Inorganic Chemistry
Article
interactions were studied with the NCI-plot program68 implemented
in Critic2 software,111 and 2D and 3D visualizations were carried out
in Gnuplot112 and VMD programs113 respectively. ESP surfaces of 1,
2, and I2 molecules were calculated and visualized using AIMALL
software114 at 0.001 a.u. surfaces. ELF projections and QTAIM
analyses were carried out in Multiwfn 3.7.115 DLPNO−CCSD-
(T)103−105 wave functions for the LED analyses,71 and the analyses
themselves were calculated with ORCA 4.2 program116 using def2-
TZVPP106 orbital and def2-TZVPP/C107 and def2/JK117 auxiliary
basis sets.
4.2. Materials and SCXRD Details. All chemicals and solvents
such as CHCl3 (VWR BDH Chemicals), CH2Cl2 (VWR BDH
Chemicals), acetone (Fisher Scientific), KI (≥99.0%, Fisher
Scientific), I2 (Mallinckrodt), 2,6-dimethylphenyl isocyanide (further
CNXyl, ≥98.0 GC%, Aldrich), and [PdCl2(CH3CN)2] (99%,
Aldrich) were used without additional purification. [PtI2COD] was
synthesized according to the procedure reported by Rigamonti et al.61
The crystal data and details of data processing for the obtained
Crystal X-ray Diffraction data analysis (SCXRD)” section).
Caution! CNXyl is hazardous to health and should be handled with
care.
4.2.1. Synthesis of trans-[PdI2(CNXyl)2]. Synthesis was adapted
from a procedure presented by Crociani et al.58 Solid CNXyl (26.2
mg, 0.2 mmol) was added to the suspension of [PdCl2(CH3CN)2]
(25.9 mg, 0.1 mmol) in 5 mL of CHCl3. The reaction mixture was
refluxed with stirring for 3 h and then cooled to room temperature
(RT), and the solvent was evaporated at a rotary evaporator to give
cis-[PdCl2(CNXyl)2] as a white solid. Then solid KI (166 mg, 1
mmol) was added to cis-[PdCl2(CNXyl)2] (43.7 mg, 0.10 mmol), and
acetone (20 mL) was added to the resulting mixture. The resultant
yellow suspension was stirred at RT for 2 days. The solvent was then
fully evaporated on a rotary evaporator at 50 °C, and the orange
product was suspended in H2O. The product was extracted with
CH2Cl2. The organic fraction was subjected to full solvent
evaporation on a rotary evaporator, and the resulted orange solid
was dissolved in CHCl3. Some white insoluble material was filtered off
from solution; the filtrate was left for recrystallization at RT in
darkness (from CHCl3). The yield of orange crystalline product was
55.6 mg (0.09 mmol, 89%). Elemental analysis (EA) CHN mode:
Found: C 35.72; H 3.22; N 4.44. Calcd: C 34.73; H 2.91; N 4.50. 1H
NMR (300 MHz, CDCl3, δ ppm): 2.55 (s, 12H), 7.09−7.14 (m, 4
H), 7.21−7.28 (m, 2H).
4.2.2. Synthesis of I2 Cocrystal of trans-[PdI2(CNXyl)2]. trans-
[PdI2(CNXyl)2] (24.9 mg, 0.04 mmol) and I2 (15.2 mg, 0.06 mmol)
were dissolved in CH2Cl2/CHCl3 (50:50 mixture, 8 mL). The
solution was stirred at 50 °C (to dissolve iodine fully) until the
mixture became homogeneous and then left for crystallization in dark
at RT. The phase purity of the bulk material was confirmed by
4.2.3. Synthesis of trans-[PtI2(CNXyl)2]. Synthesis was adapted
from a procedure presented by Kaharu et al.59 [PtI2COD] (83 mg,
0.15 mmol) was added to a 5 mL of CH2Cl2 solution of a CNXyl
(39.4 mg, 0.3 mmol), and the mixture was stirred for 3 days at RT in
darkness. The solvent was evaporated, and obtained solid was
crystallized from CH2Cl2. TLC (silica gel 60 plate + CHCl3) revealed
byproducts. The product was purified by column chromatography
(silica gel 60 + CHCl3) and recrystallized from CHCl3. The yield of
yellow crystalline product was 99.8 mg (0.14 mmol, 93%). EA CHN
mode: Found: C 31.83; H 2.81; N 4.11. Calcd: C 30.40; H 2.55; N
3.94. 1H NMR (300 MHz, CDCl3, δ ppm): 2.58 (s, 12H), 7.14−7.18
(m, 4 H), 7.26−7.32 (m, 2H).
