DNA structure as observed in fibres and crystals

No abstract is available for this paper.

• Publication year

  2022

• Venue

  Principles of Nucleic Acid Structure

• Publication date

  Unknown publication date

• Fields of study

  Not labeled

• Identifiers
  DOI 10.1016/b978-0-12-819677-9.00007-x
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar

• No claims are published for this paper.

• No concepts are published for this paper.

• Recognition of non-CpG repeats in Alu and ribosomal RNAs by the Z-RNA binding domain of ADAR1 induces A-Z junctions

  2021cited by this paper
• Symmetry in Nucleic-Acid Double Helices

  2020cited by this paper
• Structural alphabets for conformational analysis of nucleic acids available at dnatco.datmos.org

  2020cited by this paper
• A unified dinucleotide alphabet describing both RNA and DNA structures

  2020cited by this paper
• The influence of Ni2+ and other ions on the trigonal structure of DNA

  2020cited by this paper
• Distinct DNA repair pathways cause genomic instability at alternative DNA structures

  2020cited by this paper
• A multi-modal coarse grained model of DNA flexibility mappable to the atomistic level

  2020cited by this paper
• The Zα2 domain of ZBP1 is a molecular switch regulating influenza-induced PANoptosis and perinatal lethality during development

  2020cited by this paper
• Z-DNA in the genome: from structure to disease

  2019cited by this paper
• The static and dynamic structural heterogeneities of B-DNA: extending Calladine–Dickerson rules

  2019cited by this paper
• Crystal structures of disordered Z-type helices

  2018cited by this paper
• Structure of the DLM-1–Z-DNA complex reveals a conserved family of Z-DNA-binding proteins

  2018cited by this paper
• Experimental maps of DNA structure at nucleotide resolution distinguish intrinsic from protein-induced DNA deformations

  2018cited by this paper
• A DNA structural alphabet provides new insight into DNA flexibility

  2018cited by this paper
• Sequence preference and structural heterogeneity of BZ junctions

  2018cited by this paper
• Cryo-neutron crystallographic data collection and preliminary refinement of left-handed Z-DNA d(CGCGCG).

  2018cited by this paper
• Investigations of Stacked DNA Base-Pair Steps: Highly Accurate Stacking Interaction Energies, Energy Decomposition, and Many-Body Stacking Effects.

  2018cited by this paper
• DNA’s Chiral Spine of Hydration

  2017cited by this paper
• Four highly pseudosymmetric and/or twinned structures of d(CGCGCG)2 extend the repertoire of crystal structures of Z-DNA.

  2017cited by this paper
• Crystal structure of d(CCGGGGTACCCCGG)2 at 1.4 Å resolution.

  2017cited by this paper
• 5-Formylcytosine does not change the global structure of DNA

  2017cited by this paper
• Structure elucidation of the Pribnow box consensus promoter sequence by racemic DNA crystallography

  2016cited by this paper
• Structural and functional studies of a large winged Z‐DNA‐binding domain of Danio rerio protein kinase PKZ

  2016cited by this paper
• A virus that infects a hyperthermophile encapsidates A-form DNA

  2015cited by this paper
• Phosphates in the Z-DNA dodecamer are flexible, but their P-SAD signal is sufficient for structure solution.

  2014cited by this paper
• Racemic DNA crystallography.

  2014cited by this paper
• μABC: a systematic microsecond molecular dynamics study of tetranucleotide sequence effects in B-DNA

  2014cited by this paper
• Structural insights into how 5-hydroxymethylation influences transcription factor binding.

  2014cited by this paper
• The structure and hydration of the A-DNA fragment d(GGGTACCC) at room temperature and low temperature.

  2011cited by this paper
• The many twists and turns of DNA: template, telomere, tool, and target.

  2010cited by this paper
• Crystallographic analysis of a sex-specific enhancer element: sequence-dependent DNA structure, hydration, and dynamics.

  2009cited by this paper
• The most frequent short sequences in non-coding DNA

  2009cited by this paper
• Crystallographic studies of DNA and RNA.

