metal-organic compounds
(2,2′-Bipyridine-κ2N,N′)(pyridine-2,6-dicarboxylato-κ2N,O)palladium(II) monohydrate
aChonnam National University, School of Chemical Engineering, Research Institute of Catalysis, Gwangju, Republic of Korea
*Correspondence e-mail: hakwang@chonnam.ac.kr
In the title compound, [Pd(C7H3NO4)(C10H8N2)]·H2O, the PdII cation is four-coordinated in a distorted square-planar coordination geometry defined by the two N atoms of the 2,2′-bipyridine ligand, one O atom and one N atom from the pyridine-2,6-dicarboxylate anion. The complex and solvent water molecule are linked by intermolecular hydrogen bonds. In the crystal, the complex molecules are stacked in columns along the a axis.
CCDC reference: 1969632
Structure description
With reference to the title compound, [Pd(dipic)(bipy)]·H2O (dipic = pyridine-2,6-dicarboxylate; bipy = 2,2′-bipyridine), the crystal structures of related PdII complexes [Pd(dipic)(phen)]·4H2O and [Pd(dipic23)(bipy)]·3H2O (phen = 1,10-phenanthroline; dipic23 = pyridine-2,3-dicarboxylate) have been determined previously (Wang & Okabe, 2005).
In the title complex, the central PdII cation is four-coordinated in a distorted square-planar coordination geometry defined by the N1 and N2 atoms of the bidentate bipy ligand, the O3 and N3 atoms of the di-anionic dipic ligand. An intramolecular C10—H10⋯·O3 hydrogen bond further stabilizes the complex (Fig. 1, Table 1). The tight O—Pd—N and N—Pd—N chelating angles of <O3—Pd1—N3 = 81.07 (10)° and <N1—Pd1—N2 = 80.21 (12)°, and the steric interactions between the non-coordinating carboxylate group and the (N1–C5) pyridyl ring contribute to the distortion of the square plane. The Pd—N and Pd—O bonds are almost equal [1.992 (3)-2.038 (3) Å] and the nearly planar pyridyl rings of the bipy ligand are slightly twisted with a dihedral angle of 12.6 (1)° between them. The dihedral angle between the least-squares plane [maximum deviation = 0.176 (2) Å] of the bipy ligand and the pyridyl ring of the dipic ligand is 30.6 (1)°.
In the ), the complex and solvent molecules form intermolecular O—H⋯O and C—H⋯O hydrogen bonds (Table 1). The complex molecules are stacked in columns along the a axis. In the columns, numerous intermolecular π–π interactions between adjacent pyridyl rings are present. For Cg1 (the centroid of ring N1–C5) and Cg2i [the centroid of ring N2—C10; symmetry code: (i) x, − y, + z], the centroid–centroid distance is 3.657 (2) Å and the dihedral angle between the ring planes is 12.4 (2)°.
(Fig. 2Synthesis and crystallization
To a solution of Pd(CH3CO2)2 (0.2036 g, 0.907 mmol) in acetone (25 ml) and MeOH (5 ml) were added pyridine-2,6-dicarboxylic acid (0.1520 g, 0.910 mmol) and 2,2′-bipyridine (0.1423 g, 0.911 mmol), and stirred for 2 h at room temperature. The precipitate that formed was separated by filtration, washed with acetone, and dried at 333 K, to give a yellow powder (0.3605 g). Yellow crystals suitable for X-ray analysis were obtained by slow evaporation from an ethanol solution at room temperature.
