Molecular Modeling
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Molecular Modeling . Molecular Modeling: Visualizations & Predictions. Numerical Methods Integral Method Semi-Empirical MO-SCF Methods Approximate MO Methods  Ab Initio Methods. H Ψ = E Ψ H = Hamiltonian. H is an operator corresponding to the total energy of the system.

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Molecular modeling visualizations predictions
Molecular Modeling: Visualizations & Predictions

  • Numerical Methods

  • Integral Method

  • Semi-Empirical MO-SCF Methods

  • Approximate MO Methods 

  • Ab Initio Methods


HΨ = EΨ

H = Hamiltonian

His an operator corresponding to the total energy of the system.

Kinetic + potential energy


LCAO: linear combination of atomic orbitals

NDDO: neglect of diatomic differential overlap


The cost of calculations (cpu time required) increases rapidly as the basis set size is increased and as the amount of electron correlation increases.


Web mo http butane cabrillo edu username your last name password dvc id number
Web MOhttp://butane.cabrillo.edu/Username: your last namepassword: DVC id number

  • Web MO: undergraduate molecular modeling college consortium

  • Web-based, on-line accessible molecular modeling software, Graphic User Interface (GUI), free to DVC students, no cpu charges

  • Uses MOPAC 7, GAMESS 2000, and GAUSSIAN


Web mo http butane cabrillo edu username your last name password dvc id
Web MOhttp://butane.cabrillo.edu/Username: your last namepassword: DVC id#

Output:

  • Dipole moment

  • Bond Orders

  • Partial Charges

  • Vibrational Modes

  • Molecular Orbitals

  • Ultraviolet-Visible-Infrared Graphics

  • NMR Chemical Shifts


Molecular Orbital Theory

(Review)

http://chemconnections.org/general/movies/html_swf/MolecularOrbitalTheory/MolecularOrbitalTheory.html


Molecular orbital theory
Molecular Orbital Theory

  • Valence electrons are delocalized in molecular orbitals spread over the entire molecule.

  • First Principle: The total # of molecular orbitals equals the number of atomic orbitals contributed by the atoms that have combined.

  • Second Principle: The bonding molecular orbitals are lower in energy than the parents orbitals and are more symmetrical (fewer nodes) than the antibonding orbitals which are higher in energy.

  • Third Principle: The electrons of the molecule are assigned to orbitals of successively higher energy according to the Pauli exclusion principle and Hund’s rule.


Molecular orbital theory1
Molecular Orbital Theory

1. # MO’s = # atomic orbitals used.

2. Bonding MO is lower in energy than atomic orbitals. Antibonding MO is higher.

3. Electrons assigned to MO’s of higher and higher energy.

Bond order = 1/2 [# e- in bonding MOs

- # e- in antibonding MOs]


Analogy between Light Waves and

Atomic Wave Functions


Question
QUESTION

When comparing the M.O. theory of bonding to the Localized Electron model which of the following would be an incorrect claim?

For a molecule of H2; MO1 = 1s A + 1s B; MO2 = 1s A – 1s B

The molecular orbitals (both bonding and antibonding) still have a maximum electron occupancy of two just as the localized orbitals.

In H2, the bonding orbital (MO1) is lower in energy than the 1s orbital of hydrogen.

Although not used in molecular bonding, the 1s orbital of hydrogen is present in H2.




Single bond: C-C Bond Order =1

Bond Length: C-C > C=C > CΞC

Bond Energy: C-C < C=C < CΞC



S and bonding in c 2 h 4 double bond c c bond order 2
sand π Bonding inC2H4Double bond: C=C Bond Order =2

Bond Length: C-C > C=C > CΞC

Bond Energy: C-C < C=C < CΞC



S and bonding in c 2 h 2 triple bond c c bond order 3
sand π Bonding inC2H2Triple bond: CΞC Bond Order =3

Bond Length: C-C > C=C > CΞC

Bond Energy: C-C < C=C < CΞC


Consequences of multiple bonding
Consequences of Multiple Bonding

There is restricted rotation around C=C bond.


Anti-bonding Orbital

Lumo: Lowest Unoccupied Molecular Orbital


Question1
QUESTION

Consider the two molecular orbitals of benzene that follow.

Which statement is correct?

MO1 MO2

MO1 and MO2 are likely bonding orbitals.

MO1 and MO2 are likely antibonding orbitals.

MO1 is likely a bonding orbital and MO2 is likely an antibonding orbital.

MO1 is likely an antibonding orbital and MO2 is likely a bonding orbital


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