Full spin and spatial symmetry adapted technique for correlated electronic hamiltonians: Application to an icosahedral cluster

One of the long standing problems in quantum chemistry had been the inability to exploit full spatial and spin symmetry of an electronic Hamiltonian belonging to a non‐Abelian point group. Here, we present a general technique which can utilize all the symmetries of an electronic (magnetic) Hamiltonian to obtain its full eigenvalue spectrum. This is a hybrid method based on Valence Bond basis and the basis of constant z‐component of the total spin. This technique is applicable to systems with any point group symmetry and is easy to implement on a computer. We illustrate the power of the method by applying it to a model icosahedral half‐filled electronic system. This model spans a huge Hilbert space (dimension 1,778,966) and in the largest non‐Abelian point group. The C₆₀ molecule has this symmetry and hence our calculation throw light on the higher energy excited states of the bucky ball. This method can also be utilized to study finite temperature properties of strongly correlated systems within an exact diagonalization approach. © 2011 Wiley Periodicals, Inc. Int J Quantum Chem, 2012     

The combinatorics of symmetry adaptation

A method is developed for obtaining the generating functions for the equivalence classes of orbitals wherein only orbitals within an equivalence class participate in symmetry adaptation. It is shown that using Williamson's combinatorial theorem the generating functions for the symmetry species contained in each equivalence class can be obtained. The method is illustrated with Porphindianion.     

On the structure of the Clifford algebra unitary group adapted states in the many‐electron correlation problem

An attempt has been made to understand the structure of the Clifford algebra unitary group adapted many‐particle states from the conventional symmetric group point of view. Emphasizing the symmetric group result that the consideration of the spin‐independent Hamiltonian matrix over the many‐particle configuration functions (CFs) entails a particular subspace of their spatial parts only, attention is confined entirely in this subspace. Question of adapting the functions therein to the unitary group subduction chain is then shown to bring out an interesting lead to the Clifford algebra unitary group approach (CAUGA) states, thus underlining the motive and the essential gains of the CAUGA formulation. © 2000 John Wiley & Sons, Inc. Int J Quant Chem 77: 607–614, 2000     

Algebraic solutions for point groups: Cubic groups G in the group chain G⊃T⊃D2⊃C2

Concise algebraic expressions of the symmetry‐adapted functions (SAFs) for both single‐valued and double‐valued representations are derived for the group chain O⊃T⊃D₂⊃C₂ and O⊃D₄⊃D₂⊃C₂, which are functions of only the quantum numbers of the respective group chain without involving any irreducible matrix elements. It is shown that the SAFs of the cubic groups G=O,T_d,T_h,O_h can be expressed in a simple way in terms of the SAFs of the group T. © 2000 John Wiley & Sons, Inc. Int J Quant Chem 76: 585–599, 2000     

Symmetry adaptation of configuration basis in MCSCF method

Summary A novel approach of space symmetry adaptation is developed for multiconfigurational (MC) functions in fully optimized reaction space and complete active space SCF calculations. The bonded tableau and two box symmetric tableau are basic representations (rep) of configuration functions; the group symmetric localized orbitals are used as one-electron orbitals. The method is proposed for generating a complete and orthonormal set of MC single excited functions. The redundant variable in MCSCF can be eliminated by symmetry adaptation.     

建立在群对称轨道(SMO)及特征组态(CD)基础上的线性分子SMO-CDCI方法

定义和讨论了线性分子的群对称轨道(SMO)及特征组态函数(CD),它能够对线性分子的分子轨道与组态函数进行简单而完全的对称分类.SMO－CDCI方法是一种高效的计算方法,大大节省了线性分子CI计算的机时与内存.     

Continuous symmetry measures for complex symmetry group

Symmetry is a fundamental property of nature, used extensively in physics, chemistry, and biology. The Continuous symmetry measures (CSM) is a method for estimating the deviation of a given system from having a certain perfect symmetry, which enables us to formulate quantitative relation between symmetry and other physical properties. Analytical procedures for calculating the CSM of all simple cyclic point groups are available for several years. Here, we present a methodology for calculating the CSM of any complex point group, including the dihedral, tetrahedral, octahedral, and icosahedral symmetry groups. We present the method and analyze its performances and errors. We also introduce an analytical method for calculating the CSM of the linear symmetry groups. As an example, we apply these methods for examining the symmetry of water, the symmetry maps of AB₄ complexes, and the symmetry of several Lennard‐Jones clusters. © 2014 Wiley Periodicals, Inc.     

