Literature DB >> 21201998

cyclo-Tetra-μ-malato-κO,O',O'':O'''-tetra-kis[bis-(1H-benzimidazole-κN)cobalt(II)] eicosa-hydrate.

Jun-Hua Li1, Jing-Jing Nie, Jian-Rong Su, Duan-Jun Xu.   

Abstract

The title compound, [Co(4)(C(4)H(4)O(5))(4)(C(7)H(6)N(2))(8)]·20H(2)O, consists of tetra-nuclear Co(II) complexes and disordered uncoordinated water mol-ecules. The tetra-meric complex mol-ecule has symmetry. While two benzimidazole mol-ecules and a tridentate malate dianion coordinate a Co(II) ion, the carboxylate O atom from an adjacent malate dianion bridges the Co(II) ions to complete a distorted octa-hedral coordination geometry. The tridentate malate dianion chelates the Co(II) ion, and the chelate six- and five-membered rings show half-chair and envelope configurations, respectively. A face-to-face separation of 3.494 (9) Å between parallel benzimidazole ligands indicates the existence of π-π stacking between adjacent complexes. The crystal structure also involves N-H⋯O and O-H⋯O hydrogen bonds.

Entities:  

Year:  2008        PMID: 21201998      PMCID: PMC2960982          DOI: 10.1107/S1600536808006715

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


Related literature

For general background, see: Deisenhofer & Michel (1989 ▶); Su & Xu (2004 ▶); Liu et al. (2004 ▶); Li et al. (2005 ▶). For related structures, see: Nie et al. (2002 ▶);

Experimental

Crystal data

[Co4(C4H4O5)4(C7H6N2)8]·20H2O M = 2069.43 Tetragonal, a = 20.230 (2) Å c = 11.6203 (12) Å V = 4755.6 (8) Å3 Z = 2 Mo Kα radiation μ = 0.78 mm−1 T = 295 (2) K 0.35 × 0.30 × 0.22 mm

Data collection

Rigaku R-AXIS RAPID IP diffractometer Absorption correction: multi-scan (ABSCOR; Higashi, 1995 ▶) T min = 0.748, T max = 0.840 29983 measured reflections 4053 independent reflections 3191 reflections with I > 2σ(I) R int = 0.075

