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| | ==Structure of two TTTA repeats== | | ==Structure of two TTTA repeats== |
| - | <StructureSection load='5gwq' size='340' side='right'caption='[[5gwq]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''> | + | <StructureSection load='5gwq' size='340' side='right'caption='[[5gwq]]' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5gwq]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GWQ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5GWQ FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5gwq]] 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=5GWQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5GWQ 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='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5gwl|5gwl]]</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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5gwq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gwq OCA], [http://pdbe.org/5gwq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gwq RCSB], [http://www.ebi.ac.uk/pdbsum/5gwq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gwq 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=5gwq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gwq OCA], [https://pdbe.org/5gwq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5gwq RCSB], [https://www.ebi.ac.uk/pdbsum/5gwq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5gwq ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
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| | </StructureSection> | | </StructureSection> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Guo, P]] | + | [[Category: Staphylococcus aureus]] |
| - | [[Category: Lam, S L]] | + | [[Category: Guo P]] |
| - | [[Category: Dna]] | + | [[Category: Lam SL]] |
| - | [[Category: Minidumbbell]]
| + | |
| - | [[Category: Type ii loop]]
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| Structural highlights
Publication Abstract from PubMed
The non-B DNA structures formed by short tandem repeats on the nascent strand during DNA replication have been proposed to be the structural intermediates that lead to repeat expansion mutations. Tetranucleotide TTTA and CCTG repeat expansions have been known to cause reduction in biofilm formation in Staphylococcus aureus and myotonic dystrophy type 2 in human, respectively. In this study, we report the first three-dimensional minidumbbell (MDB) structure formed by natural DNA sequences containing two TTTA or CCTG repeats. The formation of MDB provides possible pathways for strand slippage to occur, which ultimately leads to repair escape and thus expansion mutations. Our result here shows that MDB is a highly compact structure composed of two type II loops. In addition to the typical stabilizing interactions in type II loops, MDB shows extensive stabilizing forces between the two loops, including two distinctive modes of interactions between the minor groove residues. The formation of MDB enriches the structural diversity of natural DNA sequences, reveals the importance of loop-loop interactions in unusual DNA structures, and provides insights into novel mechanistic pathways of DNA repeat expansion mutations.
Minidumbbell: A New Form of Native DNA Structure.,Guo P, Lam SL J Am Chem Soc. 2016 Sep 28;138(38):12534-40. doi: 10.1021/jacs.6b06897. Epub 2016, Sep 16. PMID:27589409[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Guo P, Lam SL. Minidumbbell: A New Form of Native DNA Structure. J Am Chem Soc. 2016 Sep 28;138(38):12534-40. doi: 10.1021/jacs.6b06897. Epub 2016, Sep 16. PMID:27589409 doi:http://dx.doi.org/10.1021/jacs.6b06897
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