metal-organic compounds
Bis(azido-κN)(1,10-phenanthroline-κ2N,N′)palladium(II)
aSchool of Applied Chemical Engineering, The Research Institute of Catalysis, Chonnam National University, Gwangju 500-757, Republic of Korea
*Correspondence e-mail: hakwang@chonnam.ac.kr
In the title complex, [Pd(N3)2(C12H8N2)], the PdII ion is four-coordinated in a slightly distorted square-planar environment by two N atoms of the chelating 1,10-phenanthroline (phen) ligand and two N atoms from two azide anions. The azido ligands are slightly bent with bond angles of 174.8 (4) and 174.5 (5)°. The complex molecules are stacked in columns along the a axis and are connected by intermolecular C—H⋯N hydrogen bonds, forming a three-dimensional network. In the columns, numerous intermolecular π–π interactions between the six-membered rings are present, the shortest ring centroid–centroid distance being 3.607 (2) Å.
Related literature
For the syntheses of [PdX2(phen)] (X = Cl, Br, I or SCN), see: Cheng et al. (1977). For the crystal structures of [PdX2(phen)] (X = Cl, Br or I), see: Ha (2010a,b,c).
Experimental
Crystal data
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Refinement
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Data collection: SMART (Bruker, 2000); cell SAINT (Bruker, 2000); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: ORTEP-3 (Farrugia, 1997) and PLATON (Spek, 2009); software used to prepare material for publication: SHELXL97.
Supporting information
To a solution of Na2PdCl4 (0.1475 g, 0.501 mmol) and NaN3 (0.3239 g, 4.982 mmol) in MeOH (30 ml) was added 1,10-phenanthroline (0.1044 g, 0.579 mmol), and stirred for 3 h at room temperature. The formed precipitate was separated by filtration, washed with water and acetone, and dried at 323 K, to give a bright yellow powder (0.1615 g). Crystals suitable for X-ray analysis were obtained by slow evaporation from a dimethyl sulfoxide (DMSO) solution at 363 K.
H atoms were positioned geometrically and allowed to ride on their respective parent atoms [C—H = 0.95 Å and Uiso(H) = 1.2Ueq(C)]. The highest peak (1.20 e Å-3) and the deepest hole (-0.62 e Å-3) in the difference Fourier map are located 1.55 Å and 0.91 Å from the atoms C11 and Pd1, respectively.
Data collection: SMART (Bruker, 2000); cell
SAINT (Bruker, 2000); data reduction: SAINT (Bruker, 2000); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: ORTEP-3 (Farrugia, 1997) and PLATON (Spek, 2009); software used to prepare material for publication: SHELXL97 (Sheldrick, 2008).[Pd(N3)2(C12H8N2)] | F(000) = 1456 |
Mr = 370.66 | Dx = 1.988 Mg m−3 |
