4b9t - Revision history

OCA at 11:46, 20 December 2023

OCA — Wed, 20 Dec 2023 11:46:30 GMT

←Older revision		Revision as of 11:46, 20 December 2023
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	<StructureSection load='4b9t' size='340' side='right'caption='[[4b9t]], [[Resolution\|resolution]] 2.65Å' scene=''>		<StructureSection load='4b9t' size='340' side='right'caption='[[4b9t]], [[Resolution\|resolution]] 2.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4b9t]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_12980 Atcc 12980~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4B9T FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4b9t]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4B9T FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>~~, ~~<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]] 2.65Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=FOX:((1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-3,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL)METHYL+5-PHOSPHATE'>FOX</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FOX:((1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-3,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL)METHYL+5-PHOSPHATE'>FOX</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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;'>[[2xo7\|2xo7]]~~, ~~[[2xy5\|2xy5]], [[2xy6\|2xy6]], [[2xy7\|2xy7]], [[2y1i\|2y1i]], [[2y1j\|2y1j]], [[4b9l\|4b9l]], [[4b9m\|4b9m]], [[4b9n\|4b9n]], [[4b9s\|4b9s]], [[4b9u\|4b9u]], [[4b9v\|4b9v]]~~<~~/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=4b9t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4b9t OCA], [https://pdbe.org/4b9t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4b9t RCSB], [https://www.ebi.ac.uk/pdbsum/4b9t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4b9t 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=4b9t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4b9t OCA], [https://pdbe.org/4b9t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4b9t RCSB], [https://www.ebi.ac.uk/pdbsum/4b9t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4b9t ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/E1C9K5_GEOSE E1C9K5_GEOSE]
	<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 4b9t" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4b9t" 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 12980]]~~	+	[[Category: Geobacillus stearothermophilus]]
-	~~[[Category: DNA-directed DNA polymerase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Arnold, S]]	+	[[Category: Arnold S]]
-	[[Category: Carell, T]]	+	[[Category: Carell T]]
-	[[Category: Gehrke~~, T H~~]]	+	[[Category: Gehrke TH]]
-	[[Category: Lischke, U]]	+	[[Category: Lischke U]]
-	[[Category: Schneider, S]]	+	[[Category: Schneider S]]
-	~~[[Category: Dna damage]]~~	+
-	~~[[Category: Oxidative dna lesion]]~~	+
-	~~[[Category: Replication]]~~	+
-	~~[[Category: Transferase-dna complex]]~~	+
-	~~[[Category: Translesion dna synthesis~~]]	+

OCA at 07:05, 31 August 2022

OCA — Wed, 31 Aug 2022 07:05:03 GMT

←Older revision		Revision as of 07:05, 31 August 2022
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	<StructureSection load='4b9t' size='340' side='right'caption='[[4b9t]], [[Resolution\|resolution]] 2.65Å' scene=''>		<StructureSection load='4b9t' size='340' side='right'caption='[[4b9t]], [[Resolution\|resolution]] 2.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4b9t]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4B9T FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4b9t]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4B9T FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FOX:((1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-3,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL)METHYL+5-PHOSPHATE'>FOX</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FOX:((1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-3,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL)METHYL+5-PHOSPHATE'>FOX</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xo7\|2xo7]], [[2xy5\|2xy5]], [[2xy6\|2xy6]], [[2xy7\|2xy7]], [[2y1i\|2y1i]], [[2y1j\|2y1j]], [[4b9l\|4b9l]], [[4b9m\|4b9m]], [[4b9n\|4b9n]], [[4b9s\|4b9s]], [[4b9u\|4b9u]], [[4b9v\|4b9v]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2xo7\|2xo7]], [[2xy5\|2xy5]], [[2xy6\|2xy6]], [[2xy7\|2xy7]], [[2y1i\|2y1i]], [[2y1j\|2y1j]], [[4b9l\|4b9l]], [[4b9m\|4b9m]], [[4b9n\|4b9n]], [[4b9s\|4b9s]], [[4b9u\|4b9u]], [[4b9v\|4b9v]]</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=4b9t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4b9t OCA], [~~http~~://pdbe.org/4b9t PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4b9t RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4b9t PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4b9t 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=4b9t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4b9t OCA], [https://pdbe.org/4b9t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4b9t RCSB], [https://www.ebi.ac.uk/pdbsum/4b9t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4b9t ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</div>		</div>
	<div class="pdbe-citations 4b9t" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4b9t" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[DNA polymerase\|DNA polymerase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 13:33, 13 March 2019

