hydroxy-5-formamidopyrimidine of 2'-deoxyguanosine (FaPydG), or p-benzoquinone DNA adducts.<ref>PMID:9409821</ref> <ref>PMID:10347143</ref> <ref>PMID:10601233</ref> <ref>PMID:9974380</ref> <ref>PMID:10924462</ref> <ref>PMID:10713149</ref> <ref>PMID:11027270</ref> <ref>PMID:10932195</ref> <ref>PMID:10725365</ref> <ref>PMID:11062246</ref> <ref>PMID:11545742</ref> <ref>PMID:11113193</ref> <ref>PMID:11238937</ref> <ref>PMID:11054429</ref> <ref>PMID:12110599</ref> <ref>PMID:11861920</ref> <ref>PMID:12899630</ref> <ref>PMID:12665597</ref> <ref>PMID:12888515</ref> <ref>PMID:12692307</ref> <ref>PMID:14527996</ref> <ref>PMID:15157108</ref> <ref>PMID:15544332</ref> <ref>PMID:15284331</ref> <ref>PMID:15333698</ref> <ref>PMID:15024063</ref> <ref>PMID:15779911</ref> <ref>PMID:16181813</ref> <ref>PMID:15520252</ref> <ref>PMID:16366567</ref> <ref>PMID:15743815</ref> <ref>PMID:16866379</ref> <ref>PMID:16387871</ref> <ref>PMID:16415180</ref>	+	[https://www.uniprot.org/uniprot/POLH_YEAST POLH_YEAST] DNA polymerase specifically involved in DNA repair. Plays an important role in translesion synthesis, where the normal high fidelity DNA polymerases cannot proceed and DNA synthesis stalls. Plays an important role in the repair of UV-induced pyrimidine dimers. Depending on the context, it inserts the correct base, but causes frequent base transitions and transversions. Efficiently incorporates nucleotides opposite to other UV or oxidative DNA damages like O(6)-methylguanine, 7,8-dihydro-8-oxoguanine, 2,6-diamino-4-hydroxy-5-formamidopyrimidine of 2'-deoxyguanosine (FaPydG), or p-benzoquinone DNA adducts.<ref>PMID:9409821</ref> <ref>PMID:10347143</ref> <ref>PMID:10601233</ref> <ref>PMID:9974380</ref> <ref>PMID:10924462</ref> <ref>PMID:10713149</ref> <ref>PMID:11027270</ref> <ref>PMID:10932195</ref> <ref>PMID:10725365</ref> <ref>PMID:11062246</ref> <ref>PMID:11545742</ref> <ref>PMID:11113193</ref> <ref>PMID:11238937</ref> <ref>PMID:11054429</ref> <ref>PMID:12110599</ref> <ref>PMID:11861920</ref> <ref>PMID:12899630</ref> <ref>PMID:12665597</ref> <ref>PMID:12888515</ref> <ref>PMID:12692307</ref> <ref>PMID:14527996</ref> <ref>PMID:15157108</ref> <ref>PMID:15544332</ref> <ref>PMID:15284331</ref> <ref>PMID:15333698</ref> <ref>PMID:15024063</ref> <ref>PMID:15779911</ref> <ref>PMID:16181813</ref> <ref>PMID:15520252</ref> <ref>PMID:16366567</ref> <ref>PMID:15743815</ref> <ref>PMID:16866379</ref> <ref>PMID:16387871</ref> <ref>PMID:16415180</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 2xgq" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2xgq" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[DNA polymerase 3D structures\|DNA polymerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 18824]]
-	[[Category: DNA-directed DNA polymerase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Carell, T~~]]	+	[[Category: Saccharomyces cerevisiae]]
-	[[Category: ~~Schneider, S~~]]	+	[[Category: Carell T]]
-	[[Category: ~~Schorr,~~ S]]	+	[[Category: Schneider S]]
-	[[Category: ~~Dna damage]]~~	+	[[Category: Schorr S]]
-	~~[[Category: Dna-binding]]~~	+
-	~~[[Category: Transferase-dna complex]]~~	+
-	~~[[Category: Translesion dna synthesis~~]]	+

OCA at 08:40, 10 November 2021

OCA — Wed, 10 Nov 2021 08:40:12 GMT

OCA at 07:51, 21 May 2019

OCA — Tue, 21 May 2019 07:51:06 GMT

←Older revision		Revision as of 07:51, 21 May 2019
Line 1:		Line 1:

