1b3p: Difference between revisions

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~~[[Image:1b3p.png|left|200px]]~~

~~{{STRUCTURE_1b3p~~| ~~PDB~~=1b3p ~~| SCENE~~= }}

==5'-D(*GP*GP*AP*GP*GP*AP*T)-3'==

== Structural highlights ==

<table><tr><td colspan='2'>[[1b3p]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1B3P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1B3P FirstGlance]. <br>

</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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1b3p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1b3p OCA], [https://pdbe.org/1b3p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1b3p RCSB], [https://www.ebi.ac.uk/pdbsum/1b3p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1b3p ProSAT]</span></td></tr>

</table>

== Publication Abstract from PubMed ==

BACKGROUND: Triplet repeat sequences are of considerable biological importance as the expansion of such tandem arrays can lead to the onset of a range of human diseases. Such sequences can self-pair via mismatch alignments to form higher order structures that have the potential to cause replication blocks, followed by strand slippage and sequence expansion. The all-purine d(GGA)n triplet repeat sequence is of particular interest because purines can align via G.G, A.A and G.A mismatch formation. RESULTS: We have solved the structure of the uniformly 13C,15N-labeled d(G1-G2-A3-G4-G5-A6-T7) sequence in 10 mM Na+ solution. This sequence adopts a novel twofold-symmetric duplex fold where interlocked V-shaped arrowhead motifs are aligned solely via interstrand G1.G4, G2.G5 and A3.A6 mismatch formation. The tip of the arrowhead motif is centered about the p-A3-p step, and symmetry-related local parallel-stranded duplex domains are formed by the G1-G2-A3 and G4-G5-A6 segments of partner strands. CONCLUSIONS: The purine-rich (GGA)n triplet repeat sequence is dispersed throughout the eukaryotic genome. Several features of the arrowhead duplex motif for the (GGA)2 triplet repeat provide a unique scaffold for molecular recognition. These include the large localized bend in the sugar-phosphate backbones, the segmental parallel-stranded alignment of strands and the exposure of the Watson-Crick edges of several mismatched bases.

~~===5'~~-D(*GP*GP*AP*GP*GP*AP*T)-~~3'===~~

Interlocked mismatch-aligned arrowhead DNA motifs.,Kettani A, Bouaziz S, Skripkin E, Majumdar A, Wang W, Jones RA, Patel DJ Structure. 1999 Jul 15;7(7):803-15. PMID:10425682<ref>PMID:10425682</ref>

~~{{ABSTRACT_PUBMED_10425682}}~~

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

</div>

==~~About this Structure~~==

[[~~1b3p]~~] ~~is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1B3P OCA~~].

== References ==

[[Category: Bouaziz, S.]]

[[Category: Jones~~, R A.~~]]

__TOC__

[[Category: Kettani, A.]]

</StructureSection>

[[Category: Majumdar, A.]]

[[Category: Large Structures]]

[[Category: Patel~~, D J.~~]]

[[Category: Bouaziz S]]

[[Category: Skripkin, E.]]

[[Category: Jones RA]]

[[Category: Wang, W~~.]]~~

[[Category: Kettani A]]

~~[[Category: 15n-labeled dna]]~~

[[Category: Majumdar A]]

~~[[Category: Dna]]~~

[[Category: Patel DJ]]

~~[[Category: Mismatch alignment]]~~

[[Category: Skripkin E]]

~~[[Category: Parallel-stranded segment]]~~

[[Category: Wang W]]

~~[[Category: Uniform 13c]]~~

~~[[Category: V-shaped backbone~~]]

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@@ Line 1: / Line 1: @@
-[[Image:1b3p.png|left|200px]]
-{{STRUCTURE_1b3p|  PDB=1b3p  |  SCENE=  }}
+==5'-D(*GP*GP*AP*GP*GP*AP*T)-3'==
+<StructureSection load='1b3p' size='340' side='right'caption='[[1b3p]]' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1b3p]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1B3P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1B3P FirstGlance]. <br>
+</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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1b3p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1b3p OCA], [https://pdbe.org/1b3p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1b3p RCSB], [https://www.ebi.ac.uk/pdbsum/1b3p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1b3p ProSAT]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+BACKGROUND: Triplet repeat sequences are of considerable biological importance as the expansion of such tandem arrays can lead to the onset of a range of human diseases. Such sequences can self-pair via mismatch alignments to form higher order structures that have the potential to cause replication blocks, followed by strand slippage and sequence expansion. The all-purine d(GGA)n triplet repeat sequence is of particular interest because purines can align via G.G, A.A and G.A mismatch formation. RESULTS: We have solved the structure of the uniformly 13C,15N-labeled d(G1-G2-A3-G4-G5-A6-T7) sequence in 10 mM Na+ solution. This sequence adopts a novel twofold-symmetric duplex fold where interlocked V-shaped arrowhead motifs are aligned solely via interstrand G1.G4, G2.G5 and A3.A6 mismatch formation. The tip of the arrowhead motif is centered about the p-A3-p step, and symmetry-related local parallel-stranded duplex domains are formed by the G1-G2-A3 and G4-G5-A6 segments of partner strands. CONCLUSIONS: The purine-rich (GGA)n triplet repeat sequence is dispersed throughout the eukaryotic genome. Several features of the arrowhead duplex motif for the (GGA)2 triplet repeat provide a unique scaffold for molecular recognition. These include the large localized bend in the sugar-phosphate backbones, the segmental parallel-stranded alignment of strands and the exposure of the Watson-Crick edges of several mismatched bases.
-===5'-D(*GP*GP*AP*GP*GP*AP*T)-3'===
+Interlocked mismatch-aligned arrowhead DNA motifs.,Kettani A, Bouaziz S, Skripkin E, Majumdar A, Wang W, Jones RA, Patel DJ Structure. 1999 Jul 15;7(7):803-15. PMID:10425682<ref>PMID:10425682</ref>
-{{ABSTRACT_PUBMED_10425682}}
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
-==About this Structure==
+<div class="pdbe-citations 1b3p" style="background-color:#fffaf0;"></div>
-[[1b3p]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1B3P OCA].
+== References ==
-[[Category: Bouaziz, S.]]
+<references/>
-[[Category: Jones, R A.]]
+__TOC__
-[[Category: Kettani, A.]]
+</StructureSection>
-[[Category: Majumdar, A.]]
+[[Category: Large Structures]]
-[[Category: Patel, D J.]]
+[[Category: Bouaziz S]]
-[[Category: Skripkin, E.]]
+[[Category: Jones RA]]
-[[Category: Wang, W.]]
+[[Category: Kettani A]]
-[[Category: 15n-labeled dna]]
+[[Category: Majumdar A]]
-[[Category: Dna]]
+[[Category: Patel DJ]]
-[[Category: Mismatch alignment]]
+[[Category: Skripkin E]]
-[[Category: Parallel-stranded segment]]
+[[Category: Wang W]]
-[[Category: Uniform 13c]]
-[[Category: V-shaped backbone]]