1s74 - Revision history

OCA at 09:23, 6 December 2023

OCA — Wed, 06 Dec 2023 09:23:29 GMT

←Older revision		Revision as of 09:23, 6 December 2023
Line 1:		Line 1:

	==SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING AN ALPHA-ANOMERIC ADENOSINE: INSIGHTS INTO SUBSTRATE RECOGNITION BY ENDONUCLEASE IV==		==SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING AN ALPHA-ANOMERIC ADENOSINE: INSIGHTS INTO SUBSTRATE RECOGNITION BY ENDONUCLEASE IV==
-	<StructureSection load='1s74' size='340' side='right'caption='[[1s74~~]], [[NMR_Ensembles_of_Models \| 1 NMR models~~]]' scene=''>	+	<StructureSection load='1s74' size='340' side='right'caption='[[1s74]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1s74]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S74 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S74 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1s74]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S74 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S74 FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=A3A:2DEOXY-ALPHA-ANOMERIC-ADENOSINE-5-PHOSPHATE'>A3A</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;~~'>~~[[1s0t\|1s0t]], [[1s75\|1s75]]~~</~~div~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A3A:2DEOXY-ALPHA-ANOMERIC-ADENOSINE-5-PHOSPHATE'>A3A</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=1s74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s74 OCA], [https://pdbe.org/1s74 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s74 RCSB], [https://www.ebi.ac.uk/pdbsum/1s74 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s74 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=1s74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s74 OCA], [https://pdbe.org/1s74 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s74 RCSB], [https://www.ebi.ac.uk/pdbsum/1s74 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s74 ProSAT]</span></td></tr>
	</table>		</table>
Line 22:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Aramini~~, J M~~]]	+	[[Category: Aramini JM]]
-	[[Category: Cleaver~~, S H~~]]	+	[[Category: Cleaver SH]]
-	[[Category: Cunningham~~, R P~~]]	+	[[Category: Cunningham RP]]
-	[[Category: Germann~~, M W~~]]	+	[[Category: Germann MW]]
-	[[Category: Pon~~, R T]]~~	+	[[Category: Pon RT]]
-	~~[[Category: Dna]]~~	+
-	~~[[Category: Dna double helix with enlarged miner groove and helical kink~~]]	+

OCA at 07:27, 22 September 2021

OCA — Wed, 22 Sep 2021 07:27:28 GMT

←Older revision		Revision as of 07:27, 22 September 2021
Line 3:		Line 3:
	<StructureSection load='1s74' size='340' side='right'caption='[[1s74]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='1s74' size='340' side='right'caption='[[1s74]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1s74]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S74 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1S74 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1s74]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S74 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S74 FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=A3A:2DEOXY-ALPHA-ANOMERIC-ADENOSINE-5-PHOSPHATE'>A3A</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=A3A:2DEOXY-ALPHA-ANOMERIC-ADENOSINE-5-PHOSPHATE'>A3A</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s0t\|1s0t]], [[1s75\|1s75]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1s0t\|1s0t]], [[1s75\|1s75]]</div></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=1s74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s74 OCA], [~~http~~://pdbe.org/1s74 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1s74 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1s74 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1s74 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=1s74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s74 OCA], [https://pdbe.org/1s74 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s74 RCSB], [https://www.ebi.ac.uk/pdbsum/1s74 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s74 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 19:27, 11 December 2019

OCA — Wed, 11 Dec 2019 19:27:27 GMT

←Older revision		Revision as of 19:27, 11 December 2019
Line 1:		Line 1:

	==SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING AN ALPHA-ANOMERIC ADENOSINE: INSIGHTS INTO SUBSTRATE RECOGNITION BY ENDONUCLEASE IV==		==SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING AN ALPHA-ANOMERIC ADENOSINE: INSIGHTS INTO SUBSTRATE RECOGNITION BY ENDONUCLEASE IV==
-	<StructureSection load='1s74' size='340' side='right' caption='[[1s74]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>	+	<StructureSection load='1s74' size='340' side='right'caption='[[1s74]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1s74]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S74 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S74 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1s74]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S74 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S74 FirstGlance]. <br>
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Aramini, J M]]		[[Category: Aramini, J M]]
	[[Category: Cleaver, S H]]		[[Category: Cleaver, S H]]

