An Introduction to Quantum Chemistry and Potential Energy Surfaces. Benjamin G. Levine
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1 An Introduction to Quantum Chemistry and Potential Energy Surfaces Benjamin G. Levine
2 This Week s Lecture Potential energy surfaces What are they? What are they good for? How do we use them to solve chemical problems?
3 What do quantum chemists do? Approximate the electronic structures of molecules Extract useful chemical information from them
4 Potential energy surface (PES) defined The PES, E(R), is the energy of a molecule as a function of the locations of its nuclei, R.
5 Potential energy surface (PES) defined The PES, E(R), is the energy of a molecule as a function of the locations of its nuclei, R. Distance
6 Potential energy surface (PES) defined The PES, E(R), is the energy of a molecule as a function of the locations of its nuclei, R. Distance Energy Distance
7 Potential energy surface (PES) defined The PES, E(R), is the energy of a molecule as a function of the locations of its nuclei, R. Distance Energy Distance
8 Potential energy surface (PES) defined The PES, E(R), is the energy of a molecule as a function of the locations of its nuclei, R. Distance Energy Distance
9 Potential energy surface (PES) defined The PES, E(R), is the energy of a molecule as a function of the locations of its nuclei, R. Distance Energy Distance
10 Potential energy surface (PES) defined The PES, E(R), is the energy of a molecule as a function of the locations of its nuclei, R. Distance Energy Distance
11 Potential energy surface (PES) defined The PES, E(R), is the energy of a molecule as a function of the locations of its nuclei, R. Distance Energy Distance
12 Potential energy surface (PES) defined The PES, E(R), is the energy of a molecule as a function of the locations of its nuclei, R. Distance Energy F = de dr Distance
13 Potential energy surface (PES) defined The PES, E(R), is the energy of a molecule as a function of the locations of its nuclei, R. Distance Energy F = de dr Distance
14 Potential energy surface (PES) defined The PES, E(R), is the energy of a molecule as a function of the locations of its nuclei, R. Distance Energy F = de dr Distance
15 Using the PES Many important chemical question can be rephrased in terms of the PES We rarely calculate the whole PES, but instead explore and describe it in a variety of ways The PES can be calculated in many ways which vary in Accuracy Computational cost The portions of the PES which they are capable of describing
16 The PES is approximate The PES idea comes from the approximate solution of the full molecular time-independent Schrodinger equation Hˆ Ψ ( R, r) = EΨ( R, r)
17 The PES is approximate The PES idea comes from the approximate solution of the full molecular time-independent Schrodinger equation Hˆ Ψ ( R, r) = EΨ( R, r) Nuclear coordinates Electronic coordinates
18 The PES is approximate The molecular Hamiltonian is ˆ q q q H = ( R) ( r) I J I 2mI I 2 i I i I J rij I i rij i j rij 1
19 The PES is approximate The molecular Hamiltonian is ˆ q q q H = ( R) ( r) I J I 2mI I 2 i I i I J rij I i rij i j rij 1 I and J index nuclei i and j index electrons
20 The PES is approximate The molecular Hamiltonian is ˆ q q q H = ( R) ( r) I J I 2mI I 2 i I i I J rij I i rij i j rij 1 m is represents mass r represents distance q represents charge
21 The PES is approximate The molecular Hamiltonian is ˆ q q q H = ( R) ( r) I J I 2mI I 2 i I i I J rij I i rij i j rij 1 Nuclear Kinetic Energy Electronic Kinetic Energy
22 The PES is approximate The molecular Hamiltonian is ˆ q q q H = ( R) ( r) I J I 2mI I 2 i I i I J rij I i rij i j rij 1 Nuclear Kinetic Energy Electronic Kinetic Energy Nuclear Repulsion Electron- Nuclear Attraction Electron- Electron Repulsion
23 The PES is approximate The molecular Hamiltonian is ˆ q q q H = ( R) ( r) I J I 2mI I 2 i I i I J rij I i rij i j rij 1 Atomic Units ħ = 1 e = 1 m e = 1 1/(4 πε ) = 1 0
24 The PES is approximate Separate the nuclear and electronic problems (Born-Oppenheimer Approx.) Ψ ( R, r) = χ ( R) ψ ( r; R) Nuclear Wavefunction Electronic Wavefunction (which depends parametrically on the nuclear coordinates)
25 The PES is approximate Separate the nuclear and electronic problems (Born-Oppenheimer Approx.) Ψ ( R, r) = χ ( R) ψ ( r; R) Fast Electrons Slow Nucleus
26 The PES is approximate Separate the nuclear and electronic problems (Born-Oppenheimer Approx.) Ψ ( R, r) = χ ( R) ψ ( r; R) Hˆ ψ ( r; R) = V ( R) ψ ( r; R) elec q q ˆ 1 2 I J I elec = 2 i ( r) + + i I J rij I j rij i j rij H q 1
