OCA at 05:35, 12 June 2019

OCA — Wed, 12 Jun 2019 05:35:18 GMT

←Older revision		Revision as of 05:35, 12 June 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6i4n is ~~ON HOLD~~	+	==Dodecamer DNA containing the synthetic base pair P-Z in complex with a pyrrole-imidazole polyamide==
		+	<StructureSection load='6i4n' size='340' side='right'caption='[[6i4n]], [[NMR_Ensembles_of_Models \| 10 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6i4n]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6I4N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6I4N FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K4Z:3-[3-[[4-[[4-[[4-[[4-[[(2~{R})-2-azaniumyl-4-[[1-methyl-4-[[1-methyl-4-[[1-methyl-4-[(1-methylimidazol-2-yl)carbonylamino]pyrrol-2-yl]carbonylamino]pyrrol-2-yl]carbonylamino]pyrrol-2-yl]carbonylamino]butanoyl]amino]-1-methyl-imidazol-2-yl]carbonylamino]-1-methyl-pyrrol-2-yl]carbonylamino]-1-methyl-pyrrol-2-yl]carbonylamino]-1-methyl-pyrrol-2-yl]carbonylamino]propanoylamino]propyl-dimethyl-azanium'>K4Z</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DP:DISOPYRAMIDE'>DP</scene>, <scene name='pdbligand=DZ:N-(3,5-DIBROMO-4-HYDROXYPHENYL)-2,6-DIMETHYLBENZAMIDE'>DZ</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=6i4n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6i4n OCA], [http://pdbe.org/6i4n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6i4n RCSB], [http://www.ebi.ac.uk/pdbsum/6i4n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6i4n ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The structural basis of minor groove recognition of a DNA duplex containing synthetic genetic information by hairpin pyrrole-imidazole polyamides is described. Hairpin polyamides induce a higher melting stabilization of a DNA duplex containing the unnatural P.Z base-pair when an imidazole unit is aligned with a P nucleotide. An NMR structural study showed that the incorporation of two isolated P.Z pairs enlarges the minor groove and slightly narrows the major groove at the site of this synthetic genetic information, relative to a DNA duplex consisting entirely of Watson-Crick base-pairs. Pyrrole-imidazole polyamides bind to a P.Z-containing DNA duplex to form a stable complex, effectively mimicking a G.C pair. A structural hallmark of minor groove recognition of a P.Z pair by a polyamide is the reduced level of allosteric distortion induced by binding of a polyamide to a DNA duplex. Understanding the molecular determinants that influence minor groove recognition of DNA containing synthetic genetic components provides the basis to further develop unnatural base-pairs for synthetic biology applications.

-	~~Authors: Padroni~~, G., ~~Parkison~~, J., ~~Burley~~, G.A.	+	Sequence-Selective Minor Groove Recognition of a DNA Duplex Containing Synthetic Genetic Components.,Padroni G, Withers JM, Taladriz-Sender A, Reichenbach LF, Parkinson JA, Burley GA J Am Chem Soc. 2019 Jun 4. doi: 10.1021/jacs.8b12444. PMID:31117639<ref>PMID:31117639</ref>

-	~~Description: Dodecamer DNA containing~~ the ~~synthetic base pair P~~-~~Z in complex with a pyrrole~~-~~imidazole polyamide~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	~~[[Category: Parkison, J~~]]	+	<div class="pdbe-citations 6i4n" style="background-color:#fffaf0;"></div>
-	[[Category: Burley, G.A]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Burley, G A]]
	[[Category: Padroni, G]]		[[Category: Padroni, G]]
		+	[[Category: Parkison, J]]
		+	[[Category: Dna]]
		+	[[Category: Pyrrole-imidazole polyamide]]
		+	[[Category: Synthetic base pair]]

OCA at 06:50, 1 May 2019

OCA — Wed, 01 May 2019 06:50:51 GMT

←Older revision		Revision as of 06:50, 1 May 2019
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	The entry 6i4n is ON HOLD		The entry 6i4n is ON HOLD

-	Authors: Padroni, G., ~~Reichenbach, L.F., Parkinson~~, J.A., Burley, G.A.	+	Authors: Padroni, G., Parkison, J., Burley, G.A.

	Description: Dodecamer DNA containing the synthetic base pair P-Z in complex with a pyrrole-imidazole polyamide		Description: Dodecamer DNA containing the synthetic base pair P-Z in complex with a pyrrole-imidazole polyamide
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Parkison, J]]
	[[Category: Burley, G.A]]		[[Category: Burley, G.A]]
	[[Category: Padroni, G]]		[[Category: Padroni, G]]
-	[[Category: Parkinson, J.A]]
-	[[Category: Reichenbach, L.F]]

OCA: Protected "6i4n" [edit=sysop:move=sysop]

OCA — Sun, 02 Dec 2018 18:33:05 GMT

Protected "6i4n" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:33, 2 December 2018

OCA: New page: '''Unreleased structure''' The entry 6i4n is ON HOLD Authors: Padroni, G., Reichenbach, L.F., Parkinson, J.A., Burley, G.A. Description: Dodecamer DNA containing the synthetic base pai...

OCA — Sun, 02 Dec 2018 18:33:04 GMT

New page: '''Unreleased structure''' The entry 6i4n is ON HOLD Authors: Padroni, G., Reichenbach, L.F., Parkinson, J.A., Burley, G.A. Description: Dodecamer DNA containing the synthetic base pai...

New page

'''Unreleased structure'''

The entry 6i4n is ON HOLD

Authors: Padroni, G., Reichenbach, L.F., Parkinson, J.A., Burley, G.A.

Description: Dodecamer DNA containing the synthetic base pair P-Z in complex with a pyrrole-imidazole polyamide
[[Category: Unreleased Structures]]
[[Category: Burley, G.A]]
[[Category: Padroni, G]]
[[Category: Parkinson, J.A]]
[[Category: Reichenbach, L.F]]

6i4n - Revision history

OCA at 05:35, 12 June 2019

OCA at 06:50, 1 May 2019

OCA: Protected "6i4n" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 6i4n is ON HOLD Authors: Padroni, G., Reichenbach, L.F., Parkinson, J.A., Burley, G.A. Description: Dodecamer DNA containing the synthetic base pai...