Crystallographic studies of chemically modified nucleic acids: a backward glance (Q24608092)

Chemistry and Biodiversity

Europe PubMed Central

title

Crystallographic studies of chemically modified nucleic acids: a backward glance (English)

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author

Martin Egli

series ordinal

1

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author name string

Pradeep S Pallan

series ordinal

2

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language of work or name

English

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publication date

January 2010

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published in

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volume

7

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issue

1

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page(s)

60-89

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cites work

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Crystal structure of tricyclo-DNA: an unusual compensatory change of two adjacent backbone torsion angles

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Structure and activity of Y-class DNA polymerase DPO4 from Sulfolobus solfataricus with templates containing the hydrophobic thymine analog 2,4-difluorotoluene

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Crystal structure, stability and in vitro RNAi activity of oligoribonucleotides containing the ribo-difluorotoluyl nucleotide: insights into substrate requirements by the human RISC Ago2 enzyme

7 April 2017

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Crystal structure of a B-form DNA duplex containing (L)-alpha-threofuranosyl (3'-->2') nucleosides: a four-carbon sugar is easily accommodated into the backbone of DNA

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B-form to A-form conversion by a 3'-terminal ribose: crystal structure of the chimera d(CCACTAGTG)r(G)

7 April 2017

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X-ray crystallographic analysis of the hydration of A- and B-form DNA at atomic resolution

7 April 2017

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Structural origins of the exonuclease resistance of a zwitterionic RNA

7 April 2017

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Atomic-resolution crystal structures of B-DNA reveal specific influences of divalent metal ions on conformation and packing

7 April 2017

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Correlating structure and stability of DNA duplexes with incorporated 2'-O-modified RNA analogues

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Crystal structures of B-DNA with incorporated 2'-deoxy-2'-fluoro-arabino-furanosyl thymines: implications of conformational preorganization for duplex stability

7 April 2017

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Stabilizing effects of the RNA 2'-substituent: crystal structure of an oligodeoxynucleotide duplex containing 2'-O-methylated adenosines

7 April 2017

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7 April 2017

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RNA hydration: a detailed look

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The crystal structure analysis of d(CGCGAASSCGCG)2, a synthetic DNA dodecamer duplex containing four 4'-thio-2'-deoxythymidine nucleotides

7 April 2017

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Structure of a DNA:RNA hybrid duplex. Why RNase H does not cleave pure RNA

7 April 2017

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The crystal structure of r(CCCCGGGG) in two distinct lattices

7 April 2017

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Conformational influence of the ribose 2'-hydroxyl group: Crystal structures of DNA-RNA chimeric duplexes

7 April 2017

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A single 2'-hydroxyl group converts B-DNA to A-DNA. Crystal structure of the DNA-RNA chimeric decamer duplex d(CCGGC)r(G)d(CCGG) with a novel intermolecular G-C base-paired quadruplet

7 April 2017

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Reversible bending and helix geometry in a B-DNA dodecamer: CGCGAATTBrCGCG

7 April 2017

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AT base pairs are less stable than GC base pairs in Z-DNA: the crystal structure of d(m5CGTAm5CG)

7 April 2017

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Molecular structure of r(GCG)d(TATACGC): a DNA--RNA hybrid helix joined to double helical DNA

7 April 2017

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Solvation of the left-handed hexamer d(5BrC-G-5BrC-G-5 BrC-G) in crystals grown at two temperatures

7 April 2017

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Chiral phosphorothioate analogues of B-DNA. The crystal structure of Rp-d[Gp(S)CpGp(S)CpGp(S)C]

7 April 2017

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Methylation of the EcoRI recognition site does not alter DNA conformation: the crystal structure of d(CGCGAm6ATTCGCG) at 2.0-A resolution

7 April 2017

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Structure of 11-deoxydaunomycin bound to DNA containing a phosphorothioate

7 April 2017

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DNA-nogalamycin interactions

7 April 2017

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Crystal structure of an Okazaki fragment at 2-A resolution

7 April 2017

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7 April 2017

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A simple glycol nucleic acid

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Estimates of the ab initio limit for pi-pi interactions: the benzene dimer

7 April 2017

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Chemical etiology of nucleic acid structure: the alpha-threofuranosyl-(3'-->2') oligonucleotide system

7 April 2017

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Crystal structures of RNase H bound to an RNA/DNA hybrid: substrate specificity and metal-dependent catalysis

7 April 2017

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7 April 2017

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Experimental Measurement of Aromatic Stacking Affinities in the Context of Duplex DNA

7 April 2017

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Backbone-base inclination as a fundamental determinant of nucleic acid self- and cross-pairing

27 September 2017

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Insights from crystallographic studies into the structural and pairing properties of nucleic acid analogs and chemically modified DNA and RNA oligonucleotides

27 September 2017

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Crystallization and preliminary X-ray analysis of Escherichia coli RNase HI-dsRNA complexes

27 September 2017

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The long and winding road to the structure of homo-DNA.

