Papers

An ever growing list largely pertaining to Hoogsteen, tetraplexes and other weird and wonderful structures

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1949

Crystal Structure of Cytidine

1951

Reports and Working Notes on DNA

1953

A Proposed Structure For The Nucleic Acids

Crystallinity in Sperm Heads: Molecular Structure of Nucleoprotein in Vivo

Molecular Configuration in Sodium Thymonucleate

Molecular Structure of Deoxypentose Nucleic Acids

Molecular Structure of Nucleic Acids

The Structure of DNA

Surface films of desoxyribonucleic acid

1954

On the Macromolecular Structure of Deoxyribonucleic Acid: An Interrupted Two-strand Model

On the Replication of Desoxyribonucleic Acid (DNA)

Possible Relation between Deoxyribonucleic Acid and Protein Structures

The complementary structure of DNA

1956

An Identical Duplex Structure for Polynucleotides

A Possible Mechanism for the Replication of the Helical Structure of Desoxyribonucleic Acid*

Hydrogen-bonded Helical Configurations of Polynucleotides*

On The Unwinding Of Dna

1958

The Stereochemistry of Deoxyribonucleic Acid: I. Covalent Bond Lengths and Angles

1959

The structure of crystals containing a hydrogen-bonded complex of 1-methylthymine and 9-methyladenine.*

1960

Base Pairing in DNA

1961

Four-stranded DNA as determined by electron microscopy

Multi-stranded Deoxyribonucleic Acid as determined by X-Irradiation

Nucleic Acids: Molecular Biology of DNA

Tautomeric Forms in a Polynucleotide Helix and Their Bearing on the Structure of DNA

The Replication of DNA I. Two Molecular Classes of DNA

The Replication of DNA II. The Number of Polynucleotide Strands in the Conserved Unit of DNA

The Replication of DNA III. Changes in the Number of Strands in E. Coli DNA During Its Replication Cycle

1962

Proof that the Replication of DNA involves Separation of the Strands

The Application of Autoradiography to the Study of DNA Viruses

1963

Chromosome Duplication and Structure as Determined by Autoradiography*

Nucleic Acids and Information Transfer

Some Thoughts on the Double-Stranded Model of Deoxyribonucleic Acid

The Molecular Structure of a Hydrogen Bonded Complex of N-Ethyl Adenine and N-Methyl Uracil

The Crystal and Molecular Structure of a Hydrogen-Bonded Complex Between 1-Methylthymine and 9-Methyladenine*

The Crystal Structure of an Intermolecular Nucleoside Complex: Adenosine and 5-bromouridine*

1964

Chromosome Structure and Crossing Over

Crystal Structure of 9-Methyladenine

Determining the structure of biological macromolecules

Nucleic Acid Structure

The Biochemistry of Genetics

The Crystal Structure of Cytosine*

1965

A Model of Sister-Strand Crossing-Over

Fourier Synthesis Studies of Lithium DNA - Part III: Hoogsteen models

Is the Transition From Chromosome to Chromatid Aberrations the Result of the Formation of Single-stranded DNA?

Strandedness of Vicia Faba Chromosomes as Revealed by Enzyme Digestion Studies

The Crystal Structure of a Hydrogen Bonded Complex of Adenosine and 5-Bromouridine

The Molecular Structure of the Crystalline Complex Ethyladenine: Methyl-Bromouracil

1966

Calculation of the Lowest Energy Configurations of Nucleotide Base Pairs on the Basis of an Electrostatic Model

DNA Replication

Intercalated Nucleic Acid Double Helices : a Stereochemical Possibility

On the Hydrogen Bonding Scheme between Purines and Pyrimidines

On the Shape of a DNA Molecule*

The crystal structure of a purine-pyrimidine hydrogen-bonded complex: 9-ethyl-2-aminopurine and 1-methyl-5-fluorouracil

The Strandedness of Meiotic Chromosomes From Oncopeltus

Van der Waals-London interactions and the configuration of hydrogen-bonded purine and pyrimidine pairs*

X-ray diffraction study of the complex of 1-methyl-5-bromuracil with 9-methyladenine

