Lin
Chen
*a,
Ton V. W.
Janssens
b and
Henrik
Grönbeck
*a
aDepartment of Physics and Competence Centre for Catalysis, Chalmers University of Technology, SE-412 96 Göteborg, Sweden. E-mail: clin@chalmers.se; ghj@chalmers.se
bUmicore Denmark ApS, Nøjsomhedsvej 20, DK-2800 Kgs. Lyngby, Denmark
First published on 30th April 2019
A general challenge in density functional theory calculations is to simultaneously account for different types of bonds. One such example is reactions in zeolites where both van der Waals and chemical bonds should be described accurately. Here, we use different exchange–correlation functionals to explore O2 dissociation over pairs of Cu(NH3)2+ complexes in Cu-Chabazite. This is an important part of selective catalytic reduction of NOx using NH3 as a reducing agent. The investigated functionals are PBE, PBE+U, PBE+D, PBE+U+D, PBE-cx, BEEF and HSE06+D. We find that the potential energy landscape for O2 activation and dissociation depends critically on the choice of functional. However, the van der Waals contributions are similarly described by the functionals accounting for this interaction. The discrepancies in the potential energy surface are instead related to different descriptions of the Cu–O chemical bond. By investigating the electronic, structural and energetic properties of reference systems including bulk copper oxides and (Cu2O2)2+ enzymatic crystals, we find that the PBE+U approach together with van der Waals corrections provides a reasonable simultaneous accuracy of the different bonds in the systems.
The inclusion of vdW interactions in DFT calculations has been a long-standing issue.6 It is generally difficult to describe chemical bonding and vdW-interactions simultaneously. The common local, semi-local and hybrid functionals are designed to describe local chemical bonding rather than the long-range electron correlation giving rise to dispersion interactions.7,8 One strategy has been to add vdW-interactions in a semi-empirical manner as suggested by Grimme and co-workers9 whereas another approach has been to develop density functionals including dispersion.8,10,11 The performance of the different approaches for reactions in zeolites is generally difficult to assess due to the lack of clear comparisons between calculated and experimental data.
The dissociation of oxygen is a key step in the NH3-SCR reaction over Cu zeolites.2 It is known that the adsorption and dissociation of O2 on Cu-CHA requires the presence of Cu(I).2,5,12,13 Under typical reaction conditions and at temperatures below ∼523 K, the Cu(I)-ion is solvated by NH3 ligands forming a Cu(NH3)2+ complex.5,12,14–16 Recent publications3–5,17 have addressed O2 dissociation over Cu(NH3)2+ complexes with DFT calculations using different exchange–correlation functionals. The reported potential energy surfaces appear to depend strongly on the functional. One of the potential reasons for the discrepancies between the reports3,12,17 could be the well-known difficulty of describing the oxygen bonding to binuclear Cu-amine complexes by first principles calculations,18–20 as the system is highly correlated.21–23
To understand the origin of functional-differences and simultaneously establish a preferred methodology for DFT calculations of Cu-CHA systems, we explore eight functionals with three common approaches to account for van der Waals interactions, namely (i) DFT with D2 and D3 corrections,9,24–26 (ii) BEEF-vdW27 and (iii) the vdW-density functional PBE+cx.28 To describe the highly localized 3d-electrons in oxidized Cu, we also investigate the DFT+U methodology. By investigating the electronic, structural and energetic properties of bulk copper oxides and (Cu2O2)2+ enzymatic crystals as reference systems, we find that the DFT+U approach together with vdW-corrections provides a reasonable description of the different bonds in the systems.
Structures are optimized with the conjugate gradient method and geometries are considered to be converged when the electronic energy difference between subsequent steps is smaller than 1 × 10−5 eV and the largest force is smaller than 3 × 10−2 eV Å−1. Reaction barriers are calculated by the use of the climbing image Nudged Elastic Band (NEB)36,37 technique as implemented in the transition state tools of VASP. Five images are generated between the initial and final states and the spring constant between the images is set to 5 eV Å−2. Harmonic vibrational frequencies are computed using the finite-difference approach. The identified transition states are confirmed by the vibrational analysis with one imaginary frequency towards the product coordinate. The k-point sampling is restricted to the Γ-point.38
The potential energy surface of species not directly bonded to the zeolite framework is highly complex with many local minima. Here, Born–Oppenheimer ab initio molecular dynamics (AIMD) simulations in the NVT ensemble are performed to explore the low-energy configurations of the Cu species in CHA. The temperature in the simulation is controlled to be 300 K using a Nosé–Hoover thermostat.39,40 The mass of hydrogen is replaced by the mass of tritium to facilitate the integration of the equations of motion which is done using a time step of 1 fs. The simulations are performed for 6 ps and low-energy configurations are relaxed from this trajectory.