Refinement

R[F 2 > 2σ(F 2)] = 0.076 wR(F 2) = 0.190 S = 1.15 4053 reflections 294 parameters H-atom parameters constrained Δρmax = 0.43 e Å−3 Δρmin = −0.31 e Å−3 Data collection: PROCESS-AUTO (Rigaku, 1998 ▶); cell refinement: PROCESS-AUTO; data reduction: CrystalStructure (Rigaku/MSC, 2002 ▶); program(s) used to solve structure: SIR92 (Altomare et al., 1993 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 for Windows (Farrugia, 1997 ▶); software used to prepare material for publication: WinGX (Farrugia, 1999 ▶). Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536808006715/ng2434sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536808006715/ng2434Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
[Co4(C4H4O5)4(C7H6N2)8]·20H2OZ = 2
Mr = 2069.43F000 = 2152
Tetragonal, P4/nDx = 1.445 Mg m3
Hall symbol: -P 4aMo Kα radiation λ = 0.71069 Å
a = 20.230 (2) ÅCell parameters from 8672 reflections
b = 20.230 Åθ = 2.0–24.0º
c = 11.6203 (12) ŵ = 0.78 mm1
α = 90ºT = 295 (2) K
β = 90ºPrism, pink
γ = 90º0.35 × 0.30 × 0.22 mm
V = 4755.6 (8) Å3
Rigaku R-AXIS RAPID IP diffractometer4053 independent reflections
Radiation source: fine-focus sealed tube3191 reflections with I > 2σ(I)
Monochromator: graphiteRint = 0.075
Detector resolution: 10.00 pixels mm-1θmax = 25.0º
T = 295(2) Kθmin = 1.4º
ω scansh = −22→24
Absorption correction: multi-scan(ABSCOR; Higashi, 1995)k = −23→21
Tmin = 0.748, Tmax = 0.840l = −12→12
29983 measured reflections
Refinement on F2Hydrogen site location: inferred from neighbouring sites
Least-squares matrix: fullH-atom parameters constrained
R[F2 > 2σ(F2)] = 0.076  w = 1/[σ2(Fo2) + (0.0761P)2 + 7.4753P] where P = (Fo2 + 2Fc2)/3
wR(F2) = 0.190(Δ/σ)max = 0.001
S = 1.15Δρmax = 0.43 e Å3
4053 reflectionsΔρmin = −0.31 e Å3
294 parametersExtinction correction: SHELXL97 (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 0.0022 (4)
Secondary atom site location: difference Fourier map
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*/UeqOcc. (<1)
Co0.43554 (3)0.71743 (3)0.55558 (6)0.0519 (3)
N110.5316 (3)0.8011 (3)0.8403 (6)0.106 (2)
H110.56800.81340.87210.128*
N130.4649 (2)0.7567 (2)0.7126 (4)0.0602 (11)
N210.5804 (3)0.5747 (3)0.4877 (6)0.0909 (18)
H210.61140.56100.44290.109*
N230.5019 (2)0.6392 (2)0.5566 (4)0.0667 (12)
O10.50329 (18)0.7760 (2)0.4621 (4)0.0691 (11)
O20.5563 (2)0.8172 (3)0.3159 (4)0.1038 (16)
O30.39943 (17)0.69288 (15)0.3869 (3)0.0571 (9)
H3A0.36020.67030.39760.068*
O40.36459 (17)0.79509 (16)0.5193 (3)0.0556 (9)
O50.33611 (16)0.85780 (16)0.3690 (3)0.0562 (9)
C10.5066 (3)0.7899 (3)0.3585 (6)0.0628 (14)
C20.4512 (3)0.7765 (3)0.2754 (5)0.0712 (16)
H2A0.46520.74220.22250.085*
H2B0.44340.81620.23060.085*
C30.3868 (2)0.7556 (2)0.3297 (5)0.0570 (13)
H30.35410.74860.26880.068*
C40.3602 (2)0.8070 (2)0.4135 (5)0.0506 (12)
C120.5260 (3)0.7690 (4)0.7395 (7)0.093 (2)
H120.56190.75690.69410.111*
C140.3604 (3)0.7854 (3)0.8185 (5)0.0652 (15)
H140.33130.76610.76630.078*
C150.3380 (4)0.8176 (4)0.9149 (6)0.088 (2)
H150.29270.82050.92720.106*
C160.3800 (6)0.8455 (4)0.9937 (7)0.104 (2)
H160.36240.86631.05810.125*
C170.4469 (6)0.8436 (4)0.9804 (6)0.110 (3)
H170.47560.86291.03310.132*
C180.4696 (4)0.8110 (3)0.8834 (6)0.0838 (18)
C190.4273 (3)0.7829 (2)0.8026 (5)0.0584 (13)
C220.5461 (3)0.6295 (3)0.4751 (7)0.086 (2)
H220.55260.65870.41440.103*
C240.4745 (3)0.5679 (3)0.7273 (6)0.086 (2)
H240.44170.59510.75720.104*
C250.4908 (4)0.5093 (4)0.7806 (7)0.109 (3)
H250.46950.49670.84800.131*
C260.5408 (4)0.4680 (4)0.7312 (9)0.108 (3)
