Literature DB >> 21522600

Bis{benzyl 3-[(1H-indol-3-yl)methyl-idene]dithio-carbazato-κN,S}palladium(II) N,N-dimethyl-formamide disolvate.

Hamid Khaledi1, Hapipah Mohd Ali.   

Abstract

In the title compound, [Pd(C(17)H(14)N(3)S(2))(2)]·2C(3)H(7)NO, the deprotonated Schiff base ligand acts as an N,S-bidentate chelate, forming a five-membered ring with the metal atom. The Pd(II) ion, located on an inversion center, is four-coordinated by two of the Schiff base ligands in a square-planar geometry. In the crystal, the indolic NH groups are bonded to the dimethyl-formamide (DMF) solvent mol-ecules via an N-H⋯O inter-action. In addition, C-H⋯S inter-actions are observed.

Entities:  

Year:  2010        PMID: 21522600      PMCID: PMC3050367          DOI: 10.1107/S1600536810051780

Source DB:  PubMed          Journal:  Acta Crystallogr Sect E Struct Rep Online        ISSN: 1600-5368


Related literature

For the crystal structure of the ligand, see: Khaledi et al. (2008 ▶). For the isotypic Cu(II) analog, see: Khaledi et al. (2009 ▶). For the PdII complex of the acetone Schiff base of S-methyl­dithio­carbazate, see: Ali et al. (2002 ▶).

Experimental

Crystal data

[Pd(C17H14N3S2)2]·2C3H7NO M = 901.46 Monoclinic, a = 10.509 (4) Å b = 20.320 (7) Å c = 10.925 (4) Å β = 117.577 (5)° V = 2067.8 (12) Å3 Z = 2 Mo Kα radiation μ = 0.70 mm−1 T = 296 K 0.30 × 0.15 × 0.03 mm

Data collection

Bruker APEXII CCD diffractometer Absorption correction: multi-scan (SADABS; Sheldrick, 1996 ▶) T min = 0.818, T max = 0.979 11353 measured reflections 4486 independent reflections 3411 reflections with I > 2σ(I) R int = 0.024