The chabazite structure is modeled using a rhombohedral unit cell which includes 12 Si atoms in tetrahedral (T) positions. The optimized cell parameters are a = 9.42 Å. The lattice parameters are kept fixed during the geometry relaxations and molecular dynamics. We also performed some tests where the lattice parameters were relaxed. This was found to change the adsorption energies by less than 0.05 eV. The Si/Al ratio is 11 when the sequential adsorption energy of NH3 bonded with the Cu(NH3)2+ complex is investigated, whereas the ratio is 5 when the direct O2 dissociation on the Cu(NH3)2+-pairs is calculated. Both ratios are within the common experimental range with Si/Al ratios between 5 and 20.12,41–43
The calculations are performed with different functionals. The generalized gradient approximation according to Perdew–Burke–Ernzerhof (PBE)44 is used to describe local and semi-local exchange–correlation effects. To account for the highly localized 3d-electrons of oxidized copper, PBE is also used together with a Hubbard term (PBE+U). The U-parameter for Cu 3d is set to 6 eV as proposed by Isseroff et al.45 The U-value in ref. 45 was determined from comparisons with the experimental lattice constant for Cu2O and showed good results for the dielectric constant. We also investigate the effect of including non-local exchange by using the hybrid functional HSE06.46
A common approach to account for vdW-interactions is to include a semi-empirical correction as proposed by Grimme and co-workers.9,24–26 The D2 approach24 uses dispersion coefficients fitted to experimental values, whereas the dispersion coefficients D3 are computed from first-principles.25,26 Here, the D2 and D3 corrections are used together with either PBE, PBE+U or HSE06. Another approach to incorporate vdW-interactions is to use a nonlocal correlation term in the exchange–correlation functional (vdW-DF).6,8,28,47,48 In this work, we use the consistent-exchange (cx) functional28 together with PBE. The third approach we explore for taking vdW-interactions into account is the Bayesian error estimation functional (BEEF).27 BEEF is a semi-empirical density functional developed by fitting experimental data for molecules, surfaces and bulk materials.10
The oxygen dissociation path is divided into steps with five structures denoted C1 to C5. It is clear that calculations with the different functionals result in different reaction paths and also reaction products. In general, all functionals indicate that Cu-pairs are favorable for oxygen adsorption. However, whereas some of the PBE-based functionals predict the dissociated molecule (C5) to be the stable configuration, BEEF, PBE+U, PBE+U+D3 and HSE06+D3 favor activated O2 (C4).
Following the path for O2 activation and dissociation in detail, the initial configuration (C1) consists of O2 in the gas-phase and two Cu(NH3)2+ complexes in one CHA unit cell. For adsorption of O2 (C1 to C2), the eight functionals predict the O2 adsorption energy to be in the range from 0.12 eV (HSE06+D3) to −0.46 eV (PBE+cx). PBE, PBE+U+D3 and BEEF yield similar values (about −0.24 eV). Addition of vdW-corrections to PBE stabilizes the adsorption by 0.1 eV (D2) and 0.2 eV (D3). The increased adsorption energy of O2 is related to the vdW interaction with the framework as the interaction energy of O2 to the bare CHA is calculated to be −0.01 (PBE), −0.07 (PBE+D2), −0.09 (PBE+D3) and −0.15 eV (PBE+cx).
