214d - Revision history

OCA at 16:31, 13 December 2023

2023-12-13T16:31:30Z

←Older revision		Revision as of 16:31, 13 December 2023
Line 1:		Line 1:

	==THE SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING A SINGLE 2'-O-METHYL-BETA-D-ARAT==		==THE SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING A SINGLE 2'-O-METHYL-BETA-D-ARAT==
-	<StructureSection load='214d' size='340' side='right'caption='[[214d~~]], [[NMR_Ensembles_of_Models \| 40 NMR models~~]]' scene=''>	+	<StructureSection load='214d' size='340' side='right'caption='[[214d]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[214d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=214D FirstGlance]. <br>		<table><tr><td colspan='2'>[[214d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=214D FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=T41:1-(2-O-METHYL-BETA-D-ARABINOFURANOSYL)THYMIDINE+5-MONOPHOSPHATE'>T41</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=T41:1-(2-O-METHYL-BETA-D-ARABINOFURANOSYL)THYMIDINE+5-MONOPHOSPHATE'>T41</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=214d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=214d OCA], [https://pdbe.org/214d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=214d RCSB], [https://www.ebi.ac.uk/pdbsum/214d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=214d 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=214d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=214d OCA], [https://pdbe.org/214d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=214d RCSB], [https://www.ebi.ac.uk/pdbsum/214d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=214d ProSAT]</span></td></tr>
	</table>		</table>
Line 21:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gotfredsen~~, C H~~]]	+	[[Category: Gotfredsen CH]]
-	[[Category: Jacobsen~~, J P~~]]	+	[[Category: Jacobsen JP]]
-	[[Category: Spielmann~~, H P~~]]	+	[[Category: Spielmann HP]]
-	[[Category: Wengel, J]]	+	[[Category: Wengel J]]
-	~~[[Category: Dna]]~~	+
-	~~[[Category: Double helix~~]]	+

OCA at 08:26, 10 November 2021

2021-11-10T08:26:17Z

←Older revision		Revision as of 08:26, 10 November 2021
Line 3:		Line 3:
	<StructureSection load='214d' size='340' side='right'caption='[[214d]], [[NMR_Ensembles_of_Models \| 40 NMR models]]' scene=''>		<StructureSection load='214d' size='340' side='right'caption='[[214d]], [[NMR_Ensembles_of_Models \| 40 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[214d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=214D FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[214d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=214D FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=T41:1-(2-O-METHYL-BETA-D-ARABINOFURANOSYL)THYMIDINE+5-MONOPHOSPHATE'>T41</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=T41:1-(2-O-METHYL-BETA-D-ARABINOFURANOSYL)THYMIDINE+5-MONOPHOSPHATE'>T41</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=214d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=214d OCA], [~~http~~://pdbe.org/214d PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=214d RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/214d PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=214d 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=214d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=214d OCA], [https://pdbe.org/214d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=214d RCSB], [https://www.ebi.ac.uk/pdbsum/214d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=214d ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 09:46, 5 February 2020

2020-02-05T09:46:47Z

←Older revision		Revision as of 09:46, 5 February 2020
Line 1:		Line 1:

	==THE SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING A SINGLE 2'-O-METHYL-BETA-D-ARAT==		==THE SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING A SINGLE 2'-O-METHYL-BETA-D-ARAT==
-	<StructureSection load='214d' size='340' side='right' caption='[[214d]], [[NMR_Ensembles_of_Models \| 40 NMR models]]' scene=''>	+	<StructureSection load='214d' size='340' side='right'caption='[[214d]], [[NMR_Ensembles_of_Models \| 40 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[214d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=214D FirstGlance]. <br>		<table><tr><td colspan='2'>[[214d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=214D FirstGlance]. <br>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Gotfredsen, C H]]		[[Category: Gotfredsen, C H]]
	[[Category: Jacobsen, J P]]		[[Category: Jacobsen, J P]]