Refinement

R[F 2 > 2σ(F 2)] = 0.030 wR(F 2) = 0.074 S = 1.02 4486 reflections 255 parameters 1 restraint H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.27 e Å−3 Δρmin = −0.31 e Å−3 Data collection: APEX2 (Bruker, 2007 ▶); cell refinement: SAINT (Bruker, 2007 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: X-SEED (Barbour, 2001 ▶); software used to prepare material for publication: SHELXL97 and publCIF (Westrip, 2010 ▶). Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536810051780/pv2368sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810051780/pv2368Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
[Pd(C17H14N3S2)2]·2C3H7NOF(000) = 928
Mr = 901.46Dx = 1.448 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 3977 reflections
a = 10.509 (4) Åθ = 2.3–29.4°
b = 20.320 (7) ŵ = 0.70 mm1
c = 10.925 (4) ÅT = 296 K
β = 117.577 (5)°Plate, red
V = 2067.8 (12) Å30.30 × 0.15 × 0.03 mm
Z = 2
Bruker APEXII CCD diffractometer4486 independent reflections
Radiation source: fine-focus sealed tube3411 reflections with I > 2σ(I)
graphiteRint = 0.024
φ and ω scansθmax = 27.0°, θmin = 2.0°
Absorption correction: multi-scan (SADABS; Sheldrick, 1996)h = −13→12
Tmin = 0.818, Tmax = 0.979k = −25→25
11353 measured reflectionsl = −11→13
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.030Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.074H atoms treated by a mixture of independent and constrained refinement
S = 1.02w = 1/[σ2(Fo2) + (0.0332P)2 + 0.5126P] where P = (Fo2 + 2Fc2)/3
4486 reflections(Δ/σ)max = 0.001
255 parametersΔρmax = 0.27 e Å3
1 restraintΔρmin = −0.31 e Å3
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.
xyzUiso*/Ueq
Pd10.50000.50001.00000.03881 (8)
S10.50770 (7)0.38703 (3)1.00654 (7)0.05372 (16)
S20.60819 (8)0.29517 (3)0.86690 (7)0.05937 (18)
N10.7185 (2)0.50542 (10)0.5369 (2)0.0550 (5)
H1N0.753 (3)0.4818 (12)0.496 (3)0.066*
N20.56951 (19)0.48716 (8)0.85694 (19)0.0422 (4)
N30.60342 (19)0.42432 (8)0.82622 (19)0.0438 (4)
C10.6788 (3)0.48235 (11)0.6292 (3)0.0517 (6)
H10.67710.43810.65050.062*
C20.6405 (2)0.53413 (10)0.6881 (2)0.0438 (5)
C30.6598 (2)0.59335 (10)0.6243 (2)0.0434 (5)
C40.6429 (3)0.66054 (11)0.6388 (3)0.0547 (6)
H40.61110.67550.70050.066*
C50.6739 (3)0.70436 (13)0.5604 (3)0.0667 (7)
H50.66420.74930.57030.080*
C60.7198 (3)0.68253 (13)0.4660 (3)0.0692 (8)
H60.73880.71320.41340.083*
C70.7374 (3)0.61730 (13)0.4495 (3)0.0595 (6)
H70.76780.60290.38650.071*
C80.7080 (2)0.57292 (11)0.5304 (2)0.0479 (5)
C90.5902 (2)0.53485 (11)0.7881 (2)0.0449 (5)
H90.56810.57650.80810.054*
C100.5759 (2)0.37785 (10)0.8902 (2)0.0424 (5)
C110.6598 (3)0.29661 (12)0.7301 (3)0.0587 (6)
H11A0.64110.25330.68800.070*
H11B0.59690.32730.66020.070*
C120.8120 (3)0.31475 (10)0.7668 (3)0.0514 (6)
C130.8432 (3)0.32943 (13)0.6598 (3)0.0641 (7)
H130.76990.32840.56940.077*
C140.9801 (3)0.34555 (15)0.6844 (4)0.0792 (9)
H140.99870.35480.61080.095*
C151.0875 (3)0.34793 (16)0.8149 (4)0.0858 (10)
H151.17980.35950.83160.103*
C161.0600 (3)0.33329 (16)0.9226 (4)0.0884 (10)
H161.13400.33481.01260.106*
C170.9222 (3)0.31618 (14)0.8987 (3)0.0706 (7)
H170.90500.30570.97260.085*
O10.8241 (4)0.43495 (13)0.3888 (3)0.1248 (10)
N40.9096 (2)0.42640 (11)0.2347 (2)0.0634 (6)
C180.8601 (4)0.45922 (17)0.3077 (4)0.0946 (11)
H180.85200.50460.29640.113*
C190.9457 (3)0.45852 (16)0.1364 (3)0.0827 (9)
H19A0.93690.50530.14200.124*
H19B0.88150.44380.04480.124*
H19C1.04260.44770.15740.124*
C200.9206 (3)0.35570 (14)0.2455 (3)0.0785 (8)
H20A0.91530.34180.32690.118*
H20B1.01060.34200.25110.118*
H20C0.84320.33630.16560.118*
U11U22U33U12U13U23
Pd10.04047 (13)0.04106 (13)0.04411 (14)0.00056 (10)0.02740 (11)0.00044 (11)
S10.0737 (4)0.0436 (3)0.0685 (4)−0.0004 (3)0.0537 (4)0.0015 (3)
S20.0807 (4)0.0410 (3)0.0797 (5)−0.0021 (3)0.0569 (4)−0.0023 (3)
N10.0705 (13)0.0540 (12)0.0608 (13)−0.0030 (10)0.0477 (11)−0.0044 (10)
N20.0469 (10)0.0428 (10)0.0467 (10)0.0017 (7)0.0301 (9)−0.0002 (8)
N30.0503 (10)0.0407 (9)0.0511 (11)0.0002 (8)0.0325 (9)−0.0031 (8)
C10.0656 (15)0.0462 (12)0.0603 (15)−0.0024 (11)0.0434 (13)0.0003 (11)
