Literature DB >> 3599077

Influence of cation size and charge on the extrusion of a salt-dependent cruciform.

K M Sullivan, D M Lilley.   

Abstract

We have made a comparative study of the kinetics of cruciform extrusion by a salt-dependent (S-type) cruciform in the presence of a variety of metal ions and related species. We find that the nature of the cation present has a marked effect on the observed kinetics, and that different cations differ greatly in the efficiency with which they promote the extrusion process. We can divide the ions into four classes according to the optimal ionic concentration required for maximal extrusion rate. Group Ia cations and tetramethyl ammonium are most effective in promoting extrusion at 50 to 60 mM. Group IIa and selected transition metal ions (notably manganese) are effective over a wide range, extending down to 200 microM. Hexaminecobalt(III) and the polyamines promote extrusion at concentrations as low as 15 to 40 microM. Most remaining ions examined, including trivalent ions such as Al(III) and many transition metal ions are totally ineffective. Within the first two groups, we observe a marked correlation between the rate of cruciform extrusion promoted and ionic radius, the larger ions giving faster extrusion rates. We interpret this to indicate specific ion binding occurring in the transition state of the extrusion process. We may rationalize all the data in terms of a model for salt-dependent cruciform extrusion, in which the transition state resembles a partially extruded protocruciform. This creates an anionic "cavity" with selective ion binding properties, and its stabilization is therefore ion size-dependent.

Entities:  

Mesh:

Substances:

Year:  1987        PMID: 3599077     DOI: 10.1016/0022-2836(87)90227-0

Source DB:  PubMed          Journal:  J Mol Biol        ISSN: 0022-2836            Impact factor:   5.469


  20 in total

Review 1.  Folded DNA in action: hairpin formation and biological functions in prokaryotes.

Authors:  David Bikard; Céline Loot; Zeynep Baharoglu; Didier Mazel
Journal:  Microbiol Mol Biol Rev       Date:  2010-12       Impact factor: 11.056

2.  Winding of the DNA helix by divalent metal ions.

Authors:  Y C Xu; H Bremer
Journal:  Nucleic Acids Res       Date:  1997-10-15       Impact factor: 16.971

3.  On the deletion of inverted repeated DNA in Escherichia coli: effects of length, thermal stability, and cruciform formation in vivo.

Authors:  R R Sinden; G X Zheng; R G Brankamp; K N Allen
Journal:  Genetics       Date:  1991-12       Impact factor: 4.562

4.  Single-stranded structures are present within plasmids containing the Epstein-Barr virus latent origin of replication.

Authors:  R Orlowski; G Miller
Journal:  J Virol       Date:  1991-02       Impact factor: 5.103

5.  DNA and spermidine provide a switch mechanism to regulate the activity of restriction enzyme Nae I.

Authors:  M Conrad; M D Topal
Journal:  Proc Natl Acad Sci U S A       Date:  1989-12       Impact factor: 11.205

6.  The anomalous gel migration of a stable cruciform: temperature and salt dependence, and some comparisons with curved DNA.

Authors:  S Diekmann; D M Lilley
Journal:  Nucleic Acids Res       Date:  1987-07-24       Impact factor: 16.971

7.  Helix stability and the mechanism of cruciform extrusion in supercoiled DNA molecules.

Authors:  K M Sullivan; D M Lilley
Journal:  Nucleic Acids Res       Date:  1988-02-11       Impact factor: 16.971

8.  Rh(DIP)3(3+): a shape-selective metal complex which targets cruciforms.

Authors:  M R Kirshenbaum; R Tribolet; J K Barton
Journal:  Nucleic Acids Res       Date:  1988-08-25       Impact factor: 16.971

9.  Effect of dC → d(m5C) substitutions on the folding of intramolecular triplexes with mixed TAT and C+GC base triplets.

Authors:  Carolyn E Carr; Rajkumar Ganugula; Ronald Shikiya; Ana Maria Soto; Luis A Marky
Journal:  Biochimie       Date:  2017-12-24       Impact factor: 4.079

10.  Applications of the twist difference to DNA structural analysis.

Authors:  J H White; W R Bauer
Journal:  Proc Natl Acad Sci U S A       Date:  1988-02       Impact factor: 11.205

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.