Literature DB >> 22904775

Diaqua-bis-(4-formyl-benzoato-κO(1))bis-(nicotinamide-κN(1))zinc.

Mustafa Sertçelik, Nagihan Caylak Delibaş, Hacali Necefoğlu, Tuncer Hökelek.   

Abstract

In the title complex, [Zn(C(8)H(5)O(3))(2)(C(6)H(6)N(2)O)(2)(H(2)O)(2)], the Zn(II) cation is located on an inversion center and is coordinated by two 4-formyl-benzoate (FB) anions, two nicotinamide (NA) ligands and two water mol-ecules. The four O atoms in the equatorial plane around the Zn(II) cation form a slightly distorted square-planar arrangement, while the slightly distorted octa-hedral coordination is completed by the two N atoms of the NA ligands in the axial positions. The dihedral angle between the carboxyl-ate group and the adjacent benzene ring is 24.13 (8)°, while the pyridine ring and the benzene ring are oriented at a dihedral angle of 88.52 (4)°. The coordinating water mol-ecule links with the carboxyl-ate group via an O-H⋯O hydrogen bond. In the crystal, N-H⋯O and O-H⋯O hydrogen bonds, and a weak C-H⋯π inter-action link the mol-ecules into a two-dimensional network parallel to (010). These networks are linked via C-H⋯O and π-π inter-actions between inversion-related benzene rings [centroid-centroid distance = 3.8483 (7) Å], forming a three-dimensional supra-molecular structure.

Entities:  

Year:  2012        PMID: 22904775      PMCID: PMC3414168          DOI: 10.1107/S160053681203320X

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


Related literature

For literature on niacin, see: Krishnamachari (1974 ▶). For information on the nicotinic acid derivative N,N-diethyl­nicotinamide, see: Bigoli et al. (1972 ▶). For related structures, see: Aydın et al. (2012 ▶); Hökelek et al. (2009 ▶); Necefoğlu et al. (2011 ▶); Sertçelik et al. (2012a ▶,b ▶,c ▶,d ▶); Sertçelik et al. (2009a ▶,b ▶,c ▶). For bond-length data, see: Allen et al. (1987 ▶).

Experimental

Crystal data

[Zn(C8H5O3)2(C6H6N2O)2(H2O)2] M = 643.92 Triclinic, a = 7.7861 (2) Å b = 9.7877 (3) Å c = 9.9087 (3) Å α = 77.851 (3)° β = 71.462 (2)° γ = 86.720 (3)° V = 699.87 (4) Å3 Z = 1 Mo Kα radiation μ = 0.94 mm−1 T = 100 K 0.44 × 0.37 × 0.20 mm

Data collection

Bruker Kappa APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2005 ▶) T min = 0.682, T max = 0.831 12257 measured reflections 3475 independent reflections 3413 reflections with I > 2σ(I) R int = 0.019