C20.0495 (12)0.0444 (12)0.0480 (13)0.0014 (10)0.0314 (11)0.0026 (10)
C30.0426 (11)0.0470 (12)0.0466 (12)0.0015 (10)0.0257 (10)0.0046 (10)
C40.0573 (14)0.0507 (13)0.0664 (16)0.0053 (11)0.0374 (13)0.0056 (12)
C50.0681 (17)0.0505 (14)0.089 (2)0.0026 (12)0.0431 (16)0.0135 (14)
C60.0660 (17)0.0691 (17)0.082 (2)−0.0025 (13)0.0426 (16)0.0267 (15)
C70.0599 (15)0.0741 (17)0.0586 (16)−0.0024 (13)0.0394 (13)0.0115 (13)
C80.0475 (12)0.0546 (13)0.0490 (13)−0.0030 (10)0.0287 (11)0.0032 (11)
C90.0513 (13)0.0404 (11)0.0528 (14)0.0030 (10)0.0323 (12)0.0018 (10)
C100.0432 (11)0.0430 (11)0.0487 (13)−0.0026 (9)0.0278 (11)−0.0040 (10)
C110.0702 (16)0.0537 (14)0.0667 (16)−0.0089 (12)0.0440 (14)−0.0186 (12)
C120.0610 (15)0.0404 (11)0.0645 (16)0.0026 (10)0.0389 (14)−0.0099 (11)
C130.0680 (17)0.0654 (16)0.0694 (17)0.0005 (13)0.0409 (15)−0.0041 (14)
C140.076 (2)0.082 (2)0.101 (3)0.0005 (17)0.059 (2)0.0081 (19)
C150.0625 (19)0.082 (2)0.122 (3)0.0053 (16)0.050 (2)0.009 (2)
C160.0637 (19)0.095 (2)0.089 (2)0.0093 (17)0.0210 (18)−0.0057 (19)
C170.0734 (19)0.0774 (18)0.0687 (19)0.0053 (15)0.0393 (17)−0.0040 (15)
O10.202 (3)0.120 (2)0.1058 (19)0.0498 (19)0.116 (2)0.0098 (16)
N40.0643 (13)0.0729 (14)0.0570 (13)0.0028 (11)0.0315 (12)−0.0111 (11)
C180.136 (3)0.080 (2)0.086 (2)0.026 (2)0.067 (2)−0.0029 (19)
C190.079 (2)0.095 (2)0.083 (2)−0.0068 (17)0.0451 (19)−0.0070 (18)
C200.090 (2)0.0727 (19)0.073 (2)0.0108 (16)0.0386 (18)−0.0092 (16)
Pd1—N2i2.0252 (18)C9—H90.9300
Pd1—N22.0252 (18)C11—C121.505 (3)
Pd1—S12.2969 (10)C11—H11A0.9700
Pd1—S1i2.2969 (10)C11—H11B0.9700
S1—C101.735 (2)C12—C171.369 (4)
S2—C101.755 (2)C12—C131.384 (3)
S2—C111.810 (2)C13—C141.376 (4)
N1—C11.342 (3)C13—H130.9300
N1—C81.375 (3)C14—C151.349 (4)
N1—H1N0.840 (16)C14—H140.9300
N2—C91.305 (3)C15—C161.368 (4)
N2—N31.407 (2)C15—H150.9300
N3—C101.285 (3)C16—C171.391 (4)
C1—C21.387 (3)C16—H160.9300
C1—H10.9300C17—H170.9300
C2—C91.417 (3)O1—C181.218 (4)
C2—C31.451 (3)N4—C181.317 (4)
C3—C41.395 (3)N4—C201.442 (3)
C3—C81.401 (3)N4—C191.449 (4)
C4—C51.375 (3)C18—H180.9300
C4—H40.9300C19—H19A0.9600
C5—C61.398 (4)C19—H19B0.9600
C5—H50.9300C19—H19C0.9600
C6—C71.362 (4)C20—H20A0.9600
C6—H60.9300C20—H20B0.9600
C7—C81.394 (3)C20—H20C0.9600
C7—H70.9300
N2i—Pd1—N2179.999 (1)S1—C10—S2112.47 (12)
N2i—Pd1—S197.17 (5)C12—C11—S2118.18 (19)
N2—Pd1—S182.83 (5)C12—C11—H11A107.8
N2i—Pd1—S1i82.83 (5)S2—C11—H11A107.8
N2—Pd1—S1i97.17 (5)C12—C11—H11B107.8
S1—Pd1—S1i180.0S2—C11—H11B107.8
C10—S1—Pd196.04 (7)H11A—C11—H11B107.1
C10—S2—C11104.82 (11)C17—C12—C13118.0 (2)
C1—N1—C8109.95 (19)C17—C12—C11124.2 (2)
C1—N1—H1N123.9 (19)C13—C12—C11117.8 (2)
C8—N1—H1N125.9 (19)C14—C13—C12121.4 (3)
C9—N2—N3114.08 (17)C14—C13—H13119.3
C9—N2—Pd1124.40 (15)C12—C13—H13119.3
N3—N2—Pd1121.50 (12)C15—C14—C13120.2 (3)
C10—N3—N2113.06 (17)C15—C14—H14119.9
N1—C1—C2110.0 (2)C13—C14—H14119.9
N1—C1—H1125.0C14—C15—C16119.6 (3)
C2—C1—H1125.0C14—C15—H15120.2
C1—C2—C9131.1 (2)C16—C15—H15120.2
C1—C2—C3105.77 (19)C15—C16—C17120.6 (3)
C9—C2—C3123.12 (19)C15—C16—H16119.7
C4—C3—C8118.8 (2)C17—C16—H16119.7
C4—C3—C2134.7 (2)C12—C17—C16120.2 (3)
C8—C3—C2106.49 (18)C12—C17—H17119.9
C5—C4—C3118.9 (2)C16—C17—H17119.9
C5—C4—H4120.5C18—N4—C20119.6 (3)
C3—C4—H4120.5C18—N4—C19122.2 (3)
C4—C5—C6121.1 (2)C20—N4—C19118.1 (2)
C4—C5—H5119.5O1—C18—N4125.4 (3)
C6—C5—H5119.5O1—C18—H18117.3
C7—C6—C5121.4 (2)N4—C18—H18117.3
C7—C6—H6119.3N4—C19—H19A109.5
C5—C6—H6119.3N4—C19—H19B109.5
C6—C7—C8117.5 (2)H19A—C19—H19B109.5
C6—C7—H7121.2N4—C19—H19C109.5
C8—C7—H7121.2H19A—C19—H19C109.5
N1—C8—C7129.9 (2)H19B—C19—H19C109.5
N1—C8—C3107.81 (18)N4—C20—H20A109.5
C7—C8—C3122.3 (2)N4—C20—H20B109.5
N2—C9—C2131.1 (2)H20A—C20—H20B109.5
N2—C9—H9114.4N4—C20—H20C109.5
C2—C9—H9114.4H20A—C20—H20C109.5
N3—C10—S1126.36 (16)H20B—C20—H20C109.5
N3—C10—S2121.17 (16)
D—H···AD—HH···AD···AD—H···A
N1—H1N···O10.84 (2)1.91 (2)2.749 (3)174 (3)
C1—H1···N30.932.402.869 (3)111.
C17—H17···S20.932.793.183 (3)107.
C20—H20A···O10.962.362.747 (3)104.
C9—H9···S1i0.932.603.279 (2)130.
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1N⋯O10.84 (2)1.91 (2)2.749 (3)174 (3)
C9—H9⋯S1i0.932.603.279 (2)130

