1axv - Revision history

OCA at 11:34, 22 November 2023

2023-11-22T11:34:37Z

←Older revision		Revision as of 11:34, 22 November 2023
Line 1:		Line 1:

	==SOLUTION NMR STRUCTURE OF THE [BP]DA ADDUCT OPPOSITE DT IN A DNA DUPLEX, 6 STRUCTURES==		==SOLUTION NMR STRUCTURE OF THE [BP]DA ADDUCT OPPOSITE DT IN A DNA DUPLEX, 6 STRUCTURES==
-	<StructureSection load='1axv' size='340' side='right'caption='[[1axv~~]], [[NMR_Ensembles_of_Models \| 6 NMR models~~]]' scene=''>	+	<StructureSection load='1axv' size='340' side='right'caption='[[1axv]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1axv]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1AXV FirstGlance]. <br>		<table><tr><td colspan='2'>[[1axv]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1AXV FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BAP:1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE'>BAP</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='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BAP:1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE'>BAP</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=1axv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1axv OCA], [https://pdbe.org/1axv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1axv RCSB], [https://www.ebi.ac.uk/pdbsum/1axv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1axv 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=1axv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1axv OCA], [https://pdbe.org/1axv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1axv RCSB], [https://www.ebi.ac.uk/pdbsum/1axv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1axv ProSAT]</span></td></tr>
	</table>		</table>
Line 21:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Amid, S]]	+	[[Category: Amid S]]
-	[[Category: Broyde, S]]	+	[[Category: Broyde S]]
-	[[Category: Chen, J]]	+	[[Category: Chen J]]
-	[[Category: Geacintov~~, N E~~]]	+	[[Category: Geacintov NE]]
-	[[Category: Gorin~~, A A~~]]	+	[[Category: Gorin AA]]
-	[[Category: Gu, Z]]	+	[[Category: Gu Z]]
-	[[Category: Hingerty~~, B E~~]]	+	[[Category: Hingerty BE]]
-	[[Category: Mao, B]]	+	[[Category: Mao B]]
-	[[Category: Patel~~, D J]]~~	+	[[Category: Patel DJ]]
-	~~[[Category: Carcinogen adduct]]~~	+
-	~~[[Category: Dna]]~~	+
-	~~[[Category: Dna duplex~~]]	+

OCA at 06:55, 24 February 2021

2021-02-24T06:55:28Z

←Older revision		Revision as of 06:55, 24 February 2021
Line 3:		Line 3:
	<StructureSection load='1axv' size='340' side='right'caption='[[1axv]], [[NMR_Ensembles_of_Models \| 6 NMR models]]' scene=''>		<StructureSection load='1axv' size='340' side='right'caption='[[1axv]], [[NMR_Ensembles_of_Models \| 6 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1axv]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1AXV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1axv]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1AXV FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BAP:1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE'>BAP</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BAP:1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE'>BAP</scene></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=1axv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1axv OCA], [~~http~~://pdbe.org/1axv PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1axv RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1axv PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1axv 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=1axv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1axv OCA], [https://pdbe.org/1axv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1axv RCSB], [https://www.ebi.ac.uk/pdbsum/1axv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1axv ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 09:11, 21 May 2019

2019-05-21T09:11:38Z

←Older revision		Revision as of 09:11, 21 May 2019
Line 1:		Line 1:

	==SOLUTION NMR STRUCTURE OF THE [BP]DA ADDUCT OPPOSITE DT IN A DNA DUPLEX, 6 STRUCTURES==		==SOLUTION NMR STRUCTURE OF THE [BP]DA ADDUCT OPPOSITE DT IN A DNA DUPLEX, 6 STRUCTURES==
-	<StructureSection load='1axv' size='340' side='right' caption='[[1axv]], [[NMR_Ensembles_of_Models \| 6 NMR models]]' scene=''>	+	<StructureSection load='1axv' size='340' side='right'caption='[[1axv]], [[NMR_Ensembles_of_Models \| 6 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1axv]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AXV FirstGlance]. <br>		<table><tr><td colspan='2'>[[1axv]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AXV FirstGlance]. <br>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Amid, S]]		[[Category: Amid, S]]
	[[Category: Broyde, S]]		[[Category: Broyde, S]]