	==Structure of yeast DNA polymerase eta in complex with C8-N-acetyl-2- aminoanthracene containing DNA==		==Structure of yeast DNA polymerase eta in complex with C8-N-acetyl-2- aminoanthracene containing DNA==
-	<StructureSection load='2xgq' size='340' side='right' caption='[[2xgq]], [[Resolution\|resolution]] 2.70Å' scene=''>	+	<StructureSection load='2xgq' size='340' side='right'caption='[[2xgq]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2xgq]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XGQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[2xgq]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XGQ FirstGlance]. <br>
Line 27:		Line 27:
	[[Category: Atcc 18824]]		[[Category: Atcc 18824]]
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
		+	[[Category: Large Structures]]
	[[Category: Carell, T]]		[[Category: Carell, T]]
	[[Category: Schneider, S]]		[[Category: Schneider, S]]

OCA at 07:58, 8 November 2017

OCA — Wed, 08 Nov 2017 07:58:20 GMT

←Older revision		Revision as of 07:58, 8 November 2017
Line 1:		Line 1:

-	==~~STRUCTURE OF YEAST~~ DNA ~~POLYMERASE ETA IN COMPLEX WITH~~ C8-N-~~ACETYL~~-2-~~AMINOANTHRACENE CONTAINING~~ DNA==	+	==Structure of yeast DNA polymerase eta in complex with C8-N-acetyl-2- aminoanthracene containing DNA==
	<StructureSection load='2xgq' size='340' side='right' caption='[[2xgq]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='2xgq' size='340' side='right' caption='[[2xgq]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 21:		Line 21:
	</div>		</div>
	<div class="pdbe-citations 2xgq" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2xgq" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[DNA polymerase\|DNA polymerase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 10:27, 5 August 2016

OCA — Fri, 05 Aug 2016 10:27:08 GMT

←Older revision		Revision as of 10:27, 5 August 2016
Line 1:		Line 1:
		+
	==STRUCTURE OF YEAST DNA POLYMERASE ETA IN COMPLEX WITH C8-N-ACETYL-2-AMINOANTHRACENE CONTAINING DNA==		==STRUCTURE OF YEAST DNA POLYMERASE ETA IN COMPLEX WITH C8-N-ACETYL-2-AMINOANTHRACENE CONTAINING DNA==
	<StructureSection load='2xgq' size='340' side='right' caption='[[2xgq]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='2xgq' size='340' side='right' caption='[[2xgq]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2xgq]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Saccharomyces_cerevisiae Saccharomyces cerevisiae~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XGQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2xgq]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XGQ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=8AG:8-[ACETYL(ANTHRACEN-2-YL)AMINO]-2-DEOXYGUANOSINE+5-(DIHYDROGEN+PHOSPHATE)'>8AG</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=8AG:8-[ACETYL(ANTHRACEN-2-YL)AMINO]-2-DEOXYGUANOSINE+5-(DIHYDROGEN+PHOSPHATE)'>8AG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wtf\|2wtf]], [[1jih\|1jih]], [[2xgp\|2xgp]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wtf\|2wtf]], [[1jih\|1jih]], [[2xgp\|2xgp]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </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=2xgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xgq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xgq RCSB], [http://www.ebi.ac.uk/pdbsum/2xgq PDBsum]</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=2xgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xgq OCA], [http://pdbe.org/2xgq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xgq RCSB], [http://www.ebi.ac.uk/pdbsum/2xgq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xgq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2xgq" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 26:		Line 28:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 18824]]
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
-	[[Category: Saccharomyces cerevisiae]]
	[[Category: Carell, T]]		[[Category: Carell, T]]
	[[Category: Schneider, S]]		[[Category: Schneider, S]]