27 The PES is approximate Separate the nuclear and electronic problems (Born-Oppenheimer Approx.) Ψ ( R, r) = χ ( R) ψ ( r; R) Hˆ elecψ ( r; R) = V ( R) ψ ( r; R) q q ˆ 1 2 I J I elec = 2 i ( r) + + i I J rij I j rij i j rij H V(R) is the (adiabatic) potential energy surface q 1
28 The PES is approximate Separate the nuclear and electronic problems (Born-Oppenheimer Approx.) Ψ ( R, r) = χ ( R) ψ ( r; R) Hˆ elecψ ( r; R) = V ( R) ψ ( r; R) q q ˆ 1 2 I J I elec = 2 i ( r) + + i I J rij I j rij i j rij H V(R) is the (adiabatic) potential energy surface This is the electronic structure problem q 1
29 The PES is approximate Separate the nuclear and electronic problems (Born-Oppenheimer Approx.) Hˆ ψ ( r; R) = V ( R) ψ ( r; R) Hˆ χ ( R) = Eχ ( R) nuc ˆ 1 2 ( ) ( ) nuc = 2m I I R + V R I H Ψ ( R, r) = χ ( R) ψ ( r; R) elec q q ˆ 1 2 I J I elec = 2 i ( r) + + i I J rij I j rij i j rij H q 1
30 The PES is approximate The Born-Oppenheimer Approximation (BOA) neglects couplings between electronic and nuclear motions These missing terms are called nonadiabatic or vibronic coupling terms The BOA is a good approximation when electronic states are not near each other in energy (ground states of stable molecules with simple electronic structures) Electronic states are near each other in energy sometimes: Some transition states (nonadiabatic reaction dynamics) Excited states/photochemistry Jahn-Teller systems The BOA is valid for the majority of problems you see in the literature and in this course
31 Adiabatic vs Diabatic PES Adiabatic PES are the solution to the electronic Schrodinger equation Diabatic PES are defined according to state character (e.g. covalent vs ionic)
32 Adiabatic vs Diabatic PES Adiabatic PES are the solution to the electronic Schrodinger equation Diabatic PES are defined according to state character (e.g. covalent vs ionic) Ionic Covalent Diabatic
33 Adiabatic vs Diabatic PES Adiabatic PES are the solution to the electronic Schrodinger equation Diabatic PES are defined according to state character (e.g. covalent vs ionic) Ionic Covalent Diabatic Adiabatic
34 Adiabatic vs Diabatic PES Adiabatic PES are the solution to the electronic Schrodinger equation Diabatic PES are defined according to state character (e.g. covalent vs ionic) Ionic S 1 Covalent S 0 Diabatic Adiabatic
35 Diabatic PES Diabats are conceptually convenient There is no unique way to define diabats Diabats can be very strongly coupled over a broad range of configuration space Ionic Covalent Diabatic
36 The PES is many-dimensional Each atom is a point in a 3-D space the PES is 3N dimensional (where N is the number of atoms) The molecular geometry (configuration, structure) can be represented many ways Cartesian coordinates Internal Coordinates (e.g. Z-matrix)
37 Cartesian Coordinates Also known as XYZ coordinates y O H H x Used in various common storage formats:.xyz,.pdb
38 Z-Matrix Coordinates Define bond lengths, angles, dihedrals
39 Z-Matrix Coordinates Define bond lengths, angles, dihedrals O
40 Z-Matrix Coordinates Define bond lengths, angles, dihedrals O O, 1,
41 Z-Matrix Coordinates Define bond lengths, angles, dihedrals O O, 1, H, 1,
42 Z-Matrix Coordinates Define bond lengths, angles, dihedrals O O, 1, H, 1, 0.905, 2,
43 Z-Matrix Coordinates Define bond lengths, angles, dihedrals O O, 1, H, 1, 0.905, 2, H, 2, 0.905, 1,
44 Z-Matrix Coordinates Define bond lengths, angles, dihedrals O O, 1, H, 1, 0.905, 2, H, 2, 0.905, 1, 104.5, 3,
45 Z-Matrix Coordinates Define bond lengths, angles, dihedrals O O, 1, H, 1, 0.905, 2, H, 2, 0.905, 1, 104.5, 3,
46 Z-Matrix Coordinates Define bond lengths, angles, dihedrals O O, 1, H, 1, 0.905, 2, H, 2, 0.905, 1, 104.5, 3,
47 Z-Matrix Coordinates Define bond lengths, angles, dihedrals O O, 1, H, 1, 0.905, 2, H, 2, 0.905, 1, 104.5, 3, 0.0 0
48 Z-Matrix Coordinates Define bond lengths, angles, dihedrals O O, 1, H, 1, 0.905, 2, H, 2, 0.905, 1, 104.5, 3,
49 Z-Matrix Coordinates Advantages 3 Chemically intuitive Non-redundant (eliminates translation, rotation) Disadvantages For large or cyclic molecules the geometry can be very sensitive to small changes in the parameters Equations of motion/geometry optimization are more nature in Cartesians
50 Local Minima Correspond to Stable Structures At reasonable temperatures molecules tend to spend most of their time at low energy points on the PES
51 Local Minima Correspond to Stable Structures At reasonable temperatures molecules tend to spend most of their time at low energy points on the PES Distance Energy Distance
52 Local Minima Correspond to Stable Structures At reasonable temperatures molecules tend to spend most of their time at low energy points on the PES Distance Energy Equilibrium Distance Distance