OCA at 06:07, 17 August 2017

2017-08-17T06:07:13Z

←Older revision		Revision as of 06:07, 17 August 2017
Line 1:		Line 1:
		+
	==SOLUTION NMR STRUCTURE OF THE [BP]DA ADDUCT OPPOSITE DT IN A DNA DUPLEX, 6 STRUCTURES==		==SOLUTION NMR STRUCTURE OF THE [BP]DA ADDUCT OPPOSITE DT IN A DNA DUPLEX, 6 STRUCTURES==
	<StructureSection load='1axv' size='340' side='right' caption='[[1axv]], [[NMR_Ensembles_of_Models \| 6 NMR models]]' scene=''>		<StructureSection load='1axv' size='340' side='right' caption='[[1axv]], [[NMR_Ensembles_of_Models \| 6 NMR models]]' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1axv]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AXV FirstGlance]. <br>		<table><tr><td colspan='2'>[[1axv]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AXV FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BAP:1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE'>BAP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BAP:1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE'>BAP</scene></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=1axv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1axv OCA], [http://pdbe.org/1axv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1axv RCSB], [http://www.ebi.ac.uk/pdbsum/1axv 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=1axv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1axv OCA], [http://pdbe.org/1axv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1axv RCSB], [http://www.ebi.ac.uk/pdbsum/1axv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1axv ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 08:41, 11 September 2015

2015-09-11T08:41:18Z

←Older revision		Revision as of 08:41, 11 September 2015
Line 4:		Line 4:
	<table><tr><td colspan='2'>[[1axv]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AXV FirstGlance]. <br>		<table><tr><td colspan='2'>[[1axv]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AXV FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BAP:1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE'>BAP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BAP:1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE'>BAP</scene></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=1axv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1axv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1axv RCSB], [http://www.ebi.ac.uk/pdbsum/1axv 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=1axv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1axv OCA], [http://pdbe.org/1axv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1axv RCSB], [http://www.ebi.ac.uk/pdbsum/1axv PDBsum]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 14:		Line 14:
	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 1axv" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:38, 22 December 2014

2014-12-22T06:38:23Z

←Older revision		Revision as of 06:38, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1axv]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AXV FirstGlance]. <br>		<table><tr><td colspan='2'>[[1axv]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AXV FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BAP:1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE'>BAP</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BAP:1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE'>BAP</scene></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=1axv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1axv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1axv RCSB], [http://www.ebi.ac.uk/pdbsum/1axv 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=1axv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1axv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1axv RCSB], [http://www.ebi.ac.uk/pdbsum/1axv PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 18:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Amid, S.]]	+	[[Category: Amid, S]]
-	[[Category: Broyde, S.]]	+	[[Category: Broyde, S]]
-	[[Category: Chen, J.]]	+	[[Category: Chen, J]]
-	[[Category: Geacintov, N E.]]	+	[[Category: Geacintov, N E]]
-	[[Category: Gorin, A A.]]	+	[[Category: Gorin, A A]]
-	[[Category: Gu, Z.]]	+	[[Category: Gu, Z]]
-	[[Category: Hingerty, B E.]]	+	[[Category: Hingerty, B E]]
-	[[Category: Mao, B.]]	+	[[Category: Mao, B]]
-	[[Category: Patel, D J.]]	+	[[Category: Patel, D J]]
	[[Category: Carcinogen adduct]]		[[Category: Carcinogen adduct]]
	[[Category: Dna]]		[[Category: Dna]]
	[[Category: Dna duplex]]		[[Category: Dna duplex]]

