1nyd: Difference between revisions

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[[~~Image~~:1nyd.~~png|left|200px~~]]

==Solution structure of DNA quadruplex GCGGTGGAT==

== Structural highlights ==

<table><tr><td colspan='2'>[[1nyd]] is a 4 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NYD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NYD FirstGlance]. <br>

</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=1nyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nyd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1nyd RCSB], [http://www.ebi.ac.uk/pdbsum/1nyd PDBsum]</span></td></tr>

<table>

== Publication Abstract from PubMed ==

The structure formed by the DNA sequence d(GCGGTGGAT) in a 100 mM Na(+) solution has been determined using molecular dynamics calculations constrained by distance and dihedral restraints derived from NMR experiments performed at isotopic natural abundance. The sequence folds into a dimer of dimers. Each symmetry-related half contains two parallel stranded G:G:G:G tetrads flanked by an A:A mismatch and by four-stranded G:C:G:C tetrads. Each of the two juxtaposed G:C:G:C tetrads is composed of alternating antiparallel strands from the two halves of the dimer. For each single strand, a thymine intersperses a double chain reversal connecting the juxtaposed G:G:G:G tetrads. This architecture has potential implications in genetic recombination. It suggests a pathway for oligomerization involving association of quadruplex entities through GpC steps.

~~{{STRUCTURE_1nyd| PDB=1nyd | SCENE= }}~~

Association of DNA quadruplexes through G:C:G:C tetrads. Solution structure of d(GCGGTGGAT).,Webba da Silva M Biochemistry. 2003 Dec 16;42(49):14356-65. PMID:14661946<ref>PMID:14661946</ref>

~~===Solution structure~~ of ~~DNA quadruplex GCGGTGGAT===~~

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>

</div>

~~{{ABSTRACT_PUBMED_14661946}}~~

== References ==

==~~About this Structure~~==

__TOC__

~~[[1nyd]] is a 4 chain structure. Full experimental information is available from [http:~~//~~oca.weizmann.ac.il/oca-bin/ocashort?id=1NYD OCA].~~

</StructureSection>

[[Category: Silva, M Webba da.]]

[[Category: Dna]]

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-[[Image:1nyd.png|left|200px]]
+==Solution structure of DNA quadruplex GCGGTGGAT==
+<StructureSection load='1nyd' size='340' side='right' caption='[[1nyd]], [[NMR_Ensembles_of_Models | 1 NMR models]]' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1nyd]] is a 4 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NYD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1NYD FirstGlance]. <br>
+</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=1nyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nyd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1nyd RCSB], [http://www.ebi.ac.uk/pdbsum/1nyd PDBsum]</span></td></tr>
+<table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The structure formed by the DNA sequence d(GCGGTGGAT) in a 100 mM Na(+) solution has been determined using molecular dynamics calculations constrained by distance and dihedral restraints derived from NMR experiments performed at isotopic natural abundance. The sequence folds into a dimer of dimers. Each symmetry-related half contains two parallel stranded G:G:G:G tetrads flanked by an A:A mismatch and by four-stranded G:C:G:C tetrads. Each of the two juxtaposed G:C:G:C tetrads is composed of alternating antiparallel strands from the two halves of the dimer. For each single strand, a thymine intersperses a double chain reversal connecting the juxtaposed G:G:G:G tetrads. This architecture has potential implications in genetic recombination. It suggests a pathway for oligomerization involving association of quadruplex entities through GpC steps.
-{{STRUCTURE_1nyd|  PDB=1nyd  |  SCENE=  }}
+Association of DNA quadruplexes through G:C:G:C tetrads. Solution structure of d(GCGGTGGAT).,Webba da Silva M Biochemistry. 2003 Dec 16;42(49):14356-65. PMID:14661946<ref>PMID:14661946</ref>
-===Solution structure of DNA quadruplex GCGGTGGAT===
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
-{{ABSTRACT_PUBMED_14661946}}
+== References ==
+<references/>
-==About this Structure==
+__TOC__
-[[1nyd]] is a 4 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NYD OCA].
+</StructureSection>
 [[Category: Silva, M Webba da.]]
 [[Category: Dna]]