1967

Crystal Structure of the Intermolecular Complex 9-Ethyladenine: 1-Methyl-5Fluorouracil

A Re-evaluation of X-ray Diffraction Patterns of DNA

The Physical and Chemical Properties  of Nucleic Acids

1968

Electronic Energy of the DNA Replication Plane

Fundamental Dimensions of the Bases in Nucleic Acids

Periodic Conformations of Deoxyribonucleic Acids

Protonated Polynucleotide Structures

Specificity of the Three-stranded Complex Formation between Double-stranded DNA and Single-stranded RNA containing Repeating Nucleotide Sequences

Strandedness of DNA at 92% Relative Humidity

1969

A Model for the Tertiary Structure of Transfer Ribonucleic Acids

Crystal Symmetry of Deoxyribonucleic Acid: On the Validity of the Use of Intensity Statistics on Limited Numbers of Data

Fourier Analysis and the Structure of DNA

Secondary Structures Of DNA

Secondary Structures Of DNA* (Revision)

Secondary Structures Of DNA*

The Strandedness of Nucleic Acids

1970

Fourier Series and Difference Maps as Lack of Structure Proof: DNA Is an Example

The Fly in the Fourier

1971

Confusions About the Structures of Nucleic Acids*

Models of Specifically Paired Like (Homologous) Nucleic Acid Structures

The Crystal Symmetry of DNA: Has It Been Proven?

1973

Letter to the Editor: Nucleic Acid Structure

Refinement of the Structure of B-DNA and Implications for the Analysis of X-ray Diffraction Data from Fibers of Biopolymers

The Structure of DNA as Deduced from fiber X-Ray Crystallography

1974

The Sense of Naturally Occurring Superhelices and the Unwinding Angle of Intercalated Ethidium

1975

Determination of the number of superhelical turns in simian virus 40 DNA by gel electrophoresis

1976

A possible conformation for double-stranded polynucleotides

Double strandard polynucleotides: Two typical alternative conformations for nucleic acids

Honest Jim?

Nuclear Magnetic Resonance Study of Hydrogen-bonded Ring Protons in Oligonucleotide Helices Involving Classical and Nonclassical Base Pairs

The Crystal and Molecular Structure of a Calcium Salt of Guanylyl-3',5'-Cytidine (GpC)

1977

A Model for the Specific Pairing of Homologous Double-stranded Nucleic Acid Molecules During Genetic Recombination

Contributions to Image Reconstruction

On the structure of DNA

Spatial configuration of ordered polynucleotide chains: A novel double helix

1978

A Salt-induced Conformational Change in Crystals of the Synthetic DNA Tetramer d(CpGpCpG)

A Sequence-Independent, Four-stranded, Double Watson-Crick DNA Helix that Could Solve the Unwinding Problem of Double Helices

Fragments of Chargaff

Helical Repeat of DNA in Solution

On the structure of DNA

Primary organization of nucleosome core particle of chromatin: Sequence of histone arrangement along DNA

Some implications of an alternative structure for DNA

Studies of Metal Ion DNA Interactions

Tertiary Structure for Palindromic Regions of DNA

The Conformation of Double-stranded DNA

Topological Considerations in the Theory of Replication of DNA

Unique structures formed by pyrimidine*purine DNAs which may be four-stranded

1979

Do multistranded polynucleotides have a biological role?

Four-stranded DNA Structure and DNA Base Methylation in the Mechanism of Action of Restriction Endonucleases

Intercalation conformations in single and double-stranded nucleic acids

Is DNA Really a Double Helix?

Laser Raman Spectroscopy of a Complementary Base Pair in the Hoogsteen Configuration

Model Calculations on Base-Pair Interactions in DNA

Nick-free formation of reciprocal heteroduplexes: A simple solution to the topological problem

Nicking-closing activity associated with bacteriophage λ int gene product

1980

DNA and Differential Geometry

High-salt d(CpGpCpG), a left-handed Z' DNA double helix

Is DNA really a double helix?

