1nyd
From Proteopedia
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| Ligands: | , , , | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Solution structure of DNA quadruplex GCGGTGGAT
Overview
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.
About this Structure
1NYD is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
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
Page seeded by OCA on Sun Mar 30 22:37:12 2008
