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Theoretical analyses of chemical bonding in terminal EThF2 (E = O, S, Se, Te)

NUCLEAR CHEMISTRY, RADIOCHEMISTRY, NUCLEAR MEDICINE

Theoretical analyses of chemical bonding in terminal EThF2 (E = O, S, Se, Te)

Yan-Li Li
Xiao-Gen Xiong
Hong-Tao Liu
Nuclear Science and TechniquesVol.30, No.5Article number 70Published in print 01 May 2019Available online 09 Apr 2019
35400

Analyses of chemical bonding and geometric structures in species with chalcogen elements EThF2 (E = O, S, Se, Te) are performed by the density functional theory. Kohn-Sham molecular orbitals and Th-E bond lengths of these species both indicate multiple bond character for the terminal chalcogen complexes. This is also confirmed by natural bond orbital (NBO) analyses using the one-electron density matrix generated by relativistic density functional calculations. Theoretical analyses indicate that electron donation from E to Th increases down the chalcogen group (O < S < Se < Te). These molecules can serve as examples of multiple bonding between actinide elements and selenium or tellurium.

EThF2Chemical bondingNatural bond orbital (NBO)

1 Introduction

Terminal metal oxo ligands are considered particularly valuable intermediates in various of biochemical and chemical reactions [1]. Intensive research has been conducted to probe their properties and design synthesis routes, especially complexes including late transition metal elements, which will provide a comprehensive understanding of their effects in related catalytic reactions. Owing to the important role of terminal oxo complexes in transition metal chemistry, their corresponding actinide analogs have attracted immense attention for application to thorium compounds in catalytic reactions [2]. Chemical bonding in complexes of thorium with nitrogen and oxygen is primarily ionic; therefore, it would be interesting to study the potential covalent character of the chemical bonding of actinides with heavy and soft chalcogens [3-12]. This will shed light on our knowledge of chemical bonding in compounds containing f elements, as chemical bonding between actinide elements and ligands is the current frontier of f-element research [16]. Apart from the theoretical importance, the study of actinide compounds containing soft chalcogen elements (S, Se, and Te) is important in the nuclear fuel cycle; further, soft ligands are believed to be efficient for the separation of later actinides from lanthanides [6, 11,12,14-17]. Anion photoelectron spectroscopy (PES) is a reliable and powerful approach to study the electronic structures of gas-phase compounds and solid materials. The spectra obtained from anion PES directly reflects the fingerprints of neutral molecules, which are formed from the detachment of electrons from anions. Hence, it would be interesting to study—both the structures of anionic and neutral complexes—and analyze the variation in electronic structures and chemical bonding during electron detachment. We report an analysis of the geometric structures and chemical bonding for EThF2 and EThF2- (E = O, S, Se, Te). We also perform natural bond orbital (NBO) analyses of the bonding for EThF2 and ThE with E = O, S, Se, and Te, and our theoretical results suggest a highly polarized multiple bond character of Th-E bonds.

2 Computational methods

Geometric parameters of the studied molecules were optimized using the Gaussian 09 program with the different functionals B3LYP, PBE [18], PBE0, TPSS, and TPSSh. Vibrational frequencies were also set at the same level to verify that the obtained geometries are at the minima of the potential energy surfaces. ECP60MDF [19] and the relevant basis set cc-pVTZ-PP [20] were applied for Th to consider the scalar relativistic (SR) effects. We used aug-cc-pVTZ [21] for O, F, and S and aug-cc-pVTZ-PP [22] for Se and Te, because the PBE exchange-correlation functional performs reasonably well for transition metals and even for actinide complexes [23]. Specifically, our previous work demonstrates the good performance of the PBE functional for the analysis of chemical bonding in thorium oxides [24, 25]; hence we expect that the PBE exchange-correlation functional will be suitable for studying the molecules in this work. The PBE exchange-correlation functional executed through the ADF 2017.106 package [26] was used to optimize the geometries. The Slater basis sets of TZ2P [27] were adopted with frozen core approximation applied to the inner shells [1s2-5d10] for Th and [1s2] for O. Quasi-relativistic zero-order-regular approximation (ZORA) was adopted to address the SR effects. Vibrational frequency calculations at the SR-ZORA level were implemented to confirm the real minima on the potential energy surfaces. The unrestricted Kohn-Sham approach of density functional theory (DFT) implemented in ADF was used to study the anions. The one-electron density matrix generated from ADF calculations was used to perform the NBO analyses [28].