Old twists to an old tale

Polypurine DNAs and RNAs form secondary structures which may be tetra-stranded

Revised interpretations of the available x-ray data for B-DNA

The Topology of Homologous Pairing Promoted by RecA Protein

Some Formal Consequences of a Specific Association Between Double Stranded Nucleic Acid MoleculesProperties of Multistranded Structures

Visualization of an Unwound DNA Duplex

1981

B-Transition To Z-Transition In DNA Fiber: The Question Of Handedness Of The Duplex

Deoxyribonucleic Acid Structure: A New Model

Genetic recombination: recA protein promotes homologous pairing between duplex DNA molecules without strand unwinding

Homologous pairing can occur before DNA strand separation in general genetic recombination

recA protein promotes homologous-pairing and strand-exchange reactions between duplex DNA molecules

Reflections on a Rubber Band and Supercoiled DNA

Refinement of the side-by-side model for DNA

Some Formal Consequences of a Specific Association Between Double Stranded Nucleic Acid Molecules Properties of Multistranded Structures

Stereochemical details of the side-by-side model for DNA

1982

A Hypothesis of DNA Structure - Inspiration From the Topological Trans-formation of Supercoiled DNA

A new model for DNA containing A.T and I.C base pairs

Fibre and molecular structure of thymidylyl-3′, 5′-deoxyadenosine

Fractionation of Calf Thymus DNA by DEAE Cellulose Column Chromatography

Novel aspects of the structure of the Eseheriehia ecoli nucleoid investigated by a rapid sedimentation assay

The Double Helix and the Warped Zipper - An Exemplary Tale

The Three Dimensional Structure of DNA

1983

Base-base interactions in nucleic acids containing A-T base  pairs

Site-specific Recombination of Bacteriophage Lambda: The Change in Topological Linking Number Associated with Exchange of DNA Strands

Studies of the interaction of RecA protein with DNA

Use of axial Pattersons in Assessment of Compatibility of alternative B-DNA structures with fibre X-ray data

1984

A Conformational Rationale for the Replication of Nucleic Acids Under Prebiotic Conditionsa Conformational Rationale for the Replication of Nucleic Acids Under Prebiotic Conditions

A Detailed Study of LiDNA Fibres at Various Salt Concentrations Reveals a Nonhelical B-DNA and a Possible Similarity of Solution and Solid State Structures

Construction and Use of Models Designed to Demonstrate some Topological Properties of Multistranded Nucleic Acid Structure and its Possible Bearing on Recombination

New Helical Structure of Double-Stranded Polynucleotide

Studies of DNA Organization in Hydrated Spermidine- Condensed DNA Toruses and Spermidine-DNA Fibres

1986

A Unique Four-stranded Model of a Homologous Recombination Intermediate

Pairing of Unwound DNA Duplexes as Hypothetical Intermediates in Genetic Recombination

Reason in the Zeitgeist

Structural models for non-helical DNA

1988

DNA supercoiling in vivo

1989

A Fractal Model of Chromosomes and Chromosomal DNA Replication

Coexistence of A- and B-form DNA in a single crystal lattice

Do Hoogsteen base pairs occur in DNA?

Four Strand Recombination Models

Four-Strand Structure, Kinks and Cruciforms in DNA

G-DNA: A twice-folded DNA structure adopted by single-stranded oligo(dG) and its implications for telomeres

Scanning Tunneling Microscopy of Nucleic Acids

Unusual helical packing in crystals of DNA bearing a mutation hot spot

1990

A fresh look on DNA double helix: Part I. A critical analysis of two base pair schemes. A rule and role of Watson-Crick » Hoogsteen base pair in DNA polymorphic transitions*

In Search of a Hoogsteen Base Paired DNA Duplex in Aqueous Solution

Scanning tunnelling microscopy of nucleic acids and polynucleotides

Somatic Cell Illegitimate Recombination via a Tetraplex DNA Intermediate

The new model of DNA structures

1991

Base-pairing shift in the major groove of (CA) tracts by B-DNA crystal structures