OCA at 06:58, 8 March 2018

OCA — Thu, 08 Mar 2018 06:58:29 GMT

←Older revision		Revision as of 06:58, 8 March 2018
Line 1:		Line 1:
		+
	==SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING AN ALPHA-ANOMERIC ADENOSINE: INSIGHTS INTO SUBSTRATE RECOGNITION BY ENDONUCLEASE IV==		==SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING AN ALPHA-ANOMERIC ADENOSINE: INSIGHTS INTO SUBSTRATE RECOGNITION BY ENDONUCLEASE IV==
	<StructureSection load='1s74' size='340' side='right' caption='[[1s74]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>		<StructureSection load='1s74' size='340' side='right' caption='[[1s74]], [[NMR_Ensembles_of_Models \| 1 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=A3A:2DEOXY-ALPHA-ANOMERIC-ADENOSINE-5-PHOSPHATE'>A3A</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=A3A:2DEOXY-ALPHA-ANOMERIC-ADENOSINE-5-PHOSPHATE'>A3A</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s0t\|1s0t]], [[1s75\|1s75]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s0t\|1s0t]], [[1s75\|1s75]]</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=1s74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s74 OCA], [http://pdbe.org/1s74 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1s74 RCSB], [http://www.ebi.ac.uk/pdbsum/1s74 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=1s74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s74 OCA], [http://pdbe.org/1s74 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1s74 RCSB], [http://www.ebi.ac.uk/pdbsum/1s74 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1s74 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 11:56, 10 September 2015

OCA — Thu, 10 Sep 2015 11:56:51 GMT

←Older revision		Revision as of 11:56, 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=A3A:2DEOXY-ALPHA-ANOMERIC-ADENOSINE-5-PHOSPHATE'>A3A</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=A3A:2DEOXY-ALPHA-ANOMERIC-ADENOSINE-5-PHOSPHATE'>A3A</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s0t\|1s0t]], [[1s75\|1s75]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s0t\|1s0t]], [[1s75\|1s75]]</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=1s74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s74 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1s74 RCSB], [http://www.ebi.ac.uk/pdbsum/1s74 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=1s74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s74 OCA], [http://pdbe.org/1s74 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1s74 RCSB], [http://www.ebi.ac.uk/pdbsum/1s74 PDBsum]</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 1s74" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 16:43, 15 January 2015

OCA — Thu, 15 Jan 2015 16:43:59 GMT

←Older revision		Revision as of 16:43, 15 January 2015
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Aramini, J M.]]	+	[[Category: Aramini, J M]]
-	[[Category: Cleaver, S H.]]	+	[[Category: Cleaver, S H]]
-	[[Category: Cunningham, R P.]]	+	[[Category: Cunningham, R P]]
-	[[Category: Germann, M W.]]	+	[[Category: Germann, M W]]
-	[[Category: Pon, R T.]]	+	[[Category: Pon, R T]]
	[[Category: Dna]]		[[Category: Dna]]
	[[Category: Dna double helix with enlarged miner groove and helical kink]]		[[Category: Dna double helix with enlarged miner groove and helical kink]]