OCA at 09:12, 2 May 2018

2018-05-02T09:12:28Z

←Older revision		Revision as of 09:12, 2 May 2018
Line 1:		Line 1:
		+
	==THE SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING A SINGLE 2'-O-METHYL-BETA-D-ARAT==		==THE SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING A SINGLE 2'-O-METHYL-BETA-D-ARAT==
	<StructureSection load='214d' size='340' side='right' caption='[[214d]], [[NMR_Ensembles_of_Models \| 40 NMR models]]' scene=''>		<StructureSection load='214d' size='340' side='right' caption='[[214d]], [[NMR_Ensembles_of_Models \| 40 NMR models]]' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[214d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=214D FirstGlance]. <br>		<table><tr><td colspan='2'>[[214d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=214D FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=T41:1-(2-O-METHYL-BETA-D-ARABINOFURANOSYL)THYMIDINE+5-MONOPHOSPHATE'>T41</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=T41:1-(2-O-METHYL-BETA-D-ARABINOFURANOSYL)THYMIDINE+5-MONOPHOSPHATE'>T41</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=214d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=214d OCA], [http://pdbe.org/214d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=214d RCSB], [http://www.ebi.ac.uk/pdbsum/214d 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=214d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=214d OCA], [http://pdbe.org/214d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=214d RCSB], [http://www.ebi.ac.uk/pdbsum/214d PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=214d ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 15:08, 10 September 2015

2015-09-10T15:08:25Z

←Older revision		Revision as of 15:08, 10 September 2015
Line 4:		Line 4:
	<table><tr><td colspan='2'>[[214d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=214D FirstGlance]. <br>		<table><tr><td colspan='2'>[[214d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=214D FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=T41:1-(2-O-METHYL-BETA-D-ARABINOFURANOSYL)THYMIDINE+5-MONOPHOSPHATE'>T41</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=T41:1-(2-O-METHYL-BETA-D-ARABINOFURANOSYL)THYMIDINE+5-MONOPHOSPHATE'>T41</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=214d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=214d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=214d RCSB], [http://www.ebi.ac.uk/pdbsum/214d 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=214d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=214d OCA], [http://pdbe.org/214d PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=214d RCSB], [http://www.ebi.ac.uk/pdbsum/214d 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 214d" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 16:50, 15 January 2015

2015-01-15T16:50:08Z

←Older revision		Revision as of 16:50, 15 January 2015
Line 18:		Line 18:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Gotfredsen, C H.]]	+	[[Category: Gotfredsen, C H]]
-	[[Category: Jacobsen, J P.]]	+	[[Category: Jacobsen, J P]]
-	[[Category: Spielmann, H P.]]	+	[[Category: Spielmann, H P]]
-	[[Category: Wengel, J.]]	+	[[Category: Wengel, J]]
	[[Category: Dna]]		[[Category: Dna]]
	[[Category: Double helix]]		[[Category: Double helix]]

OCA at 08:19, 8 October 2014

2014-10-08T08:19:06Z

←Older revision		Revision as of 08:19, 8 October 2014
Line 1:		Line 1:
-	[[~~Image:~~214d.~~png~~\|~~left\|200px~~]]	+	==THE SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING A SINGLE 2'-O-METHYL-BETA-D-ARAT==
		+	<StructureSection load='214d' size='340' side='right' caption='[[214d]], [[NMR_Ensembles_of_Models \| 40 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[214d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=214D FirstGlance]. <br>
		+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=T41:1-(2-O-METHYL-BETA-D-ARABINOFURANOSYL)THYMIDINE+5-MONOPHOSPHATE'>T41</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=214d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=214d OCA], [http://www.rcsb.org/pdb/explore.do?structureId=214d RCSB], [http://www.ebi.ac.uk/pdbsum/214d PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Two-dimensional 1H NMR spectroscopy was used to determine the solution structure of the double-stranded DNA oligonucleotide d(5'-CGCATATAGCC-3'): d(5'-GGCTAXATGCG-3'), where X is 1-(2-O-methyl-beta-D-arabinofuranosyl)thymine. The structure determination was based on a total relaxation matrix analysis of NOESY cross-peak intensities using the MARDIGRAS program. The improved RANDMARDI procedure was used during the calculations to include the experimental "noise" in the NOESY spectra. The NOE-derived distance restraints were applied in restrained molecular dynamics calculations. Twenty final structures each were generated for the modified DNA duplex from both A-form and B-form DNA starting structures. The root-mean-square deviation of the coordinates for the 40 structures was 0.82 A. The duplex adopts a normal B-DNA-type helix, and the spectra as well as the structure show that the modified nucleotide X adopts a C2'-endo (S) sugar conformation. There are no significant changes in the helix originating from the modified nucleotide. The CH3O group on X is directed toward the major groove, and there seems to be free space for further modifications at this position.