OCA — Wed, 13 Mar 2019 13:33:39 GMT

←Older revision		Revision as of 13:33, 13 March 2019
Line 1:		Line 1:

	==Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA lesion -dC basepair in the post-insertion site.==		==Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA lesion -dC basepair in the post-insertion site.==
-	<StructureSection load='4b9t' size='340' side='right' caption='[[4b9t]], [[Resolution\|resolution]] 2.65Å' scene=''>	+	<StructureSection load='4b9t' size='340' side='right'caption='[[4b9t]], [[Resolution\|resolution]] 2.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4b9t]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4B9T FirstGlance]. <br>		<table><tr><td colspan='2'>[[4b9t]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4B9T FirstGlance]. <br>
Line 28:		Line 28:
	[[Category: Atcc 12980]]		[[Category: Atcc 12980]]
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
		+	[[Category: Large Structures]]
	[[Category: Arnold, S]]		[[Category: Arnold, S]]
	[[Category: Carell, T]]		[[Category: Carell, T]]

OCA at 17:30, 4 August 2016

OCA — Thu, 04 Aug 2016 17:30:41 GMT

←Older revision		Revision as of 17:30, 4 August 2016
Line 1:		Line 1:
		+
	==Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA lesion -dC basepair in the post-insertion site.==		==Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA lesion -dC basepair in the post-insertion site.==
	<StructureSection load='4b9t' size='340' side='right' caption='[[4b9t]], [[Resolution\|resolution]] 2.65Å' scene=''>		<StructureSection load='4b9t' size='340' side='right' caption='[[4b9t]], [[Resolution\|resolution]] 2.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4b9t]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Geobacillus_stearothermophilus Geobacillus stearothermophilus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4B9T FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4b9t]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4B9T FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FOX:((1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-3,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL)METHYL+5-PHOSPHATE'>FOX</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FOX:((1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-3,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL)METHYL+5-PHOSPHATE'>FOX</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xo7\|2xo7]], [[2xy5\|2xy5]], [[2xy6\|2xy6]], [[2xy7\|2xy7]], [[2y1i\|2y1i]], [[2y1j\|2y1j]], [[4b9l\|4b9l]], [[4b9m\|4b9m]], [[4b9n\|4b9n]], [[4b9s\|4b9s]], [[4b9u\|4b9u]], [[4b9v\|4b9v]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xo7\|2xo7]], [[2xy5\|2xy5]], [[2xy6\|2xy6]], [[2xy7\|2xy7]], [[2y1i\|2y1i]], [[2y1j\|2y1j]], [[4b9l\|4b9l]], [[4b9m\|4b9m]], [[4b9n\|4b9n]], [[4b9s\|4b9s]], [[4b9u\|4b9u]], [[4b9v\|4b9v]]</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=4b9t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4b9t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4b9t RCSB], [http://www.ebi.ac.uk/pdbsum/4b9t 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=4b9t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4b9t OCA], [http://pdbe.org/4b9t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4b9t RCSB], [http://www.ebi.ac.uk/pdbsum/4b9t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4b9t ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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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 4b9t" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 24:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 12980]]
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
-	[[Category: Geobacillus stearothermophilus]]
	[[Category: Arnold, S]]		[[Category: Arnold, S]]
	[[Category: Carell, T]]		[[Category: Carell, T]]