Symmetry code: (i) .

  4 in total

1.  A short history of SHELX.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

2.  Biological activity of palladium(II) and platinum(II) complexes of the acetone Schiff bases of S-methyl- and S-benzyldithiocarbazate and the X-ray crystal structure of the [Pd(asme)2] (asme=anionic form of the acetone Schiff base of S-methyldithiocarbazate) complex.

Authors:  Mohammad Akbar Ali; Aminul Huq Mirza; Raymond J Butcher; M T H Tarafder; Tan Boon Keat; A Manaf Ali
Journal:  J Inorg Biochem       Date:  2002-11-25       Impact factor: 4.155

3.  Bis{benzyl N'-[(1H-indol-3-yl)methyl-ene]dithio-carbazato-κN',S}copper(II) N,N-dimethyl-formamide disolvate.

Authors:  Hamid Khaledi; Hapipah Mohd Ali; Seik Weng Ng
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-01-08

4.  Benzyl N'-(1H-indol-3-ylmethyl-idene)-hydrazinecarbodithio-ate.

Authors:  Hamid Khaledi; Hapipah Mohd Ali; Seik Weng Ng
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2008-10-11
  4 in total
  1 in total

1.  Bis{benzyl 3-[(1H-indol-3-yl)methyl-idene]dithio-carbazato-κN,S}palladium(II) pyridine disolvate.

Authors:  Hamid Khaledi; Hapipah Mohd Ali
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-01-22
  1 in total

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