Our result with PBE+D3 agrees with the report of Gao et al.3 when subtracting the O2 gas-phase entropy from the value in ref. 3. Using PBE+D2, we get a weaker adsorption energy (−0.33 eV) than that reported in ref. 4 (−0.61 eV) despite the use of the same DFT implementation and Al-distribution. We find that this apparent disagreement is due to different reference energies of the bare Cu-pair structures. The reference structure used in ref. 4 is 0.21 eV less stable than the reference used for Fig. 1.50 The O2 adsorption step is endothermic using the HSE06+D3 functional, which disagrees with the experimental observation of O2 adsorption.4,49
The barrier from C2 to C3 includes the spin-transition from triplet to singlet17 and is calculated using the Minimum Energy Crossing Point (MECP) approach for the two potential energy curves.51 We note that the coupling between the two states is needed to estimate the rate for the reaction.52 The point of transition is marked with a star in the energy diagram. The triplet–singlet excitation energy is functional dependent. We have calculated the triplet–singlet excitation energy for gas phase O2 (see the ESI†) and found that the gas phase excitation energy has a functional dependence following the trend in Fig. 1. The excitation is the dominant part of the C2 to C3 barrier for PBE+D3 and PBE+cx, whereas the excitation occurs before the transition state for the other functionals.
The O2 activation is completed by changing the orientation of the molecule from C3 to a symmetric configuration (C4) where both Cu-ions are bonded to two oxygen atoms (μ-η2:η2 peroxo). Here, this structure will be referred to as “side-on”. This step is exothermic in all functionals, although the energy difference for BEEF is small. O2 dissociation is completed in the step from C4 to C5. The structure of dissociated O2 is bis(μ-oxo) which we will denote “bis”. The energetics of the dissociated molecule (C5) is found to be strongly functional dependent. The process is predicted to be endothermic by HSE06+D3 (0.31 eV), PBE+U (0.19 eV), BEEF (0.08 eV) and PBE+U+D3 (0.07 eV), whereas it is exothermic in PBE (−0.43 eV), PBE+D2 (−0.51 eV), PBE+D3 (−0.52 eV) and PBE+cx (−0.85 eV).
The activation and dissociation of O2 over the pairs of complexes are accompanied by changes of the oxidation state of the Cu-ions. Based on the calculated magnetic moment of the Cu ions, we find that the oxidation state of Cu is Cu(I) in C1 and C2. The magnetic moment of the ions is calculated to be close to zero and the Bader charge53,54 is +0.5 e. The asymmetric configuration in C3 has different charge states and magnetic moments on the copper ions. The oxidation state of the Cu-ions which are linearly coordinated to NH3 is 1+, whereas it is 2+ for the other ions. The oxidation state of Cu in C4 is formally 2+ which is signalled by Bader charges of +0.94 e and the magnetic moments. The system is singlet with two antiferromagnetically coupled magnetic moments (∼0.6 μB). The spin-density is predominantly located on the two copper ions. The Bader charges on the copper ions for the configuration with dissociated O2 (C5) are about +1.03 e. The system is singlet and the magnetic moments are zero, implying a formal oxidation state of 3+. Even though this is an unusual oxidation state of Cu, it has been identified earlier for similar Cu2O2 motifs in enzymatic catalysts.23,55,56
To investigate the effect of the incorporation of vdW interaction, the oxidation of Cu with oxygen in the gas phase is investigated using the BEEF and PBE-cx functionals. The spatial confinement in the zeolite cages is expected to give substantial vdW interactions with the Cu-complexes. We find that the vdW interactions for both functionals result in a stabilization of 0.5 ± 0.1 eV for C2, C4 and C5 (see the ESI†). This shows that the vdW contributions to the adsorption energy are similar for the two functionals and it can be concluded that the differences in the potential energy landscape are due to different descriptions of the Cu–N or Cu–O bonds.
The sequential binding energies of Cu+(NH3)x (x = 1–4) in the gas phase were calculated and the results are shown in Fig. 2(a). The experimental data show that the second NH3 binds slightly stronger to the Cu+ ion than the first NH3. This is a consequence of the Cu 4s–3d σ hybridization, which is an effective way to reduce the metal–ligand repulsion for doubly ligated systems.57 Our calculations verify this phenomenon showing that the second NH3 ligand binds stronger with the Cu+ ion than the first NH3 ligand in all functionals except HSE06+D3 which have similar stability for the adsorption of the first and second ammonia. Except PBE+U and BEEF, the different functionals predict the binding energies of the first and second NH3 ligand within 0.1 eV of the experimental value. PBE+U and BEEF underestimate the binding energies by ∼0.3 eV.