OCA at 18:02, 25 December 2014

OCA — Thu, 25 Dec 2014 18:02:06 GMT

←Older revision		Revision as of 18:02, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2xgq]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XGQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[2xgq]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XGQ FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=8AG:8-[ACETYL(ANTHRACEN-2-YL)AMINO]-2-DEOXYGUANOSINE+5-(DIHYDROGEN+PHOSPHATE)'>8AG</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=8AG:8-[ACETYL(ANTHRACEN-2-YL)AMINO]-2-DEOXYGUANOSINE+5-(DIHYDROGEN+PHOSPHATE)'>8AG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wtf\|2wtf]], [[1jih\|1jih]], [[2xgp\|2xgp]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wtf\|2wtf]], [[1jih\|1jih]], [[2xgp\|2xgp]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2xgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xgq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xgq RCSB], [http://www.ebi.ac.uk/pdbsum/2xgq PDBsum]</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=2xgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xgq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xgq RCSB], [http://www.ebi.ac.uk/pdbsum/2xgq PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/POLH_YEAST POLH_YEAST]] DNA polymerase specifically involved in DNA repair. Plays an important role in translesion synthesis, where the normal high fidelity DNA polymerases cannot proceed and DNA synthesis stalls. Plays an important role in the repair of UV-induced pyrimidine dimers. Depending on the context, it inserts the correct base, but causes frequent base transitions and transversions. Efficiently incorporates nucleotides opposite to other UV or oxidative DNA damages like O(6)-methylguanine, 7,8-dihydro-8-oxoguanine, 2,6-diamino-4-hydroxy-5-formamidopyrimidine of 2'-deoxyguanosine (FaPydG), or p-benzoquinone DNA adducts.<ref>PMID:9409821</ref> <ref>PMID:10347143</ref> <ref>PMID:10601233</ref> <ref>PMID:9974380</ref> <ref>PMID:10924462</ref> <ref>PMID:10713149</ref> <ref>PMID:11027270</ref> <ref>PMID:10932195</ref> <ref>PMID:10725365</ref> <ref>PMID:11062246</ref> <ref>PMID:11545742</ref> <ref>PMID:11113193</ref> <ref>PMID:11238937</ref> <ref>PMID:11054429</ref> <ref>PMID:12110599</ref> <ref>PMID:11861920</ref> <ref>PMID:12899630</ref> <ref>PMID:12665597</ref> <ref>PMID:12888515</ref> <ref>PMID:12692307</ref> <ref>PMID:14527996</ref> <ref>PMID:15157108</ref> <ref>PMID:15544332</ref> <ref>PMID:15284331</ref> <ref>PMID:15333698</ref> <ref>PMID:15024063</ref> <ref>PMID:15779911</ref> <ref>PMID:16181813</ref> <ref>PMID:15520252</ref> <ref>PMID:16366567</ref> <ref>PMID:15743815</ref> <ref>PMID:16866379</ref> <ref>PMID:16387871</ref> <ref>PMID:16415180</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 26:		Line 28:
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
-	[[Category: Carell, T.]]	+	[[Category: Carell, T]]
-	[[Category: Schneider, S.]]	+	[[Category: Schneider, S]]
-	[[Category: Schorr, S.]]	+	[[Category: Schorr, S]]
	[[Category: Dna damage]]		[[Category: Dna damage]]
	[[Category: Dna-binding]]		[[Category: Dna-binding]]
	[[Category: Transferase-dna complex]]		[[Category: Transferase-dna complex]]
	[[Category: Translesion dna synthesis]]		[[Category: Translesion dna synthesis]]

OCA at 01:06, 2 October 2014

OCA — Thu, 02 Oct 2014 01:06:06 GMT

←Older revision		Revision as of 01:06, 2 October 2014
Line 1:		Line 1:
-	[[~~Image:~~2xgq.~~png~~\|~~left~~\|~~200px~~]]	+	==STRUCTURE OF YEAST DNA POLYMERASE ETA IN COMPLEX WITH C8-N-ACETYL-2-AMINOANTHRACENE CONTAINING DNA==
		+	<StructureSection load='2xgq' size='340' side='right' caption='[[2xgq]], [[Resolution\|resolution]] 2.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2xgq]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XGQ FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=8AG:8-[ACETYL(ANTHRACEN-2-YL)AMINO]-2-DEOXYGUANOSINE+5-(DIHYDROGEN+PHOSPHATE)'>8AG</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wtf\|2wtf]], [[1jih\|1jih]], [[2xgp\|2xgp]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2xgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xgq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xgq RCSB], [http://www.ebi.ac.uk/pdbsum/2xgq PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Heterocyclic aromatic amines produce bulky C8 guanine lesions in vivo, which interfere and disrupt DNA and RNA synthesis. These lesions are consequently strong replication blocks. In addition bulky adducts give rise to point and frameshift mutations. The translesion synthesis (TLS) DNA polymerase eta is able to bypass slowly C8 bulky adduct lesions such as the widely studied 2-aminofluorene-dG and its acetylated analogue mainly in an error-free manner. Replicative polymerases are in contrast fully blocked by the acetylated lesion. Here, we show that TLS efficiency of Pol eta depends critically on the size of the bulky adduct forming the lesion. Based on the crystal structure, we show why the bypass reaction is so difficult and we provide a model for the bypass reaction. In our model, TLS is accomplished without rotation of the lesion into the anti conformation as previously thought.

