2lwn - Revision history

OCA at 06:57, 1 May 2024

2024-05-01T06:57:57Z

←Older revision		Revision as of 06:57, 1 May 2024
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	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2lwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lwn OCA], [https://pdbe.org/2lwn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lwn RCSB], [https://www.ebi.ac.uk/pdbsum/2lwn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lwn 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=2lwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lwn OCA], [https://pdbe.org/2lwn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lwn RCSB], [https://www.ebi.ac.uk/pdbsum/2lwn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lwn ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The addition of hydroxyl radicals to the C8 position of guanine can lead to the formation of a 2,6-diamino-4-hydroxy-5-formamido-2'-deoxypyrimidine (Fapy-dG) lesion, whose endogenous levels in cellular DNA rival those of 8-oxo-7,8-dihydroxy-2'-deoxyguanosine. Despite its prevalence, the structure of duplex DNA containing Fapy-dG is unknown. We have prepared an undecameric duplex containing a centrally located beta-cFapy-dG residue paired to dC and determined its solution structure by high-resolution NMR spectroscopy and restrained molecular dynamic simulations. The damaged duplex adopts a right-handed helical structure with all residues in an anti conformation, forming Watson-Crick base pair alignments, and 2-deoxyribose conformations in the C2'-endo/C1'-exo range. The formamido group of Fapy rotates out of the pyrimidine plane and is present in the Z and E configurations that equilibrate with an approximate 2:1 population ratio. The two isomeric duplexes show similar lesion-induced deviations from a canonical B-from DNA conformation that are minor and limited to the central three-base-pair segment of the duplex, affecting the stacking interactions with the 5-lesion-neighboring residue. We discuss the implications of our observations for translesion synthesis during DNA replication and the recognition of Fapy-dG by DNA glycosylases.
-
-	Solution structure of duplex DNA containing a beta-Carba-Fapy-dG lesion.,Lukin M, Zaliznyak T, Attaluri S, Johnson F, de Los Santos C Chem Res Toxicol. 2012 Nov 19;25(11):2423-31. doi: 10.1021/tx300290b. Epub 2012, Aug 29. PMID:22897814<ref>PMID:22897814</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2lwn" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 11:51, 22 November 2023

2023-11-22T11:51:12Z

←Older revision		Revision as of 11:51, 22 November 2023
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	==Solution Structure of Duplex DNA Containing a b-Carba-Fapy-dG Lesion==		==Solution Structure of Duplex DNA Containing a b-Carba-Fapy-dG Lesion==
-	<StructureSection load='2lwn' size='340' side='right'caption='[[2lwn~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='2lwn' size='340' side='right'caption='[[2lwn]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2lwn]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LWN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LWN FirstGlance]. <br>		<table><tr><td colspan='2'>[[2lwn]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LWN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LWN FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=LWM:[(1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-1,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL]METHYL+DIHYDROGEN+PHOSPHATE'>LWM</scene~~></td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2lwm\|2lwm]], [[2lwo\|2lwo]]</div~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LWM:[(1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-1,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL]METHYL+DIHYDROGEN+PHOSPHATE'>LWM</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=2lwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lwn OCA], [https://pdbe.org/2lwn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lwn RCSB], [https://www.ebi.ac.uk/pdbsum/2lwn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lwn 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=2lwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lwn OCA], [https://pdbe.org/2lwn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lwn RCSB], [https://www.ebi.ac.uk/pdbsum/2lwn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lwn ProSAT]</span></td></tr>
	</table>		</table>
Line 22:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Attaluri, S]]	+	[[Category: Attaluri S]]
-	[[Category: Johnson, F]]	+	[[Category: Johnson F]]
-	[[Category: Lukin, M]]	+	[[Category: Lukin M]]
-	~~[[Category: Santos, C de los~~]]	+	[[Category: Zalianyak T]]
-	[[Category: Zalianyak, T]]	+	[[Category: De los Santos C]]
-	[[Category: ~~Dna]]~~	+
-	~~[[Category: Oxidative damage~~]]	+

OCA at 11:30, 16 February 2022

2022-02-16T11:30:15Z

←Older revision		Revision as of 11:30, 16 February 2022
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	<StructureSection load='2lwn' size='340' side='right'caption='[[2lwn]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2lwn' size='340' side='right'caption='[[2lwn]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2lwn]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LWN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2LWN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2lwn]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LWN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LWN FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LWM:[(1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-1,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL]METHYL+DIHYDROGEN+PHOSPHATE'>LWM</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LWM:[(1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-1,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL]METHYL+DIHYDROGEN+PHOSPHATE'>LWM</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2lwm\|2lwm]], [[2lwo\|2lwo]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2lwm\|2lwm]], [[2lwo\|2lwo]]</div></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=2lwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lwn OCA], [~~http~~://pdbe.org/2lwn PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2lwn RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2lwn PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2lwn 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=2lwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lwn OCA], [https://pdbe.org/2lwn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lwn RCSB], [https://www.ebi.ac.uk/pdbsum/2lwn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lwn ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 06:15, 13 May 2020