Refinement
Crystal data, data collection and structure .
details are summarized in Table 2
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Structural data
CCDC reference: 1969632
https://doi.org/10.1107/S2414314619016250/sj4212sup1.cif
contains datablock I. DOI:Structure factors: contains datablock I. DOI: https://doi.org/10.1107/S2414314619016250/sj4212Isup2.hkl
Data collection: APEX2 (Bruker, 2016); cell
SAINT (Bruker, 2016); data reduction: SAINT (Bruker, 2016); program(s) used to solve structure: SHELXL2014 (Sheldrick, 2015); program(s) used to refine structure: SHELXL2014 (Sheldrick, 2015); molecular graphics: ORTEP-3 for Windows (Farrugia, 2012) and PLATON (Spek, 2009); software used to prepare material for publication: SHELXL2014 (Sheldrick, 2015).[Pd(C7H3NO4)(C10H8N2)]·H2O | F(000) = 888 |
Mr = 445.70 | Dx = 1.883 Mg m−3 |
Monoclinic, P21/c | Mo Kα radiation, λ = 0.71073 Å |
a = 12.9031 (10) Å | Cell parameters from 8336 reflections |
b = 12.1751 (10) Å | θ = 2.4–26.0° |
c = 10.4256 (7) Å | µ = 1.22 mm−1 |
β = 106.246 (2)° | T = 223 K |
V = 1572.4 (2) Å3 | Rod, yellow |
Z = 4 | 0.17 × 0.11 × 0.06 mm |
PHOTON 100 CMOS detector diffractometer | 2325 reflections with I > 2σ(I) |
Radiation source: sealed tube | Rint = 0.110 |
φ and ω scans | θmax = 26.1°, θmin = 2.4° |
Absorption correction: multi-scan (SADABS; Bruker, 2016) | h = −15→15 |
Tmin = 0.683, Tmax = 0.745 | k = −15→15 |
40118 measured reflections | l = −12→12 |
3110 independent reflections |
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.030 | Hydrogen site location: mixed |
wR(F2) = 0.061 | H-atom parameters constrained |
S = 1.06 | w = 1/[σ2(Fo2) + (0.0181P)2 + 2.4725P] where P = (Fo2 + 2Fc2)/3 |
3110 reflections | (Δ/σ)max < 0.001 |
235 parameters | Δρmax = 0.69 e Å−3 |
0 restraints | Δρmin = −0.71 e Å−3 |
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds involving l.s. planes. |
x | y | z | Uiso*/Ueq | ||
Pd1 | 0.18480 (2) | 0.62619 (2) | 0.56502 (2) | 0.01608 (8) | |
O1 | 0.40895 (19) | 0.5298 (2) | 0.5905 (2) | 0.0247 (6) | |
O2 | 0.4447 (2) | 0.3619 (2) | 0.6786 (2) | 0.0345 (7) | |
O3 | 0.06841 (19) | 0.6372 (2) | 0.3919 (2) | 0.0229 (6) | |
O4 | −0.0568 (2) | 0.5284 (2) | 0.2619 (2) | 0.0313 (7) | |