Refinement

R[F 2 > 2σ(F 2)] = 0.022 wR(F 2) = 0.060 S = 1.06 3475 reflections 216 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.43 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: ORTEP-3 for Windows (Farrugia, 1997 ▶); software used to prepare material for publication: WinGX (Farrugia, 1999 ▶) and PLATON (Spek, 2009 ▶). Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S160053681203320X/su2483sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S160053681203320X/su2483Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
[Zn(C8H5O3)2(C6H6N2O)2(H2O)2]Z = 1
Mr = 643.92F(000) = 332
Triclinic, P1Dx = 1.528 Mg m3
Hall symbol: -P 1Mo Kα radiation, λ = 0.71073 Å
a = 7.7861 (2) ÅCell parameters from 9923 reflections
b = 9.7877 (3) Åθ = 2.7–28.5°
c = 9.9087 (3) ŵ = 0.94 mm1
α = 77.851 (3)°T = 100 K
β = 71.462 (2)°Block, colourless
γ = 86.720 (3)°0.44 × 0.37 × 0.20 mm
V = 699.87 (4) Å3
Bruker Kappa APEXII CCD area-detector diffractometer3475 independent reflections
Radiation source: fine-focus sealed tube3413 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.019
φ and ω scansθmax = 28.5°, θmin = 2.1°
Absorption correction: multi-scan (SADABS; Bruker, 2005)h = −10→10
Tmin = 0.682, Tmax = 0.831k = −13→13
12257 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)] = 0.022Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.060H atoms treated by a mixture of independent and constrained refinement
S = 1.06w = 1/[σ2(Fo2) + (0.0274P)2 + 0.3774P] where P = (Fo2 + 2Fc2)/3
3475 reflections(Δ/σ)max < 0.001
216 parametersΔρmax = 0.43 e Å3
0 restraintsΔρmin = −0.31 e Å3
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds 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 > 2sigma(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
Zn10.00000.00000.00000.01128 (6)
O10.12362 (11)0.18202 (9)0.00926 (9)0.01501 (16)
O2−0.11031 (11)0.27782 (9)0.15725 (9)0.01613 (17)
O30.49521 (14)0.66936 (13)0.32150 (15)0.0404 (3)
O4−0.43332 (12)0.00146 (9)−0.33495 (9)0.01797 (17)
O50.26589 (11)−0.08294 (9)−0.07850 (10)0.01534 (16)
H510.345 (3)−0.042 (2)−0.144 (2)0.033 (5)*
H520.238 (3)−0.151 (2)−0.110 (2)0.038 (5)*
N1−0.00282 (13)0.09203 (10)−0.21362 (11)0.01310 (18)
N2−0.32692 (15)0.13245 (12)−0.56057 (11)0.0178 (2)
H21−0.245 (2)0.1865 (18)−0.6267 (19)0.025 (4)*
H22−0.411 (2)0.1018 (19)−0.584 (2)0.027 (4)*
C10.05609 (15)0.26503 (11)0.09352 (12)0.0128 (2)
C20.18554 (15)0.35243 (11)0.12616 (12)0.0128 (2)
C30.36219 (15)0.30780 (12)0.11172 (13)0.0151 (2)
H30.40440.22940.07230.018*
C40.47558 (16)0.38054 (12)0.15623 (14)0.0169 (2)
H40.59320.35010.14790.020*
C50.41325 (16)0.49869 (12)0.21317 (14)0.0170 (2)
C60.23814 (16)0.54657 (13)0.22349 (15)0.0194 (2)
