Molecular dynamics simulation of thermal characteristics of globulin protein dissolved in dilute salt solutions using equilibrium and non-equilibrium methods

被引:1
作者
Peng, Hao [1 ]
Dang, Leping [1 ]
Toghraie, Davood [2 ]
机构
[1] Tianjin Univ, Sch Chem Engn & Technol, Tianjin 300072, Peoples R China
[2] Islamic Azad Univ, Dept Mech Engn, Khomeinishahr Branch, Khomeinishahr, Iran
关键词
Globulin protein; Molecular dynamics simulation; Thermal conductivity; Green-Kubo procedure; IRREVERSIBLE-PROCESSES; FORCE-FIELD; CONDUCTIVITY; MECHANICS;
D O I
10.1016/j.jtherbio.2023.103505
中图分类号
Q [生物科学];
学科分类号
07 ; 0710 ; 09 ;
摘要
The aggregation of 7S globulin protein (7SGP) in mature soybean (Glycine max) seeds is an extracellular matrix protein. This atomic compound can be detected in various food products. So, this protein structure's thermal properties (TP) can be important for various food industry products. Molecular Dynamics (MD) simulations describe the atomic arrangement of this protein and forecast TP of them in various initial conditions. The present computational work estimates the 7SGP thermal behavior (TB) by equilibrium (E) and non-equilibrium (NE) methods. In these two methods, the 7SGP is represented using DREIDING interatomic potential. MD outputs predicted 0.59 and 0.58 W/mK values for thermal conductivity (TC) of 7SGP at T0 = 300 K and P0 = 1 bar using E and NE methods. Furthermore, computational results represented that the pressure (P) and temperature (T) are significant factors for the TB of 7SGP. Numerically, TC of 7SGP reaches 0.68 W/mK, 0.52 W/mK by T/P increasing. MD results predicted the interaction energy (IE) between 7SGP and aqueous media could fluctuate between-110.64 and 161.53 kcal/mol by the change in T/P after t = 10 ns?These results should be supposed to design new methods for various food industry purposes, such as producing and processing edible oils.
引用
收藏
页数:7
相关论文
共 55 条
[1]   STUDIES IN MOLECULAR DYNAMICS .1. GENERAL METHOD [J].
ALDER, BJ ;
WAINWRIGHT, TE .
JOURNAL OF CHEMICAL PHYSICS, 1959, 31 (02) :459-466
[2]  
[Anonymous], 2005, PATIENTS, V3, P12
[3]   Calculation of the thermal conductivity of human serum albumin (HSA) with equilibrium/non-equilibrium molecular dynamics approaches [J].
Ashkezari, Abbas Zarenezhad ;
Jolfaei, Nitasha Adavoodi ;
Jolfaei, Niyusha Adavoodi ;
Hekmatifar, Maboud ;
Toghraie, Davood ;
Sabetvand, Roozbeh ;
Rostami, Sara .
COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE, 2020, 188
[4]   Time Integrators for Molecular Dynamics [J].
Bou-Rabee, Nawaf .
ENTROPY, 2014, 16 (01) :138-162
[5]   Implementing molecular dynamics on hybrid high performance computers - Particle-particle particle-mesh [J].
Brown, W. Michael ;
Kohlmeyer, Axel ;
Plimpton, Steven J. ;
Tharrington, Arnold N. .
COMPUTER PHYSICS COMMUNICATIONS, 2012, 183 (03) :449-459
[6]   Implementing molecular dynamics on hybrid high performance computers - short range forces [J].
Brown, W. Michael ;
Wang, Peng ;
Plimpton, Steven J. ;
Tharrington, Arnold N. .
COMPUTER PHYSICS COMMUNICATIONS, 2011, 182 (04) :898-911
[7]   ROTATIONAL MAGNETIC MOMENTS [J].
CEDERBERG, JW ;
RAMSEY, NF ;
ANDERSON, CH .
PHYSICAL REVIEW A-GENERAL PHYSICS, 1964, 136 (4A) :A960-&
[8]   Phase transitions in small systems: Microcanonical vs. canonical ensembles [J].
Dunkel, Joern ;
Hilbert, Stefan .
PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS, 2006, 370 (02) :390-406
[9]  
Evans DJ, 2007, STATISTICAL MECHANICS OF NONEQUILIBRIUM LIQUIDS, P1
[10]  
Fermi E., 1955, COLLECT PAPERS, V2, P977