3 Geometries and orbital analyses

3.1 Geometries

The optimized geometries and calculated frequencies for EThF2- and EThF2 at the SR-ZORA PBE/TZ2P level in comparison with previously reported values are provided in Table 1 and Table 2. All the studied anion and neutral molecules possess the Cs symmetry with a 1A′ ground state for neutral molecules and 2A′ ground state for anions. Our calculated data are in accordance with previous values, suggesting that the PBE exchange correlational functional is suitable to analyze the current species. Single-point energy calculations through CCSD(T) in the Molpro 2012.1 package [35] using the optimized geometric structures at the B3LYP level for both anions and neutrals are performed to determine the electron affinity (EA) of the studied neutral molecules. The EA values for OThF2, SThF2, SeThF2, and TeThF2 are 1.20 eV, 1.59 eV, 1.66 eV, and 1.96 eV, respectively. The calculated geometries and frequencies under the Gaussian 09/DFT level are provided in the supplementary information. The bond length of Th-E increases along the series from OThF2 to TeThF2 both in the anion and neutral molecules, while the bond length of Th-F exhibits an opposite trend. The calculated results also indicate a decrease in the bond angles and bond lengths from the anions to the corresponding neutral molecules, which can be attributed to singly occupied molecular orbitals (SOMOs) of the anions possessing non-negligible anti-bonding character. The calculated bond length of Th-O in the OThF2 neutral molecule is 1.895 Å, which is slightly longer than the previously reported result of 1.886 Å [10] at the B3LYP level; therefore, it would be meaningful to study the properties of different functionals in complexes including the thorium atom. Ours as well as the previously calculated bond length of Th-O bond are similar in value for the ThO triple bond length (1.89 Å) obtained from atomic radii [36]. Our recent calculated bond lengths at the SR-ZORA PBE/TZ2P level for Th-S, Th-Se, and Th-Te in SThF2, SeThF2, and TeThF2 neutral molecules are 2.423 Å, 2.583 Å, and 2.821 Å, respectively; these are higher than the calculated bond lengths of di-atomic molecules ThS (1Σ+, 2.343 Å), ThSe (1Σ+, 2.495 Å), and ThTe (1Σ+, 2.731 Å) at the same level. Moreover, the calculated bond lengths of Th-F in EThF2 are all greater than that in ThF2, as shown in Table 3.

Table 1
Optimized geometric parameters and calculated frequencies for EThF2- (E = O, S, Se, Te). The data are obtained from SR-ZORA PBE/TZ2P calculations.
OThF2- SThF2- SeThF2- TeThF2-
R(Th-E) (Å) 1.932 2.495 2.655 2.907
R(Th-F) (Å) 2.201 2.166 2.158 2.149
<(EThF) (°) 112.4 115.8 117.0 119.1
<(FThF) (°) 110.7 116.5 118.4 120.7
Th-E str. 765.0 388.5 249.2 186.6
sym. F-Th-F 463.1 488.9 491.1 497.5
antisym. F-Th-F 436.6 465.1 471.7 480.9
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Table 2
Optimized geometric parameters and calculated frequencies for EThF2 (E = O, S, Se, Te) compared to previously reported values. The data are obtained from SR-ZORA PBE/TZ2P calculations.
OThF2 SThF2 SeThF2 TeThF2
R(Th-E) (Å) 1.895,1.886b 2.423 2.583 2.821
R(Th-F) (Å) 2.141, 2.157b 2.105 2.096 2.089
∠(EThF) (°) 110.8 107.2 107.1 107.3
∠(FThF) (°) 103.6, 107.0b 104.7 104.7 104.7
Th-E str. 821.0, 806.6a, 825.9b 433.9 280.9 214.2
sym. F-Th-F 532.0, 511.1a,513.1b 559.4 561.6 566.7
antisym. F-Th-F 500.1, 482.3a,484.6b 527.3 533.1 540.0
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aexperimental data from Ref. 10. btheoretical data from Ref. 10.
Table 3
Optimized geometries and calculated frequencies for ThE (E = O, S, Se, Te) and ThF2 compared to previously reported values. The data are obtained from SR-ZORA PBE/TZ2P calculations.
R(Th-E) (Å) Th-E str.
current previous current previous
Calc. Exp. Calc. Calc. Exp. Calc.
ThO 1.848 1.840a 1.846a,1.845b 894.5 895c 895.5b
ThS 2.343 2.3556d,2.363e,2.349f 480.7 479(1)e,474.7f 478.7d,477e,481.4f
ThSe 2.495 2.500g 307.4 306.0g
ThTe 2.731 229.5
ThF2 2.056 2.061h 589.4(a1) 575.1(b1)h,575.9(b1)h 585.4(a1)h
581.2(b1) 583.6(b1)i,582.7(b1)i 573.4(b1)h
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aRef. 29, bRef. 30, cRef. 24, dRef. 11, eRef. 31, fRef. 32, gRef. 12, hRef. 33, iRef. 34
3.2 Orbital analyses