H60.19800.62730.25900.023*
C70.12464 (15)0.47344 (12)0.18077 (14)0.0168 (2)
H70.00750.50460.18830.020*
C80.53693 (18)0.57168 (15)0.26194 (17)0.0257 (3)
H80.665 (2)0.5325 (17)0.2463 (18)0.021 (4)*
C9−0.14410 (15)0.06794 (11)−0.25551 (12)0.0132 (2)
H9−0.23910.0122−0.18890.016*
C10−0.15524 (15)0.12221 (11)−0.39338 (12)0.0131 (2)
C11−0.01372 (16)0.20686 (13)−0.49174 (13)0.0178 (2)
H11−0.01680.2454−0.58510.021*
C120.13251 (16)0.23309 (13)−0.44870 (13)0.0192 (2)
H120.22840.2897−0.51270.023*
C130.13337 (15)0.17388 (12)−0.30955 (13)0.0156 (2)
H130.23160.1913−0.28120.019*
C14−0.31742 (15)0.08240 (12)−0.42808 (12)0.0140 (2)
U11U22U33U12U13U23
Zn10.01063 (9)0.01353 (9)0.01123 (9)−0.00014 (6)−0.00480 (6)−0.00367 (6)
O10.0147 (4)0.0165 (4)0.0146 (4)−0.0020 (3)−0.0042 (3)−0.0051 (3)
O20.0119 (4)0.0183 (4)0.0189 (4)−0.0008 (3)−0.0044 (3)−0.0056 (3)
O30.0237 (5)0.0457 (7)0.0640 (8)−0.0008 (5)−0.0123 (5)−0.0392 (6)
O40.0172 (4)0.0235 (4)0.0141 (4)−0.0062 (3)−0.0064 (3)−0.0016 (3)
O50.0122 (4)0.0179 (4)0.0160 (4)−0.0007 (3)−0.0034 (3)−0.0050 (3)
N10.0130 (4)0.0147 (4)0.0129 (4)−0.0003 (3)−0.0053 (3)−0.0036 (3)
N20.0183 (5)0.0233 (5)0.0135 (5)−0.0057 (4)−0.0080 (4)−0.0014 (4)
C10.0140 (5)0.0127 (5)0.0120 (5)−0.0013 (4)−0.0060 (4)0.0002 (4)
C20.0128 (5)0.0131 (5)0.0125 (5)−0.0018 (4)−0.0042 (4)−0.0018 (4)
C30.0141 (5)0.0136 (5)0.0184 (5)0.0005 (4)−0.0052 (4)−0.0050 (4)
C40.0125 (5)0.0170 (5)0.0227 (6)0.0010 (4)−0.0068 (4)−0.0054 (4)
C50.0141 (5)0.0176 (5)0.0207 (6)−0.0026 (4)−0.0053 (4)−0.0066 (4)
C60.0159 (5)0.0164 (5)0.0274 (6)0.0003 (4)−0.0050 (5)−0.0108 (5)
C70.0124 (5)0.0162 (5)0.0227 (6)0.0011 (4)−0.0055 (4)−0.0062 (4)
C80.0166 (6)0.0289 (7)0.0367 (8)−0.0025 (5)−0.0086 (5)−0.0162 (6)
C90.0127 (5)0.0141 (5)0.0138 (5)−0.0011 (4)−0.0048 (4)−0.0033 (4)
C100.0135 (5)0.0144 (5)0.0128 (5)−0.0001 (4)−0.0052 (4)−0.0041 (4)
C110.0190 (5)0.0219 (5)0.0118 (5)−0.0034 (4)−0.0052 (4)−0.0005 (4)
C120.0154 (5)0.0230 (6)0.0170 (6)−0.0064 (4)−0.0032 (4)−0.0007 (5)
C130.0129 (5)0.0175 (5)0.0175 (5)−0.0015 (4)−0.0055 (4)−0.0043 (4)
C140.0145 (5)0.0158 (5)0.0140 (5)0.0001 (4)−0.0061 (4)−0.0053 (4)
Zn1—O12.1047 (8)C3—H30.9300
Zn1—O1i2.1047 (8)C4—C31.3902 (16)
Zn1—O52.1446 (8)C4—C51.3883 (16)
Zn1—O5i2.1446 (8)C4—H40.9300
Zn1—N12.1253 (10)C5—C61.3955 (17)
Zn1—N1i2.1253 (10)C5—C81.4803 (17)
O1—C11.2614 (14)C6—H60.9300
O2—C11.2600 (14)C7—C61.3822 (16)
O3—C81.2032 (17)C7—H70.9300
O4—C141.2402 (14)C8—H81.022 (17)
O5—H510.79 (2)C9—C101.3859 (16)
O5—H520.86 (2)C9—H90.9300
N1—C91.3413 (14)C10—C111.3900 (16)
N1—C131.3437 (14)C10—C141.5011 (15)
N2—C141.3250 (16)C11—C121.3901 (17)
N2—H210.861 (18)C11—H110.9300
N2—H220.847 (19)C12—H120.9300
C1—C21.5082 (15)C13—C121.3806 (17)
