Literature DB >> 22065693

Hexa-μ-chlorido-μ(4)-oxido-tetra-kis-({1-[(pyridin-2-yl)meth-yl]-1H-benzimidazole-κN}copper(II)).

Hui Li1, Hongshi Jiang, Hong Sun.   

Abstract

The title tetra-nuclear complex, [Cu(4)Cl(6)O(C(13)H(11)N(3))(4)], features a tetra-hedral arrangement of copper(II) ions bonded to the central O atom (site symmetry [Formula: see text]). Each of the six edges of the Cu(4) tetra-hedron is bridged by a chloride ion (one of which has site symmetry 2), so that each copper ion is linked to the other three metal ions through the central O atom and through three separate chloride-ion bridges. The fifth coord-ination position, located on the central Cu-O axis on the outside of the cluster, is occupied by an N atom of the mono-dentate 1-(pyridin-2-ylmeth-yl)-1H-benzimidazole ligand. The resulting coordination geometry of the metal ion is a distorted trigonal bipyramid with the O and N atoms in the axial positions. The dihedral angle between the benzimidazole ring system and the pendant pyridine ring is 61.0 (2)°.

Entities:  

Year:  2011        PMID: 22065693      PMCID: PMC3201516          DOI: 10.1107/S1600536811035252

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


Related literature

For background to polynuclear copper halides, see: Willett (1991 ▶); Chivers et al. (2005 ▶); Li et al. (2009 ▶).

Experimental

Crystal data

[Cu4Cl6O(C13H11N3)4] M = 1319.85 Tetragonal, a = 13.8532 (12) Å c = 14.507 (3) Å V = 2784.1 (6) Å3 Z = 2 Mo Kα radiation μ = 1.85 mm−1 T = 294 K 0.25 × 0.23 × 0.20 mm

Data collection

Rigaku Mercury CCD diffractometer Absorption correction: multi-scan (CrystalClear; Rigaku/MSC, 2005 ▶) T min = 0.637, T max = 0.691 7149 measured reflections 2467 independent reflections 2178 reflections with I > 2σ(I) R int = 0.033

