Literature DB >> 22904717

Bis(acetato-κO)bis-(4,5-dimethyl-benzene-1,2-diamine-κN)zinc.

David K Geiger1.   

Abstract

The structure of the title compound, [Zn(CH(3)COO)(2)(C(8)H(12)N(2))(2)], has one half molecule in the asymmetric unit. The Zn(II) atom is situated on a twofold rotation axis and is tetrahedrally coordinated by two N and two O atoms. The crystal packing displays inter-molecular N-H⋯O hydrogen bonds and intra-molecular N-H⋯O and N-H⋯N hydrogen bonding.

Entities:  

Year:  2012        PMID: 22904717      PMCID: PMC3414110          DOI: 10.1107/S160053681203036X

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


Related literature

For the role of complexes in biochemical systems with zinc in tetrahedral coordination, see: Parkin (2004 ▶); Maret & Li (2009 ▶). For the structure of the corresponding 1,2-diamino­benzene complex, see: Mei et al. (2009 ▶). For an example of a structurally characterized tetramine complex with zinc in tetrahedral coordination, see: Xu et al. (1998 ▶). For an example carboxyl­ate coordination in a similar complex, see: Harding (2001 ▶).

Experimental

Crystal data

[Zn(C2H3O2)2(C8H12N2)2] M = 455.85 Monoclinic, a = 18.432 (3) Å b = 4.7414 (6) Å c = 25.740 (4) Å β = 92.284 (4)° V = 2247.8 (5) Å3 Z = 4 Mo Kα radiation μ = 1.12 mm−1 T = 200 K 0.80 × 0.30 × 0.20 mm

Data collection

Bruker SMART X2S benchtop diffractometer Absorption correction: multi-scan (SADABS; Sheldrick, 2008b ▶) T min = 0.467, T max = 0.806 11403 measured reflections 1986 independent reflections 1905 reflections with I > 2σ(I) R int = 0.046