Parallel Double Stranded Helices and the Tertiary Structure of Nucleic Acids

Paranemic Structures of DNA and their Role in DNA Unwinding

1992

Atomic force microscopy of single- and double-stranded DNA

1993

A Novel DNA Duplex. A Parallel-Stranded DNA Helix with Hoogsteen Base Pairing

DNA comes in many forms

Self-Organization of Adenine and Thymine in the Solid State

Theoretical Investigation of the Hydrogen Bond Strengths in Guanine-Cytosine and Adenine-Thymine Base Pairs

The structure of duplex DNA in the nucleosome core particle: An alternative model

Visualisation of Single Molecules of RNA Polymerase Sliding along DNA

1994

Fibre type x ray diffraction triple helix DNA

G-wires self-assembly of a telomeric oligonucleotide, d (GGGGTTGGGG), into large superstructures

Hoogsteen-Duplex DNA: Synthesis and Base Pairing of Oligonucleotides Containing 1-Deaza-2’-deoxyadenosine

Parallel Nucleic Acid Helices with Hoogsteen Base Pairing Symmetry and Structure

Pf 1 Virus Structure: Helical Coat Protein and DNA with Paraxial Phosphates

Single Strand Targeted Triplex Formation: Parallel-Stranded DNA Hairpin Duplexes for Targeting Pyrimidine Strands

1995

Reconsideration of some results for linear and circular DNA

Self-fitting and self-modifying properties of the B-DNA molecule

Symmetry and Structure of RNA and DNA Triple Helices

1996

A novel intact circular dsDNA supercoil

Bicyclo-DNA: a Hoogsteen-selective pairing system

Cruciform structures and functions

Real or Ideal? DNA Iconography in a New Fractal Era

Do We Have the Structure of DNA Right?

Hoogsteen DNA Duplexes of 3′-3′- and 5′-5′-Linked Oligonucleotides and Triplex Formation with RNA and DNA Pyrimidine Single Strands: Experimental and Molecular Modeling Studies

Inter-strand C-H 0 hydrogen bonds stabilizing four-stranded intercalated molecules: Stereoelectronic effects of 04' in cytosine-rich DNA

Ligand-induced formation of Hoogsteen-paired parallel DNA

Modelling extreme stretching of DNA

Plastic Atomic-Molecular Models - A Key to Stereochemical Structures

The diameter of duplex and quadruplex DNA measured by scanning probe microscopy

Structure of Py · Pu · Py DNA Triple Helices. Fourier Transforms of Fiber-Type X-Ray Diffraction of Single Crystals

1997

Hairpin—dimer equilibrium of a parallel-stranded DNA hairpin: formation of a four-stranded complex

Independent: A new twist on the structure of DNA

Molecular Stick-Slip Motion Revealed by Opening DNA with Piconewton Forces

Winding of the DNA helix by divalent metal ions

1998

Deconstructing DNA: Mark Curtis

Design and self-assembly of two-dimensional DNA crystals

The morphology of duplex and quadruplex DNA on mica

1999

DNA: the Double Helix or the Ribbon Helix?

Intercalative G-Tetraplex Stabilization of Telomeric DNA by a Cationic Porphyrin

Theoretical studies on conformation comparison of braid-like and triplex DNA

2001

Crystal structure of an antiparallel DNA fragment with Hoogsteen base pairing

Hoogsteen-Based Parallel-Stranded Duplexes of DNA. Effect of 8-Amino-purine Derivatives

Oligonucleotides form a duplex with non-helical properties on a positively charged surface

The First Example of a Hoogsteen Basepaired DNA Duplex in Dynamic Equilibrium with a Watson- Crick Basepaired Duplex—A Structural (NMR), Kinetic and Thermodynamic Study

The fragile X chromosome (GCC) repeat folds into a DNA tetraplex at neutral pH

X-ray Diffraction From DNA Fibres Under Tension

Analytical Molecular Biology

2002

A Hoogsteen base pair embedded in undistorted B-DNA

Mental Tools for Thinking About DNA Technologies in New Ways

NMR structure of a parallel-stranded DNA duplex at atomic resolution

Topologically Non-linked Circular Duplex DNA

2003

2003 - The DNA double helix fifty years on

An Eight-Stranded Helical Fragment in RNA Crystal Structure: Implications for Tetraplex Interaction