Table 4. Energy Components of the Interfragment
Interaction Energies (kJ mol−1) in (1)2·I2 and (2)2·I2
Cocrystals Calculated at DLPNO−CCSD(T)/def2-TZVPP
a
Level
cocrystal
interaction
Eexch
Eelstat
EDISP
E(T)
Esum
1 ↔ 6
2 ↔ 6
6 ↔ 7
1 ↔ 6
2 ↔ 6
6 ↔ 7
−11
−64
−82
−10
−55
−69
−28
−254
−295
−27
−243
−288
−4
−11
−26
−5
−10
−29
−1
−4
−8
−1
−4
−7
−44
−333
−411
−43
−312
−392
(1)2·I2
(2)2·I2
a
Exchange interaction, Eexch; electrostatic and polarization energy,
elstat; dispersion interaction, EDISP; and contribution from triples
E
correction, E(T). Only interactions of interest are represented in this
table, detailed information on all the interactions can be found in
Supporting Information (Tables S8−S9). Electronic preparation
energies resulting from intrafragment changes in electron density
and deformation energies due to geometrical differences of fragments
in interacting structure compared to their separated equilibrium
geometries that are required to derive the dissociation energies
corresponding to the analyzed interactions have not been included in
the analysis.
crystal structure showed that trans-[MI2(CNXyl)2] units are
interlinked via an uncommon I−I···(I−M) bifurcated contact
with the I2 molecule. Bifurcated contact, in turn, can be
subdivided into a I···I halogen bond and a I···M metal-
involving interaction. To reveal the nature of the contact, it
was studied with various computational methods such as NCI-
plot, QTAIM and LED analyses, and ED/ESP minima
comparisons. It was shown that the I···I halogen bond is the
strongest NCI stabilizing the system, supported by a weaker I···
M metal-involving interaction. ED/ESP minima comparisons
showed the nonpolarity of I···M contact in the
[PdI2(CNXyl)2]·I2 cocrystal; therefore, this interaction was
suggested to be called quasimetallophilic. In the case of the
[PtI2(CNXyl)2]·I2 cocrystal, similar studies showed the weakly
nucleophilic nature of Pt center, which makes the I···Pt
interaction polar and is best described as metal-involving
halogen bonding. However, the differences between the I···Pd
and I···Pt interactions are not crucial for directed crystal
engineering, and the Pd/Pt isostructural exchange can be
further used in the design of similar Pd- and Pt-containing
cocrystals.
4. EXPERIMENTAL SECTION
4.1. General Computational Details. All the studied structures
were optimized and analyzed using DFT theory. To achieve a good
compromise between accuracy and computational demand for
calculating systems containing NCIs M06-L functional108 combined
with triple-ζ def2-TZVP106 basis sets was chosen as the calculation
method. To further reduce computational time resolution of identity
approximation109 together with def2-TZV density fitting basis sets106
was employed in the calculations. DFT calculations were carried out
with Gaussian16 (revision C.01) program package.110 Complexes 1
and 2 and I2 were subjected to full energy minimization. Models for
solid-state clusters (1)4·I2 and (2)4·I2 were directly cut from the
corresponding experimental crystal structures. Bonding analyses of
NCIs in model structures (1)4·I2 and (2)4·I2 were carried out on both
optimized (OPT) and crystal structure derived SP structures (where
only positions of H-atoms were optimized). SP calculations (M06-L/
def2-TZVP) were also carried out for two model clusters, (cis-
[PdCl2(CNPh)2])2 and (cis-[PdCl2(CNPh)2])2, based on the
experimental X-ray data from the structures COYBOI01 and
CPICPT12,99 respectively. The strength and topology of the
4.2.4. Synthesis of I2 Cocrystal of trans-[PtI2(CNXyl)2]. trans-
[PtI2(CNXyl)2] (21.3 mg, 0.03 mmol) and I2 (15.2 mg, 0.06 mmol)
were dissolved in CHCl3, and the resulting dark brown mixture was
left in an aluminum foil covered vial for slow evaporation at ambient
conditions to give dark brown crystals of the desired product. The
phase purity of the bulk material was confirmed by PXRD analysis
H
Inorg. Chem. XXXX, XXX, XXX−XXX