Orthorhombic, Pbca | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: -P 2ac 2ab | Cell parameters from 6741 reflections |
a = 7.0724 (3) Å | θ = 2.5–28.3° |
b = 18.3069 (7) Å | µ = 1.51 mm−1 |
c = 19.1309 (7) Å | T = 200 K |
V = 2476.95 (17) Å3 | Block, yellow |
Z = 8 | 0.25 × 0.13 × 0.12 mm |
Bruker SMART 1000 CCD diffractometer | 3058 independent reflections |
Radiation source: fine-focus sealed tube | 2244 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.040 |
ϕ and ω scans | θmax = 28.3°, θmin = 2.1° |
Absorption correction: multi-scan (SADABS; Bruker, 2000) | h = −8→9 |
Tmin = 0.886, Tmax = 1.000 | k = −24→24 |
17018 measured reflections | l = −25→23 |
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)] = 0.033 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.084 | H-atom parameters constrained |
S = 1.09 | w = 1/[σ2(Fo2) + (0.0259P)2 + 3.9659P] where P = (Fo2 + 2Fc2)/3 |
3058 reflections | (Δ/σ)max = 0.001 |
190 parameters | Δρmax = 1.20 e Å−3 |
0 restraints | Δρmin = −0.62 e Å−3 |
[Pd(N3)2(C12H8N2)] | V = 2476.95 (17) Å3 |
Mr = 370.66 | Z = 8 |
Orthorhombic, Pbca | Mo Kα radiation |
a = 7.0724 (3) Å | µ = 1.51 mm−1 |
b = 18.3069 (7) Å | T = 200 K |
c = 19.1309 (7) Å | 0.25 × 0.13 × 0.12 mm |
Bruker SMART 1000 CCD diffractometer | 3058 independent reflections |
Absorption correction: multi-scan (SADABS; Bruker, 2000) | 2244 reflections with I > 2σ(I) |
Tmin = 0.886, Tmax = 1.000 | Rint = 0.040 |
17018 measured reflections |
R[F2 > 2σ(F2)] = 0.033 | 0 restraints |
wR(F2) = 0.084 | H-atom parameters constrained |
S = 1.09 | Δρmax = 1.20 e Å−3 |
3058 reflections | Δρmin = −0.62 e Å−3 |
190 parameters |
Geometry. All e.s.d.'s (except the e.s.d. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell e.s.d.'s are taken into account individually in the estimation of e.s.d.'s in distances, angles and torsion angles; correlations between e.s.d.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell e.s.d.'s is used for estimating e.s.d.'s involving l.s. planes. |
Refinement. Refinement of F2 against ALL reflections. The weighted R-factor wR and goodness of fit S are based on F2, conventional R-factors R are based on F, with F set to zero for negative F2. The threshold expression of F2 > σ(F2) is used only for calculating R-factors(gt) etc. and is not relevant to the choice of reflections for refinement. R-factors based on F2 are statistically about twice as large as those based on F, and R- factors based on ALL data will be even larger. |
x | y | z | Uiso*/Ueq | ||
Pd1 | 0.42841 (4) | 0.384720 (15) | 0.171291 (14) | 0.03115 (10) | |