H260.55060.42800.76690.130*
C270.5738 (3)0.4843 (4)0.6366 (8)0.097 (2)
H270.60640.45680.60650.116*
C280.5580 (3)0.5432 (3)0.5846 (6)0.0707 (17)
C290.5082 (2)0.5850 (3)0.6283 (6)0.0637 (15)
O1WA0.6498 (6)0.7660 (6)0.5347 (11)0.111 (4)*0.50
O1WB0.6657 (13)0.7678 (12)0.450 (2)0.232 (10)*0.50
O2WA0.612 (2)0.656 (2)0.164 (4)0.382 (18)*0.50
O2WB0.724 (5)0.683 (3)0.306 (5)0.55 (4)*0.50
O3WA0.6433 (16)0.8792 (19)0.941 (3)0.294 (13)*0.50
O3WB0.656 (2)0.954 (2)1.036 (3)0.358 (17)*0.50
O4WA0.6559 (16)0.7823 (16)1.177 (3)0.306 (14)*0.50
O4WB0.6030 (17)0.8444 (17)1.094 (3)0.305 (13)*0.50
O5WA0.6861 (19)0.6634 (15)0.943 (2)0.294 (13)*0.50
O5WB0.688 (3)0.692 (3)0.719 (4)0.49 (3)*0.50
U11U22U33U12U13U23
Co0.0465 (4)0.0514 (4)0.0579 (5)0.0028 (3)−0.0040 (3)−0.0070 (3)
N110.092 (5)0.139 (6)0.088 (5)−0.022 (4)−0.033 (4)−0.028 (4)
N130.053 (3)0.066 (3)0.061 (3)0.003 (2)−0.011 (2)−0.006 (2)
N210.065 (3)0.085 (4)0.122 (5)0.016 (3)0.020 (3)−0.020 (4)
N230.050 (3)0.068 (3)0.082 (3)0.013 (2)0.002 (2)−0.009 (3)
O10.059 (2)0.080 (3)0.068 (3)−0.0198 (18)−0.0013 (19)−0.005 (2)
O20.085 (3)0.119 (4)0.108 (4)−0.038 (3)0.019 (3)−0.004 (3)
O30.061 (2)0.0489 (19)0.061 (2)−0.0063 (15)−0.0033 (17)−0.0063 (16)
O40.060 (2)0.0530 (19)0.054 (2)0.0098 (15)−0.0076 (17)−0.0001 (16)
O50.055 (2)0.057 (2)0.056 (2)−0.0009 (15)−0.0015 (17)0.0061 (17)
C10.053 (3)0.063 (3)0.072 (4)−0.003 (2)0.006 (3)−0.017 (3)
C20.077 (4)0.074 (4)0.062 (4)−0.008 (3)0.010 (3)−0.010 (3)
C30.056 (3)0.060 (3)0.055 (3)−0.006 (2)−0.009 (2)−0.009 (3)
C40.037 (2)0.052 (3)0.063 (4)−0.005 (2)−0.007 (2)−0.003 (2)
C120.064 (4)0.122 (6)0.093 (6)0.000 (4)−0.014 (4)−0.022 (5)
C140.073 (4)0.071 (4)0.052 (4)0.014 (3)−0.004 (3)0.003 (3)
C150.104 (5)0.099 (5)0.062 (5)0.024 (4)0.007 (4)0.011 (4)
C160.154 (8)0.108 (6)0.050 (4)0.008 (5)0.006 (5)−0.008 (4)
C170.158 (8)0.116 (6)0.056 (5)−0.033 (6)−0.008 (5)−0.023 (4)
C180.091 (5)0.090 (5)0.071 (5)−0.014 (4)−0.011 (4)−0.006 (4)
C190.076 (4)0.052 (3)0.047 (3)0.002 (2)−0.012 (3)0.004 (2)
C220.073 (4)0.079 (4)0.105 (6)0.011 (3)0.022 (4)−0.011 (4)
C240.075 (4)0.095 (5)0.089 (5)0.030 (3)−0.007 (4)0.008 (4)
C250.102 (6)0.114 (6)0.111 (6)0.034 (5)−0.001 (5)0.030 (5)
C260.093 (6)0.092 (5)0.140 (8)0.028 (4)−0.024 (5)0.027 (5)
C270.064 (4)0.081 (5)0.144 (8)0.020 (3)−0.020 (5)−0.019 (5)
C280.056 (3)0.059 (3)0.098 (5)0.016 (3)−0.016 (3)−0.017 (3)
C290.046 (3)0.073 (4)0.072 (4)0.011 (2)−0.012 (3)−0.013 (3)
Co—N132.078 (4)C2—H2B0.9700
Co—N232.075 (4)C3—C41.523 (7)
Co—O12.112 (4)C3—H30.9800
Co—O32.150 (4)C12—H120.9300
Co—O42.169 (3)C14—C191.367 (8)
Co—O5i2.101 (4)C14—C151.373 (8)
N11—C121.344 (9)C14—H140.9300
N11—C181.366 (9)C15—C161.371 (11)
N11—H110.8600C15—H150.9300
N13—C121.298 (7)C16—C171.363 (12)
N13—C191.396 (7)C16—H160.9300
N21—C221.316 (8)C17—C181.382 (11)
N21—C281.370 (9)C17—H170.9300
N21—H210.8600C18—C191.392 (8)
N23—C221.318 (8)C22—H220.9300
N23—C291.382 (7)C24—C251.377 (9)
O1—C11.239 (7)C24—C291.382 (9)
O2—C11.250 (7)C24—H240.9300
O3—C31.454 (6)C25—C261.432 (11)
O3—H3A0.9247C25—H250.9300
O4—C41.256 (6)C26—C271.328 (11)
O5—C41.250 (6)C26—H260.9300
C1—C21.504 (8)C27—C281.375 (10)
C2—C31.507 (7)C27—H270.9300
C2—H2A0.9700C28—C291.409 (7)
N23—Co—N1395.85 (18)C4—C3—H3108.8
N23—Co—O5i95.05 (16)O5—C4—O4126.1 (5)
N13—Co—O5i92.60 (16)O5—C4—C3115.8 (5)
N23—Co—O190.65 (18)O4—C4—C3118.1 (4)
N13—Co—O192.93 (17)N13—C12—N11112.5 (6)
O5i—Co—O1171.61 (15)N13—C12—H12123.8
N23—Co—O392.79 (16)N11—C12—H12123.8
N13—Co—O3170.57 (15)C19—C14—C15117.0 (6)
O5i—Co—O390.39 (13)C19—C14—H14121.5
O1—Co—O383.18 (14)C15—C14—H14121.5
