lecturenotes_2
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Molecular Modelling Lecture NotesTRANSCRIPT
Chapter 2
Some Examples
2.1 Hydrogen Atom
Hydrogen atom is an exactly solvable problem in Quantum Mechanics. As the solu-
tions of H atoms are basis for us to solve many electron atoms and molecules, let us
look at them briefly. For detailed derivations, I recommend the book of Levine, Quan-
tum Chemistry or McQuarrie, Quantum Chemistry. These books are available in our
Library.
The electronic Hamiltonian of H atom is
H = −12∇2 − 1
r(2.1)
where the first term is the kinetic energy of the electron, and the second term is the
nucleus–electron repulsion. Note that we are using atomic units here. Now, the partial
differential equation,
HΨ(x, y, z) = EΨ(x, y, z) (2.2)
1
2 CHAPTER 2. SOME EXAMPLES
can not be solved in Cartesian coordinates analytically. This is because, the technique of
separation of variables cannot be used here due to the term 1/r, as r =√
x2 + y2 + z2.1
Fortunately, this problem can be solved if we change the coordinates from Cartesian to
spherical polar coordinates. In spherical polar coordinates the three coordinates used
are (r, θ, φ): see figure below.
x
y
θ
φ
zr
X
Y
Z
(x,y,z)
Figure 2.1: Geometric definition of spherical polar coordinates
Spherical polar coordinates and Cartesian coordinates are related through the fol-
lowing relationships:
x = r sin θ cos φ (2.3)
y = r sin θ sin φ (2.4)
z = r cos θ (2.5)
Thus,
r =√
x2 + y2 + z2 (2.6)
θ = arccos
(z√
x2 + y2 + z2
)(2.7)
φ = arctan(y
x
)(2.8)
1I recommend you to remember the separation of variables techniques from Mathematics text books
2.1. HYDROGEN ATOM 3
Since the partial differential equation (i.e. SE for H atom) is separable in spherical
polar coordinates,
Ψn,l,m(r, θ, φ) = Rn,l(r) Sl(θ) Tm(φ) = Rn,lYl,m(θ, φ) (2.9)
where R(r), S(θ), and T(φ) are solutions of partial differential equations separated in
r, θ, and φ coordinates respectively. For details of these solutions, I recommend you
to read the aforementioned textbooks on Quantum Chemistry. Here, n, l, m are the
quantum numbers.
n = 0, 1, 2, · · · (2.10)
l = 0, 1, · · · , n− 1 (2.11)
m = −l,−l + 1, · · · , 0, · · · , l − 1, l (2.12)
See the Table 1, and Table 2 for radial and spherical harmonic solutions of hydrogen
atoms.
n l Orbital Rn,l(r)
1 0 1s Z3/22 exp(−ρ/2)
2 0 2s Z3/2(1/8)1/2 (2− ρ) exp(−ρ/2)
1 2p Z3/2(1/24)1/2ρ exp(−ρ/2)
3 0 3s Z3/2(1/243)1/2(6− 6ρ + ρ2) exp(−ρ/2)
1 3p Z3/2(1/486)1/2(4− ρ)ρ exp(−ρ/2)
2 3d Z3/2(1/2430)1/2ρ2 exp(−ρ/2)
Table 1: Radial solutions of H atom in atomic units; Here ρ = (2Z/n)r.
Use Mathematica and visualize the atomic orbitals in Cartesian coordinates (by plot-
ting using the functions given the above two tables). Understand the sign of wavefunc-
4 CHAPTER 2. SOME EXAMPLES
l m Yl,m(θ, φ)
0 0(
14π
)1/2
1 0( 3
4π
)1/2cos θ
±1 ∓( 3
8π
)1/2sin θ exp(±iφ)
2 0( 5
16π
)1/2(3 cos2 θ − 1)
±1 ∓(
158π
)1/2cos θ sin θ exp(±iφ)
±2(
1532π
)1/2sin2 θ exp(±2iφ)
Table 2: Spherical harmonics part of H atom wavefunction
tions,and radial–angular nodes. Also, understand how the shapes of the orbitals are
formed by these functions.
Energy of a hydrogen atom is
En = −12
Z2
n2 a.u. (2.13)
Note that for m > 0, atomic orbitals are complex. However, we can create real
wavefunction from suitable linear combination of degenerate atomic orbitals. For e.g.
1√2(2p+1 + 2p−1) = constant · exp(−Zr/2) r sin θ cos φ
= constant · exp(−Zr/2) x ≡ 2px (2.14)1√2i
(2p+1 − 2p−1) = constant · exp(−Zr/2) r sin θ sin φ
= constant · exp(−Zr/2) y ≡ 2py (2.15)
Try yourself to construct the real 3d functions 3dxz, 3dyz, 3dxy, and 3dx2−y2 by your-
self. Plot all the 3d functions in Mathematica.