C2—C31.3912 (15)C13—H130.9300
C2—C71.4009 (15)
O1—Zn1—O1i180.00 (2)C3—C4—H4120.0
O1—Zn1—O588.01 (3)C5—C4—C3119.98 (11)
O1i—Zn1—O591.99 (3)C5—C4—H4120.0
O1—Zn1—O5i91.99 (3)C4—C5—C6120.33 (11)
O1i—Zn1—O5i88.01 (3)C4—C5—C8118.35 (11)
O1—Zn1—N189.84 (3)C6—C5—C8121.32 (11)
O1i—Zn1—N190.16 (3)C5—C6—H6120.1
O1—Zn1—N1i90.16 (3)C7—C6—C5119.71 (11)
O1i—Zn1—N1i89.84 (3)C7—C6—H6120.1
O5i—Zn1—O5180.00 (5)C2—C7—H7119.9
N1—Zn1—O592.47 (3)C6—C7—C2120.18 (11)
N1i—Zn1—O587.53 (3)C6—C7—H7119.9
N1—Zn1—O5i87.53 (3)O3—C8—C5124.61 (12)
N1i—Zn1—O5i92.47 (3)O3—C8—H8119.0 (9)
N1i—Zn1—N1180.00 (6)C5—C8—H8116.4 (9)
C1—O1—Zn1126.47 (7)N1—C9—C10123.12 (10)
Zn1—O5—H51123.5 (14)N1—C9—H9118.4
Zn1—O5—H5298.4 (13)C10—C9—H9118.4
H52—O5—H51105.2 (18)C9—C10—C11118.07 (10)
C9—N1—Zn1119.49 (8)C9—C10—C14117.71 (10)
C9—N1—C13118.35 (10)C11—C10—C14124.20 (10)
C13—N1—Zn1122.16 (8)C10—C11—C12119.12 (11)
C14—N2—H21123.1 (12)C10—C11—H11120.4
C14—N2—H22117.9 (12)C12—C11—H11120.4
H22—N2—H21118.6 (17)C11—C12—H12120.5
O1—C1—C2117.40 (10)C13—C12—C11119.04 (11)
O2—C1—O1125.67 (10)C13—C12—H12120.5
O2—C1—C2116.89 (10)N1—C13—C12122.30 (11)
C3—C2—C1119.98 (10)N1—C13—H13118.8
C3—C2—C7119.82 (10)C12—C13—H13118.8
C7—C2—C1120.05 (10)O4—C14—N2122.62 (11)
C2—C3—H3120.0O4—C14—C10119.55 (10)
C4—C3—C2119.93 (10)N2—C14—C10117.79 (10)
C4—C3—H3120.0
O5—Zn1—O1—C1−152.50 (9)C1—C2—C3—C4−173.27 (11)
O5i—Zn1—O1—C127.50 (9)C7—C2—C3—C42.26 (17)
N1—Zn1—O1—C1115.03 (9)C1—C2—C7—C6173.98 (11)
N1i—Zn1—O1—C1−64.97 (9)C3—C2—C7—C6−1.55 (18)
O1—Zn1—N1—C9−143.10 (8)C5—C4—C3—C2−0.88 (18)
O1i—Zn1—N1—C936.90 (8)C3—C4—C5—C6−1.22 (19)
O1—Zn1—N1—C1337.17 (9)C3—C4—C5—C8178.85 (12)
O1i—Zn1—N1—C13−142.83 (9)C4—C5—C6—C71.9 (2)
O5—Zn1—N1—C9128.89 (8)C8—C5—C6—C7−178.14 (12)
O5i—Zn1—N1—C9−51.11 (8)C4—C5—C8—O3−174.99 (15)
O5—Zn1—N1—C13−50.84 (9)C6—C5—C8—O35.1 (2)
O5i—Zn1—N1—C13129.16 (9)C2—C7—C6—C5−0.54 (19)
Zn1—O1—C1—O2−21.18 (16)N1—C9—C10—C11−0.77 (17)
Zn1—O1—C1—C2156.07 (7)N1—C9—C10—C14177.58 (10)
Zn1—N1—C9—C10−179.02 (8)C9—C10—C11—C120.27 (17)
C13—N1—C9—C100.72 (17)C14—C10—C11—C12−177.96 (11)
Zn1—N1—C13—C12179.57 (9)C9—C10—C14—O4−1.27 (16)
C9—N1—C13—C12−0.16 (17)C9—C10—C14—N2−178.98 (10)
O1—C1—C2—C3−23.65 (15)C11—C10—C14—O4176.97 (11)
O1—C1—C2—C7160.83 (11)C11—C10—C14—N2−0.74 (17)
O2—C1—C2—C3153.83 (11)C10—C11—C12—C130.23 (19)
O2—C1—C2—C7−21.68 (16)N1—C13—C12—C11−0.30 (19)
D—H···AD—HH···AD···AD—H···A
N2—H21···O2ii0.862 (17)2.087 (17)2.8789 (13)152.4 (16)
N2—H22···O4iii0.849 (17)2.058 (18)2.8904 (15)166.4 (18)
O5—H51···O4iv0.79 (2)2.10 (2)2.8597 (13)161 (2)
O5—H52···O2i0.86 (2)1.85 (2)2.6845 (13)163 (2)
C4—H4···O2iv0.932.403.3245 (16)173
C13—H13···O3v0.932.473.3083 (17)150
C6—H6···Cg2vi0.932.723.6361 (14)167
Table 1