N23—Co—O4168.94 (18)C16—C15—C14122.4 (7)
N13—Co—O494.74 (15)C16—C15—H15118.8
O5i—Co—O487.65 (13)C14—C15—H15118.8
O1—Co—O485.61 (15)C17—C16—C15121.9 (8)
O3—Co—O476.44 (13)C17—C16—H16119.0
C12—N11—C18108.2 (6)C15—C16—H16119.0
C12—N11—H11125.9C16—C17—C18115.8 (7)
C18—N11—H11125.9C16—C17—H17122.1
C12—N13—C19105.4 (5)C18—C17—H17122.1
C12—N13—Co123.8 (5)N11—C18—C17132.3 (7)
C19—N13—Co130.3 (3)N11—C18—C19104.8 (6)
C22—N21—C28107.9 (5)C17—C18—C19122.8 (7)
C22—N21—H21126.1C14—C19—C18120.1 (6)
C28—N21—H21126.1C14—C19—N13130.9 (5)
C22—N23—C29104.6 (5)C18—C19—N13109.0 (5)
C22—N23—Co123.3 (5)N21—C22—N23113.8 (7)
C29—N23—Co132.0 (4)N21—C22—H22123.1
C1—O1—Co131.5 (3)N23—C22—H22123.1
C3—O3—Co105.9 (3)C25—C24—C29118.1 (6)
C3—O3—H3A110.0C25—C24—H24120.9
Co—O3—H3A106.4C29—C24—H24120.9
C4—O4—Co112.0 (3)C24—C25—C26119.5 (8)
C4—O5—Coii130.1 (3)C24—C25—H25120.3
O1—C1—O2121.9 (6)C26—C25—H25120.3
O1—C1—C2122.9 (5)C27—C26—C25122.8 (7)
O2—C1—C2115.2 (6)C27—C26—H26118.6
C1—C2—C3115.2 (5)C25—C26—H26118.6
C1—C2—H2A108.5C26—C27—C28117.6 (7)
C3—C2—H2A108.5C26—C27—H27121.2
C1—C2—H2B108.5C28—C27—H27121.2
C3—C2—H2B108.5N21—C28—C27133.4 (6)
H2A—C2—H2B107.5N21—C28—C29104.8 (5)
O3—C3—C2106.6 (4)C27—C28—C29121.9 (7)
O3—C3—C4111.5 (4)C24—C29—N23130.9 (5)
C2—C3—C4112.4 (4)C24—C29—C28120.2 (6)
O3—C3—H3108.8N23—C29—C28108.9 (6)
C2—C3—H3108.8
N23—Co—N13—C1250.3 (6)C2—C3—C4—O573.8 (6)
O5i—Co—N13—C12145.7 (5)O3—C3—C4—O413.6 (6)
O1—Co—N13—C12−40.6 (5)C2—C3—C4—O4−105.9 (5)
O4—Co—N13—C12−126.5 (5)C19—N13—C12—N110.1 (8)
N23—Co—N13—C19−138.7 (5)Co—N13—C12—N11172.9 (5)
O5i—Co—N13—C19−43.4 (5)C18—N11—C12—N13−0.1 (9)
O1—Co—N13—C19130.3 (5)C19—C14—C15—C16−0.9 (10)
O4—Co—N13—C1944.5 (5)C14—C15—C16—C170.7 (12)
N13—Co—N23—C22−121.7 (5)C15—C16—C17—C18−0.8 (13)
O5i—Co—N23—C22145.1 (5)C12—N11—C18—C17−176.7 (8)
O1—Co—N23—C22−28.7 (5)C12—N11—C18—C190.1 (8)
O3—Co—N23—C2254.5 (5)C16—C17—C18—N11177.6 (8)
O4—Co—N23—C2241.4 (11)C16—C17—C18—C191.2 (12)
N13—Co—N23—C2964.3 (5)C15—C14—C19—C181.3 (8)
O5i—Co—N23—C29−28.9 (5)C15—C14—C19—N13−177.0 (6)
O1—Co—N23—C29157.3 (5)N11—C18—C19—C14−178.7 (5)
O3—Co—N23—C29−119.5 (5)C17—C18—C19—C14−1.5 (10)
O4—Co—N23—C29−132.6 (8)N11—C18—C19—N130.0 (7)
N23—Co—O1—C1100.5 (5)C17—C18—C19—N13177.2 (7)
N13—Co—O1—C1−163.6 (5)C12—N13—C19—C14178.5 (6)
O3—Co—O1—C17.7 (5)Co—N13—C19—C146.3 (9)
O4—Co—O1—C1−69.1 (5)C12—N13—C19—C180.0 (7)
N23—Co—O3—C3−143.1 (3)Co—N13—C19—C18−172.2 (4)
O5i—Co—O3—C3121.8 (3)C28—N21—C22—N230.6 (8)
O1—Co—O3—C3−52.8 (3)C29—N23—C22—N21−0.2 (8)
O4—Co—O3—C334.3 (3)Co—N23—C22—N21−175.6 (4)
N23—Co—O4—C4−16.0 (10)C29—C24—C25—C26−1.1 (11)
N13—Co—O4—C4147.1 (3)C24—C25—C26—C271.6 (13)
O5i—Co—O4—C4−120.5 (3)C25—C26—C27—C28−0.7 (12)
O1—Co—O4—C454.5 (3)C22—N21—C28—C27177.6 (7)
O3—Co—O4—C4−29.5 (3)C22—N21—C28—C29−0.8 (7)
Co—O1—C1—O2−168.7 (4)C26—C27—C28—N21−178.9 (7)
Co—O1—C1—C212.5 (8)C26—C27—C28—C29−0.7 (10)
O1—C1—C2—C39.8 (8)C25—C24—C29—N23178.7 (6)
O2—C1—C2—C3−169.0 (5)C25—C24—C29—C28−0.2 (10)
Co—O3—C3—C286.6 (4)C22—N23—C29—C24−179.3 (7)
Co—O3—C3—C4−36.3 (4)Co—N23—C29—C24−4.5 (9)
C1—C2—C3—O3−63.4 (6)C22—N23—C29—C28−0.3 (6)
C1—C2—C3—C458.9 (6)Co—N23—C29—C28174.5 (4)
Coii—O5—C4—O4−9.6 (7)N21—C28—C29—C24179.8 (6)
Coii—O5—C4—C3170.8 (3)C27—C28—C29—C241.2 (9)
Co—O4—C4—O5−162.3 (4)N21—C28—C29—N230.7 (6)
Co—O4—C4—C317.4 (5)C27—C28—C29—N23−178.0 (6)
O3—C3—C4—O5−166.7 (4)
D—H···AD—HH···AD···AD—H···A
N11—H11···O3WA0.862.183.00 (4)159
N11—H11···O5WAiii0.862.102.93 (4)163
N21—H21···O1iv0.862.573.258 (7)138
N21—H21···O2iv0.862.072.901 (8)163
O3—H3A···O4i0.921.782.645 (5)155
Table 1

