3uke - Revision history

OCA at 14:00, 14 March 2024

2024-03-14T14:00:51Z

← Older revision		Revision as of 14:00, 14 March 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3uke]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UKE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UKE FirstGlance]. <br>		<table><tr><td colspan='2'>[[3uke]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UKE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UKE FirstGlance]. <br>
	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=CSM:1~~-{2,~~5-ANHYDRO-6-O-METHYL-4-~~[~~(PHOSPHONOOXY)METHYL~~]~~-ALPHA-L-MANNOFURANOSYL}PYRIMIDINE-2,4(1H,3H)-DIONE'>CSM</scene>~~</td></tr>		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.68Å</td></tr>
	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;'>~~[~~[3ukb\|3ukb]~~], ~~[[3ukc\|3ukc]]~~</~~div~~></td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CSM:1-{2,5-ANHYDRO-6-O-METHYL-4-[(PHOSPHONOOXY)METHYL]-ALPHA-L-MANNOFURANOSYL}PYRIMIDINE-2,4(1H,3H)-DIONE'>CSM</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=3uke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uke OCA], [https://pdbe.org/3uke PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3uke RCSB], [https://www.ebi.ac.uk/pdbsum/3uke PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3uke 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=3uke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uke OCA], [https://pdbe.org/3uke PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3uke RCSB], [https://www.ebi.ac.uk/pdbsum/3uke PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3uke ProSAT]</span></td></tr>
	</table>		</table>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	Combining the structural elements of the second generation 2'-O-methoxyethyl (MOE) and locked nucleic acid (LNA) antisense oligonucleotide (AON) modifications yielded the highly nuclease resistant 2',4'-constrained MOE and ethyl bicyclic nucleic acids (cMOE and cEt BNA, respectively). Crystal structures of DNAs with cMOE or cEt BNA residues reveal their conformational preferences. Comparisons with MOE and LNA structures allow insights into their favourable properties for AON applications.

	Structure and nuclease resistance of 2',4'-constrained 2'-O-methoxyethyl (cMOE) and 2'-O-ethyl (cEt) modified DNAs.,Pallan PS, Allerson CR, Berdeja A, Seth PP, Swayze EE, Prakash TP, Egli M Chem Commun (Camb). 2012 May 22. PMID:22614180<ref>PMID:22614180</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 3uke" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Egli, M]]		[[Category: Egli M]]
	[[Category: Pallan~~, P S]]~~		[[Category: Pallan PS]]
	~~[[Category: A-form dna]]~~
	~~[[Category: Antisense oligonucleotide]]~~
	~~[[Category: Bicyclic nucleic acid]]~~
	~~[[Category: Bna]]~~
	~~[[Category: C-moe-bna]]~~
	~~[[Category: Dna~~]]

OCA at 07:42, 20 July 2022

2022-07-20T07:42:24Z

← Older revision		Revision as of 07:42, 20 July 2022
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	==(S)-cMOE-BNA decamer structure==		==(S)-cMOE-BNA decamer structure==
	<StructureSection load='3uke' size='340' side='right' caption='[[3uke]], [[Resolution\|resolution]] 1.68Å' scene=''>		<StructureSection load='3uke' size='340' side='right'caption='[[3uke]], [[Resolution\|resolution]] 1.68Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3uke]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UKE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3UKE FirstGlance]. <br>		<table><tr><td colspan='2'>[[3uke]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UKE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UKE FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSM:1-{2,5-ANHYDRO-6-O-METHYL-4-[(PHOSPHONOOXY)METHYL]-ALPHA-L-MANNOFURANOSYL}PYRIMIDINE-2,4(1H,3H)-DIONE'>CSM</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=CSM:1-{2,5-ANHYDRO-6-O-METHYL-4-[(PHOSPHONOOXY)METHYL]-ALPHA-L-MANNOFURANOSYL}PYRIMIDINE-2,4(1H,3H)-DIONE'>CSM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ukb\|3ukb]], [[3ukc\|3ukc]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3ukb\|3ukb]], [[3ukc\|3ukc]]</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=3uke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uke OCA], [~~http~~://pdbe.org/3uke PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3uke RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3uke PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3uke 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=3uke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uke OCA], [https://pdbe.org/3uke PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3uke RCSB], [https://www.ebi.ac.uk/pdbsum/3uke PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3uke ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: Egli, M]]		[[Category: Egli, M]]
	[[Category: Pallan, P S]]		[[Category: Pallan, P S]]