N1 | 0.3530 (4) | 0.48761 (16) | 0.20092 (16) | 0.0328 (7) | |
N2 | 0.4398 (4) | 0.37116 (16) | 0.27707 (15) | 0.0322 (7) | |
N3 | 0.4003 (5) | 0.41288 (19) | 0.07018 (17) | 0.0443 (8) | |
N4 | 0.4887 (5) | 0.38609 (18) | 0.02351 (18) | 0.0408 (8) | |
N5 | 0.5675 (6) | 0.3639 (2) | −0.02492 (19) | 0.0547 (10) | |
N6 | 0.5003 (6) | 0.27920 (19) | 0.15822 (18) | 0.0463 (9) | |
N7 | 0.5375 (5) | 0.25334 (19) | 0.10364 (19) | 0.0479 (9) | |
N8 | 0.5816 (8) | 0.2236 (2) | 0.0529 (2) | 0.0781 (15) | |
C1 | 0.3151 (5) | 0.5454 (2) | 0.1609 (2) | 0.0391 (9) | |
H1 | 0.3208 | 0.5405 | 0.1115 | 0.047* | |
C2 | 0.2672 (6) | 0.6127 (2) | 0.1898 (2) | 0.0450 (10) | |
H2 | 0.2401 | 0.6529 | 0.1600 | 0.054* | |
C3 | 0.2592 (6) | 0.6212 (2) | 0.2605 (2) | 0.0461 (10) | |
H3 | 0.2269 | 0.6673 | 0.2800 | 0.055* | |
C4 | 0.2989 (5) | 0.5615 (2) | 0.3045 (2) | 0.0397 (9) | |
C5 | 0.2938 (6) | 0.5635 (2) | 0.3793 (2) | 0.0465 (10) | |
H5 | 0.2607 | 0.6076 | 0.4023 | 0.056* | |
C6 | 0.3351 (6) | 0.5037 (2) | 0.4177 (2) | 0.0472 (10) | |
H6 | 0.3288 | 0.5068 | 0.4673 | 0.057* | |
C7 | 0.3880 (5) | 0.4360 (2) | 0.3861 (2) | 0.0391 (9) | |
C8 | 0.4377 (6) | 0.3725 (3) | 0.4225 (2) | 0.0452 (10) | |
H8 | 0.4366 | 0.3722 | 0.4721 | 0.054* | |
C9 | 0.4880 (6) | 0.3106 (2) | 0.3863 (2) | 0.0461 (10) | |
H9 | 0.5228 | 0.2675 | 0.4107 | 0.055* | |
C10 | 0.4876 (6) | 0.3116 (2) | 0.3135 (2) | 0.0398 (9) | |
H10 | 0.5223 | 0.2685 | 0.2889 | 0.048* | |
C11 | 0.3921 (5) | 0.4327 (2) | 0.31269 (19) | 0.0330 (8) | |
C12 | 0.3466 (5) | 0.49549 (19) | 0.27182 (19) | 0.0330 (8) |
U11 | U22 | U33 | U12 | U13 | U23 | |
Pd1 | 0.03266 (17) | 0.03068 (16) | 0.03012 (16) | −0.00224 (12) | 0.00067 (12) | 0.00230 (11) |
N1 | 0.0282 (16) | 0.0314 (16) | 0.0388 (16) | −0.0041 (13) | 0.0002 (13) | 0.0026 (13) |
N2 | 0.0284 (16) | 0.0370 (17) | 0.0313 (15) | −0.0040 (13) | 0.0022 (12) | 0.0056 (13) |
N3 | 0.053 (2) | 0.047 (2) | 0.0330 (18) | 0.0048 (17) | −0.0011 (16) | 0.0055 (15) |
N4 | 0.049 (2) | 0.0395 (18) | 0.0344 (18) | −0.0017 (16) | −0.0096 (16) | 0.0081 (15) |
N5 | 0.070 (3) | 0.059 (2) | 0.035 (2) | 0.011 (2) | 0.0021 (18) | 0.0054 (17) |
N6 | 0.064 (2) | 0.0362 (18) | 0.038 (2) | 0.0020 (17) | 0.0047 (17) | 0.0028 (15) |
N7 | 0.065 (3) | 0.0349 (18) | 0.044 (2) | 0.0002 (17) | −0.0084 (18) | 0.0033 (16) |
N8 | 0.137 (5) | 0.052 (3) | 0.046 (2) | 0.019 (3) | −0.008 (3) | −0.010 (2) |
C1 | 0.031 (2) | 0.037 (2) | 0.049 (2) | −0.0024 (16) | −0.0033 (17) | 0.0074 (18) |
C2 | 0.032 (2) | 0.035 (2) | 0.068 (3) | 0.0002 (17) | −0.0020 (19) | 0.0091 (19) |
C3 | 0.036 (2) | 0.033 (2) | 0.070 (3) | −0.0016 (18) | 0.004 (2) | −0.0076 (19) |
