ArticleActa crystallographica. Section D, Biological crystallography2014
Phosphates in the Z-DNA dodecamer are flexible, but their P-SAD signal is sufficient for structure solution.
Article in Acta crystallographica. Section D, Biological crystallography, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Z-nucleic acid-mediated PANoptosis in infection, inflammation, and cancer.Communications biology · 2026Review
- Crystal structure of a tRNA acceptor-stem mimic at 1.94 Å resolution.Acta crystallographica. Section F, Structural biology communications · 2026Article
- Extracellular DNA-protein interactions.Current opinion in structural biology · 2024Review
- Structure and Formation of Z-DNA and Z-RNA.Molecules (Basel, Switzerland) · 2023Review
- Machine learning shows torsion angle preferences in left-handed and right-handed quadruplex DNAs.Biophysical journal · 2022Article
- Lone Pair…π Contacts and Structure Signatures of r(UNCG) Tetraloops, Z-Turns, and Z-Steps: A WebFR3D Survey.Molecules (Basel, Switzerland) · 2022Article
- Development of Force Field Parameters for the Simulation of Single- and Double-Stranded DNA Molecules and DNA-Protein Complexes.The journal of physical chemistry. B · 2022Article
- Phosphorus and sulfur SAD phasing of the nucleic acid-bound DNA-binding domain of interferon regulatory factor 4.Acta crystallographica. Section F, Structural biology communications · 2021Article
- Native de novo structural determinations of non-canonical nucleic acid motifs by X-ray crystallography at long wavelengths.Nucleic acids research · 2020Article
- Oxidative Modification of Guanine in a Potential Z-DNA-Forming Sequence of a Gene Promoter Impacts Gene Expression.Chemical research in toxicology · 2019Article
- Accurate geometrical restraints for Watson-Crick base pairs.Acta crystallographica Section B, Structural science, crystal engineering and materials · 2019Article
- Systematics for types and effects of DNA variations.BMC genomics · 2018Review
- Four highly pseudosymmetric and/or twinned structures of d(CGCGCG)Acta crystallographica. Section D, Structural biology · 2017Article
- Polarizable Force Field for DNA Based on the Classical Drude Oscillator: II. Microsecond Molecular Dynamics Simulations of Duplex DNA.Journal of chemical theory and computation · 2017Article
- The X-ray Structures of Six Octameric RNA Duplexes in the Presence of Different Di- and Trivalent Cations.International journal of molecular sciences · 2016Article
- Transferable aspherical atom model refinement of protein and DNA structures against ultrahigh-resolution X-ray data.Acta crystallographica. Section D, Structural biology · 2016Article
- Direct-methods structure determination of a trypanosome RNA-editing substrate fragment with translational pseudosymmetry.Acta crystallographica. Section D, Structural biology · 2016Article
- The structural diversity of artificial genetic polymers.Nucleic acids research · 2016Review
- High-resolution crystal structure of Z-DNA in complex with Cr(3+) cations.Journal of biological inorganic chemistry : JBIC : a publication of the Society of Biological Inorganic Chemistry · 2015Article
- Beyond the double helix: DNA structural diversity and the PDB.The Journal of biological chemistryReview
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3 authors.
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Abstract
A large number of Z-DNA hexamer duplex structures and a few oligomers of different lengths are available, but here the first crystal structure of the d(CGCGCGCGCGCG)2 dodecameric duplex is presented. Two synchrotron data sets were collected; one was used to solve the structure by the single-wavelength anomalous dispersion (SAD) approach based on the anomalous signal of P atoms, the other set, extending to an ultrahigh resolution of 0.75 Å, served to refine the atomic model to an R factor of 12.2% and an R(free) of 13.4%. The structure consists of parallel duplexes arranged into practically infinitely long helices packed in a hexagonal fashion, analogous to all other known structures of Z-DNA oligomers. However, the dodecamer molecule shows a high level of flexibility, especially of the backbone phosphate groups, with six out of 11 phosphates modeled in double orientations corresponding to the two previously observed Z-DNA conformations: Z(I), with the phosphate groups inclined towards the inside of the helix, and Z(II), with the phosphate groups rotated towards the outside of the helix.
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