2.2. HE ATOM 5
2.2 He atom
Electronic Hamiltonian:
H = −12∇2
1 −12∇2
2 −2r1− 2
r2+
1r12
(2.16)
where the first two terms are kinetic energies of the two electrons (1 and 2), the third
and the fourth terms are the nuclear (with Z = 2) – electron attraction, and the last
term is the electron electron repulsion. We can rewrite this as,
H = H1 + H2 +1
r12(2.17)
where H1 are H2 Hamiltonian operators for hydrogen–like system with Z = 2 corre-
sponding to electron 1 and 2.
SE for this problem is not solvable exactly, due to the 1/r12 term. Thus we employ
approximate techniques here. If we ignore the 1/r12 term, the problem is exactly solv-
able, and it is clear (without solving) that the solution is 1s(1)1s(2) for the ground state.
Let us approximate the actual (ground state) wave function as
Ψ(1, 2) ≈ 1s(1)1s(2)
This approximation is called the independent electron approximation. Without doing any
approximation to the Hamiltonian, we can compute the approximate energy of the
Helium ground state:
E =
⟨1s(1)1s(2)
∣∣∣∣H1 + H2 +1
r12
∣∣∣∣ 1s(1)1s(2)⟩
(2.18)
=⟨1s(1)
∣∣H1∣∣ 1s(1)
⟩〈1s(2)|1s(2)〉+ 〈1s(1)|1s(1)〉
⟨1s(2)
∣∣H2∣∣ 1s(2)
⟩+⟨
1s(1)1s(2)∣∣∣∣ 1r12
∣∣∣∣ 1s(1)1s(2)⟩
(2.19)
= E1s × 1 + 1× E1s + J1s 1s (2.20)
= 2E1s + J1s 1s (2.21)
Here
E1s = −12
22
1= −2 a.u. (2.22)
6 CHAPTER 2. SOME EXAMPLES
Figure 2.2: Pictorial representation of Columbic interactions within the J integral
The J1s 1s is called the Coulomb integral as it is the total Columbic interaction between
1s charge density of electron 1 and 2:
J1s1s =
⟨1s(1)1s(2)
∣∣∣∣ 1r12
∣∣∣∣ 1s(1)1s(2)⟩
(2.23)
=∫ ∫
dr1 dr21s(1)∗1s(2)∗1
r121s(1)1s(2) (2.24)
=∫ ∫
dr1 dr2 |1s(1)|2 1r12|1s(2)|2 (2.25)
See also the Figure 2.2 The J integral can be evaluated
J1s 1s =58
Z = 1.25 a.u. (2.26)
Thus, with the independent electron approximation, and using 1s functions, we get
the energy of He ground state as
E = 2×−2a.u. + 1.25a.u. = −2.75a.u.
Experimentally determined value is −2.9 a.u.. Thus, a serious error is present in our
approximation .
We can do an improvement by applying the variational principle. Let us define our
trial wave function as
Ψ(1, 2) = 1s(1)1s(2)
2.2. HE ATOM 7
with
1s(1) =1√π
ζ3/2 exp(−ζr)
The above equation is identical to the true 1s atomic orbital of hydrogen atom, but with
Z = ζ. If we use this, the “trial” energy becomes
E = ζ2 − 2ζZ +58
ζ
with Z = 2 for our case. We can now minimize2 E by varying ζ: minimum will have
∂E∂ζ
= 0
In this way we can see that we get the lowest energy as −2.8 a.u. for ζ = 1.7. This
estimate of energy is better than with ζ = 2.
Why is ζ < 2? This is because electrons screen the nuclear charge, and thus the
effective interaction of an electron with the nucleus is lower than for the one electron
case.
2.2.1 Electronic Spins
According to Pauli’s principle by interchanging the electron labels of two electrons,
wave function should change its sign. This is the property of a wave function describing
electrons.
P12Ψ(1, 2) = −Ψ(1, 2)
Here P12 exchanges the labels 1 and 2. This is called the antisymmetry property of a
wave function. Clearly, our approximate wave function for He atom 1s(1)1s(2) is not
antisymmetric.
We are now introducing the spin functions to the orbitals, which describes the elec-
tronic spin angular momentum. Electrons with “up” spin in a 1s orbital can be repre-2because of the variational principle
8 CHAPTER 2. SOME EXAMPLES
sented by 1s(1)α(1), and the one with “down” spin can be written as 1s(1)β(1) . Spin
functions are orthonormal:
〈α|α〉 = 〈β|β〉 = 1 (2.27)
〈α|β〉 = 〈β|α〉 = 0 (2.28)
For He ground state, we have 1s ��. Thus
Ψ(1, 2) = 1s(1)α(1) 1s(2)β(2)
However, the above equation cannot be correct as electrons are indistinguishable, and
it not correct to say that electron with label 1 is α spin and with label 2 is β spin.