Refinement

R[F 2 > 2σ(F 2)] = 0.028 wR(F 2) = 0.062 S = 1.06 2467 reflections 170 parameters H-atom parameters constrained Δρmax = 0.34 e Å−3 Δρmin = −0.17 e Å−3 Absolute structure: Flack (1983) ▶, 1172 Friedel pairs Flack parameter: 0.005 (15) Data collection: CrystalClear (Rigaku/MSC, 2005 ▶); cell refinement: CrystalClear; data reduction: CrystalClear; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: SHELXTL (Sheldrick, 2008 ▶); software used to prepare material for publication: SHELXTL. Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536811035252/hb6384sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811035252/hb6384Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
[Cu4Cl6O(C13H11N3)4]Dx = 1.574 Mg m3
Mr = 1319.85Mo Kα radiation, λ = 0.71073 Å
Tetragonal, I4Cell parameters from 3492 reflections
a = 13.8532 (12) Åθ = 2.8–25.3°
c = 14.507 (3) ŵ = 1.85 mm1
V = 2784.1 (6) Å3T = 294 K
Z = 2Block, brown
F(000) = 13320.25 × 0.23 × 0.20 mm
Rigaku Mercury CCD diffractometer2467 independent reflections
Radiation source: fine-focus sealed tube2178 reflections with I > 2σ(I)
graphiteRint = 0.033
Detector resolution: 9 pixels mm-1θmax = 25.0°, θmin = 2.0°
ω scansh = −14→16
Absorption correction: multi-scan (CrystalClear; Rigaku/MSC, 2005)k = −16→14
Tmin = 0.637, Tmax = 0.691l = −17→17
7149 measured reflections
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.028H-atom parameters constrained
wR(F2) = 0.062w = 1/[σ2(Fo2) + (0.0286P)2] where P = (Fo2 + 2Fc2)/3
S = 1.06(Δ/σ)max = 0.001
2467 reflectionsΔρmax = 0.34 e Å3
170 parametersΔρmin = −0.17 e Å3
0 restraintsAbsolute structure: Flack (1983), 1172 Friedel pairs
0 constraintsFlack parameter: 0.005 (15)
Primary atom site location: structure-invariant direct methods
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
Cu10.42929 (3)0.41004 (3)0.07467 (3)0.03400 (12)
Cl10.28847 (6)0.47255 (6)−0.00384 (7)0.0473 (2)
Cl20.50000.50000.20129 (8)0.0637 (4)
N30.3550 (2)0.3189 (2)0.1515 (2)0.0412 (7)
C10.3592 (3)0.2243 (3)0.1520 (3)0.0498 (10)
H10.39920.18870.11330.060*
C20.2867 (3)0.3436 (3)0.2180 (2)0.0485 (10)
C70.2518 (3)0.2588 (3)0.2595 (3)0.0533 (10)
N20.2998 (3)0.1839 (2)0.2144 (2)0.0548 (9)
C60.1844 (3)0.2627 (4)0.3322 (3)0.0736 (15)
H60.16360.20680.36160.088*
C30.2513 (3)0.4325 (3)0.2461 (3)0.0663 (13)
H30.27260.48920.21840.080*
C40.1837 (4)0.4350 (4)0.3161 (4)0.0844 (16)
H40.15930.49400.33590.101*
C50.1515 (4)0.3495 (5)0.3574 (4)0.0899 (18)
H50.10560.35320.40400.108*
C80.2900 (4)0.0806 (3)0.2368 (3)0.0755 (15)
H8A0.23430.07210.27640.091*
H8B0.34650.06010.27110.091*
O10.50000.50000.00000.0292 (9)
C90.2789 (3)0.0170 (3)0.1543 (3)0.0563 (10)
C100.1944 (4)−0.0195 (4)0.1286 (4)0.0846 (16)
H100.1380−0.00380.16000.102*
N10.3632 (4)−0.0017 (4)0.1100 (4)0.1075 (18)
C120.2815 (9)−0.1018 (5)0.0115 (5)0.128 (3)
H120.2863−0.1449−0.03740.154*