OCA at 05:41, 8 June 2014

2014-06-08T05:41:04Z

←Older revision		Revision as of 05:41, 8 June 2014
Line 1:		Line 1:
-	[[~~Image:~~1axv.~~png~~\|~~left\|200px~~]]	+	==SOLUTION NMR STRUCTURE OF THE [BP]DA ADDUCT OPPOSITE DT IN A DNA DUPLEX, 6 STRUCTURES==
		+	<StructureSection load='1axv' size='340' side='right' caption='[[1axv]], [[NMR_Ensembles_of_Models \| 6 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1axv]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1AXV FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BAP:1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE'>BAP</scene><br>
		+	<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=1axv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1axv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1axv RCSB], [http://www.ebi.ac.uk/pdbsum/1axv PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Minor adducts, derived from the covalent binding of anti-benzo[a]pyrene-7,8-dihydroxy-9,10-epoxide to cellular DNA, may play an important role in generating mutations and initiating cancer. We have applied a combined NMR-computational approach including intensity based refinement to determine the solution structure of the minor (+)-cis-anti-[BP]dA adduct positioned opposite dT in the d(C1-T2-C3-T4-C5-[BP]A6-C7-T8-T9-C10-C11). (d(G12-G13-A14-A15-G16-T17-G18-A19-G20+ ++-A21-G22) 11-mer duplex. The BP ring system is intercalated toward the 5'-side of the [BP]dA6 lesion site without disrupting the flanking Watson-Crick dC5.dG18 and [BP]dA6.dT17 base pairs. This structure of the (+)-cis-anti-[BP]dA.dT 11-mer duplex, containing a bay region benzo[a]pyrenyl [BP]dA adduct, is compared with the corresponding structure of the (+)-trans-anti-[BPh]dA.dT 11-mer duplex (Cosman et al., Biochemistry 32, 12488-12497, 1993), which contains a fjord region benzo[c]phenanthrenyl [BPh]dA adduct with the same R stereochemistry at the linkage site. The carcinogen intercalates toward the 5'-direction of the modified strand in both duplexes (the adduct is embedded within the same sequence context) with the buckling of the Watson-Crick [BP]dA6.dT17 base pair more pronounced in the (+)-cis-anti-[BP]dA.dT 11-mer duplex compared to its Watson-Crick [BPh]dA.dT17 base pair in the (+)-trans-anti-[BPh]dA.dT 11-mer duplex. The available structural studies of covalent polycyclic aromatic hydrocarbon (PAH) carcinogen-DNA adducts point toward the emergence of a general theme where distinct alignments are adopted by PAH adducts covalently linked to the N(6) of adenine when compared to the N(2) of guanine in DNA duplexes. The [BPh]dA and [BP]dA N(6)-adenine adducts intercalate their polycyclic aromatic rings into the helix without disruption of their modified base pairs. This may reflect the potential flexibility associated with the positioning of the covalent tether and the benzylic ring of the carcinogen in the sterically spacious major groove. By contrast, such an intercalation without modified base pair disruption option appears not to be available to [BP]dG N(2)-guanine adducts where the covalent tether and the benzylic ring are positioned in the more sterically crowded minor groove. In the case of [BP]dG adducts, the benzopyrenyl ring is either positioned in the minor groove without base pair disruption, or if intercalated into the helix, requires disruption of the modified base pair and displacement of the bases out of the helix.

-	~~{{STRUCTURE_1axv\| PDB=1axv \| SCENE= }}~~	+	Solution structure of the (+)-cis-anti-benzo[a]pyrene-dA ([BP]dA) adduct opposite dT in a DNA duplex.,Mao B, Gu Z, Gorin A, Chen J, Hingerty BE, Amin S, Broyde S, Geacintov NE, Patel DJ Biochemistry. 1999 Aug 17;38(33):10831-42. PMID:10451380<ref>PMID:10451380</ref>

-	~~===SOLUTION NMR STRUCTURE OF THE [BP]DA ADDUCT OPPOSITE DT IN A DNA DUPLEX~~, ~~6 STRUCTURES===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_10451380}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1axv]] is~~ a ~~2 chain structure~~. ~~Full experimental information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=1AXV OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:010451380<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Amid, S.]]		[[Category: Amid, S.]]
	[[Category: Broyde, S.]]		[[Category: Broyde, S.]]

OCA: Protected "1axv" [edit=sysop:move=sysop]

2012-08-14T18:54:31Z

Protected "1axv" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:54, 14 August 2012

OCA at 18:54, 14 August 2012

2012-08-14T18:54:30Z

←Older revision		Revision as of 18:54, 14 August 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1axv.png\|left\|200px]]		[[Image:1axv.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1axv", creates the "Structure Box" on the page.
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	{{STRUCTURE_1axv\| PDB=1axv \| SCENE= }}		{{STRUCTURE_1axv\| PDB=1axv \| SCENE= }}

	===SOLUTION NMR STRUCTURE OF THE [BP]DA ADDUCT OPPOSITE DT IN A DNA DUPLEX, 6 STRUCTURES===		===SOLUTION NMR STRUCTURE OF THE [BP]DA ADDUCT OPPOSITE DT IN A DNA DUPLEX, 6 STRUCTURES===

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	{{ABSTRACT_PUBMED_10451380}}		{{ABSTRACT_PUBMED_10451380}}

	==About this Structure==		==About this Structure==
-	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA].	+	[[1axv]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA].