  2009cited by this paper
• The unique structure of A-tracts and intrinsic DNA bending

  2009cited by this paper
• DNA conformations and their sequence preferences

  2008cited by this paper
• A physical picture of atomic motions within the Dickerson DNA dodecamer in solution derived from joint ensemble refinement against NMR and large-angle X-ray scattering data.

  2007cited by this paper
• Historical article: DNA polymorphism and the early history of the double helix.

  2006cited by this paper
• Overview of the structure of all-AT oligonucleotides: organization in helices and packing interactions.

  2006cited by this paper
• Prediction of atomic structure from sequence for double helical DNA oligomers

  2006cited by this paper
• Crystal structures of oligonucleotides including the integrase processing site of the Moloney murine leukemia virus

  2006cited by this paper
• The physical determinants of the DNA conformational landscape: an analysis of the potential energy surface of single-strand dinucleotides in the conformational space of duplex DNA

  2005cited by this paper
• Crystal Structure of a Free κB DNA: Insights into DNA Recognition by Transcription Factor NF-κB

  2005cited by this paper
• Influence of ions, hydration, and the transcriptional inhibitor P4N on the conformations of the Sp1 binding site.

  2005cited by this paper
• Sequence Preference for BI/BII Conformations in DNA: MD and Crystal Structure Data Analysis

  2005cited by this paper
• DNA coiled coils.

  2005cited by this paper
• Complicated water orientations in the minor groove of the B-DNA decamer d(CCATTAATGG)2 observed by neutron diffraction measurements

  2005cited by this paper
• Crystal structure of a junction between B-DNA and Z-DNA reveals two extruded bases

  2005cited by this paper
• Structural and energetic origins of sequence-specific DNA bending: Monte Carlo simulations of papillomavirus E2-DNA binding sites.

  2005cited by this paper
• How sequence defines structure: a crystallographic map of DNA structure and conformation.

  2005cited by this paper
• The hydration structure of a Z-DNA hexameric duplex determined by a neutron diffraction technique.

  2005cited by this paper
• A poxvirus protein forms a complex with left-handed Z-DNA: crystal structure of a Yatapoxvirus Zalpha bound to DNA.

  2004cited by this paper
• High-resolution structure of an extended A-tract: [d(CGCAAATTTGCG)]2.

  2004cited by this paper
• DNA A-tract bending in three dimensions: solving the dA4T4 vs. dT4A4 conundrum.

  2004cited by this paper
• Nucleic acid crystallography: current progress.

  2004cited by this paper
• A structural similarity analysis of double-helical DNA.

  2004cited by this paper
• Exploring the counterion atmosphere around DNA: what can be learned from molecular dynamics simulations?

  2004cited by this paper
• DNA variability in five crystal structures of d(CGCAATTGCG).

  2004cited by this paper
• Sequence-dependent DNA structure: a database of octamer structural parameters.

  2003cited by this paper
• Staying straight with A-tracts: a DNA analog of the HIV-1 polypurine tract.

  2003cited by this paper
• Global mapping of nucleic acid conformational space: dinucleoside monophosphate conformations and transition pathways among conformational classes.

  2003cited by this paper
• Overall structure and sugar dynamics of a DNA dodecamer from homo- and heteronuclear dipolar couplings and 31P chemical shift anisotropy

  2003cited by this paper
• Z-DNA: the long road to biological function

  2003cited by this paper
• Structural origins of adenine-tract bending

  2003cited by this paper
• Mediation of the A/B-DNA helix transition by G-tracts in the crystal structure of duplex CATGGGCCCATG.

  2002cited by this paper
• Crystal structure of an antiparallel DNA fragment with Hoogsteen base pairing

  2002cited by this paper
• DNA bending by an adenine–thymine tract and its role in gene regulation

  2001cited by this paper
• DNA structure from A to B

  2001cited by this paper
• Influence of the dynamic positions of cations on the structure of the DNA minor groove: sequence-dependent effects.