Refinement

R[F 2 > 2σ(F 2)] = 0.036 wR(F 2) = 0.094 S = 1.12 1986 reflections 151 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.67 e Å−3 Δρmin = −0.37 e Å−3 Data collection: APEX2 (Bruker, 2010 ▶); cell refinement: SAINT (Bruker, 2009 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008a ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008a ▶); molecular graphics: XSHELL (Bruker, 2004 ▶) and Mercury (Macrae et al., 2008 ▶); software used to prepare material for publication: publCIF (Westrip, 2010 ▶). Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S160053681203036X/bv2208sup1.cif Supplementary material file. DOI: 10.1107/S160053681203036X/bv2208Isup2.cdx Structure factors: contains datablock(s) I. DOI: 10.1107/S160053681203036X/bv2208Isup3.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
[Zn(C2H3O2)2(C8H12N2)2]F(000) = 960
Mr = 455.85Dx = 1.347 Mg m3
Monoclinic, C2/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -C2ycCell parameters from 5876 reflections
a = 18.432 (3) Åθ = 2.7–25.0°
b = 4.7414 (6) ŵ = 1.12 mm1
c = 25.740 (4) ÅT = 200 K
β = 92.284 (4)°Plate, colourless
V = 2247.8 (5) Å30.80 × 0.30 × 0.20 mm
Z = 4
Bruker SMART X2S benchtop diffractometer1986 independent reflections
Radiation source: fine-focus sealed tube1905 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.046
ω scansθmax = 25.0°, θmin = 2.7°
Absorption correction: multi-scan (SADABS; Sheldrick, 2008b)h = −21→21
Tmin = 0.467, Tmax = 0.806k = −5→5
11403 measured reflectionsl = −28→30
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.036Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.094H atoms treated by a mixture of independent and constrained refinement
S = 1.12w = 1/[σ2(Fo2) + (0.0434P)2 + 4.1592P] where P = (Fo2 + 2Fc2)/3
1986 reflections(Δ/σ)max < 0.001
151 parametersΔρmax = 0.67 e Å3
0 restraintsΔρmin = −0.37 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
Zn10.50000.21781 (8)0.25000.02608 (16)
O10.53194 (10)0.4948 (4)0.30352 (6)0.0343 (4)
O20.60458 (11)0.1492 (4)0.33024 (7)0.0421 (5)
N10.56934 (12)−0.0427 (5)0.21196 (8)0.0281 (5)
N20.69849 (13)0.2531 (6)0.23902 (9)0.0360 (6)
C10.60972 (12)0.0974 (5)0.17273 (9)0.0262 (5)
C20.67121 (13)0.2524 (5)0.18723 (10)0.0279 (6)
C30.70681 (14)0.3968 (6)0.14856 (10)0.0344 (6)
H30.74960.49990.15790.041*
C40.68215 (14)0.3954 (7)0.09706 (10)0.0364 (6)
C50.61975 (15)0.2423 (7)0.08302 (10)0.0383 (7)
C60.58503 (14)0.0931 (7)0.12132 (10)0.0351 (6)
H60.5431−0.01490.11190.042*
C70.5892 (2)0.2368 (9)0.02749 (12)0.0659 (12)
H7A0.54440.12540.02580.099*
H7B0.62480.15150.00490.099*
H7C0.57870.42980.01590.099*
C80.72326 (19)0.5613 (8)0.05768 (12)0.0553 (9)
H8A0.77080.61600.07290.083*
H8B0.69570.73100.04780.083*
H8C0.73000.44460.02680.083*
C90.57583 (14)0.3768 (6)0.33792 (9)0.0308 (6)
C100.58890 (18)0.5363 (7)0.38778 (11)0.0488 (8)
H10A0.62490.43600.40990.073*
H10B0.54330.55160.40590.073*
H10C0.60700.72560.38010.073*
H1A0.5413 (19)−0.167 (7)0.1990 (12)0.045 (9)*
H1B0.5973 (17)−0.120 (7)0.2345 (12)0.039 (8)*
H2A0.6658 (18)0.234 (6)0.2628 (12)0.039 (9)*
H2B0.7263 (18)0.383 (8)0.2448 (12)0.042 (9)*
U11U22U33U12U13U23
Zn10.0257 (2)0.0218 (2)0.0310 (2)0.0000.00465 (15)0.000
O10.0391 (10)0.0294 (10)0.0338 (9)0.0044 (8)−0.0066 (7)−0.0022 (8)
O20.0462 (12)0.0404 (13)0.0398 (10)0.0137 (10)0.0034 (8)0.0026 (9)
N10.0235 (10)0.0279 (13)0.0330 (11)−0.0022 (10)0.0030 (9)0.0003 (9)
N20.0251 (11)0.0492 (17)0.0336 (12)−0.0046 (11)−0.0011 (10)0.0021 (10)
C10.0210 (11)0.0258 (13)0.0323 (12)0.0021 (10)0.0053 (9)−0.0003 (10)
C20.0213 (12)0.0306 (15)0.0319 (12)0.0030 (10)0.0022 (9)−0.0002 (10)
C30.0232 (12)0.0393 (16)0.0410 (14)−0.0057 (12)0.0055 (10)−0.0013 (12)
C40.0315 (14)0.0424 (17)0.0360 (13)0.0002 (13)0.0101 (11)0.0045 (12)
C50.0327 (14)0.0525 (19)0.0297 (13)−0.0007 (13)0.0026 (11)0.0009 (12)
C60.0260 (13)0.0440 (17)0.0355 (13)−0.0073 (12)0.0033 (10)−0.0067 (12)
C70.053 (2)0.110 (4)0.0338 (16)−0.014 (2)−0.0010 (14)0.0017 (18)
C80.0550 (19)0.066 (2)0.0455 (17)−0.0125 (18)0.0163 (14)0.0110 (16)
C90.0298 (13)0.0311 (15)0.0314 (12)−0.0015 (11)0.0017 (10)0.0037 (11)
C100.066 (2)0.0427 (19)0.0368 (15)0.0084 (16)−0.0131 (14)−0.0038 (13)
Zn1—O11.9759 (18)C3—H30.9500
Zn1—O1i1.9759 (18)C4—C51.395 (4)
Zn1—N12.054 (2)C4—C81.511 (4)
Zn1—N1i2.054 (2)C5—C61.390 (4)
O1—C91.302 (3)C5—C71.516 (4)
O2—C91.222 (3)C6—H60.9500
N1—C11.441 (3)C7—H7A0.9800
N1—H1A0.84 (4)C7—H7B0.9800
N1—H1B0.84 (3)C7—H7C0.9800
N2—C21.406 (3)C8—H8A0.9800
N2—H2A0.88 (3)C8—H8B0.9800
N2—H2B0.81 (4)C8—H8C0.9800
C1—C61.382 (3)C9—C101.501 (4)
C1—C21.389 (4)C10—H10A0.9800
C2—C31.394 (4)C10—H10B0.9800
C3—C41.384 (4)C10—H10C0.9800
O1—Zn1—O1i96.70 (10)C6—C5—C4118.6 (2)
O1—Zn1—N1123.94 (8)C6—C5—C7119.7 (3)
O1i—Zn1—N1103.95 (8)C4—C5—C7121.7 (3)
O1—Zn1—N1i103.95 (8)C1—C6—C5121.9 (2)
O1i—Zn1—N1i123.94 (8)C1—C6—H6119.1
N1—Zn1—N1i106.06 (13)C5—C6—H6119.1
C9—O1—Zn1110.40 (17)C5—C7—H7A109.5
C1—N1—Zn1113.93 (17)C5—C7—H7B109.5
C1—N1—H1A112 (2)H7A—C7—H7B109.5
Zn1—N1—H1A103 (2)C5—C7—H7C109.5
C1—N1—H1B111 (2)H7A—C7—H7C109.5
Zn1—N1—H1B108 (2)H7B—C7—H7C109.5
H1A—N1—H1B109 (3)C4—C8—H8A109.5
C2—N2—H2A115 (2)C4—C8—H8B109.5
C2—N2—H2B112 (2)H8A—C8—H8B109.5
H2A—N2—H2B113 (3)C4—C8—H8C109.5
C6—C1—C2119.9 (2)H8A—C8—H8C109.5
C6—C1—N1120.3 (2)H8B—C8—H8C109.5
C2—C1—N1119.6 (2)O2—C9—O1122.1 (2)
C1—C2—C3118.1 (2)O2—C9—C10121.8 (2)
C1—C2—N2120.9 (2)O1—C9—C10116.1 (2)
C3—C2—N2121.0 (2)C9—C10—H10A109.5
C4—C3—C2122.4 (2)C9—C10—H10B109.5
C4—C3—H3118.8H10A—C10—H10B109.5
C2—C3—H3118.8C9—C10—H10C109.5
C3—C4—C5119.1 (2)H10A—C10—H10C109.5
C3—C4—C8119.1 (3)H10B—C10—H10C109.5
C5—C4—C8121.8 (3)
D—H···AD—HH···AD···AD—H···A
N1—H1A···O1ii0.84 (4)2.10 (4)2.897 (3)158 (3)
N2—H2A···O20.88 (3)2.15 (3)3.013 (3)168 (3)
N2—H2B···N2iii0.81 (4)2.26 (4)3.076 (3)179 (3)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
N1—H1A⋯O1i 0.84 (4)2.10 (4)2.897 (3)158 (3)
N2—H2A⋯O20.88 (3)2.15 (3)3.013 (3)168 (3)
N2—H2B⋯N2ii 0.81 (4)2.26 (4)3.076 (3)179 (3)