2020-05-13T06:15:59Z

←Older revision		Revision as of 06:15, 13 May 2020
Line 1:		Line 1:

	==Solution Structure of Duplex DNA Containing a b-Carba-Fapy-dG Lesion==		==Solution Structure of Duplex DNA Containing a b-Carba-Fapy-dG Lesion==
-	<StructureSection load='2lwn' size='340' side='right' caption='[[2lwn]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='2lwn' size='340' side='right'caption='[[2lwn]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2lwn]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LWN OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2LWN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2lwn]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LWN OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2LWN FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LWM:[(1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-1,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL]METHYL+DIHYDROGEN+PHOSPHATE'>LWM</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LWM:[(1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-1,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL]METHYL+DIHYDROGEN+PHOSPHATE'>LWM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2lwm\|2lwm]], [[2lwo\|2lwo]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2lwm\|2lwm]], [[2lwo\|2lwo]]</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=2lwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lwn OCA], [http://pdbe.org/2lwn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2lwn RCSB], [http://www.ebi.ac.uk/pdbsum/2lwn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2lwn 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=2lwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lwn OCA], [http://pdbe.org/2lwn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2lwn RCSB], [http://www.ebi.ac.uk/pdbsum/2lwn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2lwn ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Attaluri, S]]		[[Category: Attaluri, S]]
	[[Category: Johnson, F]]		[[Category: Johnson, F]]

OCA at 23:04, 9 August 2018

2018-08-09T23:04:30Z

←Older revision		Revision as of 23:04, 9 August 2018
Line 1:		Line 1:
		+
	==Solution Structure of Duplex DNA Containing a b-Carba-Fapy-dG Lesion==		==Solution Structure of Duplex DNA Containing a b-Carba-Fapy-dG Lesion==
	<StructureSection load='2lwn' size='340' side='right' caption='[[2lwn]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2lwn' size='340' side='right' caption='[[2lwn]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LWM:[(1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-1,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL]METHYL+DIHYDROGEN+PHOSPHATE'>LWM</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LWM:[(1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-1,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL]METHYL+DIHYDROGEN+PHOSPHATE'>LWM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2lwm\|2lwm]], [[2lwo\|2lwo]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2lwm\|2lwm]], [[2lwo\|2lwo]]</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=2lwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lwn OCA], [http://pdbe.org/2lwn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2lwn RCSB], [http://www.ebi.ac.uk/pdbsum/2lwn 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=2lwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lwn OCA], [http://pdbe.org/2lwn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2lwn RCSB], [http://www.ebi.ac.uk/pdbsum/2lwn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2lwn ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 19:34, 10 September 2015

2015-09-10T19:34:32Z

←Older revision		Revision as of 19:34, 10 September 2015
Line 5:		Line 5:
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LWM:[(1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-1,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL]METHYL+DIHYDROGEN+PHOSPHATE'>LWM</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LWM:[(1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-1,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL]METHYL+DIHYDROGEN+PHOSPHATE'>LWM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2lwm\|2lwm]], [[2lwo\|2lwo]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2lwm\|2lwm]], [[2lwo\|2lwo]]</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=2lwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lwn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2lwn RCSB], [http://www.ebi.ac.uk/pdbsum/2lwn 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=2lwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lwn OCA], [http://pdbe.org/2lwn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2lwn RCSB], [http://www.ebi.ac.uk/pdbsum/2lwn PDBsum]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 15:
	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 2lwn" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 08:45, 26 November 2014

2014-11-26T08:45:14Z

←Older revision		Revision as of 08:45, 26 November 2014
Line 1:		Line 1:
-	[[~~Image:~~2lwn.~~jpg~~\|~~left~~\|~~200px~~]]	+	==Solution Structure of Duplex DNA Containing a b-Carba-Fapy-dG Lesion==
		+	<StructureSection load='2lwn' size='340' side='right' caption='[[2lwn]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2lwn]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LWN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2LWN FirstGlance]. <br>
		+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LWM:[(1R,2S,4R)-4-{[2-AMINO-5-(FORMYLAMINO)-6-OXO-1,6-DIHYDROPYRIMIDIN-4-YL]AMINO}-2-HYDROXYCYCLOPENTYL]METHYL+DIHYDROGEN+PHOSPHATE'>LWM</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2lwm\|2lwm]], [[2lwo\|2lwo]]</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=2lwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lwn OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2lwn RCSB], [http://www.ebi.ac.uk/pdbsum/2lwn PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The addition of hydroxyl radicals to the C8 position of guanine can lead to the formation of a 2,6-diamino-4-hydroxy-5-formamido-2'-deoxypyrimidine (Fapy-dG) lesion, whose endogenous levels in cellular DNA rival those of 8-oxo-7,8-dihydroxy-2'-deoxyguanosine. Despite its prevalence, the structure of duplex DNA containing Fapy-dG is unknown. We have prepared an undecameric duplex containing a centrally located beta-cFapy-dG residue paired to dC and determined its solution structure by high-resolution NMR spectroscopy and restrained molecular dynamic simulations. The damaged duplex adopts a right-handed helical structure with all residues in an anti conformation, forming Watson-Crick base pair alignments, and 2-deoxyribose conformations in the C2'-endo/C1'-exo range. The formamido group of Fapy rotates out of the pyrimidine plane and is present in the Z and E configurations that equilibrate with an approximate 2:1 population ratio. The two isomeric duplexes show similar lesion-induced deviations from a canonical B-from DNA conformation that are minor and limited to the central three-base-pair segment of the duplex, affecting the stacking interactions with the 5-lesion-neighboring residue. We discuss the implications of our observations for translesion synthesis during DNA replication and the recognition of Fapy-dG by DNA glycosylases.

