DIADORIM: a Monte Carlo Program for Liquid Simulations including Quantum Mechanics and Molecular Mechanics (QM/MM) Facilities: Applications to Liquid Ethanol

نویسنده

  • Luiz Carlos Gomide Freitas
چکیده

Um programa computacional para a simulação de líquidos e soluções utilizando o Método de Monte Carlo com algoritmo de Metropolis (MMC) é apresentado. Neste programa a energia total de interação é dividida em clássica e quântica, QM/MM: a contribuição clássica é obtida utilizando campo de força e a contribuição quântica é calculada utilizando métodos de química quântica. As seguintes facilidades foram implementadas: (i) o programa MOPAC 6 foi incorporado como uma sub-rotina do programa principal; (ii) alternativamente, um banco de dados de energias previamente obtidas pode ser utilizado; (iii) Simulações nos ensembles isotérmico e isobárico, NpT, e canônico, NVT, podem ser realizadas; (iv) a trajetória obtida ao longo do processo de MMC pode ser armazenada em disco rígido, utilizando o formato xtc, para análise e visualização utilizando outros programas. O programa foi utilizado para calcular propriedades estruturais e termodinâmicas do líquido etanol no ensemble NpT a 1,0 atm e 298 K. Distâncias e ângulos de ligação das moléculas de etanol foram mantidos constantes, mas amostragem do ângulo diedral definido pelos átomos H-O-C-C foi efetuada. Para calcular a energia interna em função deste ângulo foram utilizados os métodos AM1, PM3 e MNDO implementados no programa MOPAC 6. Cálculos também foram efetuados utilizando energias obtidas com HF/6-31g*, MP2/6-31g* e B3LYP/6-31g*. Diferenças significativas foram observadas na distribuição dos ângulos diedrais na fase líquida. Entretanto, distribuições de energia para as interações de pares são muito semelhantes, o mesmo acontecendo com as distribuições radiais de pares. Resultados obtidos para a densidade e calor de vaporização do líquido estão em ótimo acordo com dados experimentais.

برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

منابع مشابه

Quantum Mechanics-Molecular Mechanics Model Study of some Antibiotics and Vitamins in Gas Phases: Investigation of Energy and NMR Chemical Shift

The combination of Quantum Mechanics (QM) and Molecular Mechanics (MM) methods hasbecome alternative tool for many applications that pure QM and MM could not be suitable.The QM/MM method has been used for different type of problems, for example: structuralbiology, surface phenomena, and liquid phase. In this paper we have performed these methods forsome antibiotics and vitamins and then we comp...

متن کامل

Efficient parallelization of perturbative Monte Carlo QM/MM simulations in heterogeneous platforms

A novel perturbative Monte Carlo mixed quantum mechanics (QM)/molecular mechanics (MM) approach has been recently developed to simulate molecular systems in complex environments. However, the required accuracy to efficiently simulate such complex molecular systems is usually granted at the cost of long executing times. To alleviate this problem, a new parallelization strategy of multi-level Mon...

متن کامل

Optimization and benchmarking of a perturbative Metropolis Monte Carlo quantum mechanics/molecular mechanics program.

In this work, we present an optimized perturbative quantum mechanics/molecular mechanics (QM/MM) method for use in Metropolis Monte Carlo simulations. The model adopted is particularly tailored for the simulation of molecular systems in solution but can be readily extended to other applications, such as catalysis in enzymatic environments. The electrostatic coupling between the QM and MM system...

متن کامل

Computational study of Anticancer Dasatinib for drug delivery systems

Dasatinib is a tyrosine kinase inhibitor (TKI) that is used to treat chronic myeloid leukemia and in the management of ulcerative colitis (UC) and to provide appropriate results in treatment. Dasatinib is significantly higher and faster than full cytogenetic and large molecular responses as compared to imatinib. In the recent study, using the NMR data, the frequency and thermochemical propertie...

متن کامل

Simulations of liquid ammonia based on the combined quantum mechanical/molecular mechanical (QM/MM) approach.

Two combined quantum mechanics/molecular mechanics (QM/MM) molecular dynamics simulations, namely, HF/MM and B3LYP/MM, have been performed to investigate the local structure and dynamics of liquid ammonia. The most interesting region, a sphere containing a central reference molecule and all its nearest surrounding molecules (first coordination shell), was treated by the Hartree-Fock (HF) and hy...

متن کامل

ذخیره در منابع من


  با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید

برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

عنوان ژورنال:

دوره   شماره 

صفحات  -

تاریخ انتشار 2009