-	~~{{STRUCTURE_214d\| PDB=214d \| SCENE= }}~~	+	Structure of a DNA duplex containing a single 2'-O-methyl-beta-D-araT: combined use of NMR, restrained molecular dynamics, and full relaxation matrix refinement.,Gotfredsen CH, Spielmann HP, Wengel J, Jacobsen JP Bioconjug Chem. 1996 Nov-Dec;7(6):680-8. PMID:8950487<ref>PMID:8950487</ref>

-	~~===THE SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING A SINGLE 2'-O-METHYL-BETA-D-ARAT===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_8950487}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[214d]] is a 2 chain structure. Full experimental information is available from [http:~~//~~oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA].~~	+	</StructureSection>
	[[Category: Gotfredsen, C H.]]		[[Category: Gotfredsen, C H.]]
	[[Category: Jacobsen, J P.]]		[[Category: Jacobsen, J P.]]

OCA: Protected "214d" [edit=sysop:move=sysop]

2013-01-06T11:14:08Z

Protected "214d" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:14, 6 January 2013

OCA at 11:14, 6 January 2013

2013-01-06T11:14:05Z

←Older revision		Revision as of 11:14, 6 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:214d.png\|left\|200px]]		[[Image:214d.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_214d", 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.
-	-->
	{{STRUCTURE_214d\| PDB=214d \| SCENE= }}		{{STRUCTURE_214d\| PDB=214d \| SCENE= }}

	===THE SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING A SINGLE 2'-O-METHYL-BETA-D-ARAT===		===THE SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING A SINGLE 2'-O-METHYL-BETA-D-ARAT===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_8950487}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 8950487 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_8950487}}		{{ABSTRACT_PUBMED_8950487}}

	==About this Structure==		==About this Structure==
-	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA].	+	[[214d]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA].
-		+
-	~~==Reference==~~	+
-	Structure of a DNA duplex containing a single 2'-O-methyl-beta-D-araT: combined use of NMR, restrained molecular dynamics, and full relaxation matrix refinement., Gotfredsen CH, Spielmann HP, Wengel J, Jacobsen JP, Bioconjug Chem. 1996 Nov-Dec;7(6):680-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8950487 8950487]	+
	[[Category: Gotfredsen, C H.]]		[[Category: Gotfredsen, C H.]]
	[[Category: Jacobsen, J P.]]		[[Category: Jacobsen, J P.]]
Line 30:		Line 15:
	[[Category: Dna]]		[[Category: Dna]]
	[[Category: Double helix]]		[[Category: Double helix]]
-	[[Category: Nmr]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 06:34:55 2008''

OCA at 03:35, 28 July 2008

2008-07-28T03:35:00Z

←Older revision		Revision as of 03:35, 28 July 2008
Line 1:		Line 1:
-	[[Image:214d.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:214d.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_214d\| PDB=214d \| SCENE= }}		{{STRUCTURE_214d\| PDB=214d \| SCENE= }}

-	~~'''~~THE SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING A SINGLE 2'-O-METHYL-BETA-D-ARAT~~'''~~	+	===THE SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING A SINGLE 2'-O-METHYL-BETA-D-ARAT===


-	~~==Overview==~~	+	<!--
-	~~Two-dimensional 1H NMR spectroscopy was used~~ to ~~determine~~ the ~~solution structure of the double-stranded DNA oligonucleotide d~~(~~5'-CGCATATAGCC-3')~~: ~~d(5'-GGCTAXATGCG-3'~~), where X is ~~1-(2-O-methyl-beta-D-arabinofuranosyl)thymine. The structure determination was based on a total relaxation matrix analysis of NOESY cross-peak intensities using~~ the ~~MARDIGRAS program~~. ~~The improved RANDMARDI procedure was used during the calculations to include the experimental "noise" in the NOESY spectra. The NOE~~-~~derived distance restraints were applied in restrained molecular dynamics calculations. Twenty final structures each were generated for the modified DNA duplex from both A~~-form and B-form DNA starting structures. The root-mean-square deviation of the coordinates for the 40 structures was 0.82 A. The duplex adopts a normal B-DNA-type helix, and the spectra as well as the structure show that the modified nucleotide X adopts a C2'-endo (S) sugar conformation. There are no significant changes in the helix originating from the modified nucleotide. The CH3O group on X is directed toward the major groove, and there seems to be free space for further modifications at this position.	+	The line below this paragraph, {{ABSTRACT_PUBMED_8950487}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 8950487 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_8950487}}

	==About this Structure==		==About this Structure==
-	Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA].	+	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=214D OCA].

	==Reference==		==Reference==
Line 27:		Line 31:
	[[Category: Double helix]]		[[Category: Double helix]]
	[[Category: Nmr]]		[[Category: Nmr]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sat May 3 18~~:18:53 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 06:34:55 2008''