OCA at 09:40, 21 December 2014

OCA — Sun, 21 Dec 2014 09:40:00 GMT

←Older revision		Revision as of 09:40, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4b9t\| PDB=4b9t \| SCENE= }}~~	+	==Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA lesion -dC basepair in the post-insertion site.==
-	===Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA lesion -dC basepair in the post-insertion site.===	+	<StructureSection load='4b9t' size='340' side='right' caption='[[4b9t]], [[Resolution\|resolution]] 2.65Å' scene=''>
-	{~~{ABSTRACT_PUBMED_23685671}~~}	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4b9t]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4B9T FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FOX:((1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-3,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL)METHYL+5-PHOSPHATE'>FOX</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xo7\|2xo7]], [[2xy5\|2xy5]], [[2xy6\|2xy6]], [[2xy7\|2xy7]], [[2y1i\|2y1i]], [[2y1j\|2y1j]], [[4b9l\|4b9l]], [[4b9m\|4b9m]], [[4b9n\|4b9n]], [[4b9s\|4b9s]], [[4b9u\|4b9u]], [[4b9v\|4b9v]]</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=4b9t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4b9t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4b9t RCSB], [http://www.ebi.ac.uk/pdbsum/4b9t PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	8-Oxopurines (8-oxodG and 8-oxodA) and formamidopyrimidines (FaPydG and FaPydA) are major oxidative DNA lesions involved in cancer development and aging. Their mutagenicity is believed to result from a conformational shift of the N9-C1' glycosidic bonds from anti to syn, which allows the lesions to form noncanonical Hoogsteen-type base pairs with incoming triphosphates during DNA replication. Here we present biochemical data and what are to our knowledge the first crystal structures of carbocyclic FaPydA and FaPydG containing DNA in complex with a high-fidelity polymerase. Crystallographic snapshots show that the cFaPy lesions keep the anti geometry of the glycosidic bond during error-free and error-prone replication. The observed dG.dC-->dT.dA transversion mutations are the result of base shifting and tautomerization.

-	~~==About this Structure==~~	+	Unexpected non-Hoogsteen-based mutagenicity mechanism of FaPy-DNA lesions.,Gehrke TH, Lischke U, Gasteiger KL, Schneider S, Arnold S, Muller HC, Stephenson DS, Zipse H, Carell T Nat Chem Biol. 2013 May 19. doi: 10.1038/nchembio.1254. PMID:23685671<ref>PMID:23685671</ref>
-	~~[[4b9t]] is a 3 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=4B9T OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group~~=~~"xtra">PMID:023685671</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+
		+	==See Also==
		+	*[[DNA polymerase\|DNA polymerase]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
	[[Category: Geobacillus stearothermophilus]]		[[Category: Geobacillus stearothermophilus]]
-	[[Category: Arnold, S.]]	+	[[Category: Arnold, S]]
-	[[Category: Carell, T.]]	+	[[Category: Carell, T]]
-	[[Category: Gehrke, T H.]]	+	[[Category: Gehrke, T H]]
-	[[Category: Lischke, U.]]	+	[[Category: Lischke, U]]
-	[[Category: Schneider, S.]]	+	[[Category: Schneider, S]]
	[[Category: Dna damage]]		[[Category: Dna damage]]
	[[Category: Oxidative dna lesion]]		[[Category: Oxidative dna lesion]]

OCA at 14:25, 3 July 2013

OCA — Wed, 03 Jul 2013 14:25:04 GMT

←Older revision		Revision as of 14:25, 3 July 2013
Line 4:		Line 4:

	==About this Structure==		==About this Structure==
-	[[4b9t]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA].	+	[[4b9t]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:023685671</ref><references group="xtra"/><references/>		<ref group="xtra">PMID:023685671</ref><references group="xtra"/><references/>
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
		+	[[Category: Geobacillus stearothermophilus]]
	[[Category: Arnold, S.]]		[[Category: Arnold, S.]]
	[[Category: Carell, T.]]		[[Category: Carell, T.]]