-	~~{{STRUCTURE_2lwn\| PDB=2lwn \| SCENE= }}~~	+	Solution structure of duplex DNA containing a beta-Carba-Fapy-dG lesion.,Lukin M, Zaliznyak T, Attaluri S, Johnson F, de Los Santos C Chem Res Toxicol. 2012 Nov 19;25(11):2423-31. doi: 10.1021/tx300290b. Epub 2012, Aug 29. PMID:22897814<ref>PMID:22897814</ref>

-	~~===Solution Structure~~ of ~~Duplex DNA Containing a b-Carba-Fapy-dG Lesion===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_22897814}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[2lwn]] is a 2 chain structure. Full experimental information is available from [http:~~//~~oca.weizmann.ac.il/oca-bin/ocashort?id=2LWN OCA].~~	+	</StructureSection>
-	[[Category: Attaluri, S.]]	+	[[Category: Attaluri, S]]
-	[[Category: Johnson, F.]]	+	[[Category: Johnson, F]]
-	[[Category: Lukin, M.]]	+	[[Category: Lukin, M]]
-	[[Category: Santos, C de los.]]	+	[[Category: Santos, C de los]]
-	[[Category: Zalianyak, T.]]	+	[[Category: Zalianyak, T]]
	[[Category: Dna]]		[[Category: Dna]]
	[[Category: Oxidative damage]]		[[Category: Oxidative damage]]

OCA at 13:53, 20 February 2013

2013-02-20T13:53:23Z

←Older revision		Revision as of 13:53, 20 February 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:2lwn.jpg\|left\|200px]]

-	~~The entry~~ 2lwn ~~is ON HOLD~~	+	{{STRUCTURE_2lwn\| PDB=2lwn \| SCENE= }}

-	~~Authors: Zalianyak, T., de los Santos, C., Lukin, M., Attaluri, S., Johnson, F.~~	+	===Solution Structure of Duplex DNA Containing a b-Carba-Fapy-dG Lesion===

-	~~Description: Solution~~ Structure ~~of Duplex DNA Containing~~ a b-~~Carba-Fapy-dG Lesion~~	+	{{ABSTRACT_PUBMED_22897814}}
		+
		+	==About this Structure==
		+	[[2lwn]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LWN OCA].
		+	[[Category: Attaluri, S.]]
		+	[[Category: Johnson, F.]]
		+	[[Category: Lukin, M.]]
		+	[[Category: Santos, C de los.]]
		+	[[Category: Zalianyak, T.]]
		+	[[Category: Dna]]
		+	[[Category: Oxidative damage]]

OCA at 11:43, 30 January 2013

2013-01-30T11:43:12Z

←Older revision		Revision as of 11:43, 30 January 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 2lwn is ON HOLD ~~until sometime in the future~~	+	The entry 2lwn is ON HOLD

	Authors: Zalianyak, T., de los Santos, C., Lukin, M., Attaluri, S., Johnson, F.		Authors: Zalianyak, T., de los Santos, C., Lukin, M., Attaluri, S., Johnson, F.

	Description: Solution Structure of Duplex DNA Containing a b-Carba-Fapy-dG Lesion		Description: Solution Structure of Duplex DNA Containing a b-Carba-Fapy-dG Lesion

OCA at 05:15, 22 August 2012

2012-08-22T05:15:25Z

←Older revision		Revision as of 05:15, 22 August 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 2lwn is ON HOLD	+	The entry 2lwn is ON HOLD until sometime in the future

	Authors: Zalianyak, T., de los Santos, C., Lukin, M., Attaluri, S., Johnson, F.		Authors: Zalianyak, T., de los Santos, C., Lukin, M., Attaluri, S., Johnson, F.

	Description: Solution Structure of Duplex DNA Containing a b-Carba-Fapy-dG Lesion		Description: Solution Structure of Duplex DNA Containing a b-Carba-Fapy-dG Lesion