C4 | 0.029 (2) | 0.035 (2) | 0.055 (2) | −0.0043 (16) | 0.0066 (17) | −0.0083 (18) |
C5 | 0.040 (2) | 0.046 (2) | 0.053 (3) | −0.0063 (19) | 0.009 (2) | −0.017 (2) |
C6 | 0.042 (2) | 0.059 (3) | 0.041 (2) | −0.010 (2) | 0.0051 (18) | −0.009 (2) |
C7 | 0.033 (2) | 0.048 (2) | 0.037 (2) | −0.0090 (17) | 0.0038 (16) | 0.0000 (17) |
C8 | 0.041 (2) | 0.065 (3) | 0.030 (2) | −0.007 (2) | 0.0000 (17) | 0.0056 (19) |
C9 | 0.044 (2) | 0.052 (3) | 0.041 (2) | −0.006 (2) | −0.0018 (19) | 0.016 (2) |
C10 | 0.040 (2) | 0.038 (2) | 0.041 (2) | −0.0007 (18) | 0.0014 (17) | 0.0057 (17) |
C11 | 0.0246 (19) | 0.039 (2) | 0.0354 (19) | −0.0052 (15) | 0.0025 (14) | −0.0003 (16) |
C12 | 0.0259 (18) | 0.0317 (18) | 0.041 (2) | −0.0063 (15) | 0.0002 (15) | 0.0015 (16) |
Pd1—N1 | 2.038 (3) | C3—C4 | 1.407 (6) |
Pd1—N2 | 2.040 (3) | C3—H3 | 0.9500 |
Pd1—N3 | 2.012 (3) | C4—C12 | 1.402 (5) |
Pd1—N6 | 2.013 (3) | C4—C5 | 1.432 (6) |
N1—C1 | 1.333 (5) | C5—C6 | 1.350 (6) |
N1—C12 | 1.365 (5) | C5—H5 | 0.9500 |
N2—C10 | 1.338 (5) | C6—C7 | 1.430 (6) |
N2—C11 | 1.360 (5) | C6—H6 | 0.9500 |
N3—N4 | 1.195 (5) | C7—C8 | 1.399 (6) |
N4—N5 | 1.155 (5) | C7—C11 | 1.407 (5) |
N6—N7 | 1.176 (5) | C8—C9 | 1.374 (6) |
N7—N8 | 1.156 (5) | C8—H8 | 0.9500 |
C1—C2 | 1.392 (5) | C9—C10 | 1.392 (5) |
C1—H1 | 0.9500 | C9—H9 | 0.9500 |
C2—C3 | 1.363 (6) | C10—H10 | 0.9500 |
C2—H2 | 0.9500 | C11—C12 | 1.427 (5) |
N1—Pd1—N2 | 81.20 (12) | C12—C4—C5 | 118.2 (4) |
N3—Pd1—N6 | 98.71 (14) | C3—C4—C5 | 125.0 (4) |
N3—Pd1—N1 | 90.27 (13) | C6—C5—C4 | 121.3 (4) |
N6—Pd1—N1 | 170.93 (13) | C6—C5—H5 | 119.4 |
N3—Pd1—N2 | 171.39 (13) | C4—C5—H5 | 119.4 |
N6—Pd1—N2 | 89.80 (13) | C5—C6—C7 | 121.9 (4) |
C1—N1—C12 | 118.7 (3) | C5—C6—H6 | 119.0 |
C1—N1—Pd1 | 128.8 (3) | C7—C6—H6 | 119.0 |
C12—N1—Pd1 | 112.5 (2) | C8—C7—C11 | 117.1 (4) |
C10—N2—C11 | 118.5 (3) | C8—C7—C6 | 125.2 (4) |
C10—N2—Pd1 | 128.8 (3) | C11—C7—C6 | 117.7 (4) |
C11—N2—Pd1 | 112.7 (2) | C9—C8—C7 | 120.0 (4) |
N4—N3—Pd1 | 124.1 (3) | C9—C8—H8 | 120.0 |
N5—N4—N3 | 174.8 (4) | C7—C8—H8 | 120.0 |
N7—N6—Pd1 | 123.6 (3) | C8—C9—C10 | 119.5 (4) |
N8—N7—N6 | 174.5 (5) | C8—C9—H9 | 120.2 |
N1—C1—C2 | 121.6 (4) | C10—C9—H9 | 120.2 |
N1—C1—H1 | 119.2 | N2—C10—C9 | 122.1 (4) |
C2—C1—H1 | 119.2 | N2—C10—H10 | 118.9 |
C3—C2—C1 | 120.3 (4) | C9—C10—H10 | 118.9 |
C3—C2—H2 | 119.9 | N2—C11—C7 | 122.7 (3) |
C1—C2—H2 | 119.9 | N2—C11—C12 | 116.7 (3) |
C2—C3—C4 | 119.8 (4) | C7—C11—C12 | 120.6 (4) |
C2—C3—H3 | 120.1 | N1—C12—C4 | 122.8 (3) |
C4—C3—H3 | 120.1 | N1—C12—C11 | 116.9 (3) |
C12—C4—C3 | 116.8 (4) | C4—C12—C11 | 120.3 (3) |
N3—Pd1—N1—C1 | −3.1 (3) | C7—C8—C9—C10 | −0.5 (6) |