27 September 2017

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The difluorotoluene debate--a decade later

27 September 2017

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RNA-Binding affinities and crystal structure of oligonucleotides containing five-atom amide-based backbone structures.

27 September 2017

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2'-Fluoroarabino- and arabinonucleic acid show different conformations, resulting in deviating RNA affinities and processing of their heteroduplexes with RNA by RNase H

27 September 2017

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Reinforced HNA backbone hydration in the crystal structure of a decameric HNA/RNA hybrid.

27 September 2017

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Synthesis and physical and physiological properties of 4'-thioRNA: application to post-modification of RNA aptamer toward NF-kappaB

27 September 2017

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Structural requirements at the catalytic site of the heteroduplex substrate for human RNase H1 catalysis

27 September 2017

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2'-O-[2-(guanidinium)ethyl]-modified oligonucleotides: stabilizing effect on duplex and triplex structures

27 September 2017

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Nucleic-acid therapeutics: basic principles and recent applications

27 September 2017

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Antisense properties of tricyclo-DNA

27 September 2017

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DNA-cation interactions: quo vadis?

27 September 2017

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Studies of a chemically modified oligodeoxynucleotide containing a 5-atom amide backbone which exhibits improved binding to RNA.

27 September 2017

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Pharmacokinetic properties of 2'-O-(2-methoxyethyl)-modified oligonucleotide analogs in rats

27 September 2017

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2'-carbohydrate modifications in antisense oligonucleotide therapy: importance of conformation, configuration and conjugation

27 September 2017

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A review of the issues in the pharmacokinetics and toxicology of phosphorothioate antisense oligonucleotides

27 September 2017

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The residence time of the bound water in the hydrophobic minor groove of the carbocyclic-nucleoside analogs of Dickerson-Drew dodecamers

27 September 2017

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Conformational preorganization, hydration, and nucleic acid duplex stability

27 September 2017

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The ups and downs of nucleic acid duplex stability: structure-stability studies on chemically-modified DNA:RNA duplexes

27 September 2017

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The influence of antisense oligonucleotide-induced RNA structure on Escherichia coli RNase H1 activity

27 September 2017

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Structural RNA mimetics: N3'-->P5' phosphoramidate DNA analogs of HIV-1 RRE and TAR RNA form A-type helices that bind specifically to Rev and Tat-related peptides

27 September 2017

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Binding affinity and specificity of Escherichia coli RNase H1: impact on the kinetics of catalysis of antisense oligonucleotide-RNA hybrids

27 September 2017

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Inter-strand C-H...O hydrogen bonds stabilizing four-stranded intercalated molecules: stereoelectronic effects of O4' in cytosine-rich DNA

27 September 2017

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Current concepts in antisense drug design

27 September 2017

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Synthesis of oligodeoxyribonucleotide N3′→P5′ phosphoramidates

27 September 2017

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Oligonucleotide N3'-->P5' phosphoramidates

27 September 2017

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Enzyme from calf thymus degrading the RNA moiety of DNA-RNA Hybrids: effect on DNA-dependent RNA polymerase

27 September 2017

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A Crystalline Fragment of the Double Helix: The Structure of the Dinucleoside Phosphate Guanylyl-3′,5′-Cytidine

27 September 2017

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Role of RNase H in hybrid-arrested translation by antisense oligonucleotides

27 September 2017

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DNA structure from A to Z.

27 September 2017

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Large scale chemical synthesis, purification and crystallization of RNA-DNA chimeras

27 September 2017

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Inhibition of Rous sarcoma viral RNA translation by a specific oligodeoxyribonucleotide

27 September 2017

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Inhibition of Rous sarcoma virus replication and cell transformation by a specific oligodeoxynucleotide

27 September 2017

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Synthesis and properties of 4'-ThioDNA: unexpected RNA-like behavior of 4'-ThioDNA.

27 September 2017

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Functional groups on the cleavage site pyrimidine nucleotide are required for stabilization of the hammerhead transition state

30 May 2018

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High resolution structure of the RNA duplex [U(U-A)6A]2.