Symmetry measures of the electron density

In this communication we define electronic symmetry operation and symmetry group measures, eSOM and eSGM, respectively, develop the basic algorithms to obtain them, and give some examples of the possible applications of these new computational tools. These new symmetry measures based on the electron density have been tested in an analysis of (a) the inversion symmetry for heteronuclear diatomic molecules, for the eclipsed and staggered conformations of ethane and tetrafluoroethane, and for a series of octahedral sulfur halides; (b) the reflection symmetry of three different conformers of tetrafluoroethene; and (c) the loss of C₆ symmetry along the B_2u distortion mode of benzene and an analysis of rotational symmetry for different six‐member ring heterocycles. © 2010 Wiley Periodicals, Inc. J Comput Chem, 2010     

Symmetry operation measures

We introduce a new mathematical tool for quantifying the symmetry contents of molecular structures: the Symmetry Operation Measures. In this approach, we measure the minimal distance between a given structure and the structure which is obtained after applying a selected symmetry operation on it. If the given operation is a true symmetry operation for the structure, this distance is zero; otherwise it gives an indication of how different the transformed structure is from the original one. Specifically, we provide analytical solutions for measures of all the improper rotations, S n p, including mirror symmetry and inversion, as well as for all pure rotations, C n p. These measures provide information complementary to the Continuous Symmetry Measures (CSM) that evaluate the distance between a given structure and the nearest structure which belongs to a selected symmetry point-group.     

群链R3i-D4d-C2v及dN体系在C2v对称性场中的能量矩阵

R_(3i)—D_(4d)—C_(2v)是一条群链。本文讨论如何应用D_(4d)群的标准基函作为C_(2v)群的基函来写出d~N体系在C_(2v)对称性场中各配场谱项的能量矩阵H_1。H_1中的H_(el)。部分完全可以应用D_(4d)的H_1中的H_(el)。,因而简化了计算。所得能量矩阵H_1与前文列出的H_1等价。     

Continuous Symmetry Measures. VI. The Relations Between Polyhedral Point-Group/Subgroup Symmetries

We extend our analysis of the symmetry content of the classical polyhedra [1] to the analysis of the degree of polyhedral subgroup symmetries. The quantitative levels of the hierarchical polyhedral symmetries series of O_h, D_4h and D_2h of hexacoordinated structures, as well as the relations between them, serve as an example. A distinction is made between two types of measures: quantitative evaluation of the degree of symmetry, and quantitative evaluation of the degree of content of a reference shape.     

Tetrahedral Fulleroids

Fulleroids are cubic convex polyhedra with faces of size 5 or greater. They are suitable models of carbon molecules. In this paper sufficient and necessary conditions for existence of fulleroids of tetrahedral symmetry types and with pentagonal and n-gonal faces only depending on number n are presented. Either infinite series of examples are found to prove existence or nonexistence is proved using symmetry invariants.     

Fuzzy space periodic symmetries for polyynes and their cyano-compounds

In our previous papers on the molecular fuzzy symmetry, we analyzed the basic characterization in connection with the fuzzy point group symmetry. In this paper, polyynes and their cyano-derivatives are chosen as a prototype of linear molecules to probe the one-dimensional fuzzy space group of parallel translation. It is notable that the space group is an infinite group whereas the point group is a finite group. For the fuzzy point group, we focus on considering the fuzzy characterization introduced due to the difference of atomic types in the monomer through point symmetry transformation in the beginning; and then we consider the difference between the infinity of space group and the finite size of real molecules. The difference between the point group and the space group lies in the translation symmetry transformation. This is the theme of this work. Starting with a simple case, we will only analyze the one-dimensional translation transformation and space fuzzy inversion symmetry transformation in this paper. The theory of the space group is often used in solid state physics; and some of its conclusions will be referred to. More complicated fuzzy space groups will be discussed in our future papers.     

Symmetrizer: Algorithmic determination of point groups in nearly symmetric molecules

Symmetry is an extremely useful and powerful tool in computational chemistry, both for predicting the properties of molecules and for simplifying calculations. Although methods for determining the point groups of perfectly symmetric molecules are well‐known, finding the closest point group for a “nearly” symmetric molecule is far less studied, although it presents many useful applications. For this reason, we introduce Symmetrizer, an algorithm designed to determine a molecule's symmetry elements and closest matching point groups based on a user‐adjustable tolerance, and then to symmetrize that molecule to a given point group geometry. In contrast to conventional methods, Symmetrizer takes a bottom‐up approach to symmetry detection by locating all possible symmetry elements and uses this set to deduce the most probable point groups. We explain this approach in detail, and assess the flexibility, robustness, and efficiency of the algorithm with respect to various input parameters on several test molecules. We also demonstrate an application of Symmetrizer by interfacing it with the WebMO web‐based interface to computational chemistry packages as a showcase of its ease of integration. © 2012 Wiley Periodicals, Inc.     

