Literature DB >> 15306379

Water-DNA interactions as studied by X-ray and neutron fibre diffraction.

Watson Fuller1, Trevor Forsyth, Arumugam Mahendrasingam.   

Abstract

X-ray fibre-diffraction studies indicate a high degree of stereochemical specificity in interactions between water and the DNA double helix. Evidence for this comes from data that show that the molecular conformations assumed by DNA in fibres are highly reproducible and that the hydration-driven transitions between these conformations are fully reversible. These conformational transitions are induced by varying the relative humidity of the fibre environment and hence its water content. Further evidence for stereochemical specificity comes from the observed dependence of the conformation assumed on the ionic content of the fibre and the nucleotide sequence of the DNA. For some transitions, information on stereochemical pathways has come from real-time X-ray fibre diffraction using synchrotron radiation; information on the location of water with respect to the double helix for a number of DNA conformations has come from neutron fibre diffraction. This structural information from fibre-diffraction studies of DNA is complemented by information from X-ray single-crystal studies of oligonucleotides. If the biochemical processes involving DNA have evolved to exploit the structural features observed in DNA fibres and oligonucleotide single crystals, the challenges in developing alternatives to a water environment can be expected to be very severe.

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Year:  2004        PMID: 15306379      PMCID: PMC1693411          DOI: 10.1098/rstb.2004.1501

Source DB:  PubMed          Journal:  Philos Trans R Soc Lond B Biol Sci        ISSN: 0962-8436            Impact factor:   6.237


  18 in total

1.  The structure of DNA in the nucleosome core.

Authors:  Timothy J Richmond; Curt A Davey
Journal:  Nature       Date:  2003-05-08       Impact factor: 49.962

2.  FOURIER SYNTHESIS STUDIES OF LITHIUM DNA. 3. HOOGSTEEN MODELS.

Authors:  S ARNOTT; M H WILKINS
Journal:  J Mol Biol       Date:  1965-02       Impact factor: 5.469

3.  Neutron fibre diffraction study of DNA hydration.

Authors:  V T Forsyth; A Mahendrasingam; W J Pigram; R J Greenall; K Bellamy; W Fuller; S A Mason
Journal:  Int J Biol Macromol       Date:  1989-08       Impact factor: 6.953

4.  Crystallographic structure of an RNA helix: [U(UA)6A]2.

Authors:  A C Dock-Bregeon; B Chevrier; A Podjarny; J Johnson; J S de Bear; G R Gough; P T Gilham; D Moras
Journal:  J Mol Biol       Date:  1989-10-05       Impact factor: 5.469

5.  X-ray high-angle fibre diffraction studies of nucleic acid structure using the Daresbury Synchrotron Radiation Source.

Authors:  V T Forsyth; R J Greenall; R Hussain; A Mahendrasingam; C Nave; W J Pigram; W Fuller
Journal:  Biochem Soc Trans       Date:  1986-06       Impact factor: 5.407

6.  Time-resolved X-ray diffraction studies of the B in equilibrium D structural transition in the DNA double helix.

Authors:  A Mahendrasingam; V T Forsyth; R Hussain; R J Greenall; W J Pigram; W Fuller
Journal:  Science       Date:  1986-07-11       Impact factor: 47.728

7.  Molecular structure of a left-handed double helical DNA fragment at atomic resolution.

Authors:  A H Wang; G J Quigley; F J Kolpak; J L Crawford; J H van Boom; G van der Marel; A Rich
Journal:  Nature       Date:  1979-12-13       Impact factor: 49.962

8.  Wrinkled DNA.

Authors:  S Arnott; R Chandrasekaran; L C Puigjaner; J K Walker; I H Hall; D L Birdsall; R L Ratliff
Journal:  Nucleic Acids Res       Date:  1983-03-11       Impact factor: 16.971

9.  Left-handed DNA helices.

Authors:  S Arnott; R Chandrasekaran; D L Birdsall; A G Leslie; R L Ratliff
Journal:  Nature       Date:  1980-02-21       Impact factor: 49.962

10.  A high angle neutron fibre diffraction study of the hydration of the A conformation of the DNA double helix.

Authors:  P Langan; V T Forsyth; A Mahendrasingam; W J Pigram; S A Mason; W Fuller
Journal:  J Biomol Struct Dyn       Date:  1992-12
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  16 in total

1.  Synthesis, capillary crystallization and preliminary joint X-ray and neutron crystallographic study of Z-DNA without polyamine at low pH.

Authors:  Paul Langan; Xinmin Li; B Leif Hanson; Leighton Coates; Marat Mustyakimov
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2006-04-12

2.  Force-induced structural transitions in cross-linked DNA films.

Authors:  A André; F Fontaine-Vive; H M Möller; T Fischer; G Maret; V T Forsyth; T Gisler
Journal:  Eur Biophys J       Date:  2008-01-31       Impact factor: 1.733

3.  A preliminary neutron crystallographic study of an A-DNA crystal.

Authors:  Ricardo M F Leal; Susana C M Teixeira; Matthew P Blakeley; Edward P Mitchell; V Trevor Forsyth
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2009-02-12

4.  The denaturation transition of DNA in mixed solvents.

Authors:  Boualem Hammouda; David Worcester
Journal:  Biophys J       Date:  2006-06-30       Impact factor: 4.033

5.  Small-molecule binding to the DNA minor groove is mediated by a conserved water cluster.

Authors:  DengGuo Wei; W David Wilson; Stephen Neidle
Journal:  J Am Chem Soc       Date:  2013-01-16       Impact factor: 15.419

6.  Ecological and evolutionary significance of genomic GC content diversity in monocots.

Authors:  Petr Šmarda; Petr Bureš; Lucie Horová; Ilia J Leitch; Ladislav Mucina; Ettore Pacini; Lubomír Tichý; Vít Grulich; Olga Rotreklová
Journal:  Proc Natl Acad Sci U S A       Date:  2014-09-15       Impact factor: 11.205

7.  Temperature-Induced Replacement of Phosphate Proton with Metal Ion Captured in Neutron Structures of A-DNA.

Authors:  Venu Gopal Vandavasi; Matthew P Blakeley; David A Keen; Lillian R Hu; Zhen Huang; Andrey Kovalevsky
Journal:  Structure       Date:  2018-09-20       Impact factor: 5.006

8.  Water in crystalline fibers of dihydrate β-chitin results in unexpected absence of intramolecular hydrogen bonding.

Authors:  Daisuke Sawada; Yoshiharu Nishiyama; Paul Langan; V Trevor Forsyth; Satoshi Kimura; Masahisa Wada
Journal:  PLoS One       Date:  2012-06-19       Impact factor: 3.240

9.  Recombination-independent recognition of DNA homology for meiotic silencing in Neurospora crassa.

Authors:  Nicholas Rhoades; Tinh-Suong Nguyen; Guillaume Witz; Germano Cecere; Thomas Hammond; Alexey K Mazur; Eugene Gladyshev
Journal:  Proc Natl Acad Sci U S A       Date:  2021-08-17       Impact factor: 12.779

10.  Chain and conformation stability of solid-state DNA: implications for room temperature storage.

Authors:  Jacques Bonnet; Marthe Colotte; Delphine Coudy; Vincent Couallier; Joseph Portier; Bénédicte Morin; Sophie Tuffet
Journal:  Nucleic Acids Res       Date:  2009-12-07       Impact factor: 16.971

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