-	{~~{STRUCTURE_2xgq\| PDB=2xgq \| SCENE= }~~}	+	Mechanism of replication blocking and bypass of Y-family polymerase {eta} by bulky acetylaminofluorene DNA adducts.,Schorr S, Schneider S, Lammens K, Hopfner KP, Carell T Proc Natl Acad Sci U S A. 2010 Nov 12. PMID:21076032<ref>PMID:21076032</ref>

-	~~===STRUCTURE OF YEAST DNA POLYMERASE ETA IN COMPLEX WITH C8-N-ACETYL-2-AMINOANTHRACENE CONTAINING DNA===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_21076032}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2xgq]] is~~ a ~~6 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA].~~	+

	==See Also==		==See Also==
	*[[DNA polymerase\|DNA polymerase]]		*[[DNA polymerase\|DNA polymerase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:021076032<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]

OCA at 19:44, 20 October 2012

OCA — Sat, 20 Oct 2012 19:44:54 GMT

←Older revision		Revision as of 19:44, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2xgq]] is a 6 chain structure ~~of [[DNA polymerase]]~~ with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA].	+	[[2xgq]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA].

	==See Also==		==See Also==

OCA: Protected "2xgq" [edit=sysop:move=sysop]

OCA — Fri, 27 Jul 2012 08:21:14 GMT

Protected "2xgq" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:21, 27 July 2012

OCA at 08:21, 27 July 2012

OCA — Fri, 27 Jul 2012 08:21:13 GMT

←Older revision		Revision as of 08:21, 27 July 2012
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-	{{Seed}}
	[[Image:2xgq.png\|left\|200px]]		[[Image:2xgq.png\|left\|200px]]

-	<!--
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-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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	{{STRUCTURE_2xgq\| PDB=2xgq \| SCENE= }}		{{STRUCTURE_2xgq\| PDB=2xgq \| SCENE= }}

	===STRUCTURE OF YEAST DNA POLYMERASE ETA IN COMPLEX WITH C8-N-ACETYL-2-AMINOANTHRACENE CONTAINING DNA===		===STRUCTURE OF YEAST DNA POLYMERASE ETA IN COMPLEX WITH C8-N-ACETYL-2-AMINOANTHRACENE CONTAINING DNA===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_21076032}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 21076032 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_21076032}}		{{ABSTRACT_PUBMED_21076032}}

	==About this Structure==		==About this Structure==
-	~~2XGQ~~ is a 6 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA].	+	[[2xgq]] is a 6 chain structure of [[DNA polymerase]] with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA].
		+
		+	==See Also==
		+	*[[DNA polymerase\|DNA polymerase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~21076032~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:021076032</ref><references group="xtra"/>
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
Line 33:		Line 24:
	[[Category: Transferase-dna complex]]		[[Category: Transferase-dna complex]]
	[[Category: Translesion dna synthesis]]		[[Category: Translesion dna synthesis]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 24 13:46:55 2010''

