6tzr - Revision history

OCA at 14:56, 13 March 2024

OCA — Wed, 13 Mar 2024 14:56:12 GMT

←Older revision		Revision as of 14:56, 13 March 2024
Line 3:		Line 3:
	<StructureSection load='6tzr' size='340' side='right'caption='[[6tzr]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='6tzr' size='340' side='right'caption='[[6tzr]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6tzr]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6TZR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6TZR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6tzr]] is a 2 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=6TZR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6TZR FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=BA:BARIUM+ION'>BA</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]] 2.4Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BA:BARIUM+ION'>BA</scene>, <scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</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=6tzr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6tzr OCA], [~~http~~://pdbe.org/6tzr PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6tzr RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6tzr PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6tzr 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=6tzr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6tzr OCA], [https://pdbe.org/6tzr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6tzr RCSB], [https://www.ebi.ac.uk/pdbsum/6tzr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6tzr ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	DNA can form many structures beyond the canonical Watson-Crick double helix. It is now clear that noncanonical structures are present in genomic DNA and have biological functions. G-rich G-quadruplexes and C-rich i-motifs are the most well-characterized noncanonical DNA motifs that have been detected in vivo with either proscribed or postulated biological roles. Because of their independent sequence requirements, these structures have largely been considered distinct types of quadruplexes. Here, we describe the crystal structure of the DNA oligonucleotide, d(CCAGGCTGCAA), that self-associates to form a quadruplex structure containing two central antiparallel G-tetrads and six i-motif C-C+ base pairs. Solution studies suggest a robust structural motif capable of assembling as a tetramer of individual strands or as a dimer when composed of tandem repeats. This hybrid structure highlights the growing structural diversity of DNA and suggests that biological systems may harbor many functionally important non-duplex structures.
-
-	A DNA G-quadruplex/i-motif hybrid.,Chu B, Zhang D, Paukstelis PJ Nucleic Acids Res. 2019 Nov 14. pii: 5625527. doi: 10.1093/nar/gkz1008. PMID:31724696<ref>PMID:31724696</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 6tzr" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Chu, B~~]]	+	[[Category: Synthetic construct]]
-	[[Category: ~~Paukstelis, P J~~]]	+	[[Category: Chu B]]
-	[[Category: ~~Dna]]~~	+	[[Category: Paukstelis PJ]]
-	~~[[Category: G-quadruplex]]~~	+
-	~~[[Category: Hybrid]]~~	+
-	~~[[Category: I-motif]]~~	+
-	~~[[Category: Non-duplex]]~~	+
-	~~[[Category: Noncanonical]]~~	+
-	~~[[Category: Quadruplex~~]]	+

OCA at 09:28, 27 November 2019

OCA — Wed, 27 Nov 2019 09:28:48 GMT

←Older revision		Revision as of 09:28, 27 November 2019
Line 8:		Line 8:
	<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=6tzr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6tzr OCA], [http://pdbe.org/6tzr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6tzr RCSB], [http://www.ebi.ac.uk/pdbsum/6tzr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6tzr ProSAT]</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=6tzr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6tzr OCA], [http://pdbe.org/6tzr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6tzr RCSB], [http://www.ebi.ac.uk/pdbsum/6tzr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6tzr ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	DNA can form many structures beyond the canonical Watson-Crick double helix. It is now clear that noncanonical structures are present in genomic DNA and have biological functions. G-rich G-quadruplexes and C-rich i-motifs are the most well-characterized noncanonical DNA motifs that have been detected in vivo with either proscribed or postulated biological roles. Because of their independent sequence requirements, these structures have largely been considered distinct types of quadruplexes. Here, we describe the crystal structure of the DNA oligonucleotide, d(CCAGGCTGCAA), that self-associates to form a quadruplex structure containing two central antiparallel G-tetrads and six i-motif C-C+ base pairs. Solution studies suggest a robust structural motif capable of assembling as a tetramer of individual strands or as a dimer when composed of tandem repeats. This hybrid structure highlights the growing structural diversity of DNA and suggests that biological systems may harbor many functionally important non-duplex structures.
		+
		+	A DNA G-quadruplex/i-motif hybrid.,Chu B, Zhang D, Paukstelis PJ Nucleic Acids Res. 2019 Nov 14. pii: 5625527. doi: 10.1093/nar/gkz1008. PMID:31724696<ref>PMID:31724696</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6tzr" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:05, 16 October 2019

OCA — Wed, 16 Oct 2019 06:05:12 GMT

←Older revision		Revision as of 06:05, 16 October 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6tzr ~~is ON HOLD until Paper Publication~~	+	==A DNA G-quadruplex/i-motif hybrid==
-		+	<StructureSection load='6tzr' size='340' side='right'caption='[[6tzr]], [[Resolution\|resolution]] 2.40Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6tzr]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6TZR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6TZR FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BA:BARIUM+ION'>BA</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</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=6tzr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6tzr OCA], [http://pdbe.org/6tzr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6tzr RCSB], [http://www.ebi.ac.uk/pdbsum/6tzr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6tzr ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Chu, B]]
		+	[[Category: Paukstelis, P J]]
		+	[[Category: Dna]]
		+	[[Category: G-quadruplex]]
		+	[[Category: Hybrid]]
		+	[[Category: I-motif]]
		+	[[Category: Non-duplex]]
		+	[[Category: Noncanonical]]
		+	[[Category: Quadruplex]]

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

OCA — Wed, 21 Aug 2019 04:26:03 GMT

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

←Older revision

Revision as of 04:26, 21 August 2019

OCA: New page: '''Unreleased structure''' The entry 6tzr is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 21 Aug 2019 04:26:02 GMT

New page: '''Unreleased structure''' The entry 6tzr is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6tzr is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]