Selected bond lengths (Å)

Co—N132.078 (4)
Co—N232.075 (4)
Co—O12.112 (4)
Co—O32.150 (4)
Co—O42.169 (3)
Co—O5i2.101 (4)

Symmetry code: (i) .

Table 2

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N11—H11⋯O3WA0.862.183.00 (4)159
N11—H11⋯O5WAii0.862.102.93 (4)163
N21—H21⋯O1iii0.862.573.258 (7)138
N21—H21⋯O2iii0.862.072.901 (8)163
O3—H3A⋯O4i0.921.782.645 (5)155

Symmetry codes: (i) ; (ii) ; (iii) .

  3 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.  Catena-poly[[[aquabis(1H-benzimidazole-kappaN(3))cadmium(II)]-micro-phthalato-kappa(3)O,O':O"] hemihydrate].

Authors:  Bing Xin Liu; Jian Rong Su; Duan Jun Xu
Journal:  Acta Crystallogr C       Date:  2004-03-31       Impact factor: 1.172

Review 3.  Nobel lecture. The photosynthetic reaction centre from the purple bacterium Rhodopseudomonas viridis.

Authors:  J Deisenhofer; H Michel
Journal:  EMBO J       Date:  1989-08       Impact factor: 11.598

  3 in total
  1 in total

1.  Poly[[(4,4'-bipyridine-κN)[μ(3)-(S)-2-hy-droxy-butane-dioato-κO,O:O:O]zinc] dihydrate].

Authors:  Yu-Kun Lu; Jian Liu; Cheng-Lin Diao; Ren-Qing Lü; Yun-Qi Liu
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-11-05
  1 in total

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