N1 | 0.2794 (2) | 0.6223 (3) | 0.7542 (2) | 0.0179 (6) | |
N2 | 0.1816 (2) | 0.7845 (2) | 0.6120 (3) | 0.0172 (6) | |
N3 | 0.1930 (2) | 0.4707 (2) | 0.4962 (2) | 0.0169 (6) | |
C1 | 0.3089 (3) | 0.5325 (3) | 0.8287 (3) | 0.0201 (8) | |
H1 | 0.2861 | 0.4633 | 0.7914 | 0.024* | |
C2 | 0.3721 (3) | 0.5389 (3) | 0.9590 (3) | 0.0240 (9) | |
H2 | 0.3906 | 0.4748 | 1.0107 | 0.029* | |
C3 | 0.4080 (3) | 0.6398 (3) | 1.0131 (3) | 0.0239 (8) | |
H3 | 0.4541 | 0.6448 | 1.1004 | 0.029* | |
C4 | 0.3758 (3) | 0.7334 (3) | 0.9383 (3) | 0.0220 (8) | |
H4 | 0.3984 | 0.8030 | 0.9744 | 0.026* | |
C5 | 0.3094 (3) | 0.7229 (3) | 0.8088 (3) | 0.0170 (8) | |
C6 | 0.2582 (3) | 0.8153 (3) | 0.7249 (3) | 0.0165 (8) | |
C7 | 0.2802 (3) | 0.9246 (3) | 0.7548 (3) | 0.0215 (8) | |
H7 | 0.3349 | 0.9451 | 0.8314 | 0.026* | |
C8 | 0.2205 (3) | 1.0037 (3) | 0.6703 (3) | 0.0247 (8) | |
H8 | 0.2335 | 1.0787 | 0.6897 | 0.030* | |
C9 | 0.1419 (3) | 0.9715 (3) | 0.5575 (4) | 0.0246 (8) | |
H9 | 0.1002 | 1.0242 | 0.4996 | 0.030* | |
C10 | 0.1252 (3) | 0.8617 (3) | 0.5306 (3) | 0.0240 (8) | |
H10 | 0.0725 | 0.8400 | 0.4527 | 0.029* | |
C11 | 0.2729 (3) | 0.3955 (3) | 0.5297 (3) | 0.0195 (8) | |
C12 | 0.2544 (3) | 0.2891 (3) | 0.4812 (3) | 0.0291 (9) | |
H12 | 0.3095 | 0.2363 | 0.5069 | 0.035* | |
C13 | 0.1559 (3) | 0.2602 (3) | 0.3956 (4) | 0.0308 (9) | |
H13 | 0.1419 | 0.1874 | 0.3660 | 0.037* | |
C14 | 0.0777 (3) | 0.3407 (3) | 0.3540 (3) | 0.0246 (9) | |
H14 | 0.0111 | 0.3241 | 0.2924 | 0.029* | |
C15 | 0.0991 (3) | 0.4453 (3) | 0.4042 (3) | 0.0187 (8) | |
C16 | 0.3866 (3) | 0.4333 (3) | 0.6088 (3) | 0.0194 (8) | |
C17 | 0.0287 (3) | 0.5420 (3) | 0.3484 (3) | 0.0215 (8) | |
O5 | 0.4222 (2) | 0.3608 (3) | 0.2280 (3) | 0.0690 (11) | |
H5A | 0.4744 | 0.3891 | 0.2854 | 0.104* | |
H5B | 0.4281 | 0.2921 | 0.2325 | 0.104* |
U11 | U22 | U33 | U12 | U13 | U23 | |
Pd1 | 0.01601 (14) | 0.01669 (13) | 0.01266 (12) | 0.00058 (13) | −0.00074 (9) | −0.00092 (12) |
O1 | 0.0225 (14) | 0.0201 (14) | 0.0276 (13) | −0.0024 (11) | 0.0008 (11) | −0.0002 (11) |
O2 | 0.0296 (15) | 0.0246 (15) | 0.0370 (15) | 0.0053 (13) | −0.0113 (12) | 0.0063 (13) |
O3 | 0.0223 (13) | 0.0220 (14) | 0.0182 (12) | 0.0034 (12) | −0.0045 (10) | −0.0004 (11) |