OCA at 21:11, 11 August 2016

2016-08-11T21:11:35Z

← Older revision		Revision as of 21:11, 11 August 2016
Line 1:		Line 1:

	==(S)-cMOE-BNA decamer structure==		==(S)-cMOE-BNA decamer structure==
	<StructureSection load='3uke' size='340' side='right' caption='[[3uke]], [[Resolution\|resolution]] 1.68Å' scene=''>		<StructureSection load='3uke' size='340' side='right' caption='[[3uke]], [[Resolution\|resolution]] 1.68Å' scene=''>
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	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSM:1-{2,5-ANHYDRO-6-O-METHYL-4-[(PHOSPHONOOXY)METHYL]-ALPHA-L-MANNOFURANOSYL}PYRIMIDINE-2,4(1H,3H)-DIONE'>CSM</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=CSM:1-{2,5-ANHYDRO-6-O-METHYL-4-[(PHOSPHONOOXY)METHYL]-ALPHA-L-MANNOFURANOSYL}PYRIMIDINE-2,4(1H,3H)-DIONE'>CSM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ukb\|3ukb]], [[3ukc\|3ukc]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ukb\|3ukb]], [[3ukc\|3ukc]]</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=3uke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uke OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3uke RCSB], [http://www.ebi.ac.uk/pdbsum/3uke 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=3uke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uke OCA], [http://pdbe.org/3uke PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3uke RCSB], [http://www.ebi.ac.uk/pdbsum/3uke PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3uke ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	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 3uke" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 10:55, 4 January 2015

2015-01-04T10:55:28Z

← Older revision		Revision as of 10:55, 4 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3uke]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UKE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UKE FirstGlance]. <br>		<table><tr><td colspan='2'>[[3uke]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UKE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UKE FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSM:1-{2,5-ANHYDRO-6-O-METHYL-4-[(PHOSPHONOOXY)METHYL]-ALPHA-L-MANNOFURANOSYL}PYRIMIDINE-2,4(1H,3H)-DIONE'>CSM</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=CSM:1-{2,5-ANHYDRO-6-O-METHYL-4-[(PHOSPHONOOXY)METHYL]-ALPHA-L-MANNOFURANOSYL}PYRIMIDINE-2,4(1H,3H)-DIONE'>CSM</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ukb\|3ukb]], [[3ukc\|3ukc]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ukb\|3ukb]], [[3ukc\|3ukc]]</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=3uke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uke OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3uke RCSB], [http://www.ebi.ac.uk/pdbsum/3uke 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=3uke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uke OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3uke RCSB], [http://www.ebi.ac.uk/pdbsum/3uke PDBsum]</span></td></tr>
	<table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Egli, M.]]		[[Category: Egli, M]]
	[[Category: Pallan, P S.]]		[[Category: Pallan, P S]]
	[[Category: A-form dna]]		[[Category: A-form dna]]
	[[Category: Antisense oligonucleotide]]		[[Category: Antisense oligonucleotide]]

OCA at 09:17, 11 June 2014

2014-06-11T09:17:20Z

← Older revision		Revision as of 09:17, 11 June 2014
Line 1:		Line 1:
	[[~~Image~~:~~3uke~~.~~png~~\|~~left~~\|~~200px~~]]		==(S)-cMOE-BNA decamer structure==
			<StructureSection load='3uke' size='340' side='right' caption='[[3uke]], [[Resolution\|resolution]] 1.68Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[3uke]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UKE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UKE FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSM:1-{2,5-ANHYDRO-6-O-METHYL-4-[(PHOSPHONOOXY)METHYL]-ALPHA-L-MANNOFURANOSYL}PYRIMIDINE-2,4(1H,3H)-DIONE'>CSM</scene></td></tr>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ukb\|3ukb]], [[3ukc\|3ukc]]</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=3uke FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uke OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3uke RCSB], [http://www.ebi.ac.uk/pdbsum/3uke PDBsum]</span></td></tr>
			<table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Combining the structural elements of the second generation 2'-O-methoxyethyl (MOE) and locked nucleic acid (LNA) antisense oligonucleotide (AON) modifications yielded the highly nuclease resistant 2',4'-constrained MOE and ethyl bicyclic nucleic acids (cMOE and cEt BNA, respectively). Crystal structures of DNAs with cMOE or cEt BNA residues reveal their conformational preferences. Comparisons with MOE and LNA structures allow insights into their favourable properties for AON applications.