53 Local Minima Correspond to Stable Structures At reasonable temperatures molecules tend to spend most of their time at low energy points on the PES Distance Energy What does this energy mean? Equilibrium Distance Distance
54 Local Minima Correspond to Stable Structures At reasonable temperatures molecules tend to spend most of their time at low energy points on the PES Distance Energy What does this energy mean? NOTHING! Equilibrium Distance Distance
55 Local Minima Correspond to Stable Structures At reasonable temperatures molecules tend to spend most of their time at low energy points on the PES Distance Energy What does this energy mean? NOTHING! Equilibrium Distance Distance Dissociation Energy
56 A Good Minimum is Hard to Find In many dimensional systems we use geometry optimization algorithms Iterative process Calculate gradient of the PES (AKA forces) Update geometry Check for convergence Repeat if necessary
57 A Good Minimum is Hard to Find Energy
58 A Good Minimum is Hard to Find Energy
59 A Good Minimum is Hard to Find Energy
60 A Good Minimum is Hard to Find Energy
61 A Good Minimum is Hard to Find Energy
62 A Good Minimum is Hard to Find Energy
63 A Good Minimum is Hard to Find Energy
64 A Good Minimum is Hard to Find Energy
65 A Good Minimum is Hard to Find Convergence criteria The gradient (force) is below a threshold The change in geometry from the previous step is below a threshold The change in energy from the previous step is below a threshold
66 A Good Minimum is Hard to Find A word on forces Forces are a 3N-dimensional vector (x, y, and z force on each atom) Analytical forces Actually differentiate (Computational) cost is similar to calculating energy Available for most simpler methods of calculating the PES Numerical forces Compute derivative by finite difference Cost is at least 3N times the cost of calculating the energy Available for all methods of calculating the PES
67 A Good Minimum is Hard to Find A word on forces D Forces are a 3N-dimensional vector (x, y, and z force on each atom) Analytical forces Actually differentiate (Computational) cost is similar to calculating energy Available for most simpler methods of calculating the PES Numerical forces Compute derivative by finite difference Cost is at least 3N times the cost of calculating the energy Available for all methods of calculating the PES
68 A Good Minimum is Hard to Find A word on forces D+ΔD Forces are a 3N-dimensional vector (x, y, and z force on each atom) Analytical forces Actually differentiate (Computational) cost is similar to calculating energy Available for most simpler methods of calculating the PES Numerical forces Compute derivative by finite difference Cost is at least 3N times the cost of calculating the energy Available for all methods of calculating the PES
69 A Good Minimum is Hard to Find A word on forces D+ΔD Forces are a 3N-dimensional vector (x, y, and z force on each atom) Analytical forces Actually differentiate E(D+ΔD) (Computational) cost is similar to calculating energy Available for most simpler methods of calculating the PES Numerical forces Compute derivative by finite difference Cost is at least 3N times the cost of calculating the energy Available for all methods of calculating the PES
70 A Good Minimum is Hard to Find A word on forces D-ΔD Forces are a 3N-dimensional vector (x, y, and z force on each atom) Analytical forces Actually differentiate E(D+ΔD) (Computational) cost is similar to calculating energy Available for most simpler methods of calculating the PES Numerical forces Compute derivative by finite difference Cost is at least 3N times the cost of calculating the energy Available for all methods of calculating the PES
71 A Good Minimum is Hard to Find A word on forces D-ΔD Forces are a 3N-dimensional vector (x, y, and z force on each atom) Analytical forces Actually differentiate E(D+ΔD) E(D-ΔD) (Computational) cost is similar to calculating energy Available for most simpler methods of calculating the PES Numerical forces Compute derivative by finite difference Cost is at least 3N times the cost of calculating the energy Available for all methods of calculating the PES
72 A Good Minimum is Hard to Find A word on forces D-ΔD Forces are a 3N-dimensional vector (x, y, and z force on each atom) Analytical forces Actually differentiate E(D+ΔD) - E(D-ΔD) F = 2ΔD (Computational) cost is similar to calculating energy Available for most simpler methods of calculating the PES Numerical forces Compute derivative by finite difference Cost is at least 3N times the cost of calculating the energy Available for all methods of calculating the PES
