7e4e - Revision history

OCA at 07:49, 1 May 2024

2024-05-01T07:49:08Z

← Older revision		Revision as of 07:49, 1 May 2024
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	==NMR solution structures of DNA minidumbbell containing a N1-methyladenine==		==NMR solution structures of DNA minidumbbell containing a N1-methyladenine==
	<StructureSection load='7e4e' size='340' side='right'caption='[[7e4e~~]], [[NMR_Ensembles_of_Models \| 5 NMR models~~]]' scene=''>		<StructureSection load='7e4e' size='340' side='right'caption='[[7e4e]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7e4e]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E4E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E4E FirstGlance]. <br>		<table><tr><td colspan='2'>[[7e4e]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E4E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E4E FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=NA:SODIUM+ION'>NA</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='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=MA7:1N-METHYLADENOSINE-5-MONOPHOSPHATE'>MA7</scene></td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MA7:1N-METHYLADENOSINE-5-MONOPHOSPHATE'>MA7</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=7e4e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e4e OCA], [https://pdbe.org/7e4e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e4e RCSB], [https://www.ebi.ac.uk/pdbsum/7e4e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e4e 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=7e4e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e4e OCA], [https://pdbe.org/7e4e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e4e RCSB], [https://www.ebi.ac.uk/pdbsum/7e4e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e4e ProSAT]</span></td></tr>
	</table>		</table>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	DNA methylation is a prevalent regulatory modification in prokaryotes and eukaryotes. N(1)-methyladenine (m(1)A) and N(6)-methyladenine (m(6)A) have been found to be capable of altering DNA structures via disturbing Watson-Crick base pairing. However, little has been known about their influences on non-B DNA structures, which are associated with genetic instabilities. In this work, we investigated the effects of m(1)A and m(6)A on both the structure and thermodynamic stability of a newly reported DNA minidumbbell formed by two TTTA tetranucleotide repeats. As revealed by the results of nuclear magnetic resonance spectroscopic studies, both m(1)A and m(6)A favored the formation of a T.m(1)A and T.m(6)A Hoogsteen base pair, respectively. More intriguingly, the m(1)A and m(6)A modifications brought about stabilization and destabilization effects on the DNA minidumbbell, respectively. This work provides new biophysical insights into the effects of adenine methylation on the structure and thermodynamic stability of DNA.

	Effects of Adenine Methylation on the Structure and Thermodynamic Stability of a DNA Minidumbbell.,Wan L, Lam SL, Lee HK, Guo P Int J Mol Sci. 2021 Mar 31;22(7). pii: ijms22073633. doi: 10.3390/ijms22073633. PMID:33807305<ref>PMID:33807305</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 7e4e" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Guo, P~~]]		[[Category: Staphylococcus aureus]]
	[[Category: ~~Lam, S L~~]]		[[Category: Guo P]]
	[[Category: ~~Wan, L~~]]		[[Category: Lam SL]]
	[[Category: ~~Dna]]~~		[[Category: Wan L]]
	~~[[Category: Dna minidumbbell]]~~
	~~[[Category: Hoogsteen base pair]]~~
	~~[[Category: Methylation]]~~
	~~[[Category: N1-methyladenine]]~~
	~~[[Category: Non-b dna~~]]

OCA at 08:33, 21 April 2021

2021-04-21T08:33:32Z

← Older revision		Revision as of 08:33, 21 April 2021
Line 1:		Line 1:

	==NMR solution structures of DNA minidumbbell containing a N1-methyladenine==		==NMR solution structures of DNA minidumbbell containing a N1-methyladenine==
	<StructureSection load='7e4e' size='340' side='right'caption='[[7e4e]]' scene=''>		<StructureSection load='7e4e' size='340' side='right'caption='[[7e4e]], [[NMR_Ensembles_of_Models \| 5 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E4E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E4E FirstGlance]. <br>		<table><tr><td colspan='2'>[[7e4e]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E4E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E4E FirstGlance]. <br>
	</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=7e4e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e4e OCA], [https://pdbe.org/7e4e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e4e RCSB], [https://www.ebi.ac.uk/pdbsum/7e4e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e4e ProSAT]</span></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
			<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MA7:1N-METHYLADENOSINE-5-MONOPHOSPHATE'>MA7</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=7e4e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e4e OCA], [https://pdbe.org/7e4e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e4e RCSB], [https://www.ebi.ac.uk/pdbsum/7e4e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e4e ProSAT]</span></td></tr>
	</table>		</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			DNA methylation is a prevalent regulatory modification in prokaryotes and eukaryotes. N(1)-methyladenine (m(1)A) and N(6)-methyladenine (m(6)A) have been found to be capable of altering DNA structures via disturbing Watson-Crick base pairing. However, little has been known about their influences on non-B DNA structures, which are associated with genetic instabilities. In this work, we investigated the effects of m(1)A and m(6)A on both the structure and thermodynamic stability of a newly reported DNA minidumbbell formed by two TTTA tetranucleotide repeats. As revealed by the results of nuclear magnetic resonance spectroscopic studies, both m(1)A and m(6)A favored the formation of a T.m(1)A and T.m(6)A Hoogsteen base pair, respectively. More intriguingly, the m(1)A and m(6)A modifications brought about stabilization and destabilization effects on the DNA minidumbbell, respectively. This work provides new biophysical insights into the effects of adenine methylation on the structure and thermodynamic stability of DNA.

			Effects of Adenine Methylation on the Structure and Thermodynamic Stability of a DNA Minidumbbell.,Wan L, Lam SL, Lee HK, Guo P Int J Mol Sci. 2021 Mar 31;22(7). pii: ijms22073633. doi: 10.3390/ijms22073633. PMID:33807305<ref>PMID:33807305</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 7e4e" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Guo P]]		[[Category: Guo, P]]
	[[Category: Lam SL]]		[[Category: Lam, S L]]
	[[Category: Wan L]]		[[Category: Wan, L]]
			[[Category: Dna]]
			[[Category: Dna minidumbbell]]
			[[Category: Hoogsteen base pair]]
			[[Category: Methylation]]
			[[Category: N1-methyladenine]]
			[[Category: Non-b dna]]

OCA at 06:51, 7 April 2021

2021-04-07T06:51:27Z

← Older revision		Revision as of 06:51, 7 April 2021
Line 1:		Line 1:
	~~'''Unreleased structure'''~~

	~~The entry~~ 7e4e is ~~ON HOLD until Paper Publication~~		==NMR solution structures of DNA minidumbbell containing a N1-methyladenine==
			<StructureSection load='7e4e' size='340' side='right'caption='[[7e4e]]' scene=''>
	~~Authors~~:		== Structural highlights ==
			<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7E4E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7E4E FirstGlance]. <br>
	~~Description~~:		</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=7e4e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7e4e OCA], [https://pdbe.org/7e4e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7e4e RCSB], [https://www.ebi.ac.uk/pdbsum/7e4e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7e4e ProSAT]</span></td></tr>
	[[Category: ~~Unreleased Structures~~]]		</table>
			__TOC__
			</StructureSection>
			[[Category: Large Structures]]
			[[Category: Guo P]]
			[[Category: Lam SL]]
			[[Category: Wan L]]

OCA at 09:13, 31 March 2021

2021-03-31T09:13:55Z

← Older revision		Revision as of 09:13, 31 March 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 7e4e is ON HOLD		The entry 7e4e is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7e4e" [edit=sysop:move=sysop]

2021-02-17T08:40:01Z

Protected "7e4e" [edit=sysop:move=sysop]

← Older revision	Revision as of 08:40, 17 February 2021
(No difference)

OCA: New page: '''Unreleased structure''' The entry 7e4e is ON HOLD Authors: Description: Category: Unreleased Structures

2021-02-17T08:40:00Z

New page: '''Unreleased structure''' The entry 7e4e is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7e4e is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]