N2—Pd1—N1—C1 | 178.1 (3) | C11—N2—C10—C9 | 0.6 (6) |
N3—Pd1—N1—C12 | 178.3 (3) | Pd1—N2—C10—C9 | −179.8 (3) |
N2—Pd1—N1—C12 | −0.5 (2) | C8—C9—C10—N2 | 0.1 (6) |
N6—Pd1—N2—C10 | 2.4 (3) | C10—N2—C11—C7 | −1.0 (5) |
N1—Pd1—N2—C10 | −178.7 (3) | Pd1—N2—C11—C7 | 179.3 (3) |
N6—Pd1—N2—C11 | −178.0 (3) | C10—N2—C11—C12 | 178.5 (3) |
N1—Pd1—N2—C11 | 0.9 (2) | Pd1—N2—C11—C12 | −1.2 (4) |
N6—Pd1—N3—N4 | −30.7 (4) | C8—C7—C11—N2 | 0.6 (5) |
N3—Pd1—N6—N7 | 9.6 (4) | C6—C7—C11—N2 | −179.9 (3) |
N2—Pd1—N6—N7 | −171.7 (4) | C8—C7—C11—C12 | −178.9 (3) |
C12—N1—C1—C2 | −0.8 (5) | C6—C7—C11—C12 | 0.6 (5) |
Pd1—N1—C1—C2 | −179.3 (3) | C1—N1—C12—C4 | 1.0 (5) |
N1—C1—C2—C3 | 0.4 (6) | Pd1—N1—C12—C4 | 179.7 (3) |
C1—C2—C3—C4 | −0.2 (6) | C1—N1—C12—C11 | −178.7 (3) |
C2—C3—C4—C12 | 0.4 (6) | Pd1—N1—C12—C11 | 0.0 (4) |
C2—C3—C4—C5 | −179.5 (4) | C3—C4—C12—N1 | −0.8 (6) |
C12—C4—C5—C6 | 0.5 (6) | C5—C4—C12—N1 | 179.1 (3) |
C3—C4—C5—C6 | −179.6 (4) | C3—C4—C12—C11 | 178.9 (3) |
C4—C5—C6—C7 | 0.8 (6) | C5—C4—C12—C11 | −1.2 (5) |
C5—C6—C7—C8 | 178.1 (4) | N2—C11—C12—N1 | 0.8 (5) |
C5—C6—C7—C11 | −1.3 (6) | C7—C11—C12—N1 | −179.7 (3) |
C11—C7—C8—C9 | 0.1 (6) | N2—C11—C12—C4 | −178.9 (3) |
C6—C7—C8—C9 | −179.3 (4) | C7—C11—C12—C4 | 0.6 (5) |
D—H···A | D—H | H···A | D···A | D—H···A |
C1—H1···N3 | 0.95 | 2.53 | 3.044 (5) | 114 |
C1—H1···N5i | 0.95 | 2.54 | 3.196 (5) | 127 |
C5—H5···N8ii | 0.95 | 2.55 | 3.324 (6) | 139 |
C8—H8···N8iii | 0.95 | 2.55 | 3.218 (6) | 127 |
C10—H10···N6 | 0.95 | 2.51 | 3.031 (5) | 114 |
Symmetry codes: (i) −x+1, −y+1, −z; (ii) −x+1, y+1/2, −z+1/2; (iii) x, −y+1/2, z+1/2. |
Experimental details
Crystal data | |
Chemical formula | [Pd(N3)2(C12H8N2)] |
Mr | 370.66 |
Crystal system, space group | Orthorhombic, Pbca |
Temperature (K) | 200 |
a, b, c (Å) | 7.0724 (3), 18.3069 (7), 19.1309 (7) |
V (Å3) | 2476.95 (17) |
Z | 8 |
Radiation type | Mo Kα |
µ (mm−1) | 1.51 |
Crystal size (mm) | 0.25 × 0.13 × 0.12 |
Data collection | |
Diffractometer | Bruker SMART 1000 CCD diffractometer |
Absorption correction | Multi-scan (SADABS; Bruker, 2000) |
Tmin, Tmax | 0.886, 1.000 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 17018, 3058, 2244 |
Rint | 0.040 |
(sin θ/λ)max (Å−1) | 0.667 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.033, 0.084, 1.09 |
No. of reflections | 3058 |
No. of parameters | 190 |
H-atom treatment | H-atom parameters constrained |
Δρmax, Δρmin (e Å−3) | 1.20, −0.62 |
Computer programs: SMART (Bruker, 2000), SAINT (Bruker, 2000), SHELXS97 (Sheldrick, 2008), SHELXL97 (Sheldrick, 2008), ORTEP-3 (Farrugia, 1997) and PLATON (Spek, 2009).