Fig. 1 shows the contour plots of the Kohn-Sham MOs of OThF2. The correlation diagram is presented in Fig. 2. The 10a′ molecular orbital, which is the highest occupied molecular orbital (HOMO), mainly stems from O 2p atomic orbitals (AOs), with modest contributions from Th 6d and 5f AOs, indicating a σbond between Th and O. The O 2p AOs mixed with Th 6d and 5f AOs, resulting in a weak π bonding 6a′′ (HOMO-1) molecular orbital. HOMO-2 (9a′) is another π orbital arising from the interactions of the 2p AO of oxygen with 6d and 5f AOs of thorium. Hence, the Kohn-Sham MO analysis suggests that the Th-O bond has two weak π bonds and one σbond in the OThF2 molecule, which is nearly same as the bonds in other terminal thorium chalcogens included complexes. [13-15] NBO studies provide additional proof for the existence of multiple bonding in OThF2. As displayed in Table 5, there are three bonding orbitals between Th and O, where the oxygen atom (mainly 2p atomic orbital (AO)) devotes around 84% to the Th-O bond; the rest originates from the mixing of Th 5f and 6d AOs, with more contribution from 6d orbitals than 5f orbitals. Because fluorine has high electronegativity, it is supposed that the AOs of oxygen would prefer to overlap more with the thorium AOs.

Table 5
Calculated NBO analysis of EThF2 (E = O, S, Se, Te) at range-separated PBE/TZ2P level through ADF.
Th %7s Th %6d Th %5f Th %7p E %s E %p
OThF2 Th-O π 0.06 9.82 5.36 0.08 7.93 76.32
Th-O π 7.20 5.08 0.01 87.39
Th-O σ 0.12 10.23 5.90 0.23 11.24 71.76
SThF2 Th-S π 0.04 13.15 4.41 0.26 0.81 81.11
Th-S π 11.41 4.75 0.18 83.45
Th-S σ 3.77 16.30 2.94 0.06 13.69 62.97
SeThF2 Th-Se π 0.13 13.38 4.07 0.31 0.99 80.86
Th-Se π 11.52 4.53 0.20 83.52
Th-Se σ 5.28 16.21 2.36 0.01 10.63 65.19
TeThF2 Th-Te π 0.85 13.21 3.41 0.53 2.43 79.36
Th-Te π 11.55 4.17 0.29 83.80
Th-Te σ 7.12 16.62 2.04 0.08 7.56 66.30
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Fig. 1
(Color online) Contour plots of Kohn-Sham MOs of OThF2 (isosurf = 0.05 a.u).
pic
Fig. 2
Qualitative molecular orbital energy level diagram of OThF2. The energy of atomic orbitals was shifted up with 6.21 eV.
pic

Fig. 3 shows the contour plots of the Kohn-Sham MOs of SThF2, and the correlation diagram is presented in Fig. 4. The 6a′′ (HOMO) molecular orbital is largely composed of S 3p AOs, Th 6dπ AOs and a bit Th 5f AOs, suggesting a weak π bond between Th and S. The 3p AO of S interacts with 5f-6d hybridized AOs of Th, forming a weak π bonding 10a′ (HOMO-1) molecular orbital. Moreover, a weak σbonding 9a′ (HOMO-2) molecular orbital is formed between Th and S through the overlap between 6d AO of Th and 3p AO of S; thus, identical to Th-O, Th-S shows two weak π bonds and a σbond in SThF2.

Fig. 3
(Color online) Contour plots of Kohn-Sham MOs of SThF2 (isosurf = 0.05 a.u).
pic
Fig. 4
Qualitative molecular orbital energy level diagram of SThF2. The energy of atomic orbitals was shifted up with 5.87 eV.
pic

Fig. 5 shows the contour plots of the Kohn-Sham MOs of SeThF2, and the correlation diagram is presented in Fig. 6. Of which, 6a′′ (HOMO) and 10a′ (HOMO-1) are molecular orbitals of two weak π bonds, mainly composed of 4p of Se and 6d of Th, in addition to a trace of Th-5f AOs. The interaction between 4p of Se and 6d of Th forms a weak σbonding 9a′ (HOMO-2) molecular orbital; thus, as in the previous two cases, we suggest the Th-Se bond possess two weak π bonds and a σbond in the SeThF2 molecule.