There is a large decrease in binding energies for the third and fourth NH3 molecule, as compared to the first two molecules. This is a result of the increased ligand–ligand repulsion and the loss of the Cu 4s–3d σ hybridization because the 4s–3d σ hybrids are effective for only two ligands coordinated linearly to the metal site.58 Also for these systems, BEEF underestimates the binding energies whereas the other functionals predicted the stability within ∼0.1 eV with respect to the experimental value. Even if the difference is small, PBE+cx and PBE+D3 give the overall best performance among the investigated functionals for the sequential binding energies of Cu+(NH3)x (x = 1–4) in the gas phase.
As a next step, we investigated the sequential binding energies of Cu+(NH3)x (x = 1–4) in CHA, Fig. 2(b). The sequential binding energies from the PBE functional are lower than the results from the other functionals including vdW-corrections, which all are within 0.1 eV. Compared with the 1st NH3 binding energy in the gas phase, the binding energy in CHA is much lower as the bare Cu+ ion is stabilized by the CHA framework. This is also the reason why the second NH3 binding energy in Cu-CHA is lower than the gas phase value. It should be noted that the second NH3 ligand binds weaker to the Cu species in CHA than the first NH3 ligand. The reason for this is that the adsorption of the second ligand involves the penalty of breaking the bond between Cu+ and an oxygen atom in the CHA framework to form the linear Cu+(NH3)2 complex. The sequential adsorption of the 3rd and 4th NH3 ligand is much weaker than the 1st and 2nd molecule, similarly to the gas-phase values.
We do not have any direct experimental comparison in the case of sequential NH3 adsorption in CHA. However, our results indicate that vdW-interactions have an effect as the adsorption energies for PBE are consistently lower by 0.1–0.2 eV. The differences between the functionals including vdW-effects are, however, small. Given the good agreement between the calculated and experimental NH3 adsorption energies, we conclude that all investigated functionals describe the Cu–N bond with reasonable accuracy.
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Fig. 3 Projected density of states (PDOS) of Cu 3d (in blue) and O 2p (in red) by different functionals for (a) bulk Cu2O, (b) bulk CuO, (c) side-on Cu2O2 in CHA (C4 configuration in Fig. 1), and (d) bis Cu2O2 in CHA (C5 in Fig. 1). The PBE+U results are obtained with U = 6 eV. The UPS and XPS spectra of bulk Cu2O and bulk CuO are taken from ref. 59. |
The oxidation states of Cu2O and CuO are +1 and +2, respectively. This is corroborated by a Bader charge analysis, which reveals that the copper ions have a charge of +0.53 e in Cu2O and of +0.93 in CuO. CuO has an antiferromagnetic ordering59,60 and the magnetic moment is calculated to be ±0.6 μB. The center of the d-band is for Cu2O within the PBE, PBE+cx and BEEF functionals situated at about −2.1 eV below the Fermi energy. For PBE+U (with U = 6 eV), the d-band is shifted to lower energies by about 1 eV, which places the center close to the experimental XPS-value. The O 2p states are mainly situated in the energy range from −8 eV to −4 eV. The differences between the functionals are in this case small and the position with respect to the Fermi energy is similar to the UPS spectrum. Similar trends apply for CuO; PBE, PBE+cx and BEEF place the d-band center at higher energies as compared to PBE+U and the experiments. This comparison is in agreement with previous reports59 and indicates that a Hubbard-U term is needed to describe the electronic structure and bonding in copper oxides.45,61,62
The conclusions regarding the effect of including a Hubbard-U term for oxidization are similar for the side-on (C4) and bis (C5) configurations, see Fig. 3c and d. The d-state for PBE+U is for the side-on structure shifted to lower binding energies by about 1 eV with respect to the other functionals. This is similar to the value for bulk CuO. The stabilization of the d-state influences the degree of delocalization and hybridization to the oxygen states and, consequently, the bonding. It is known that the magnetic coupling constant (J) between the metal sites in di-nuclear copper complexes is sensitive to the degree of d-electron localization.63,64 Using the broken symmetry approach65 for C4, we calculate J to be −230 and −70 meV within PBE+D3 and PBE+U+D3, respectively. This trend is similar to the results obtained for other copper complexes64 and demonstrates the d-electron localization when a Hubbard-U term is applied.