73 A Good Minimum is Hard to Find A word on forces D-ΔD Forces are a 3N-dimensional vector (x, y, and z force on each atom) Analytical forces Central finite difference Actually differentiate E(D+ΔD) - E(D-ΔD) F = 2ΔD (Computational) cost is similar to calculating energy Available for most simpler methods of calculating the PES Numerical forces Compute derivative by finite difference Cost is at least 3N times the cost of calculating the energy Available for all methods of calculating the PES
74 A Good Minimum is Hard to Find A word on forces D-ΔD Forces are a 3N-dimensional vector (x, y, and z force on each atom) Analytical forces Actually differentiate E(D+ΔD) - E(D) F = 2ΔD (Computational) cost is similar to calculating energy Available for most simpler methods of calculating the PES Numerical forces Forward finite difference Compute derivative by finite difference Cost is at least 3N times the cost of calculating the energy Available for all methods of calculating the PES
75 A Good Minimum is Hard to Find Energy
76 A Good Minimum is Hard to Find Energy
77 Energy A Good Minimum is Hard to Find Global Minimum Local Minimum
78 Energy A Good Minimum is Hard to Find How do you know you ve found the global minimum?
79 A Good Minimum is Hard to Find How do you know you ve found the global minimum? Which minimum do you want? Energy
80 A Good Minimum is Hard to Find How do you know you ve found the global minimum? Which minimum do you want? Energy R O Ketone R' R OH Enol R'
81 A Good Minimum is Hard to Find How do you know you ve found the global minimum? Which minimum do you want? Energy R O Ketone R' R OH Enol R'
82 A Good Minimum is Hard to Find How do you know you ve found the global minimum? Which minimum do you want? Energy R R R' trans R' gauche
83 A Good Minimum is Hard to Find How do you know you ve found the global minimum? Which minimum do you want? Energy ΔE R R R' trans R' gauche
84 A Good Minimum is Hard to Find How do you know you ve found the global minimum? Which minimum do you want? Energy H C N C N H
85 A Good Minimum is Hard to Find How do you know you ve found the global minimum? Which minimum do you want? Energy H C N H C N Transition State (TS) C N H
86 A Good Minimum is Hard to Find How do you know you ve found the global minimum? Which minimum do you want? Energy E activation H C N H C N Transition State (TS) C N H
87 A Good Transition State is Really A TS is defined as the highest point along the lowest energy path between reactant and product is a stable point (F=0) has a single imaginary frequency (one normal mode in which the second derivative is negative) Hard to Find Energy H C N Transition State (TS)
88 A Good Transition State is Really A TS can be found using one of the TS optimization algorithms available in most quantum chemistry codes by a series of constrained optimizations with only a single reaction coordinate is constrained Hard to Find Energy H C N Transition State (TS)
89 A Good Transition State is Really Hard to Find C H N Energy (ev) H C N C N H H-C-N Angle (deg)
90 Calculating Vibrational Frequencies Energy harmonic approx. Distance true PES Calculate the second derivative matrix (Hessian): 2 d E 2 dr at the minimum Diagonalize mass weighted hessian to get normal modes Calculate frequencies according to the well known solution of the harmonic oscillator problem
91 Energy Differences and Errors Two types of errors Constant error an error that is the same for all points on the PES Non-parallelity error an error that varies from point to point of the PES
92 Energy Differences and Errors Constant Error Exact
93 Energy Differences and Errors Constant Error Exact Approx.
94 Energy Differences and Errors Constant Error Exact Energy Calculated Exact Approx. Distance
95 Energy Differences and Errors Constant Error Exact Energy Calculated Exact Approx. Distance
96 Energy Differences and Errors Constant Error Exact Energy Calculated Exact Approx. Distance
97 Energy Differences and Errors Constant Error Exact Energy Calculated Exact Approx. Distance Constant errors in energy usually don t matter
98 Energy Differences and Errors Non-parallelity Error Calculated Energy Exact Distance
99 Energy Differences and Errors Non-parallelity Error Calculated Energy Exact Wrong dissociation energy Distance
100 Energy Differences and Errors Non-parallelity Error Calculated Energy Exact Wrong dissociation energy Distance Wrong frequencies
101 Energy Differences and Errors Non-parallelity Error Calculated Energy Exact Wrong dissociation energy Distance Wrong frequencies Non-parallelity errors matter!