30 May 2018

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Selenium modification of nucleic acids: preparation of phosphoroselenoate derivatives for crystallographic phasing of nucleic acid structures.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2905155

Crystal Structure of Homo-DNA and Nature's Choice of Pentose over Hexose in the Genetic System

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2905155

Probing the influence of stereoelectronic effects on the biophysical properties of oligonucleotides: comprehensive analysis of the RNA affinity, nuclease resistance, and crystal structure of ten 2'-O-ribonucleic acid modifications.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2905155

Structural rationalization of a large difference in RNA affinity despite a small difference in chemistry between two 2'-O-modified nucleic acid analogues.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2905155

Obituary: Jacques H. van Boom (1937-2004).

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2905155

Watson-Crick base-pairing properties of tricyclo-DNA.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2905155

Dynamics of photoinduced charge transfer and hole transport in synthetic DNA hairpins

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2905155

Antitumor activity of a phosphorothioate antisense oligodeoxynucleotide targeted against C-raf kinase

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2905155

Stability of stereoregular oligo(nucleoside phosphorothioate)s in human plasma: diastereoselectivity of plasma 3'-exonuclease

28 November 2018

1 reference

12 December 2020

4'-Thio-RNA: synthesis of mixed base 4'-thio-oligoribonucleotides, nuclease resistance, and base pairing properties with complementary single and double strand

1 reference

12 December 2020

A left-handed supramolecular assembly around a right-handed screw axis in the crystal structure of homo-DNA

1 reference

12 December 2020

Crystal structure of a Z-DNA fragment containing thymine/2-aminoadenine base pairs

1 reference

12 December 2020

Synthesis and Structure of 1-Deoxy-1-phenyl-beta-D-ribofuranose and Its Incorporation into Oligonucleotides

1 reference

12 December 2020

RNA double-helical fragments at atomic resolution. II. The crystal structure of sodium guanylyl-3',5'-cytidine nonahydrate

1 reference

12 December 2020

Towards the structure-based design of oligonucleotide therapeutics

1 reference

12 December 2020

Selenium modification of nucleic acids: preparation of oligonucleotides with incorporated 2'-SeMe-uridine for crystallographic phasing of nucleic acid structures

1 reference

12 December 2020

Efficient replication between non-hydrogen-bonded nucleoside shape analogs

1 reference

12 December 2020

Internal derivatization of oligonucleotides with selenium for X-ray crystallography using MAD

1 reference

12 December 2020

Hydrophobic Groups Stabilize the Hydration Shell of 2'-O-Methylated RNA Duplexes

1 reference

12 December 2020

Conformational analysis of the sugar ring in nucleosides and nucleotides. New description using the concept of pseudorotation

1 reference

12 December 2020

Chemically modified hammerhead ribozymes with improved catalytic rates

1 reference

12 December 2020

Shutting down a gene. Antisense drug wins approval

1 reference

12 December 2020

Pharmacology of antisense therapeutic agents : cancer and inflamination

1 reference

12 December 2020

The crystal structure of d(GGm5CCGGCC): the effect of methylation on A-DNA structure and stability

1 reference

https://api.crossref.org/works/10.1002%2FCBDV.200900177

7 January 2021

Warum pentose-und nicht hexose-nucleinsäuren? Teil III. Oligo(2′,3′-dideoxy-β-D-glucopyranosyl) nucleotide (‘homo-DNS’): Paarungesigenschaften

1 reference

https://api.crossref.org/works/10.1002%2FCBDV.200900177

7 January 2021

Antisense oligonucleotides: a new therapeutic principle

1 reference

https://api.crossref.org/works/10.1002%2FCBDV.200900177

7 January 2021

The Dickerson-Drew B-DNA Dodecamer Revisited at Atomic Resolution

1 reference

https://api.crossref.org/works/10.1002%2FCBDV.200900177

7 January 2021

A “Hydrat-Ion” Spine in a B-DNA Minor Groove

1 reference

https://api.crossref.org/works/10.1002%2FCBDV.200900177

7 January 2021

X-ray crystal structure of a locked nucleic acid (LNA) duplex composed of a palindromic 10-mer DNA strand containing one LNA thymine monomer

1 reference

https://api.crossref.org/works/10.1002%2FCBDV.200900177

7 January 2021

Identifiers

DOI

10.1002/CBDV.200900177

1 reference

Consolidated OpenCitations Corpus – April 2017

OpenCitations bibliographic resource ID

4535378

OpenCitations bibliographic resource ID

4535378

1 reference