Pd1—N1 | 2.038 (3) | Pd1—N3 | 2.012 (3) |
Pd1—N2 | 2.040 (3) | Pd1—N6 | 2.013 (3) |
N1—Pd1—N2 | 81.20 (12) | N3—Pd1—N6 | 98.71 (14) |
D—H···A | D—H | H···A | D···A | D—H···A |
C1—H1···N3 | 0.95 | 2.53 | 3.044 (5) | 114.0 |
C1—H1···N5i | 0.95 | 2.54 | 3.196 (5) | 126.8 |
C5—H5···N8ii | 0.95 | 2.55 | 3.324 (6) | 139.3 |
C8—H8···N8iii | 0.95 | 2.55 | 3.218 (6) | 127.4 |
C10—H10···N6 | 0.95 | 2.51 | 3.031 (5) | 114.3 |
Symmetry codes: (i) −x+1, −y+1, −z; (ii) −x+1, y+1/2, −z+1/2; (iii) x, −y+1/2, z+1/2. |
Acknowledgements
This work was supported by the Priority Research Centers Program through the National Research Foundation of Korea (NRF) funded by the Ministry of Education, Science and Technology (2010–0029626).
References
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Syntheses (Cheng et al., 1977) and crystal structures of PdII complexes with 1,10-phenanthroline (phen; C12H8N2) and halogenide ions, [PdX2(phen)] (X = Cl, Br or I), have been reported previously (Ha, 2011a,b,c). Here the crystal structure of the pseudohalogenide [Pd(N3)2(phen)] is reported.
In the title complex, the PdII ion is four-coordinated in a slightly distorted square-planar environment by two N atoms of the chelating 1,10-phenanthroline ligand and two N atoms from two azide anions (Fig. 1). The main contribution to the distortion is the tight N1—Pd1—N2 chelate angle [81.20 (12)°], which results in a non-linear trans arrangement [N1—Pd1—N6 = 170.93 (13)° and N2—Pd1—N3 = 171.39 (13)°]. The Pd—N(phen) bond lengths are slightly longer than the Pd—N(azide) bond lengths [Pd1—N1/2: 2.038 (3) and 2.040 (3) Å; Pd1—N3/6: 2.012 (3) and 2.013 (3) Å] (Table 1). The azido ligands are slightly bent with the bond angles of N3—N4—N5 = 174.8 (4)° and N6—N7—N8 = 174.5 (4)°, however with nearly equal N—N bond lengths [N—N: 1.155 (5)–1.195 (5) Å].
In the crystal, the complex molecules are stacked in columns along the a axis and are connected by intermolecular C—H···N hydrogen bonds, forming a three-dimensional network (Fig. 2 and Table 2). In the columns, numerous intermolecular π—π interactions between the six-membered rings are present, the shortest ring centroid-centroid distance being 3.607 (2) Å. Intramolecular C—H···N hydrogen bonds are also present (Table 2).