Symmetry codes: (i) ; (ii) .

  5 in total

Review 1.  Synthetic analogues relevant to the structure and function of zinc enzymes.

Authors:  Gerard Parkin
Journal:  Chem Rev       Date:  2004-02       Impact factor: 60.622

2.  A short history of SHELX.

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

Review 3.  Coordination dynamics of zinc in proteins.

Authors:  Wolfgang Maret; Yuan Li
Journal:  Chem Rev       Date:  2009-10       Impact factor: 60.622

4.  Geometry of metal-ligand interactions in proteins.

Authors:  M M Harding
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2001-03

5.  A tetrahedral zinc(II) complex of tris(2-pyridylethyl)amine.

Authors:  X Xu; C S Allen; C Chuang; J W Canary
Journal:  Acta Crystallogr C       Date:  1998-05-15       Impact factor: 1.172

  5 in total
  3 in total

1.  Structural characterization of two benzene-1,2-di-amine complexes of zinc chloride: a mol-ecular compound and a co-crystal salt.

Authors:  Patricia L Zick; David K Geiger
Journal:  Acta Crystallogr E Crystallogr Commun       Date:  2016-06-24

2.  Two cadmium coordination polymers with bridging acetate and phenyl-enedi-amine ligands that exhibit two-dimensional layered structures.

Authors:  David K Geiger; Dylan E Parsons; Bracco A Pagano
Journal:  Acta Crystallogr E Crystallogr Commun       Date:  2016-11-04

3.  Poly[[tris-(μ2-acetato-κ(2) O:O')(4-chloro-benzene-1,2-di-amine-κN)(μ3-hydroxido)dizinc] ethanol monosolvate].

Authors:  David K Geiger; Dylan E Parsons
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2014-06-07
  3 in total

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