Molecular orbital molecules

IMOMM Integrated molecular orbital/molecule mechanics... 

The molecular orbital molecule-surface interaction generates new electronic states that can be resonant with light laser at lower frequencies than the states of either the molecule or the surface. This is the so called chemical enhancement, the other SERS important mechanism (12). The results presented here demonstrate that the signals of the Raman spectrum of the target nitroaromatic HE TNT and DNT are enhanced strongly by contact with the metal oxide particles. Since Raman signal enhancement is clear in this experiment, other mechanisms could be responsible for the enhancement factors found. 

Molecules. The electronic configurations of molecules can be built up by direct addition of atomic orbitals (LCAO method) or by considering molecular orbitals which occupy all of the space around the atoms of the molecule (molecular orbital method). 

The carbon atom has a share in eight electrons (Ne structure) whilst each hydrogen atom has a share in two electrons (He structure). This is a gross simplification of covalent bonding, since the actual electrons are present in molecular orbitals which occupy the whole space around the five atoms of the molecule. 

Flehre W J, Ditchfieid R and Popie J A 1972 Self-consistent molecular-orbital methods XII. Further extension of Gaussian-type basis sets for use in molecular orbital studies of organic molecules J. Chem. Phys. 56 2257-61 Flariharan P C and Popie J A 1973 The influence of polarization functions on molecular orbital hydrogenation energies Theoret. Chim. Acta. 28 213-22... 

Shephard M J and Paddon-Row M N 1996 Conformational analysis of Cgg ball and chain molecules a molecular orbital study Aust. J. Chem. 49 395-403... 

Boranes are typical species with electron-deficient bonds, where a chemical bond has more centers than electrons. The smallest molecule showing this property is diborane. Each of the two B-H-B bonds (shown in Figure 2-60a) contains only two electrons, while the molecular orbital extends over three atoms. A correct representation has to represent the delocalization of the two electrons over three atom centers as shown in Figure 2-60b. Figure 2-60c shows another type of electron-deficient bond. In boron cage compounds, boron-boron bonds share their electron pair with the unoccupied atom orbital of a third boron atom [86]. These types of bonds cannot be accommodated in a single VB model of two-electron/ two-centered bonds. 

The JME Editor is a Java program which allows one to draw, edit, and display molecules and reactions directly within a web page and may also be used as an application in a stand-alone mode. The editor was originally developed for use in an in-house web-based chemoinformatics system but because of many requests it was released to the public. The JME currently is probably the most popular molecule entry system written in Java. Internet sites that use the JME applet include several structure databases, property prediction services, various chemoinformatics tools (such as for generation of 3D structures or molecular orbital visualization), and interactive sites focused on chemistry education [209]. 

HMO theory is named after its developer, Erich Huckel (1896-1980), who published his theory in 1930 [9] partly in order to explain the unusual stability of benzene and other aromatic compounds. Given that digital computers had not yet been invented and that all Hiickel s calculations had to be done by hand, HMO theory necessarily includes many approximations. The first is that only the jr-molecular orbitals of the molecule are considered. This implies that the entire molecular structure is planar (because then a plane of symmetry separates the r-orbitals, which are antisymmetric with respect to this plane, from all others). It also means that only one atomic orbital must be considered for each atom in the r-system (the p-orbital that is antisymmetric with respect to the plane of the molecule) and none at all for atoms (such as hydrogen) that are not involved in the r-system. Huckel then used the technique known as linear combination of atomic orbitals (LCAO) to build these atomic orbitals up into molecular orbitals. This is illustrated in Figure 7-18 for ethylene. 

HOMO and LLMO, also known as Frontier orbitals, are important in in tcrprcLitig results of a calculation (see Frontier Molecular Orbitals on page 141). You can use these m olecular orbiLals to comptiLe the lowest excited electronic singlet state of molecules and the ground states of radicals. 

The first term in eludes the electrostatic attraction s and repulsions between the net charges on pairs of atoms, one from each molecule. The second in volves in teraction s between occupied and vacant molecular orbitals on the two molecules. The hypothesis is that the reaction proceeds in a way to produce the most favorable... 

I iiis can be helpful because it may enable more meaningful sets of orbitals to be generated from the original solutions. Molecular orbital calculations may give solutions that are nioared out throughout the entire molecule, whereas we may find orbitals that are Im alised in specific regions (e.g. in the bonds between atoms) to be more useful. 

In our treatment of molecular systems we first show how to determine the energy for a given iva efunction, and then demonstrate how to calculate the wavefunction for a specific nuclear geometry. In the most popular kind of quantum mechanical calculations performed on molecules each molecular spin orbital is expressed as a linear combination of atomic orhilals (the LCAO approach ). Thus each molecular orbital can be written as a summation of the following form ... 

Tie hydrogen molecule is such a small problem that all of the integrals can be written out in uU. This is rarely the case in molecular orbital calculations. Nevertheless, the same irinciples are used to determine the energy of a polyelectronic molecular system. For an ([-electron system, the Hamiltonian takes the following general form ... 

In our hydrogen molecule calculation in Section 2.4.1 the molecular orbitals were provided as input, but in most electronic structure calculations we are usually trying to calculate the molecular orbitals. How do we go about this We must remember that for many-body problems there is no correct solution we therefore require some means to decide whether one proposed wavefunction is better than another. Fortunately, the variation theorem provides us with a mechanism for answering this question. The theorem states that the... 

Ihe one-electron orbitals are commonly called basis functions and often correspond to he atomic orbitals. We will label the basis functions with the Greek letters n, v, A and a. n the case of Equation (2.144) there are K basis functions and we should therefore xpect to derive a total of K molecular orbitals (although not all of these will necessarily 3e occupied by electrons). The smallest number of basis functions for a molecular system vill be that which can just accommodate all the electrons in the molecule. More sophisti- ated calculations use more basis functions than a minimal set. At the Hartree-Fock limit he energy of the system can be reduced no further by the addition of any more basis unctions however, it may be possible to lower the energy below the Hartree-Fock limit ay using a functional form of the wavefunction that is more extensive than the single Slater determinant. 

A Hbasis functions provides K molecular orbitals, but lUJiW of these will not be occupied by smy electrons they are the virtual spin orbitals. If u c were to add an electron to one of these virtual orbitals then this should provide a means of calculating the electron affinity of the system. Electron affinities predicted by Konpman s theorem are always positive when Hartree-Fock calculations are used, because fhe irtucil orbitals always have a positive energy. However, it is observed experimentally that many neutral molecules will accept an electron to form a stable anion and so have negative electron affinities. This can be understood if one realises that electron correlation uDiild be expected to add to the error due to the frozen orbital approximation, rather ihan to counteract it as for ionisation potentials. 

The charge transfer term arises from the transfer of charge (i.e. electrons) from occupied molecular orbitals on one molecule to unoccupied orbitals on the other molecule. This contribution is calculated as the difference between the energy of the supermolecule XY when this charge transfer is specifically allowed to occur, and an analogous calculation in which it is not. 

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