O4 | 0.0222 (15) | 0.0333 (16) | 0.0290 (14) | −0.0037 (12) | −0.0083 (12) | −0.0014 (12) |
N1 | 0.0173 (15) | 0.0217 (15) | 0.0152 (13) | 0.0002 (14) | 0.0055 (11) | 0.0002 (13) |
N2 | 0.0152 (15) | 0.0223 (16) | 0.0143 (14) | 0.0021 (13) | 0.0042 (12) | −0.0014 (12) |
N3 | 0.0203 (17) | 0.0166 (16) | 0.0118 (14) | −0.0040 (13) | 0.0011 (12) | 0.0024 (12) |
C1 | 0.021 (2) | 0.019 (2) | 0.0208 (18) | 0.0001 (16) | 0.0075 (16) | 0.0022 (15) |
C2 | 0.020 (2) | 0.035 (2) | 0.0174 (18) | 0.0067 (18) | 0.0061 (15) | 0.0068 (16) |
C3 | 0.0214 (19) | 0.036 (2) | 0.0111 (15) | 0.0022 (18) | −0.0005 (14) | −0.0025 (16) |
C4 | 0.018 (2) | 0.029 (2) | 0.0185 (18) | 0.0009 (16) | 0.0035 (15) | −0.0071 (16) |
C5 | 0.0150 (18) | 0.023 (2) | 0.0145 (16) | 0.0006 (16) | 0.0067 (14) | −0.0040 (14) |
C6 | 0.0160 (19) | 0.0203 (19) | 0.0155 (17) | 0.0001 (15) | 0.0083 (14) | −0.0019 (14) |
C7 | 0.022 (2) | 0.025 (2) | 0.0183 (18) | −0.0005 (16) | 0.0067 (15) | −0.0053 (15) |
C8 | 0.030 (2) | 0.0188 (19) | 0.030 (2) | 0.0003 (17) | 0.0165 (17) | −0.0036 (16) |
C9 | 0.022 (2) | 0.024 (2) | 0.028 (2) | 0.0058 (17) | 0.0067 (16) | 0.0059 (16) |
C10 | 0.0209 (19) | 0.027 (2) | 0.0217 (17) | 0.0026 (17) | 0.0024 (15) | −0.0017 (17) |
C11 | 0.0224 (19) | 0.018 (2) | 0.0155 (16) | −0.0002 (15) | 0.0013 (14) | 0.0025 (14) |
C12 | 0.035 (2) | 0.018 (2) | 0.027 (2) | 0.0040 (18) | −0.0033 (18) | 0.0004 (16) |
C13 | 0.038 (2) | 0.019 (2) | 0.030 (2) | −0.0077 (18) | −0.0003 (18) | −0.0021 (16) |
C14 | 0.027 (2) | 0.026 (2) | 0.0161 (17) | −0.0120 (16) | −0.0017 (15) | −0.0018 (15) |
C15 | 0.0164 (19) | 0.026 (2) | 0.0117 (16) | −0.0042 (16) | 0.0008 (14) | 0.0025 (14) |
C16 | 0.020 (2) | 0.022 (2) | 0.0138 (17) | 0.0006 (16) | 0.0008 (15) | −0.0029 (15) |
C17 | 0.017 (2) | 0.030 (2) | 0.0168 (18) | 0.0010 (17) | 0.0034 (16) | −0.0009 (16) |
O5 | 0.043 (2) | 0.037 (2) | 0.099 (3) | 0.0097 (16) | −0.0277 (18) | −0.0245 (19) |
Pd1—N2 | 1.992 (3) | C4—H4 | 0.9400 |
Pd1—O3 | 2.004 (2) | C5—C6 | 1.465 (5) |
Pd1—N1 | 2.009 (2) | C6—C7 | 1.378 (5) |
Pd1—N3 | 2.038 (3) | C7—C8 | 1.385 (5) |
O1—C16 | 1.238 (4) | C7—H7 | 0.9400 |
O2—C16 | 1.242 (4) | C8—C9 | 1.378 (5) |
