285 related articles for article (PubMed ID: 15304564)
1. DNA and its counterions: a molecular dynamics study.
Várnai P; Zakrzewska K
Nucleic Acids Res; 2004; 32(14):4269-80. PubMed ID: 15304564
[TBL] [Abstract][Full Text] [Related]
2. Similarities and differences in interaction of K+ and Na+ with condensed ordered DNA. A molecular dynamics computer simulation study.
Cheng Y; Korolev N; Nordenskiöld L
Nucleic Acids Res; 2006; 34(2):686-96. PubMed ID: 16449204
[TBL] [Abstract][Full Text] [Related]
3. DNA structure: what's in charge?
McConnell KJ; Beveridge DL
J Mol Biol; 2000 Dec; 304(5):803-20. PubMed ID: 11124028
[TBL] [Abstract][Full Text] [Related]
4. On the competition between water, sodium ions, and spermine in binding to DNA: a molecular dynamics computer simulation study.
Korolev N; Lyubartsev AP; Laaksonen A; Nordenskiöld L
Biophys J; 2002 Jun; 82(6):2860-75. PubMed ID: 12023210
[TBL] [Abstract][Full Text] [Related]
5. Sequence-specific binding of counterions to B-DNA.
Denisov VP; Halle B
Proc Natl Acad Sci U S A; 2000 Jan; 97(2):629-33. PubMed ID: 10639130
[TBL] [Abstract][Full Text] [Related]
6. Water and ion binding around r(UpA)12 and d(TpA)12 oligomers--comparison with RNA and DNA (CpG)12 duplexes.
Auffinger P; Westhof E
J Mol Biol; 2001 Feb; 305(5):1057-72. PubMed ID: 11162114
[TBL] [Abstract][Full Text] [Related]
7. Exploring the counterion atmosphere around DNA: what can be learned from molecular dynamics simulations?
Rueda M; Cubero E; Laughton CA; Orozco M
Biophys J; 2004 Aug; 87(2):800-11. PubMed ID: 15298889
[TBL] [Abstract][Full Text] [Related]
8. Molecular dynamics simulation study of oriented polyamine- and Na-DNA: sequence specific interactions and effects on DNA structure.
Korolev N; Lyubartsev AP; Laaksonen A; Nordenskiöld L
Biopolymers; 2004 Apr; 73(5):542-55. PubMed ID: 15048778
[TBL] [Abstract][Full Text] [Related]
9. A molecular dynamics simulation study of oriented DNA with polyamine and sodium counterions: diffusion and averaged binding of water and cations.
Korolev N; Lyubartsev AP; Laaksonen A; Nordenskiöld L
Nucleic Acids Res; 2003 Oct; 31(20):5971-81. PubMed ID: 14530445
[TBL] [Abstract][Full Text] [Related]
10. Electrostatic, steric, and hydration interactions favor Na(+) condensation around DNA compared with K(+).
Savelyev A; Papoian GA
J Am Chem Soc; 2006 Nov; 128(45):14506-18. PubMed ID: 17090034
[TBL] [Abstract][Full Text] [Related]
11. Competitive Na(+) and Rb(+) binding in the minor groove of DNA.
Cesare Marincola F; Denisov VP; Halle B
J Am Chem Soc; 2004 Jun; 126(21):6739-50. PubMed ID: 15161302
[TBL] [Abstract][Full Text] [Related]
12. Molecular dynamics simulations of A. T-rich oligomers: sequence-specific binding of Na+ in the minor groove of B-DNA.
Mocci F; Saba G
Biopolymers; 2003 Apr; 68(4):471-85. PubMed ID: 12666173
[TBL] [Abstract][Full Text] [Related]
13. Differential Deformability of the DNA Minor Groove and Altered BI/BII Backbone Conformational Equilibrium by the Monovalent Ions Li(+), Na(+), K(+), and Rb(+) via Water-Mediated Hydrogen Bonding.
Savelyev A; MacKerell AD
J Chem Theory Comput; 2015 Sep; 11(9):4473-85. PubMed ID: 26575937
[TBL] [Abstract][Full Text] [Related]
14. Water and ion binding around RNA and DNA (C,G) oligomers.
Auffinger P; Westhof E
J Mol Biol; 2000 Jul; 300(5):1113-31. PubMed ID: 10903858
[TBL] [Abstract][Full Text] [Related]
15. Absence of minor groove monovalent cations in the crosslinked dodecamer C-G-C-G-A-A-T-T-C-G-C-G.
Chiu TK; Kaczor-Grzeskowiak M; Dickerson RE
J Mol Biol; 1999 Sep; 292(3):589-608. PubMed ID: 10497024
[TBL] [Abstract][Full Text] [Related]
16. Analyzing ion distributions around DNA: sequence-dependence of potassium ion distributions from microsecond molecular dynamics.
Pasi M; Maddocks JH; Lavery R
Nucleic Acids Res; 2015 Feb; 43(4):2412-23. PubMed ID: 25662221
[TBL] [Abstract][Full Text] [Related]
17. Hydration of counterions interacting with DNA double helix: a molecular dynamics study.
Perepelytsya S
J Mol Model; 2018 Jun; 24(7):171. PubMed ID: 29934661
[TBL] [Abstract][Full Text] [Related]
18. Solution structure of the calicheamicin gamma 1I-DNA complex.
Kumar RA; Ikemoto N; Patel DJ
J Mol Biol; 1997 Jan; 265(2):187-201. PubMed ID: 9020982
[TBL] [Abstract][Full Text] [Related]
19. Structure of the potassium form of CGCGAATTCGCG: DNA deformation by electrostatic collapse around inorganic cations.
Shui X; Sines CC; McFail-Isom L; VanDerveer D; Williams LD
Biochemistry; 1998 Dec; 37(48):16877-87. PubMed ID: 9836580
[TBL] [Abstract][Full Text] [Related]
20. Destabilization of i-motif by submolar concentrations of a monovalent cation.
Kim SE; Lee IB; Hyeon C; Hong SC
J Phys Chem B; 2014 May; 118(18):4753-60. PubMed ID: 24738956
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