Crystal structures have been reported for both side-on and bis-motifs with different N-donor ligands.68–71 Here we investigate the energetics of one bis-crystal68 and two side-on crystals.69,70 The Cu atoms are for the bis-crystal coordinated with two N-ligands constrained by the molecular structure to favor a four-fold coordination around the ion and therefore the bis-configuration.23,66 The side-on crystals have three N-ligands which have some structural flexibility. We do these calculations for PBE+U, PBE+U+D3, PBE+cx and BEEF. The experimentally reported crystal structures were completely relaxed with the Cu2O2 motif in the side-on and the bis-structures. The energetics and relevant bond lengths are reported in Table 1 whereas the crystal structures are reported in the ESI.†
Exp. crystal | Cu2O22+ fragment structure | Functional & Exp. | Bond length (Å) | Relative energy (eV) | |||
---|---|---|---|---|---|---|---|
Cu–Cu | Cu–O | O–O | Side-on | Bis | |||
Bis |
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PBE+cx | 2.72 | 1.81 | 2.38 | — | 0 |
BEEF | 2.77 | 1.83 | 2.39 | 1.98 | 0 | ||
PBE+U | 2.73 | 1.80 | 2.35 | 1.57 | 0 | ||
PBE+U+D3 | 2.70 | 1.80 | 2.37 | 1.93 | 0 | ||
Exp.68 | 2.75 | 1.81 | 2.34 | — | 0 | ||
Side-on |
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PBE+cx | 3.55 | 1.93 | 1.49 | 0.36 | 0 |
BEEF | 3.61 | 1.96 | 1.49 | 0.16 | 0 | ||
PBE+U | 3.58 | 1.94 | 1.46 | 0 | 0.21 | ||
PBE+U+D3 | 3.57 | 1.93 | 1.46 | 0 | 0.31 | ||
Exp.69 | 3.52 | 1.89 | 1.37 | 0 | — | ||
Side-on |
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PBE+cx | 3.63 | 1.96 | 1.47 | 0.37 | 0 |
BEEF | 3.67 | 1.98 | 1.47 | +0.00 | 0 | ||
PBE+U | 3.65 | 1.96 | 1.45 | 0 | 0.28 | ||
PBE+U+D3 | 3.62 | 1.95 | 1.45 | 0 | 0.13 | ||
Exp.70 | 3.53 | 1.93 | 1.54 | 0 | — |
All functionals predict the correct energetic ordering for the experimental bis-crystal. The side-on structure is clearly unfavored and for PBE+cx, we do not find this structure as a minimum on the potential energy surface. As to the two experimental side-on crystals,69,70 PBE+cx and BEEF functionals fail to predict the correct structural ground state. The correct experimental structure is instead given by the PBE+U and PBE+U+D3 functionals. The geometrical differences between the functionals and the experimental structures are in all cases within 0.1 Å.
The results show that PBE+U(+D) successfully predicts the correct structure for the known enzymatic systems with side-on and bis-configurations, where BEEF and PBE+cx fail. The PBE+cx preference for bis-configurations is consistent with the potential energy diagram in Fig. 1 where the C5 structure is clearly favored.
The potential energy diagram for O2 dissociation is found to depend critically on the choice of functional. Some functionals predict dissociation of O2 to be preferred (PBE, PBE+D, and PBE+cx), whereas others do not (HSE06+D, BEEF, PBE+U, and PBE+U+D3). By comparing the calculations with respect to experimental results for the binding of NH3 to copper ions, the stability of Cu2O2 crystals and XPS/UPS spectra of copper oxides, we can assess the performance of the functionals. For the zeolite reactions, van der Waals interactions are found to be important and should be accounted for in some way; either by semi-empirical corrections or by vdW exchange–correlation functionals. The Cu–NH3 bond strength is found to be reasonably described by all functionals. The main challenge for different functionals was instead the Cu–O bond. We found that only the functional with a Hubbard-U term could correctly describe the experimental preference for both bis- and side-on Cu2O2 crystals.
A fundamental challenge for structural characterization of NH3-SCR over Cu-CHA is that the active site (Cu(NH3)2+) only exists during reaction conditions. Because of this, we have here assessed the performance of different density functionals by comparison to reference systems. Our work highlights the need for experimental benchmarks with atomistic information in zeolite reactions and we hope that our work could stimulate such studies.
Footnote |
† Electronic supplementary information (ESI) available: Triplet–singlet excitation energies for O2, structures, vibrational analysis, O2 adsorption over gas-phase complexes and crystal structures. See DOI: 10.1039/c9cp01576k |
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