DNA structure: Revisiting the Watson–Crick double helix

The Mona Lisa of modern science

PNA(T).DNA(AT) triplexes with Hoogsteen base pairing are more favorable

Theoretical Study of a New DNA Structure: The Antiparallel Hoogsteen Duplex

Variety in DNA secondary structure

X-ray and NMR Studies of the DNA Oligomer d(ATATAT): Hoogsteen Base Pairing in Duplex DNA

2004

Replication by human DNA polymerase occurs by Hoogsteen base-pairing

2005

DNA coiled coils

Molecular dynamics simulation of single DNA stretching

The probable structure of the protamine–DNA complex

2006

Best Scientific Discovery or Worst Scientific Fraud of The 20th Century

Rec A-independent homologous recombination induced by a putative fold-back tetraplex DNA

Structure of the DNA Coiled Coil Formed by d(CGATATATATAT)

Utilising the left-helical conformation of L-DNA for analysing different marker types on a single universal microarray platform

2007

DNA Footprinting: Hitherto Unaddressed Problems

Hoogsteen-Duplex DNA: Synthesis and Base Pairing of Oligodeoxynucleotides Containing 1- Deaza-2′-deoxyadenosine

Interaction of Monomolecular G4-DNA Nanowires with TMPyP: Evidence for Intercalation

Stability and Transition in a DNA Tetraplex: A Model for Telomeres

The 1.3 A resolution structure of the RNA tridecamer r(GCGUUUGAAACGC): Metal ion binding correlates with base unstacking and groove contraction

The Energetics of i-DNA Tetraplex Structures Formed Intermolecularly by d(TC5) and Intramolecularly by d[(C5T3)3C5]

2008

Nature’s Code

Stabilization by Extra-Helical Thymines of a DNA Duplex with Hoogsteen Base Pairs

2009

Finding of a zero linking number topoisomer

2010

A duplex DNA model with regular inter-base-pair hydrogen bonds

Diversity in DNA recognition by p53 revealed by crystal structures with Hoogsteen base pairs

2011

DNA Structure: Alphabet Soup for the Cellular Soul

Replication Demands an Amendment of the Double Helix

B-DNA structure is intrinsically polymorphic: even at the level of base pair positions

2012

DNA-Directed Base Pair Opening

2013

DNA Self-Assembly: From Chirality to Evolution

A Historical Account of Hoogsteen Base-pairs in Duplex DNA

2014

A Mathematical Representation of the Genetic Code

Helical Repeats of Left-Handed DNA

Widespread transient Hoogsteen base pairs in canonical duplex DNA with variable energetics

2015

A Hypothesis on the Secondary Structure of DNA

Free energy landscape and transition pathways from Watson–Crick to Hoogsteen base pairing in free duplex DNA

Fundamental mathematical structures applied to physics and biology

Hierarchical looping of zigzag nucleosome chains in metaphase chromosomes

New insights into Hoogsteen base pairs in DNA duplexes from a structure-based survey

Structure of the DNA Duplex d(ATTAAT)2 with Hoogsteen Hydrogen Bonds

2016

Neuron-Like Networks Between Ribosomal Proteins Within the Ribosome

Occurrence and Function of Hoogsteen Base Pairs in Nucleic Acids

A New Histone Structure Which Binds DNA at Its Eight Subunit N-Termini

The Probable Structure of “Form IV” (Alkali-Denatured Circular DNA)

2017

Energy Landscape and Pathways for Transitions Between Watson-Crick and Hoogsteen Base Pairing in DNA (Perspective)

Energy Landscape and Pathways for Transitions Between Watson-Crick and Hoogsteen Base Pairing in DNA

Geometry and scientific rationality: a counterpoint between two paradigmatic cases

Hyperstretching DNA

Methods for Non-Destructively Separating or Reannealing the Strands of Circular Duplex DNA Chromosomes

Robust IR-based detection of stable and fractionally populated G-C+ and A-T Hoogsteen base pairs in duplex DNA