OCA at 10:19, 3 July 2013

OCA — Wed, 03 Jul 2013 10:19:25 GMT

←Older revision		Revision as of 10:19, 3 July 2013
Line 4:		Line 4:

	==About this Structure==		==About this Structure==
-	[[4b9t]] is a 3 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA].	+	[[4b9t]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:023685671</ref><references group="xtra"/><references/>		<ref group="xtra">PMID:023685671</ref><references group="xtra"/><references/>
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
-	[[Category: Geobacillus stearothermophilus]]
	[[Category: Arnold, S.]]		[[Category: Arnold, S.]]
	[[Category: Carell, T.]]		[[Category: Carell, T.]]

OCA at 16:29, 19 June 2013

OCA — Wed, 19 Jun 2013 16:29:39 GMT

←Older revision		Revision as of 16:29, 19 June 2013
Line 1:		Line 1:
	{{STRUCTURE_4b9t\| PDB=4b9t \| SCENE= }}		{{STRUCTURE_4b9t\| PDB=4b9t \| SCENE= }}
	===Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA lesion -dC basepair in the post-insertion site.===		===Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA lesion -dC basepair in the post-insertion site.===
		+	{{ABSTRACT_PUBMED_23685671}}

	==About this Structure==		==About this Structure==
	[[4b9t]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA].		[[4b9t]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:023685671</ref><references group="xtra"/><references/>
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
	[[Category: Geobacillus stearothermophilus]]		[[Category: Geobacillus stearothermophilus]]
	[[Category: Arnold, S.]]		[[Category: Arnold, S.]]
	[[Category: Carell, T.]]		[[Category: Carell, T.]]
-	[[Category: Gehrke, T.]]	+	[[Category: Gehrke, T H.]]
	[[Category: Lischke, U.]]		[[Category: Lischke, U.]]
	[[Category: Schneider, S.]]		[[Category: Schneider, S.]]

OCA at 20:31, 17 April 2013

OCA — Wed, 17 Apr 2013 20:31:09 GMT

←Older revision		Revision as of 20:31, 17 April 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{STRUCTURE_4b9t\| PDB=4b9t \| SCENE= }}
		+	===Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA lesion -dC basepair in the post-insertion site.===

-	~~The entry~~ 4b9t is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
-		+	[[4b9t]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4B9T OCA].
-	~~Authors~~: ~~Gehrke~~, T., Lischke, U.~~, Arnold, S.,~~ Schneider, S.~~, Carell, T.~~	+	[[Category: DNA-directed DNA polymerase]]
-		+	[[Category: Geobacillus stearothermophilus]]
-	~~Description~~: ~~Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA~~ lesion -~~dC basepair in the post-insertion site.~~	+	[[Category: Arnold, S.]]
		+	[[Category: Carell, T.]]
		+	[[Category: Gehrke, T.]]
		+	[[Category: Lischke, U.]]
		+	[[Category: Schneider, S.]]
		+	[[Category: Dna damage]]
		+	[[Category: Oxidative dna lesion]]
		+	[[Category: Replication]]
		+	[[Category: Transferase-dna complex]]
		+	[[Category: Translesion dna synthesis]]

OCA at 05:35, 3 October 2012

OCA — Wed, 03 Oct 2012 05:35:47 GMT

←Older revision		Revision as of 05:35, 3 October 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4b9t is ON HOLD	+	The entry 4b9t is ON HOLD until Paper Publication

	Authors: Gehrke, T., Lischke, U., Arnold, S., Schneider, S., Carell, T.		Authors: Gehrke, T., Lischke, U., Arnold, S., Schneider, S., Carell, T.

-	Description: Structure of the high fidelity DNA polymerase I with an oxidative ~~formamidopyrimidin~~ dG DNA lesion -dC basepair in the post-insertion site.	+	Description: Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA lesion -dC basepair in the post-insertion site.