OCA at 08:14, 8 October 2014

OCA — Wed, 08 Oct 2014 08:14:12 GMT

←Older revision		Revision as of 08:14, 8 October 2014
Line 1:		Line 1:
-	[[~~Image:~~1s74.~~png~~\|~~left~~\|~~200px~~]]	+	==SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING AN ALPHA-ANOMERIC ADENOSINE: INSIGHTS INTO SUBSTRATE RECOGNITION BY ENDONUCLEASE IV==
		+	<StructureSection load='1s74' size='340' side='right' caption='[[1s74]], [[NMR_Ensembles_of_Models \| 1 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1s74]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S74 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1S74 FirstGlance]. <br>
		+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=A3A:2DEOXY-ALPHA-ANOMERIC-ADENOSINE-5-PHOSPHATE'>A3A</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1s0t\|1s0t]], [[1s75\|1s75]]</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=1s74 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s74 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1s74 RCSB], [http://www.ebi.ac.uk/pdbsum/1s74 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The cytotoxic alpha anomer of adenosine, generated in situ by radicals, must be recognized and repaired to maintain genomic stability. Endonuclease IV (Endo IV), a member of the base excision repair (BER) enzyme family, in addition to acting on abasic sites, has the auxiliary function of removing this mutagenic nucleotide in Escherichia coli. We have employed enzymatic, thermodynamic, and structural studies on DNA duplexes containing a central alpha-anomeric adenosine residue to characterize the role of DNA structure on recognition and catalysis by Endo IV. The enzyme recognizes and cleaves our alphaA-containing DNA duplexes at the site of the modification. The NMR solution structure of the DNA decamer duplex establishes that the single alpha-anomeric adenosine residue is intrahelical and stacks in a reverse Watson-Crick fashion consistent with the slight decrease in thermostability. However, the presence of this lesion confers significant changes to the global duplex conformation, resulting from a kink of the helical axis into the major groove and an opening of the minor groove emanating from the alpha-anomeric site. Interestingly, the conformation of the flanking base-paired segments is not greatly altered from a B-type conformation. The global structural changes caused by this lesion place the DNA along the conformational path leading to the DNA structure observed in the complex. Thus, it appears that the alpha-anomeric lesion facilitates recognition by Endo IV.

-	~~{{STRUCTURE_1s74\| PDB=1s74 \| SCENE= }}~~	+	Solution structure of a DNA duplex containing an alpha-anomeric adenosine: insights into substrate recognition by endonuclease IV.,Aramini JM, Cleaver SH, Pon RT, Cunningham RP, Germann MW J Mol Biol. 2004 Apr 16;338(1):77-91. PMID:15050824<ref>PMID:15050824</ref>

-	~~===SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING AN ALPHA-ANOMERIC ADENOSINE: INSIGHTS INTO SUBSTRATE RECOGNITION BY ENDONUCLEASE IV===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15050824}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1s74]] is~~ a ~~2 chain structure~~. ~~Full experimental information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=1S74 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:015050824<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Aramini, J M.]]		[[Category: Aramini, J M.]]
	[[Category: Cleaver, S H.]]		[[Category: Cleaver, S H.]]

OCA: Protected "1s74" [edit=sysop:move=sysop]

OCA — Fri, 04 Jan 2013 10:28:36 GMT

Protected "1s74" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:28, 4 January 2013

OCA at 10:28, 4 January 2013

OCA — Fri, 04 Jan 2013 10:28:33 GMT

←Older revision		Revision as of 10:28, 4 January 2013
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-	{{Seed}}
	[[Image:1s74.png\|left\|200px]]		[[Image:1s74.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1s74", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
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	{{STRUCTURE_1s74\| PDB=1s74 \| SCENE= }}		{{STRUCTURE_1s74\| PDB=1s74 \| SCENE= }}

	===SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING AN ALPHA-ANOMERIC ADENOSINE: INSIGHTS INTO SUBSTRATE RECOGNITION BY ENDONUCLEASE IV===		===SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING AN ALPHA-ANOMERIC ADENOSINE: INSIGHTS INTO SUBSTRATE RECOGNITION BY ENDONUCLEASE IV===

-
-	<!--
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-	(as it appears on PubMed at http://www.pubmed.gov), where 15050824 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_15050824}}		{{ABSTRACT_PUBMED_15050824}}

	==About this Structure==		==About this Structure==
-	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S74 OCA].	+	[[1s74]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S74 OCA].