	~~{{STRUCTURE_3uke\| PDB=3uke \| SCENE= }}~~		Structure and nuclease resistance of 2',4'-constrained 2'-O-methoxyethyl (cMOE) and 2'-O-ethyl (cEt) modified DNAs.,Pallan PS, Allerson CR, Berdeja A, Seth PP, Swayze EE, Prakash TP, Egli M Chem Commun (Camb). 2012 May 22. PMID:22614180<ref>PMID:22614180</ref>

	~~===(S)-cMOE-BNA decamer structure===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_22614180}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[3uke]] is~~ a ~~2 chain structure~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=3UKE OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:022614180<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Egli, M.]]		[[Category: Egli, M.]]
	[[Category: Pallan, P S.]]		[[Category: Pallan, P S.]]

OCA at 04:36, 8 August 2012

2012-08-08T04:36:38Z

← Older revision		Revision as of 04:36, 8 August 2012
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	[[Image:3uke.~~jpg~~\|left\|200px]]		[[Image:3uke.png\|left\|200px]]

	{{STRUCTURE_3uke\| PDB=3uke \| SCENE= }}		{{STRUCTURE_3uke\| PDB=3uke \| SCENE= }}

OCA at 07:52, 20 June 2012

2012-06-20T07:52:15Z

← Older revision		Revision as of 07:52, 20 June 2012
Line 1:		Line 1:
	~~'''Unreleased structure'''~~		[[Image:3uke.jpg\|left\|200px]]

	~~The entry~~ 3uke ~~is ON HOLD~~ ~~until Paper Publication~~		{{STRUCTURE_3uke\| PDB=3uke \| SCENE= }}

	~~Authors: Pallan, P.~~S~~., Egli, M.~~		===(S)-cMOE-BNA decamer structure===

	~~Description~~: (S)-~~cMOE~~-~~BNA decamer structure~~		{{ABSTRACT_PUBMED_22614180}}

			==About this Structure==
			[[3uke]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UKE OCA].

			==Reference==
			<ref group="xtra">PMID:022614180</ref><references group="xtra"/>
			[[Category: Egli, M.]]
			[[Category: Pallan, P S.]]
			[[Category: A-form dna]]
			[[Category: Antisense oligonucleotide]]
			[[Category: Bicyclic nucleic acid]]
			[[Category: Bna]]
			[[Category: C-moe-bna]]
			[[Category: Dna]]

OCA at 06:48, 1 February 2012

2012-02-01T06:48:22Z

← Older revision		Revision as of 06:48, 1 February 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 3uke is ON HOLD		The entry 3uke is ON HOLD until Paper Publication

	Authors: Pallan, P.S., Egli, M.		Authors: Pallan, P.S., Egli, M.

	Description: (S)-cMOE-BNA decamer structure		Description: (S)-cMOE-BNA decamer structure

OCA: Protected "3uke" [edit=sysop:move=sysop]

2011-11-16T11:56:17Z

Protected "3uke" [edit=sysop:move=sysop]

← Older revision	Revision as of 11:56, 16 November 2011
(No difference)

OCA: New page: '''Unreleased structure''' The entry 3uke is ON HOLD Authors: Pallan, P.S., Egli, M. Description: (S)-cMOE-BNA decamer structure

2011-11-16T11:56:16Z

New page: '''Unreleased structure''' The entry 3uke is ON HOLD Authors: Pallan, P.S., Egli, M. Description: (S)-cMOE-BNA decamer structure

New page

'''Unreleased structure'''

The entry 3uke is ON HOLD

Authors: Pallan, P.S., Egli, M.

Description: (S)-cMOE-BNA decamer structure