Literature DB >> 30002269

Dynamics of water and ions around DNA: What is so special about them?

Him Shweta1, Sobhan Sen.   

Abstract

Water around biomolecules is special for behaving strangely - both in terms of structure and dynamics, while ions are found to control various interactions in biomolecules such as DNA, proteins and lipids. The questions that how water and ions around these biomolecules behave in terms of their structure and dynamics, and how they affect the biomolecular functions have triggered tremendous research activities worldwide. Such activities not only unfolded important static and dynamic properties of water and ions around these biomolecules, but also provoked heated debate regarding their explanation and role in biological functions. DNA, being negatively charged, interacts strongly with the surrounding dipolar water and positively charged counterions, leading to complex electrostatic coupling of water and ions with the DNA. Recent timeresolved fluorescence Stokes shift experiments and related computer simulation studies from our and other laboratories have unfolded some unique dynamic characteristics of water and ions near different structures of DNA. These results are discussed here to showcase the specialty of water and ion dynamics around DNA.

Entities:  

Mesh:

Substances:

Year:  2018        PMID: 30002269

Source DB:  PubMed          Journal:  J Biosci        ISSN: 0250-5991            Impact factor:   1.826


  74 in total

Review 1.  Life in extreme environments.

Authors:  L J Rothschild; R L Mancinelli
Journal:  Nature       Date:  2001-02-22       Impact factor: 49.962

2.  DNA-mediated charge transport requires conformational motion of the DNA bases: elimination of charge transport in rigid glasses at 77 K.

Authors:  Melanie A O'Neill; Jacqueline K Barton
Journal:  J Am Chem Soc       Date:  2004-10-20       Impact factor: 15.419

3.  Multiple time scales in solvation dynamics of DNA in aqueous solution: the role of water, counterions, and cross-correlations.

Authors:  Subrata Pal; Prabal K Maiti; Biman Bagchi; James T Hynes
Journal:  J Phys Chem B       Date:  2006-12-28       Impact factor: 2.991

4.  Does the dynamic Stokes shift report on slow protein hydration dynamics?

Authors:  Bertil Halle; Lennart Nilsson
Journal:  J Phys Chem B       Date:  2009-06-18       Impact factor: 2.991

5.  Base-sequence specificity of Hoechst 33258 and DAPI binding to five (A/T)4 DNA sites with kinetic evidence for more than one high-affinity Hoechst 33258-AATT complex.

Authors:  Sophia Y Breusegem; Robert M Clegg; Frank G Loontiens
Journal:  J Mol Biol       Date:  2002-02-01       Impact factor: 5.469

6.  Protein Hydration Dynamics: Much Ado about Nothing?

Authors:  Sayantan Mondal; Saumyak Mukherjee; Biman Bagchi
Journal:  J Phys Chem Lett       Date:  2017-10-05       Impact factor: 6.475

7.  Kinetics of DNA hydration.

Authors:  V P Denisov; G Carlström; K Venu; B Halle
Journal:  J Mol Biol       Date:  1997-04-25       Impact factor: 5.469

8.  Molecular recognition mediated by bound water. A mechanism for star activity of the restriction endonuclease EcoRI.

Authors:  C R Robinson; S G Sligar
Journal:  J Mol Biol       Date:  1993-11-20       Impact factor: 5.469

9.  Solvation dynamics of Hoechst 33258 in water: an equilibrium and nonequilibrium molecular dynamics study.

Authors:  Kristina E Furse; Beth A Lindquist; Steven A Corcelli
Journal:  J Phys Chem B       Date:  2008-02-14       Impact factor: 2.991

Review 10.  Targeting G-quadruplexes in gene promoters: a novel anticancer strategy?

Authors:  Shankar Balasubramanian; Laurence H Hurley; Stephen Neidle
Journal:  Nat Rev Drug Discov       Date:  2011-04       Impact factor: 84.694

View more
  4 in total

1.  Long-range DNA-water interactions.

Authors:  Abhishek K Singh; Chengyuan Wen; Shengfeng Cheng; Nguyen Q Vinh
Journal:  Biophys J       Date:  2021-10-21       Impact factor: 4.033

2.  TOPAS-nBio validation for simulating water radiolysis and DNA damage under low-LET irradiation.

Authors:  J Ramos-Méndez; J A LaVerne; N Domínguez-Kondo; J Milligan; V Štěpán; K Stefanová; Y Perrot; C Villagrasa; W-G Shin; S Incerti; A McNamara; H Paganetti; J Perl; J Schuemann; B Faddegon
Journal:  Phys Med Biol       Date:  2021-09-03       Impact factor: 4.174

3.  Surprising Rigidity of Functionally Important Water Molecules Buried in the Lipid Headgroup Region.

Authors:  Rongfu Zhang; Timothy A Cross; Xinhua Peng; Riqiang Fu
Journal:  J Am Chem Soc       Date:  2022-04-19       Impact factor: 16.383

Review 4.  The Seed and the Metabolism Regulation.

Authors:  Hayat El-Maarouf-Bouteau
Journal:  Biology (Basel)       Date:  2022-01-20
  4 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.