2018

A Strategically Located Arg Lys Residue Promotes Correct Base Paring During Nucleic Acid Biosynthesis in Polymerases

A polarized view on DNA under tension

A survey of recent unusual high-resolution DNA structures provoked by mismatches, repeats and ligand binding

Atomic structures of excited state A–T Hoogsteen base pairs in duplex DNA by combining NMR relaxation dispersion, mutagenesis, and chemical shift calculations

Biologically important conformational features of DNA as interpreted by quantum mechanics and molecular mechanics computations of its simple fragments

Dynamics of physiologically relevant noncanonical DNA structures: an overview from experimental and theoretical studies

High-resolution AFM structure of DNA G-wires in aqueous solution

Modeling the effect of intercalators on the high-force stretching behavior of DNA

Non-dissociative structural transitions of the Watson-Crick and reverse Watson-Crick А·Т DNA base pairs into the Hoogsteen and reverse Hoogsteen forms

Quantum-mechanical survey of the novel conformational and tautomeric transformations of the classical Watson-Crick А·Т(WC), reverse Watson-Crick А·Т(rWC), Hoogsteen А·Т(Н) and reverse Hoogsteen А·Т(rН) DNA base pairs

Real-space evidence of Watson–Crick and Hoogsteen adenine-uracil base pairs on Au(111)

Recent progress in double helix conjecture

The discovery of hydrogen bonds in DNA and a re-evaluation of the 1948 Creeth two-chain model for its structure

Unexpected A·T(WC)-A·T(rWC)/A·T(rH) and A·T(H)-A·T(rH)/A·T(rWC) conformational transitions between the classical A·T DNA base pairs: A QM/QTAIM comprehensive study

2019

A New Structural Molecular Biology

Atomistic insight into the kinetic pathways for Watson–Crick to Hoogsteen transitions in DNA

Characterizing Watson−Crick versus Hoogsteen Base Pairing in a DNA−Protein Complex Using Nuclear Magnetic Resonance and Site-Specifically C- and N‐Labeled DNA

Computational Studies of Hoogsteen Base Pairs in Nucleic Acids and Developments in Enhanced Sampling Simulation Techniques

Direct evidence for (G)O6H2-N4(C)+ hydrogen bonding in transient G(syn)-C+ and G(syn)-m5 C+ Hoogsteen base pairs in duplex DNA from cytosine amino nitrogen off-resonance R1q relaxation dispersion measurements

DNA Quadruple Helices in Nanotechnology

Dynamic chromatin organization without the 30-nm fiber

Evidence Falsifying the Double Helix Model

Infrared Spectroscopic Observation of a G–C+ Hoogsteen Base Pair in the DNA:TATA-Box Binding Protein Complex Under Solution Conditions

Modeling the possible orientations of base pairs in overstretched DNA

Nervous-Like Circuits in the Ribosome Facts, Hypotheses and Perspectives

Nucleic Acid Crystallography: A Different Approach

Politics Dictates Scientific Truth

2020

Base-pair resolution analysis of the effect of supercoiling on DNA flexibility and recognition

DNA Structure Puzzles 1 - 24 With Additions

Free Energy Landscape and Conformational Kinetics of Hoogsteen Base-Pairing in DNA vs RNA

Single-molecule visualization of DNA G-quadruplex formation in live cells

2021

Revealing A-T and G-C Hoogsteen base pairs in stressed protein-bound duplex DNA

Watson−Crick versus Hoogsteen Base Pairs: Chemical Strategy to Encode and Express Genetic Information in Life

Probing the Hydrogen-Bonding Environment of Individual Bases in DNA Duplexes with Isotope-Edited Infrared Spectroscopy

2022

Probing Watson-Crick and Hoogsteen base pairing in duplex DNA using dynamic nuclear polarization solid-state NMR spectroscopy

Theoretical insights into water network of B-DNA duplex with Watson-Crick and Hoogsteen base pairing geometries

Transient Hoogsteen Base Pairs Observed in Unbiased Molecular Dynamics Simulations of DNA