Fig. 5
(Color online) Contour plots of Kohn-Sham MOs of SeThF2 (isosurf. = 0.05 a.u).
pic
Fig. 6
Qualitative Kohn-Sham molecular orbital energy level diagram of SeThF2. The energy of atomic orbitals was shifted up with 5.78 eV.
pic

The contour plots of the Kohn-Sham MOs of TeThF2 and the correlated diagram are presented in Fig. 7 and Fig. 8, respectively. TeThF2 has a bonding nature similar to the previous three molecules, and Th-Te bond possess two weak π bonds and one σbond in the TeThF2 molecule. Similarly, multiple bonding in the SThF2, SeThF2, and TeThF2 molecules can be observed through NBO research. As displayed in Table 5, three Th-S, Th-Se, or Th-Te bonding orbitals exist, in which the sulfur (mainly 3p AO), selenium (mainly 4p AO), or tellurium atom (mainly 5p AO) contributes more than 80% to the Th-S, Th-Se, or Th-Te chemical bond, respectively. Moreover, the remaining contributions are mainly attributed to the mixing of Th 5f and 6d AOs. Furthermore, the 5a′′ (HOMO-3) and 8a′ (HOMO-4) molecular orbitals are mainly composed of F-2p AOs with detectable contribution from Th-6d AOs, based on Figs. 1, 3, 5 and 7, suggesting there exists head-on interplay between the AOs of fluoride and thorium atoms. However, the interaction of Th and F is essentially weak for overpowering dedication from F-2p AOs; therefore, the effective bond order between Th and F atoms in these complexes could be viewed as less than one, as shown in Table 8.

Fig. 7
(Color online) Contour plots of Kohn-Sham MOs of TeThF2 (isosurf = 0.05 a.u).
pic
Fig. 8
Qualitative Kohn-Sham molecular orbital energy level diagram of TeThF2. The energy of atomic orbitals was shifted up with 5.67 eV.
pic

The relevant NBO computational results for the OThF2 to TeThF2 are compared with those for ThO to ThTe, as listed in Table 4 to Table 6. Table 4 shows the increment of Th-6d populations and the decrement of Th-5f population along both the series from OThF2 to TeThF2 and from ThO to ThTe, respectively. Moreover, the 6d and 5f population values in EThF2 are higher than those in the corresponding ThE. A highly polarized multiple bond character for all Th-E bonds in EThF2 and ThE can be observed from the NBO analyses. The multiple bonds have a significant contribution from Th in the Th-S, Th-Se, and Th-Te bonds as compared with the that in the Th-O bond, where both the π and σbonds have the same trends, suggesting a weaker covalency of the Th-O chemical bond compared to its counterparts, which is in accordance with the decrease in electronegativity from O to Te. From OThF2 to TeThF2 and ThO to ThTe, decreasing f character and increasing d character are observed in the Th-E chemical bonds; this trend is in accordance with the natural electron population in Th-6d AO and Th-5f AO. With the addition of two F atoms, the natural electron charges on the Th center in EThF2 (E = O, S, Se, Te) becomes more positive than those in ThE (E = O, S, Se, Te) because of the strong electronegativity of F, thus forming a higher oxidation state of Th. Furthermore, natural electron charges on the Th center decrease from 2.45 to 2.16 along the series of EThF2, which is consistent with the decreased donation from Th to E down the chalcogen group in the order O < S < Se < Te.