←Older revision		Revision as of 08:40, 10 November 2021
Line 3:		Line 3:
	<StructureSection load='2xgq' size='340' side='right'caption='[[2xgq]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='2xgq' size='340' side='right'caption='[[2xgq]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2xgq]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2XGQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2xgq]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XGQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XGQ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>	+	</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></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=8AG:8-[ACETYL(ANTHRACEN-2-YL)AMINO]-2-DEOXYGUANOSINE+5-(DIHYDROGEN+PHOSPHATE)'>8AG</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=8AG:8-[ACETYL(ANTHRACEN-2-YL)AMINO]-2-DEOXYGUANOSINE+5-(DIHYDROGEN+PHOSPHATE)'>8AG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wtf\|2wtf]], [[1jih\|1jih]], [[2xgp\|2xgp]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2wtf\|2wtf]], [[1jih\|1jih]], [[2xgp\|2xgp]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </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=2xgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xgq OCA], [~~http~~://pdbe.org/2xgq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2xgq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2xgq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2xgq 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=2xgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xgq OCA], [https://pdbe.org/2xgq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xgq RCSB], [https://www.ebi.ac.uk/pdbsum/2xgq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xgq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/POLH_YEAST POLH_YEAST]] DNA polymerase specifically involved in DNA repair. Plays an important role in translesion synthesis, where the normal high fidelity DNA polymerases cannot proceed and DNA synthesis stalls. Plays an important role in the repair of UV-induced pyrimidine dimers. Depending on the context, it inserts the correct base, but causes frequent base transitions and transversions. Efficiently incorporates nucleotides opposite to other UV or oxidative DNA damages like O(6)-methylguanine, 7,8-dihydro-8-oxoguanine, 2,6-diamino-4-hydroxy-5-formamidopyrimidine of 2'-deoxyguanosine (FaPydG), or p-benzoquinone DNA adducts.<ref>PMID:9409821</ref> <ref>PMID:10347143</ref> <ref>PMID:10601233</ref> <ref>PMID:9974380</ref> <ref>PMID:10924462</ref> <ref>PMID:10713149</ref> <ref>PMID:11027270</ref> <ref>PMID:10932195</ref> <ref>PMID:10725365</ref> <ref>PMID:11062246</ref> <ref>PMID:11545742</ref> <ref>PMID:11113193</ref> <ref>PMID:11238937</ref> <ref>PMID:11054429</ref> <ref>PMID:12110599</ref> <ref>PMID:11861920</ref> <ref>PMID:12899630</ref> <ref>PMID:12665597</ref> <ref>PMID:12888515</ref> <ref>PMID:12692307</ref> <ref>PMID:14527996</ref> <ref>PMID:15157108</ref> <ref>PMID:15544332</ref> <ref>PMID:15284331</ref> <ref>PMID:15333698</ref> <ref>PMID:15024063</ref> <ref>PMID:15779911</ref> <ref>PMID:16181813</ref> <ref>PMID:15520252</ref> <ref>PMID:16366567</ref> <ref>PMID:15743815</ref> <ref>PMID:16866379</ref> <ref>PMID:16387871</ref> <ref>PMID:16415180</ref>	+	[[https://www.uniprot.org/uniprot/POLH_YEAST POLH_YEAST]] DNA polymerase specifically involved in DNA repair. Plays an important role in translesion synthesis, where the normal high fidelity DNA polymerases cannot proceed and DNA synthesis stalls. Plays an important role in the repair of UV-induced pyrimidine dimers. Depending on the context, it inserts the correct base, but causes frequent base transitions and transversions. Efficiently incorporates nucleotides opposite to other UV or oxidative DNA damages like O(6)-methylguanine, 7,8-dihydro-8-oxoguanine, 2,6-diamino-4-hydroxy-5-formamidopyrimidine of 2'-deoxyguanosine (FaPydG), or p-benzoquinone DNA adducts.<ref>PMID:9409821</ref> <ref>PMID:10347143</ref> <ref>PMID:10601233</ref> <ref>PMID:9974380</ref> <ref>PMID:10924462</ref> <ref>PMID:10713149</ref> <ref>PMID:11027270</ref> <ref>PMID:10932195</ref> <ref>PMID:10725365</ref> <ref>PMID:11062246</ref> <ref>PMID:11545742</ref> <ref>PMID:11113193</ref> <ref>PMID:11238937</ref> <ref>PMID:11054429</ref> <ref>PMID:12110599</ref> <ref>PMID:11861920</ref> <ref>PMID:12899630</ref> <ref>PMID:12665597</ref> <ref>PMID:12888515</ref> <ref>PMID:12692307</ref> <ref>PMID:14527996</ref> <ref>PMID:15157108</ref> <ref>PMID:15544332</ref> <ref>PMID:15284331</ref> <ref>PMID:15333698</ref> <ref>PMID:15024063</ref> <ref>PMID:15779911</ref> <ref>PMID:16181813</ref> <ref>PMID:15520252</ref> <ref>PMID:16366567</ref> <ref>PMID:15743815</ref> <ref>PMID:16866379</ref> <ref>PMID:16387871</ref> <ref>PMID:16415180</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==