O3—C17 | 1.296 (4) | C8—H8 | 0.9400 |
O4—C17 | 1.225 (4) | C9—C10 | 1.371 (5) |
N1—C1 | 1.334 (4) | C9—H9 | 0.9400 |
N1—C5 | 1.361 (4) | C10—H10 | 0.9400 |
N2—C10 | 1.337 (4) | C11—C12 | 1.387 (5) |
N2—C6 | 1.361 (4) | C11—C16 | 1.538 (5) |
N3—C11 | 1.350 (4) | C12—C13 | 1.379 (5) |
N3—C15 | 1.354 (4) | C12—H12 | 0.9400 |
C1—C2 | 1.378 (5) | C13—C14 | 1.386 (5) |
C1—H1 | 0.9400 | C13—H13 | 0.9400 |
C2—C3 | 1.376 (5) | C14—C15 | 1.375 (5) |
C2—H2 | 0.9400 | C14—H14 | 0.9400 |
C3—C4 | 1.377 (5) | C15—C17 | 1.501 (5) |
C3—H3 | 0.9400 | O5—H5A | 0.8400 |
C4—C5 | 1.388 (4) | O5—H5B | 0.8400 |
N2—Pd1—O3 | 95.44 (10) | C6—C7—C8 | 119.0 (3) |
N2—Pd1—N1 | 80.21 (12) | C6—C7—H7 | 120.5 |
O3—Pd1—N1 | 169.28 (10) | C8—C7—H7 | 120.5 |
N2—Pd1—N3 | 172.85 (11) | C9—C8—C7 | 119.4 (3) |
O3—Pd1—N3 | 81.07 (10) | C9—C8—H8 | 120.3 |
N1—Pd1—N3 | 104.28 (11) | C7—C8—H8 | 120.3 |
C17—O3—Pd1 | 112.2 (2) | C10—C9—C8 | 119.2 (3) |
C1—N1—C5 | 119.5 (3) | C10—C9—H9 | 120.4 |
C1—N1—Pd1 | 125.9 (2) | C8—C9—H9 | 120.4 |
C5—N1—Pd1 | 114.4 (2) | N2—C10—C9 | 122.0 (3) |
C10—N2—C6 | 119.3 (3) | N2—C10—H10 | 119.0 |
C10—N2—Pd1 | 124.7 (2) | C9—C10—H10 | 119.0 |
C6—N2—Pd1 | 114.8 (2) | N3—C11—C12 | 119.9 (3) |
C11—N3—C15 | 119.7 (3) | N3—C11—C16 | 118.7 (3) |
C11—N3—Pd1 | 130.6 (2) | C12—C11—C16 | 121.0 (3) |
C15—N3—Pd1 | 109.7 (2) | C13—C12—C11 | 120.5 (4) |
N1—C1—C2 | 121.4 (3) | C13—C12—H12 | 119.8 |
N1—C1—H1 | 119.3 | C11—C12—H12 | 119.8 |
C2—C1—H1 | 119.3 | C12—C13—C14 | 118.7 (3) |
C3—C2—C1 | 119.5 (3) | C12—C13—H13 | 120.6 |
C3—C2—H2 | 120.2 | C14—C13—H13 | 120.6 |
C1—C2—H2 | 120.2 | C15—C14—C13 | 119.0 (3) |
C2—C3—C4 | 119.6 (3) | C15—C14—H14 | 120.5 |
C2—C3—H3 | 120.2 | C13—C14—H14 | 120.5 |
C4—C3—H3 | 120.2 | N3—C15—C14 | 121.7 (3) |
C3—C4—C5 | 118.7 (3) | N3—C15—C17 | 114.9 (3) |
C3—C4—H4 | 120.6 | C14—C15—C17 | 122.9 (3) |
C5—C4—H4 | 120.6 | O1—C16—O2 | 128.8 (3) |
N1—C5—C4 | 121.0 (3) | O1—C16—C11 | 115.4 (3) |
N1—C5—C6 | 114.4 (3) | O2—C16—C11 | 115.7 (3) |
C4—C5—C6 | 124.3 (3) | O4—C17—O3 | 124.4 (3) |
N2—C6—C7 | 121.1 (3) | O4—C17—C15 | 120.1 (3) |
N2—C6—C5 | 113.7 (3) | O3—C17—C15 | 115.4 (3) |
C7—C6—C5 | 125.2 (3) | H5A—O5—H5B | 109.1 |
C5—N1—C1—C2 | −2.0 (5) | C8—C9—C10—N2 | 1.2 (5) |