Table 4
Natural electron configuration of Th atom and natural charges on Th, E (E = O, S, Se, Te), and F atoms in different molecules computed at range-separated PBE/TZ2P level through ADF.
ThO ThS ThSe ThTe OThF2 SThF2 SeThF2 TeThF2
7s 1.85a,1.84b 1.83,1.80b 1.81,1.79b 1.77 0.04 0.11 0.14 0.20
6d 0.68a,0.71b 1.09,1.18b 1.17,1.29b 1.31 1.01 1.25 1.26 1.25
5f 0.31a,0.34b 0.23,0.24b 0.20,0.21b 0.16 0.48 0.44 0.42 0.39
7p 0.05a,0.10b 0.03,0.06b 0.04,0.06b 0.05 0.01 0.01 0.01 0.02
q(Th) 1.18a,1.10b 0.85,0.77b 0.81,0.68b 0.73 2.54 2.22 2.20 2.16
q(E) -1.18a,-1.10b -0.85,-0.77b -0.81,-0.68b -0.73 -1.11 -0.86 -0.85 -0.81
q(F) -0.71 -0.68 -0.68 -0.68
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aRef. 25. bRef. 12.
Table 6
Calculated NBO analysis of ThE (E = O, S, Se, Te) at range-separated PBE/TZ2P level through ADF.
Th %7s Th %6d Th %5f Th %7p M %s E %p
ThO Th-O π 7.89 3.90 87.97
Th-O π 7.89 3.90 87.97
Th-O σ 0.50 11.33 6.78 0.18 15.62 65.18
ThS Th-S π 13.12 3.38 0.29 82.93
Th-S π 13.12 3.38 0.29 82.93
Th-S σ 2.03 18.22 4.26 0.01 13.64 61.44
ThSe Th-Se π 14.03 0.03 0.34 82.22
Th-Se π 14.03 0.03 0.34 82.22
Th-Se σ 2.35 19.12 3.43 0.04 11.45 63.06
ThTe Th-Te π 15.27 2.69 0.55 81.23
Th-Te π 15.27 2.69 0.55 81.23
Th-Te σ 3.47 20.78 2.53 0.18 10.55 61.95
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Furthermore, we performed the theoretical bond analyses of EThF2 and EThF2- (E = O, S, Se, Te), as displayed in Table 7 and Table 8. Generally, the bond orders of Th-E and Th-F in OThF2 are slightly lower than those in EThF2 (E = S, Se, Te), in which the latter species have nearly the same bond order; the same trend occurs in EThF2- (E = O, S, Se, Te). Moreover, the bond orders of Th-E and Th-F in anions are lower than those in the corresponding neutral species, suggesting that the extra electron undermines the interaction between Th and E (E = O, S, Se, Te) as well as Th and F and that the SOMO of anions or the lowest unoccupied molecular orbital (LUMO) of the neutral molecules exhibit a non-negligible anti-bonding character, which are in accordance with the downward trend of bond lengths from the anions to the corresponding neutral ones.

Table 7
Calculated bond orders between Th and E in EThF2 and EThF2- (E = O, S, Se, Te), the data are obtained from SR-ZORA PBE/TZ2P calculations.
OThF2 OThF2- SThF2 SThF2- SeThF2 SeThF2- TeThF2 TeThF2-
Mayer 1.82 0.88 2.24 1.04 2.10 0.92 2.24 1.00
N-M 2.27 2.47 2.37 2.49 2.37 2.48 2.37 2.42
G-J 1.58 1.67 1.85 1.72 1.87 1.69 1.93 1.57
Wiberg 1.52 1.34 1.81 1.50 1.83 1.47 1.86 1.39
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Table 8
Calculated bond orders between Th and F atoms in EThF2 and EThF2- (E = O, S, Se, Te), the data are obtained from SR-ZORA PBE/TZ2P calculations.
OThF2 OThF2- SThF2 SThF2- SeThF2 SeThF2- TeThF2 TeThF2-
Mayer 0.54 0.13 0.58 0.19 0.58 0.22 0.59 0.29
N-M 1.03 1.04 1.04 1.05 1.04 1.05 1.04 1.06
G-J 0.67 0.62 0.70 0.64 0.70 0.64 0.71 0.62
Wiberg 0.54 0.45 0.60 0.51 0.60 0.52 0.60 0.50
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4 Summary

Theoretical calculations have been carried to investigate the species of EThF2 and EThF2- (E = O, S, Se, Te). Moreover, geometric and bonding analyses have also been conducted. The bond length of Th-E (E = O, S, Se, Te) increases and that of Th-F decreases from OThF2 to TeThF2. Furthermore, the bond angle of ∠EThF decreases, whereas that of ∠FThF increases from OThF2 to TeThF2. The bond covalency of Th-E (E = O, S, Se, Te) increases along the series from OThF2 to TeThF2 as the bond length of Th-F decreases. Kohn-Sham molecular orbital analyses and NBO calculation have been applied to understand the chemical bonding of Th–E and Th-F in these complexes. Our theoretical results revealed the multiple bond character of Th-E from OThF2 to TeThF2 in EThF2 (E = O, S, Se, Te).

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