Water-silica force field for simulating nanodevices

被引:267
作者
Cruz-Chu, Eduardo R.
Aksimentiev, Aleksei
Schulten, Klaus [1 ]
机构
[1] Univ Illinois, Beckman Inst Adv Sci & Technol, Urbana, IL 61801 USA
[2] Univ Illinois, Ctr Biophys & Computat Biol, Urbana, IL 61801 USA
[3] Univ Illinois, Dept Phys, Urbana, IL 61801 USA
关键词
MOLECULAR-DYNAMICS SIMULATIONS; NANOMETER-DIAMETER PORE; VITREOUS SILICA; AMORPHOUS SILICA; COMPUTER-SIMULATION; NANOPORE-CAPACITOR; FRACTURE SURFACES; DNA TRANSLOCATION; ADSORPTION; GLASS;
D O I
10.1021/jp063896o
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
Amorphous silica is an inorganic material that is central for many nanotechnology appplications, such as nanoelectronics, microfluidics, and nanopore sensors. To use molecular dynamics (MD) simulations to study the behavior of biomolecules interacting with silica, we developed a force field for amorphous silica surfaces based on their macroscopic wetting properties that is compatible with the CHARMM force field and TIP3P water model. The contact angle of a water droplet on a silica surface served as a criterion to tune the intermolecular interactions. The resulting force field was used to study the permeation of water through silica nanopores, illustrating the influence of the surface topography and the intermolecular parameters on permeation kinetics. We find that minute modeling of the amorphous surface is critical for MD studies, since the particular arrangement of surface atoms controls sensitively electrostatic interactions between silica and water.
引用
收藏
页码:21497 / 21508
页数:12
相关论文
共 83 条
[1]  
*ACC INC, 2003, CER V 4 9
[2]   Microscopic kinetics of DNA translocation through synthetic nanopores [J].
Aksimentiev, A ;
Heng, JB ;
Timp, G ;
Schulten, K .
BIOPHYSICAL JOURNAL, 2004, 87 (03) :2086-2097
[3]   Nanopores - The art of sucking spaghetti [J].
Austin, R .
NATURE MATERIALS, 2003, 2 (09) :567-568
[4]   Continuous random network at the silica surface [J].
Bakaev, VA .
PHYSICAL REVIEW B, 1999, 60 (15) :10723-10726
[5]   On the computer simulation of a hydrophobic vitreous silica surface [J].
Bakaev, VA ;
Steele, WA .
JOURNAL OF CHEMICAL PHYSICS, 1999, 111 (21) :9803-9812
[6]   Determination of the main forces driving DNA oligonucleotide adsorption onto aminated silica wafers [J].
Balladur, V ;
Theretz, A ;
Mandrand, B .
JOURNAL OF COLLOID AND INTERFACE SCIENCE, 1997, 194 (02) :408-418
[7]   The charge of glass and silica surfaces [J].
Behrens, SH ;
Grier, DG .
JOURNAL OF CHEMICAL PHYSICS, 2001, 115 (14) :6716-6721
[8]   FORCE-FIELD PARAMETRIZATION BY WEAK-COUPLING - REENGINEERING SPC WATER [J].
BERWEGER, CD ;
VANGUNSTEREN, WF ;
MULLERPLATHE, F .
CHEMICAL PHYSICS LETTERS, 1995, 232 (5-6) :429-436
[9]   DETERMINATION OF THE CHARGE DENSITY OF SILICA SOLS [J].
BOLT, GH .
JOURNAL OF PHYSICAL CHEMISTRY, 1957, 61 (09) :1166-1169
[10]   VAN DER WAALS VOLUMES + RADII [J].
BONDI, A .
JOURNAL OF PHYSICAL CHEMISTRY, 1964, 68 (03) :441-+