Pd1—N1—C1—C2 | −178.4 (3) | C15—N3—C11—C12 | −7.2 (5) |
N1—C1—C2—C3 | −1.6 (5) | Pd1—N3—C11—C12 | 171.6 (3) |
C1—C2—C3—C4 | 3.2 (5) | C15—N3—C11—C16 | 166.2 (3) |
C2—C3—C4—C5 | −1.3 (5) | Pd1—N3—C11—C16 | −15.0 (4) |
C1—N1—C5—C4 | 4.0 (5) | N3—C11—C12—C13 | 2.0 (6) |
Pd1—N1—C5—C4 | −179.3 (3) | C16—C11—C12—C13 | −171.2 (3) |
C1—N1—C5—C6 | −170.6 (3) | C11—C12—C13—C14 | 3.1 (6) |
Pd1—N1—C5—C6 | 6.1 (4) | C12—C13—C14—C15 | −3.0 (6) |
C3—C4—C5—N1 | −2.4 (5) | C11—N3—C15—C14 | 7.3 (5) |
C3—C4—C5—C6 | 171.7 (3) | Pd1—N3—C15—C14 | −171.6 (3) |
C10—N2—C6—C7 | −1.6 (5) | C11—N3—C15—C17 | −164.5 (3) |
Pd1—N2—C6—C7 | 166.6 (3) | Pd1—N3—C15—C17 | 16.5 (3) |
C10—N2—C6—C5 | 176.6 (3) | C13—C14—C15—N3 | −2.2 (5) |
Pd1—N2—C6—C5 | −15.2 (4) | C13—C14—C15—C17 | 169.0 (3) |
N1—C5—C6—N2 | 5.9 (4) | N3—C11—C16—O1 | −28.4 (4) |
C4—C5—C6—N2 | −168.6 (3) | C12—C11—C16—O1 | 144.9 (3) |
N1—C5—C6—C7 | −176.0 (3) | N3—C11—C16—O2 | 154.0 (3) |
C4—C5—C6—C7 | 9.6 (6) | C12—C11—C16—O2 | −32.6 (5) |
N2—C6—C7—C8 | 2.2 (5) | Pd1—O3—C17—O4 | 163.9 (3) |
C5—C6—C7—C8 | −175.8 (3) | Pd1—O3—C17—C15 | −20.6 (4) |
C6—C7—C8—C9 | −1.0 (5) | N3—C15—C17—O4 | 178.1 (3) |
C7—C8—C9—C10 | −0.6 (5) | C14—C15—C17—O4 | 6.3 (5) |
C6—N2—C10—C9 | −0.1 (5) | N3—C15—C17—O3 | 2.4 (4) |
Pd1—N2—C10—C9 | −167.0 (3) | C14—C15—C17—O3 | −169.4 (3) |
D—H···A | D—H | H···A | D···A | D—H···A |
O5—H5A···O1i | 0.84 | 1.96 | 2.792 (4) | 174 |
O5—H5B···O2ii | 0.84 | 1.99 | 2.790 (4) | 160 |
C2—H2···O5iii | 0.94 | 2.59 | 3.460 (5) | 154 |
C3—H3···O2iv | 0.94 | 2.31 | 3.245 (4) | 173 |
C4—H4···O1v | 0.94 | 2.35 | 3.261 (4) | 162 |
C8—H8···O5v | 0.94 | 2.47 | 2.997 (5) | 116 |
C10—H10···O3 | 0.94 | 2.55 | 3.083 (4) | 117 |
C13—H13···O4vi | 0.94 | 2.43 | 3.336 (5) | 161 |
Symmetry codes: (i) −x+1, −y+1, −z+1; (ii) x, −y+1/2, z−1/2; (iii) x, y, z+1; (iv) −x+1, −y+1, −z+2; (v) x, −y+3/2, z+1/2; (vi) −x, y−1/2, −z+1/2. |
Acknowledgements
The author thanks the KBSI, Seoul Center, for the X-ray data collection.
Funding information
This research was supported by Basic Science Research Program through the National Research Foundation of Korea (NRF) funded by the Ministry of Education (grant No. 2018R1D1A1B07050550).
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