102 Energy v. Free Energy Free energies, not energies, determine the probability of being in a specific state at finite temperature The energy of a molecule at a specific geometry is an energy, NOT a free energy! Some additional work is required to get a free energy estimate from frequencies RRKM theory estimate reaction rates from frequencies at the reactant and transition state molecular dynamics
103 Energy v. Free Energy
104 Energy v. Free Energy Low Energy Low Energy
105 Energy v. Free Energy Wide well
106 Energy v. Free Energy Wide well Narrow well
107 Energy v. Free Energy Wide well Higher Entropy Narrow well Lower Entropy
108 Energy v. Free Energy Wide well Higher Entropy Lower Free Energy Narrow well Lower Entropy High Free Energy
109 Energy v. Free Energy Lower Frequency Wide well Higher Entropy Lower Free Energy Higher Frequency Narrow well Lower Entropy High Free Energy
110 The PES isn t everything Electronic properties can be calculated from the wavefunction Dipole, quadrupole moments Atomic charges Polarizabilities IR intensities NMR chemical shifts
111 Summary The PES is the energy as a function of the location of the nuclei Stationary points (F=0) on the PES are representative of stable structures and transition states Non-parallelity error in the PES is bad; error cancellation is your friend We can calculate electronic properties from the wavefunction
112 The Hierarchy of Methods Cost Accuracy
113 The Hierarchy of Methods Hartree-Fock (HF) Cost HF Accuracy
114 The Hierarchy of Methods Hartree-Fock (HF) Post-HF Cost HF Accuracy
115 The Hierarchy of Methods Hartree-Fock (HF) Post-HF Moller-Plesset Perturb. Theory (MP2) Cost MP2 HF Accuracy
116 The Hierarchy of Methods Hartree-Fock (HF) Post-HF Moller-Plesset Perturb. Theory (MP2) Configuration Interaction (CI) Cost MP2 CI HF Accuracy
117 The Hierarchy of Methods Hartree-Fock (HF) Post-HF Moller-Plesset Perturb. Theory (MP2) Configuration Interaction (CI) Coupled Cluster (CC) Cost MP2 CI CC HF Accuracy
118 The Hierarchy of Methods Hartree-Fock (HF) Post-HF Moller-Plesset Perturb. Theory (MP2) Configuration Interaction (CI) Coupled Cluster (CC) Cost MC MP2 CI CC Multiconfigurational Methods (MC) HF Accuracy
119 The Hierarchy of Methods Hartree-Fock (HF) Post-HF Moller-Plesset Perturb. Theory (MP2) Configuration Interaction (CI) Coupled Cluster (CC) Cost MC MP2 CI CC Multiconfigurational Methods (MC) HF Break bonds Excited States Open Shells Accuracy
120 The Hierarchy of Methods Hartree-Fock (HF) Post-HF Moller-Plesset Perturb. Theory (MP2) Configuration Interaction (CI) Coupled Cluster (CC) Cost MC MP2 CI CC Multiconfigurational Methods (MC) HF DFT Density Functional Theory (DFT) Accuracy
121 The Hierarchy of Methods Hartree-Fock (HF) Post-HF Moller-Plesset Perturb. Theory (MP2) Configuration Interaction (CI) Coupled Cluster (CC) Cost MC MP2 CI CC Multiconfigurational Methods (MC) HF DFT Density Functional Theory (DFT) SE Semiempirical (SE) Accuracy
122 The Hierarchy of Methods Hartree-Fock (HF) Post-HF Moller-Plesset Perturb. Theory (MP2) Configuration Interaction (CI) Coupled Cluster (CC) Cost MC MP2 CI CC Multiconfigurational Methods (MC) HF DFT Density Functional Theory (DFT) SE Semiempirical (SE) Accuracy
123 Coming Up Next Linear Algebra Review Superposition principle Variational Principle Basis Sets and the relationship between matrices and operators Hartree-Fock Approximation What is it? How is it implemented in the computer? When does it fail and why?
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