Hydrogen-bond geometry (Å, °)

Cg2 is the centroid of the pyridine ring.

D—H⋯A D—HH⋯A DA D—H⋯A
N2—H21⋯O2i 0.862 (17)2.087 (17)2.8789 (13)152.4 (16)
N2—H22⋯O4ii 0.849 (17)2.058 (18)2.8904 (15)166.4 (18)
O5—H51⋯O4iii 0.79 (2)2.10 (2)2.8597 (13)161 (2)
O5—H52⋯O2iv 0.86 (2)1.85 (2)2.6845 (13)163 (2)
C4—H4⋯O2iii 0.932.403.3245 (16)173
C13—H13⋯O3v 0.932.473.3083 (17)150
C6—H6⋯Cg2vi 0.932.723.6361 (14)167

Symmetry codes: (i) ; (ii) ; (iii) ; (iv) ; (v) ; (vi) .

  13 in total

1.  Some aspects of copper metabolism in pellagra.

Authors:  K A Krishnamachari
Journal:  Am J Clin Nutr       Date:  1974-02       Impact factor: 7.045

2.  Diaqua-bis(N,N-diethyl-nicotinamide-κN)bis-(4-formyl-benzoato-κO)cobalt(II).

Authors:  Mustafa Sertçelik; Barış Tercan; Ertan Sahin; Hacali Necefoğlu; Tuncer Hökelek
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-03-11

3.  Diaqua-bis(N,N-diethyl-nicotinamide-κN)bis-(4-formyl-benzoato-κO)nickel(II).

Authors:  Mustafa Sertçelik; Barış Tercan; Ertan Sahin; Hacali Necefoğlu; Tuncer Hökelek
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-02-25

4.  Diaqua-bis(N,N-diethyl-nicotinamide-κN)bis-(4-formyl-benzoato-κO)manganese(II).

Authors:  Mustafa Sertçelik; Barış Tercan; Ertan Sahin; Hacali Necefoğlu; Tuncer Hökelek
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-02-25

5.  Diaqua-bis-(4-bromo-benzoato-κO)bis-(nicotinamide-κN)copper(II).

Authors:  Hacali Necefoğlu; Füreya Elif Ozbek; Vijdan Oztürk; Barış Tercan; Tuncer Hökelek
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-06-11

6.  Diaqua-bis-(4-formyl-benzoato-κO(1))bis-(nicotinamide-κN(1))nickel(II).

Authors:  Mustafa Sertçelik; Nagihan Caylak Delibaş; Hacali Necefoğlu; Tuncer Hökelek
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-06-20

7.  Diaqua-bis-(N,N-diethyl-nicotinamide-κN(1))bis-(4-formyl-benzoato-κO(1))zinc.

Authors:  Mustafa Sertçelik; Nagihan Caylak Delibaş; Hacali Necefoğlu; Tuncer Hökelek
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-07-14

8.  Diaqua-bis-(4-formyl-benzoato-κO(1))bis-(nicotinamide-κN(1))cobalt(II).

Authors:  Mustafa Sertçelik; Nagihan Caylak Delibaş; Hacali Necefoğlu; Tuncer Hökelek
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-07-18

9.  Diaqua-bis-(2-iodo-benzoato-κO)bis-(nicotinamide-κN(1))cobalt(II).

Authors:  Omür Aydın; Nagihan Caylak Delibaş; Hacali Necefoğlu; Tuncer Hökelek
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-03-31

10.  Structure validation in chemical crystallography.

Authors:  Anthony L Spek
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-01-20
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  1 in total

1.  Diaqua-bis-(2-iodo-benzoato-κO)bis-(nicotinamide-κN(1))copper(II).

Authors:  Omür Aydın; Nagihan Caylak Delibaş; Hacali Necefoğlu; Tuncer Hökelek
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-08-08
  1 in total

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