C110.1926 (7)−0.0858 (5)0.0487 (5)0.116 (2)
H110.1364−0.11380.02610.139*
C130.3600 (8)−0.0601 (5)0.0405 (6)0.140 (4)
H130.4172−0.07300.00930.168*
U11U22U33U12U13U23
Cu10.0374 (2)0.0322 (2)0.03237 (19)−0.00702 (17)0.0024 (2)0.00311 (19)
Cl10.0319 (5)0.0549 (5)0.0552 (5)−0.0045 (4)−0.0026 (4)0.0094 (5)
Cl20.0911 (11)0.0707 (10)0.0294 (6)−0.0472 (9)0.0000.000
N30.0419 (18)0.0393 (18)0.0425 (16)−0.0130 (14)0.0009 (14)0.0065 (14)
C10.061 (3)0.045 (2)0.043 (2)−0.0162 (19)−0.006 (2)0.0044 (19)
C20.045 (2)0.058 (3)0.042 (2)−0.0166 (19)−0.0002 (18)0.007 (2)
C70.054 (2)0.060 (3)0.045 (2)−0.021 (2)0.001 (2)0.010 (2)
N20.068 (2)0.048 (2)0.048 (2)−0.0231 (17)−0.0028 (18)0.0152 (17)
C60.064 (3)0.096 (4)0.061 (3)−0.035 (3)0.005 (2)0.030 (3)
C30.073 (3)0.060 (3)0.066 (3)−0.015 (2)0.021 (3)0.003 (2)
C40.083 (4)0.080 (4)0.091 (4)−0.003 (3)0.037 (3)0.002 (3)
C50.084 (4)0.102 (5)0.084 (4)−0.016 (3)0.040 (3)0.002 (3)
C80.108 (4)0.054 (3)0.065 (3)−0.030 (3)−0.008 (3)0.021 (2)
O10.0293 (14)0.0293 (14)0.029 (2)0.0000.0000.000
C90.064 (3)0.042 (2)0.064 (3)−0.002 (2)0.010 (2)0.020 (2)
C100.093 (4)0.081 (4)0.081 (4)−0.020 (3)0.010 (3)0.001 (3)
N10.107 (4)0.085 (3)0.130 (5)0.035 (3)0.033 (3)0.025 (3)
C120.229 (11)0.066 (4)0.090 (5)−0.007 (6)0.033 (7)0.000 (4)
C110.158 (7)0.092 (5)0.097 (5)−0.030 (5)−0.005 (5)0.008 (4)
C130.202 (10)0.064 (5)0.154 (8)0.052 (5)0.079 (7)0.012 (5)
Cu1—O11.9199 (4)C4—C51.400 (7)
Cu1—N31.974 (3)C4—H40.9300
Cu1—Cl1i2.3961 (10)C5—H50.9300
Cu1—Cl12.4192 (10)C8—C91.494 (7)
Cu1—Cl22.4263 (10)C8—H8A0.9700
Cl1—Cu1ii2.3961 (9)C8—H8B0.9700
Cl2—Cu1iii2.4263 (10)O1—Cu1iii1.9199 (4)
N3—C11.313 (4)O1—Cu1i1.9199 (4)
N3—C21.394 (5)O1—Cu1ii1.9199 (4)
C1—N21.345 (5)C9—C101.328 (6)
C1—H10.9300C9—N11.358 (6)
C2—C31.386 (6)C10—C111.480 (8)
C2—C71.407 (5)C10—H100.9300
C7—N21.395 (6)N1—C131.293 (9)
C7—C61.409 (6)C12—C131.301 (12)
N2—C81.474 (5)C12—C111.362 (10)
C6—C51.337 (8)C12—H120.9300
C6—H60.9300C11—H110.9300
C3—C41.382 (6)C13—H130.9300
C3—H30.9300
O1—Cu1—N3179.14 (9)C3—C4—H4119.7
O1—Cu1—Cl1i85.68 (3)C5—C4—H4119.7
N3—Cu1—Cl1i95.10 (9)C6—C5—C4122.3 (5)
O1—Cu1—Cl185.03 (3)C6—C5—H5118.8
N3—Cu1—Cl194.25 (9)C4—C5—H5118.8
Cl1i—Cu1—Cl1120.483 (17)N2—C8—C9113.9 (4)
O1—Cu1—Cl283.56 (2)N2—C8—H8A108.8
N3—Cu1—Cl296.40 (9)C9—C8—H8A108.8
Cl1i—Cu1—Cl2117.17 (3)N2—C8—H8B108.8
Cl1—Cu1—Cl2119.88 (3)C9—C8—H8B108.8
Cu1ii—Cl1—Cu180.69 (3)H8A—C8—H8B107.7
Cu1—Cl2—Cu1iii81.58 (4)Cu1iii—O1—Cu1i108.564 (12)
C1—N3—C2105.8 (3)Cu1iii—O1—Cu1111.30 (2)
C1—N3—Cu1128.2 (3)Cu1i—O1—Cu1108.564 (12)
C2—N3—Cu1126.0 (2)Cu1iii—O1—Cu1ii108.564 (12)
N3—C1—N2113.1 (4)Cu1i—O1—Cu1ii111.30 (2)
N3—C1—H1123.5Cu1—O1—Cu1ii108.564 (12)
N2—C1—H1123.5C10—C9—N1123.5 (5)
C3—C2—N3131.4 (3)C10—C9—C8122.7 (5)
C3—C2—C7119.6 (4)N1—C9—C8113.8 (5)
N3—C2—C7108.9 (4)C9—C10—C11118.1 (6)
N2—C7—C2104.9 (4)C9—C10—H10121.0
N2—C7—C6134.1 (4)C11—C10—H10121.0
