OCA at 05:29, 9 August 2023

OCA — Wed, 09 Aug 2023 05:29:26 GMT

←Older revision		Revision as of 05:29, 9 August 2023
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-	'''Unreleased structure'''

-	~~The entry~~ 8i50 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of DNA octamer containing GuNA[Me,Me]==
		+	<StructureSection load='8i50' size='340' side='right'caption='[[8i50]], [[Resolution\|resolution]] 0.95Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8i50]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8I50 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8I50 FirstGlance]. <br>
		+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 0.95Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=OIQ:[(1R,3R,4R,7S)-5-[(E)-N,N-dimethylcarbamimidoyl]-3-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-7-oxidanyl-2-oxa-5-azabicyclo[2.2.1]heptan-1-yl]methyl+dihydrogen+phosphate'>OIQ</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=8i50 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8i50 OCA], [https://pdbe.org/8i50 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8i50 RCSB], [https://www.ebi.ac.uk/pdbsum/8i50 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8i50 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Antisense oligonucleotides (ASOs) are becoming a promising class of drugs for treating various diseases. Over the past few decades, many modified nucleic acids have been developed for application to ASOs, aiming to enhance their duplex-forming ability toward cognate mRNA and improve their stability against enzymatic degradations. Modulating the sugar conformation of nucleic acids by substituting an electron-withdrawing group at the 2'-position or incorporating a 2',4'-bridging structure is a common approach for enhancing duplex-forming ability. Here, we report on incorporating an N-tert-butylguanidinium group at the 2',4'-bridging structure, which greatly enhances duplex-forming ability because of its interactions with the minor groove. Our results indicated that hydrophobic substituents fitting the grooves of duplexes also have great potential to increase duplex-forming ability.

-	~~Authors: Aoyama~~, H., ~~Obika~~, S.~~, Yamaguchi, T~~.	+	Mechanism of the extremely high duplex-forming ability of oligonucleotides modified with N-tert-butylguanidine- or N-tert-butyl-N'-methylguanidine-bridged nucleic acids.,Yamaguchi T, Horie N, Aoyama H, Kumagai S, Obika S Nucleic Acids Res. 2023 Jul 18:gkad608. doi: 10.1093/nar/gkad608. PMID:37462081<ref>PMID:37462081</ref>

-	~~Description: Crystal structure~~ of ~~DNA octamer containing GuNA~~[~~Me,Me~~]	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Aoyama, H]]	+	<div class="pdbe-citations 8i50" style="background-color:#fffaf0;"></div>
-	[[Category: Obika, S]]	+	== References ==
-	[[Category: Yamaguchi, T]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Synthetic construct]]
		+	[[Category: Aoyama H]]
		+	[[Category: Obika S]]
		+	[[Category: Yamaguchi T]]

OCA at 04:52, 29 March 2023

OCA — Wed, 29 Mar 2023 04:52:21 GMT

←Older revision		Revision as of 04:52, 29 March 2023
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8i50 is ON HOLD	+	The entry 8i50 is ON HOLD until Paper Publication

	Authors: Aoyama, H., Obika, S., Yamaguchi, T.		Authors: Aoyama, H., Obika, S., Yamaguchi, T.
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	Description: Crystal structure of DNA octamer containing GuNA[Me,Me]		Description: Crystal structure of DNA octamer containing GuNA[Me,Me]
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Obika, S]]
	[[Category: Aoyama, H]]		[[Category: Aoyama, H]]
		+	[[Category: Obika, S]]
	[[Category: Yamaguchi, T]]		[[Category: Yamaguchi, T]]

OCA: Protected "8i50" [edit=sysop:move=sysop]

OCA — Wed, 01 Feb 2023 09:37:42 GMT

Protected "8i50" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:37, 1 February 2023

OCA: New page: '''Unreleased structure''' The entry 8i50 is ON HOLD Authors: Aoyama, H., Obika, S., Yamaguchi, T. Description: Crystal structure of DNA octamer containing GuNA[Me,Me] [[Category: Unre...

OCA — Wed, 01 Feb 2023 09:37:40 GMT

New page: '''Unreleased structure''' The entry 8i50 is ON HOLD Authors: Aoyama, H., Obika, S., Yamaguchi, T. Description: Crystal structure of DNA octamer containing GuNA[Me,Me] [[Category: Unre...

New page

'''Unreleased structure'''

The entry 8i50 is ON HOLD

Authors: Aoyama, H., Obika, S., Yamaguchi, T.

Description: Crystal structure of DNA octamer containing GuNA[Me,Me]
[[Category: Unreleased Structures]]
[[Category: Obika, S]]
[[Category: Aoyama, H]]
[[Category: Yamaguchi, T]]

8i50 - Revision history

OCA at 05:29, 9 August 2023

OCA at 04:52, 29 March 2023

OCA: Protected "8i50" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 8i50 is ON HOLD Authors: Aoyama, H., Obika, S., Yamaguchi, T. Description: Crystal structure of DNA octamer containing GuNA[Me,Me] [[Category: Unre...