  2001cited by this paper
• Detection of alkali metal ions in DNA crystals using state-of-the-art X-ray diffraction experiments.

  2001cited by this paper
• A crystallographic map of the transition from B-DNA to A-DNA

  2001cited by this paper
• Sequence-structure relationships in DNA oligomers: a computational approach.

  2001cited by this paper
• A standard reference frame for the description of nucleic acid base-pair geometry.

  2001cited by this paper
• Solution structure of an A-tract DNA bend.

  2001cited by this paper
• Flexible Structure of DNA: Ion Dependence of Minor-Groove Structure and Dynamics

  2000cited by this paper
• Sequence-dependent DNA structure: tetranucleotide conformational maps.

  2000cited by this paper
• Conformational Flexibility of the DNA Backbone.

  2000cited by this paper
• Conformational flexibility of B-DNA at 0.74 A resolution: d(CCAGTACTGG)(2).

  2000cited by this paper
• 1 A crystal structures of B-DNA reveal sequence-specific binding and groove-specific bending of DNA by magnesium and calcium.

  2000cited by this paper
• The structure of a stable intermediate in the A <--> B DNA helix transition.

  2000cited by this paper
• Use of an N-terminal fragment from moloney murine leukemia virus reverse transcriptase to facilitate crystallization and analysis of a pseudo-16-mer DNA molecule containing G-A mispairs.

  2000cited by this paper
• A Method for Direct Determination of Helical Parameters in Nucleic Acids Using Residual Dipolar Couplings

  2000cited by this paper
• A-Tract bending: insights into experimental structures by computational models.

  2000cited by this paper
• A new crystal form for the dodecamer C-G-C-G-A-A-T-T-C-G-C-G: symmetry effects on sequence-dependent DNA structure.

  2000cited by this paper
• B-DNA at atomic resolution reveals extended hydration patterns.

  1999cited by this paper
• Structure of the d(CGCCCGCGGGCG) dodecamer: a kinked A-DNA molecule showing some B-DNA features.

  1999cited by this paper
• Crystal structure of the Zalpha domain of the human editing enzyme ADAR1 bound to left-handed Z-DNA.

  1999cited by this paper
• Atomic-resolution crystal structures of B-DNA reveal specific influences of divalent metal ions on conformation and packing.

  1999cited by this paper
• Molecular Dynamics Studies of DNA A-Tract Structure and Flexibility

  1999cited by this paper
• Molecular dynamics studies of axis bending in d(G5-(GA4T4C)2-C5) and d(G5-(GT4A4C)2-C5): effects of sequence polarity on DNA curvature.

  1999cited by this paper
• Structure of d(CGCGAATTCGCG) in the Presence of Ca2+Ions*

  1999cited by this paper
• High-resolution A-DNA crystal structures of d(AGGGGCCCCT). An A-DNA model of poly(dG) x poly(dC).

  1999cited by this paper
• Localization of ammonium ions in the minor groove of DNA duplexes in solution and the origin of DNA A-tract bending.

  1999cited by this paper
• X-ray crystal structures of half the human papilloma virus E2 binding site: d(GACCGCGGTC).

  1998cited by this paper
• A novel DNA recognition mode by the NF-κB p65 homodimer

  1998cited by this paper
• X-ray crystallographic analysis of the hydration of A- and B-form DNA at atomic resolution.

  1998cited by this paper
• Sequence-dependent DNA structure: the role of the sugar-phosphate backbone.

  1998cited by this paper
• DNA bending: the prevalence of kinkiness and the virtues of normality.

  1998cited by this paper
• The B-DNA dodecamer at high resolution reveals a spine of water on sodium.

  1998cited by this paper
• On the potential role of the amino nitrogen atom as a hydrogen bond acceptor in macromolecules.

  1998cited by this paper
• The Dickerson-Drew B-DNA Dodecamer Revisited-At Atomic Resolution

  1998cited by this paper

• A workflow to define structural classes and classify nucleic acids circular dichroism spectra

  2025cites this paper