To include electron indistinguishability to the wavefunction, we can write the above
equation as
Ψ(1, 2) = 1s(1)1s(2)1√2[α(1)β(2)− β(1)α(2)] (2.29)
The above equation is clearly antisymmetric. Here 1s(1)1s(2) is the spatial part of the
wavefunction, and the rest is the spin dependent part.
I have not considered 1√2[α(1)β(2) + β(1)α(2)] as this will make the wavefunction
symmetric, and will not follow Pauli’s principle.
We can also rewrite Eqn. 2.29 as a determinant
Ψ(1, 2) =1√2
∣∣∣∣∣∣∣∣∣1s(1)α(1) 1s(1)β(1)
1s(2)α(2) 1s(2)β(2)
∣∣∣∣∣∣∣∣∣ (2.30)
This determinant is called the Slater determinant. This determinant clearly introduces
the antisymmetric property (exchange of any two rows will change the sign of wave
function by -1). Also Pauli’s exclusion principle is satisfied (any two columns with
same entries will make the determinant zero). For an n electron system, we can write
2.2. HE ATOM 9
the n–electron wave function as
Ψ(1, . . . , n) =1√n!
∣∣∣∣∣∣∣∣∣∣∣∣∣∣
χ1(1) · · · χn(1)
... . . . ...
χ1(n) · · · χn(n)
∣∣∣∣∣∣∣∣∣∣∣∣∣∣(2.31)
where χ1, · · · , χn are the spin orbitals.
χi(r, ω) = φi(r)g(ω)
where φ(r) is the spatial part, and g(ω) is the spin function (either α or β) and ω is the
spin–coordinate (which is just arbitrary). Let us now try for the Be ground state,
Ψ(1, 2, 3, 4) =1√4!
∣∣∣∣∣∣∣∣∣∣∣∣∣∣∣∣∣∣∣
1s(1)α(1) 1s(1)β(1) 2s(1)α(1) 2s(1)β(1)
1s(2)α(2) 1s(2)β(2) 2s(2)α(2) 2s(2)β(2)
1s(3)α(3) 1s(3)β(3) 2s(3)α(3) 2s(3)β(3)
1s(4)α(4) 1s(4)β(4) 2s(4)α(4) 2s(4)β(4)
∣∣∣∣∣∣∣∣∣∣∣∣∣∣∣∣∣∣∣
(2.32)
Note: here I have used 1s and 2s functions as the spatial part. But this has to be
substituted with other functions to get better energy, as we have seen for He ground
state. For brevity, we can slater determinant as (there are many other short forms used
in various text books)
Ψ(1, · · · , n) = |χ1 · · · χn| (2.33)
For Be, we can write a short form
Ψ(1, · · · , n) =∣∣1s 1s 2s 2s
∣∣ (2.34)
Here 1s means spatial part is 1s, and spin part is the β function; otherwise it can be the
α function.
Note that the Hamiltonian operators are not having any spin terms, and thus the
10 CHAPTER 2. SOME EXAMPLES
energy is influenced only by the spatial part of the wave function. Let us check it:⟨1s(1)1s(2)
1√2[α(1)β(2)− β(1)α(2)]
∣∣∣∣H1 + H2 +1
r12
∣∣∣∣ 1s(1)1s(2)
× 1√2[α(1)β(2)− β(1)α(2)]
⟩=
⟨1s(1)1s(2)
∣∣∣∣H1 + H2 +1
r12
∣∣∣∣ 1s(1)1s(2)⟩×⟨
1√2[α(1)β(2)− β(1)α(2)]
∣∣∣∣ 1√2[α(1)β(2)− β(1)α(2)
]⟩=
⟨1s(1)1s(2)
∣∣∣∣H1 + H2 +1
r12
∣∣∣∣ 1s(1)1s(2)⟩×
12(< α(1)|α(1) >< β(2)|β(2) > − < α(1)|β(1) >< α(2)|β(2) >
− < α(1)|β(1) >< α(2)|β(2) > + < β(1)|β(1) >< α(2)|α(2) >)
=
⟨1s(1)1s(2)
∣∣∣∣H1 + H2 +1
r12
∣∣∣∣ 1s(1)1s(2)⟩×
12(1− 0− 0 + 1)
=
⟨1s(1)1s(2)
∣∣∣∣H1 + H2 +1
r12
∣∣∣∣ 1s(1)1s(2)⟩
(2.35)
Eqn. ?? is equal to Eqn. ??, proving this.
Then what is the role of these spin functions? Should we ever worry about it?