	==Reference==		==Reference==
-	Solution structure of a DNA duplex containing an alpha-anomeric adenosine: insights into substrate recognition by endonuclease IV., Aramini JM, Cleaver SH, Pon RT, Cunningham RP, Germann MW, J Mol Biol. 2004 Apr 16;338(1):77-91. PMID:~~[http://www.ncbi.nlm.nih.gov~~/~~pubmed~~/~~15050824 15050824]~~	+	<ref group="xtra">PMID:015050824</ref><references group="xtra"/>
	[[Category: Aramini, J M.]]		[[Category: Aramini, J M.]]
	[[Category: Cleaver, S H.]]		[[Category: Cleaver, S H.]]
Line 29:		Line 17:
	[[Category: Germann, M W.]]		[[Category: Germann, M W.]]
	[[Category: Pon, R T.]]		[[Category: Pon, R T.]]
		+	[[Category: Dna]]
	[[Category: Dna double helix with enlarged miner groove and helical kink]]		[[Category: Dna double helix with enlarged miner groove and helical kink]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 03:22:45 2008''

OCA at 00:22, 28 July 2008

OCA — Mon, 28 Jul 2008 00:22:46 GMT

←Older revision		Revision as of 00:22, 28 July 2008
Line 1:		Line 1:
-	[[Image:1s74.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:1s74.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_1s74\| PDB=1s74 \| SCENE= }}		{{STRUCTURE_1s74\| PDB=1s74 \| SCENE= }}

-	~~'''~~SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING AN ALPHA-ANOMERIC ADENOSINE: INSIGHTS INTO SUBSTRATE RECOGNITION BY ENDONUCLEASE IV~~'''~~	+	===SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING AN ALPHA-ANOMERIC ADENOSINE: INSIGHTS INTO SUBSTRATE RECOGNITION BY ENDONUCLEASE IV===


-	~~==Overview==~~	+	<!--
-	The ~~cytotoxic alpha anomer of adenosine~~, ~~generated in situ by radicals~~, ~~must be recognized and repaired~~ to ~~maintain genomic stability. Endonuclease IV (Endo IV), a member of~~ the ~~base excision repair~~ (~~BER) enzyme family, in addition to acting~~ on abasic sites, has the auxiliary function of removing this mutagenic nucleotide in Escherichia coli. We have employed enzymatic, thermodynamic, and structural studies on DNA duplexes containing a central alpha-anomeric adenosine residue to characterize the role of DNA structure on recognition and catalysis by Endo IV. The enzyme recognizes and cleaves our alphaA-containing DNA duplexes at ~~the site of the modification~~. The NMR solution structure of the DNA decamer duplex establishes that the single alpha-anomeric adenosine residue is intrahelical and stacks in a reverse Watson-Crick fashion consistent with the slight decrease in thermostability. ~~However~~, the presence of this lesion confers significant changes to the global duplex conformation, resulting from a kink of the helical axis into the major groove and an opening of the minor groove emanating from the alpha-anomeric site. ~~Interestingly, the conformation of the flanking base~~-~~paired segments is not greatly altered from a B~~-type conformation. The global structural changes caused by this lesion place the DNA along the conformational path leading to the DNA structure observed in the complex. Thus, it appears that the alpha-anomeric lesion facilitates recognition by Endo IV.	+	The line below this paragraph, {{ABSTRACT_PUBMED_15050824}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 15050824 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_15050824}}

	==About this Structure==		==About this Structure==
-	Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S74 OCA].	+	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S74 OCA].

	==Reference==		==Reference==
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	[[Category: Pon, R T.]]		[[Category: Pon, R T.]]
	[[Category: Dna double helix with enlarged miner groove and helical kink]]		[[Category: Dna double helix with enlarged miner groove and helical kink]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sat May 3 08~~:22:54 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 03:22:45 2008''