Symmetry calculation for molecules and transition states

The symmetry of molecules and transition states of elementary reactions is an essential property with important implications for computational chemistry. The automated identification of symmetry by computers is a very useful tool for many applications, but often relies on the availability of three‐dimensional coordinates of the atoms in the molecule and hence becomes less useful when these coordinates are a priori unavailable. This article presents a new algorithm that identifies symmetry of molecules and transition states based on an augmented graph representation of the corresponding structures, in which both topology and the presence of stereocenters are accounted for. The automorphism group order of the graph associated with the molecule or transition state is used as a starting point. A novel concept of label‐stereoisomers, that is, stereoisomers that arise after labeling homomorph substituents in the original molecule so that they become distinguishable, is introduced and used to obtain the symmetry number. The algorithm is characterized by its generic nature and avoids the use of heuristic rules that would limit the applicability. The calculated symmetry numbers are in agreement with expected values for a large and diverse set of structures, ranging from asymmetric, small molecules such as fluorochlorobromomethane to highly symmetric structures found in drug discovery assays. The new algorithm opens up new possibilities for the fast screening of the degree of symmetry of large sets of molecules. © 2014 Wiley Periodicals, Inc.     

Pseudosymmetry analysis of molecular orbitals

We introduce a pseudosymmetry analysis of molecular orbitals by means of the newly proposed irreducible representation measures. To do that we define first what we consider as molecular pseudosymmetry and the relationships of this concept with those of approximate symmetry and quasisymmetry. We develop a general algorithm to quantify the pseudosymmetry content of a given object within the framework of the finite group algebra. The obtained mathematical expressions are able to decompose molecular orbitals by means of the irreducible representations of any reference symmetry point group. The implementation and usefulness of the pseudosymmetry analysis of molecular orbitals is demonstrated in the study of σ and π orbitals in planar and nonplanar polycyclic aromatic hydrocarbons and the t_2g and e_g character of the d‐orbitals in the [FeH₆]^3? anion in its high spin state along the Bailar twist pathway. © 2013 Wiley Periodicals, Inc.     

Finite group theory for large systems. 3. Symmetry-generation of reduced matrix elements for icosahedral C(20) and C(60) molecules

This paper uses symmetry-generation to simplify the determination of Hamiltonian reduced matrix elements. It is part of a series on using computers to apply finite group theory to quantum mechanical calculations on large systems. Symmetry-generation is an expression of the whole molecule as a sum of symmetry transformations on a smaller reference structure. Then on a suitably-conditioned symmetry-adapted basis, the reduced matrix elements of the Hamiltonian are averages of certain elements of the simpler reference structure matrix. The smaller the reference structure, the greater is the computational savings. Single atom reference structures are used here for the Hückel treatment of icosahedral C(20) and C(60) fullerenes. The analytical power of this approach is illustrated by determining the two bond lengths of C(60) from spectral data.     

Quantitative symmetry and chirality--a fast computational algorithm for large structures: proteins, macromolecules, nanotubes, and unit cells

Symmetry is one of the most fundamental properties of nature and is used to understand and investigate physical properties. Classically, symmetry is treated as a binary qualitative property, although other physical properties are quantitative. Using the continuous symmetry measure (CSM) methodology one can quantify symmetry and correlate it quantitatively to physical, chemical, and biological properties. The exact analytical procedures for calculating the CSM are computationally expensive and the calculation time grows rapidly as the structure contains more atoms. In this article, we present a new method for calculating the CSM and the related continuous chirality measure (CCM) for large systems. The new method is much faster than the full analytical procedures and it reduces the calculation time dependency from N! to N(2), where N is the number of atoms in the structure. We evaluate the cost of the applied approximations, estimate the error of the method, and show that deviations from the analytical solutions are within an error of 2%, and in many cases even less. The method is applicable at the moment for the cyclic symmetry point groups- C(i), C(s), C(n), and S(n), and therefore it can be used also for chirality measures, which are the minimal of the S(n) measures. We demonstrate the application of the method for large structures across chemistry: proteins, macromolecules, nanotubes, and large unit cells of crystals.     

Analytical methods for calculating Continuous Symmetry Measures and the Chirality Measure

We provide analytical solutions of the Continuous Symmetry Measure (CSM) equation for several symmetry point-groups, and for the associated Continuous Chirality Measure (CCM), which are quantitative estimates of the degree of a symmetry-point group or chirality in a structure, respectively. We do it by solving analytically the problem of finding the minimal distance between the original structure and the result obtained by operating on it all of the operations of a specific G symmetry point group. Specifically, we provide solutions for the symmetry measures of all of the improper rotations point group symmetries, S(n), including the mirror (S(1), C(S)), inversion (S(2), C(i)) as well as the higher S(n)s (n > 2 is even) point group symmetries, for the rotational C(2) point group symmetry, for the higher rotational C(n) symmetries (n > 2), and finally for the C(nh) symmetry point group. The chirality measure is the minimal of all S(n) measures.