C2—C7—C6121.0 (5)C13—N1—C9117.3 (7)
C1—N2—C7107.4 (3)C13—C12—C11123.7 (8)
C1—N2—C8127.5 (4)C13—C12—H12118.1
C7—N2—C8125.1 (4)C11—C12—H12118.1
C5—C6—C7117.8 (4)C12—C11—C10113.3 (7)
C5—C6—H6121.1C12—C11—H11123.3
C7—C6—H6121.1C10—C11—H11123.3
C4—C3—C2118.6 (4)N1—C13—C12123.9 (8)
C4—C3—H3120.7N1—C13—H13118.0
C2—C3—H3120.7C12—C13—H13118.0
C3—C4—C5120.6 (5)
O1—Cu1—Cl1—Cu1ii−1.10 (2)N2—C7—C6—C5−178.9 (5)
N3—Cu1—Cl1—Cu1ii178.42 (9)C2—C7—C6—C53.0 (7)
Cl1i—Cu1—Cl1—Cu1ii−83.12 (4)N3—C2—C3—C4−178.9 (4)
Cl2—Cu1—Cl1—Cu1ii78.54 (4)C7—C2—C3—C41.4 (7)
O1—Cu1—Cl2—Cu1iii0.0C2—C3—C4—C5−0.2 (8)
N3—Cu1—Cl2—Cu1iii−179.13 (9)C7—C6—C5—C4−1.8 (9)
Cl1i—Cu1—Cl2—Cu1iii81.77 (3)C3—C4—C5—C60.5 (9)
Cl1—Cu1—Cl2—Cu1iii−80.48 (3)C1—N2—C8—C9−48.8 (6)
O1—Cu1—N3—C1150 (6)C7—N2—C8—C9135.3 (4)
Cl1i—Cu1—N3—C1−4.5 (3)N3—Cu1—O1—Cu1iii88 (6)
Cl1—Cu1—N3—C1116.6 (3)Cl1i—Cu1—O1—Cu1iii−117.99 (3)
Cl2—Cu1—N3—C1−122.7 (3)Cl1—Cu1—O1—Cu1iii120.87 (3)
O1—Cu1—N3—C2−31 (6)Cl2—Cu1—O1—Cu1iii0.0
Cl1i—Cu1—N3—C2174.8 (3)N3—Cu1—O1—Cu1i−153 (6)
Cl1—Cu1—N3—C2−64.1 (3)Cl1i—Cu1—O1—Cu1i1.44 (3)
Cl2—Cu1—N3—C256.7 (3)Cl1—Cu1—O1—Cu1i−119.70 (3)
C2—N3—C1—N2−0.7 (4)Cl2—Cu1—O1—Cu1i119.434 (8)
Cu1—N3—C1—N2178.8 (2)N3—Cu1—O1—Cu1ii−32 (6)
C1—N3—C2—C3−178.6 (4)Cl1i—Cu1—O1—Cu1ii122.58 (3)
Cu1—N3—C2—C32.0 (6)Cl1—Cu1—O1—Cu1ii1.43 (3)
C1—N3—C2—C71.2 (4)Cl2—Cu1—O1—Cu1ii−119.434 (8)
Cu1—N3—C2—C7−178.3 (2)N2—C8—C9—C10−102.8 (6)
C3—C2—C7—N2178.6 (4)N2—C8—C9—N178.9 (5)
N3—C2—C7—N2−1.2 (4)N1—C9—C10—C111.4 (7)
C3—C2—C7—C6−2.8 (6)C8—C9—C10—C11−176.8 (4)
N3—C2—C7—C6177.4 (4)C10—C9—N1—C13−1.6 (7)
N3—C1—N2—C7−0.1 (4)C8—C9—N1—C13176.8 (5)
N3—C1—N2—C8−176.6 (4)C13—C12—C11—C10−2.7 (10)
C2—C7—N2—C10.8 (4)C9—C10—C11—C120.6 (8)
C6—C7—N2—C1−177.6 (5)C9—N1—C13—C12−0.5 (10)
C2—C7—N2—C8177.4 (4)C11—C12—C13—N12.8 (13)
C6—C7—N2—C8−1.0 (8)
Table 1

Selected bond lengths (Å)

Cu1—O11.9199 (4)
Cu1—N31.974 (3)
Cu1—Cl1i2.3961 (10)
Cu1—Cl12.4192 (10)
Cu1—Cl22.4263 (10)

Symmetry code: (i) .

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1.  A short history of SHELX.

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

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Journal:  Chem Commun (Camb)       Date:  2005-03-22       Impact factor: 6.222

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1.  Hexa-μ2-chlorido-μ4-oxido-tetra-kis[(morpholine-κN)copper(II)] methanol disolvate.

Authors:  Kateryna Gubina; Vladimir Ovchynnikov; Vladimir Amirkhanov
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2014-06-21

2.  Crystal structure of hexa-μ-chlorido-μ4-oxido-tetra-kis-{[1-(2-hy-droxy-eth-yl)-2-methyl-5-nitro-1H-imidazole-κN 3]copper(II)} containing short NO2⋯NO2 contacts.

Authors:  Ja-Shin Wu; Daniel G Shlian; Joshua H Palmer; Rita K Upmacis
Journal:  Acta Crystallogr E Crystallogr Commun       Date:  2019-06-25
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