Topology of molecular electron density and electrostatic potential with DAMQT

被引:22
|
作者
Lopez, Rafael [1 ]
Fernandez Rico, Jaime [1 ]
Ramirez, Guillermo [1 ]
Ema, Ignacio [1 ]
Zorrilla, David [2 ]
Kumar, Anmol [3 ]
Yeole, Sachin D. [4 ]
Gadre, Shridhar R. [3 ,5 ]
机构
[1] Univ Autonoma Madrid, Fac Ciencias, Dept Quim Fis Aplicada, Modulo 14, E-28049 Madrid, Spain
[2] Univ Cadiz, Fac Ciencias, Dept Quim Fis, Cadiz, Spain
[3] Indian Inst Technol, Dept Chem, Kanpur 208016, Uttar Pradesh, India
[4] Bhusawal Arts Sci & PO Nahata Commerce Coll, Dept Chem, Bhusawal 425201, India
[5] Savitribai Phule Pune Univ, Interdisciplinary Sch Sci Comp, Pune 411007, Maharashtra, India
关键词
Electron density; Electrostatic potential; Electric field; MED and MESP topology; Critical points search; Hellmann-Feynman forces; Density deformations; ACCURATE DIFFRACTION DATA; NET ATOMIC CHARGES; POPULATION ANALYSIS; QUANTUM TOPOLOGY; DEFORMED ATOMS; REPRESENTATION; DISTRIBUTIONS; REFINEMENTS; GRADIENT; PACKAGE;
D O I
10.1016/j.cpc.2017.01.012
中图分类号
TP39 [计算机的应用];
学科分类号
081203 ; 0835 ;
摘要
A new version of the DAMQT package incorporating topological analysis of the molecular electron density and electrostatic potential is reported. Evaluation of electron density, electrostatic potential and their first and second derivatives within DAM partition expansion is discussed, and the pertaining equations are reported. An efficient algorithm for the search of critical points, gradient paths, atomic basins and Hessian analysis is implemented using these equations. 3D viewer built in DAMQT incorporates new facilities for visualization of these properties, as well as for distance and angle measurements. Full control of projection mode is also added to the viewer in DAMQT. Some examples are provided showing the excellent performance for large molecular systems. Program summary Program Title: DAMQT_2.1 Program Files doi: http://dx.doLorgi10.17632/2rxvgbsnhx.1 Licensing provisions: GPLv3 Programming language: Fortran90 and C++ Supplementary material: Quick-start guide and User's manual in PDF format included in the package. User's manual is also accessible from the GUI. Nature of problem: Analysis and visualization of the molecular electron density, electrostatic potential, critical points, gradient paths, atomic basins, electric field and Hellmann Feynman forces on nuclei. Solution method: The method of Deformed Atorris in Molecules, reported elsewhere[1], is used for partitioning the molecular electron density into atomic fragments, Which are further expanded in spherical harmonics times radial factors. The partition is used for defining molecular density deformations and for the fast calculation of several properties associated with density, including topological analysis of electron density and electrostatic potential. Restrictions: Density must come from a LCAO calculation (any computational level) with spherical (not Cartesian) Slater or Gaussian functions. Unusual features: The program contains an OPEN statement to binary files (stream) in several files. This statement does not have a standard syntax in Fortran 90. Two possibilities are considered in conditional compilation: Intel's ifort and Fortran2003 standard. This latter is applied to compilers other than ifort (gfortran uses this one, for instance). External routines/libraries: Qt (4.8 or higher), OpenGL (3.x or higher), freeGLUT 2.8.x (C) 2017 Elsevier B.V. All rights reserved.
引用
收藏
页码:207 / 215
页数:9
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