	==Reference==		==Reference==
-	Solution structure of the (+)-cis-anti-benzo[a]pyrene-dA ([BP]dA) adduct opposite dT in a DNA duplex., Mao B, Gu Z, Gorin A, Chen J, Hingerty BE, Amin S, Broyde S, Geacintov NE, Patel DJ, Biochemistry. 1999 Aug 17;38(33):10831-42. PMID:~~[http://www.ncbi.nlm.nih.gov~~/~~pubmed~~/~~10451380 10451380]~~	+	<ref group="xtra">PMID:010451380</ref><references group="xtra"/>
	[[Category: Amid, S.]]		[[Category: Amid, S.]]
	[[Category: Broyde, S.]]		[[Category: Broyde, S.]]
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	[[Category: Patel, D J.]]		[[Category: Patel, D J.]]
	[[Category: Carcinogen adduct]]		[[Category: Carcinogen adduct]]
		+	[[Category: Dna]]
	[[Category: Dna duplex]]		[[Category: Dna duplex]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 17:49:33 2008''

OCA at 14:49, 30 June 2008

2008-06-30T14:49:34Z

←Older revision		Revision as of 14:49, 30 June 2008
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-	[[Image:1axv.~~gif~~\|left\|200px]]	+	{{Seed}}
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-	~~'''~~SOLUTION NMR STRUCTURE OF THE [BP]DA ADDUCT OPPOSITE DT IN A DNA DUPLEX, 6 STRUCTURES~~'''~~	+	===SOLUTION NMR STRUCTURE OF THE [BP]DA ADDUCT OPPOSITE DT IN A DNA DUPLEX, 6 STRUCTURES===


-	~~==Overview==~~	+	<!--
-	~~Minor adducts, derived from the covalent binding of anti~~-~~benzo[a]pyrene~~-7,8-dihydroxy-9,10-epoxide to cellular DNA, may play an important role in generating mutations and initiating cancer. We have applied a combined NMR-computational approach including intensity based refinement to determine the solution structure of the minor (+)-cis-anti-[BP]dA adduct positioned opposite dT in the d(C1-T2-C3-T4-C5-[BP]A6-C7-T8-T9-C10-C11). (d(G12-G13-A14-A15-G16-T17-G18-A19-G20+ ++-A21-G22) 11-mer duplex. The BP ring system is intercalated toward the 5'-side of the [BP]dA6 lesion site without disrupting the flanking Watson-Crick dC5.dG18 and [BP]dA6.dT17 base pairs. This structure of the (+)-cis-anti-[BP]dA.dT 11-mer duplex, ~~containing a bay region benzo[a]pyrenyl [BP]dA adduct~~, ~~is compared with~~ the ~~corresponding structure of~~ the (~~+)-trans-anti-[BPh]dA~~.~~dT 11-mer duplex (Cosman et al~~.~~, Biochemistry 32, 12488-12497, 1993~~), which contains a fjord region benzo[c]phenanthrenyl [BPh]dA adduct with the same R stereochemistry at the linkage site. The carcinogen intercalates toward the 5'-direction of the modified strand in both duplexes (the adduct is ~~embedded within~~ the ~~same sequence context) with the buckling of the Watson-Crick [BP]dA6~~.~~dT17 base pair more pronounced in the (+)~~-~~cis~~-anti-[BP]dA.dT 11-mer duplex compared to its Watson-Crick [BPh]dA.dT17 base pair in the (+)-trans-anti-[BPh]dA.dT 11-mer duplex. The available structural studies of covalent polycyclic aromatic hydrocarbon (PAH) carcinogen-DNA adducts point toward the emergence of a general theme where distinct alignments are adopted by PAH adducts covalently linked to the N(6) of adenine when compared to the N(2) of guanine in DNA duplexes. The [BPh]dA and [BP]dA N(6)-adenine adducts intercalate their polycyclic aromatic rings into the helix without disruption of their modified base pairs. This may reflect the potential flexibility associated with the positioning of the covalent tether and the benzylic ring of the carcinogen in the sterically spacious major groove. By contrast, such an intercalation without modified base pair disruption option appears not to be available to [BP]dG N(2)-guanine adducts where the covalent tether and the benzylic ring are positioned in the more sterically crowded minor groove. In the case of [BP]dG adducts, the benzopyrenyl ring is either positioned in the minor groove without base pair disruption, or if intercalated into the helix, requires disruption of the modified base pair and displacement of the bases out of the helix.	+	The line below this paragraph, {{ABSTRACT_PUBMED_10451380}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 10451380 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_10451380}}

	==About this Structure==		==About this Structure==
-	Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA].	+	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AXV OCA].

	==Reference==		==Reference==
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	[[Category: Carcinogen adduct]]		[[Category: Carcinogen adduct]]
	[[Category: Dna duplex]]		[[Category: Dna duplex]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Fri May 2 10~~:49:32 2008''	+
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