Literature DB >> 21579599

Diguanidinium bis-(μ-2-hydroxy-propane-1,2,3-tricarboxyl-ato)bis-[diaqua-zincate(II)] dihydrate.

Mohammad T M Al-Dajani, Hassan H Abdallah, Nornisah Mohamed, Chin Sing Yeap, Hoong-Kun Fun.   

Abstract

The asymmetric unit of the title compound, (CH(6)N(3))(2)[Zn(2)(C(6)H(5)O(7))(2)(H(2)O)(2)]·2H(2)O, contains one-half of a centrosymmetric dizinc(II) complex anion, one guanidinium cation and one water mol-ecule. Each Zn(II) ion is hexa-coordinated by two citrate anions, one in a bidentate fashion and the second monodentate, and two water mol-ecules in a distorted octa-hedral geometry. Intra-molecular O-H⋯O hydrogen bonds add further stability to the mol-ecular structure. In the crystal structure, mol-ecules are linked into a three-dimensional framework by inter-molecular N-H⋯O, O-H⋯O and C-H⋯O hydrogen bonds.

Entities:  

Year:  2010        PMID: 21579599      PMCID: PMC2979955          DOI: 10.1107/S1600536809054439

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


Related literature

For general background to guanidine and citric acid, see: Raczyńska et al. (2003 ▶); Yamada et al. (2009 ▶); Sigman et al. (1993 ▶); Schuck (1934 ▶); Sherman et al. (1936 ▶). For applications of citric acid in industry and materials science, see: Blair et al. (1991 ▶); Jiang et al. (2007 ▶). For related guanidinium structures, see: Al-Dajani et al. (2009 ▶). For hydrogen-bond motifs, see: Bernstein et al. (1995 ▶).

Experimental

Crystal data

(CH6N3)2[Zn2(C6H5O7)2(H2O)2]·2H2O M = 737.21 Monoclinic, a = 28.9405 (4) Å b = 8.5708 (1) Å c = 11.3395 (2) Å β = 95.249 (1)° V = 2800.89 (7) Å3 Z = 4 Mo Kα radiation μ = 1.81 mm−1 T = 296 K 0.32 × 0.30 × 0.18 mm

Data collection

Bruker SMART APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2005 ▶) T min = 0.593, T max = 0.734 32332 measured reflections 7693 independent reflections 5495 reflections with I > 2σ(I) R int = 0.026

Refinement

R[F 2 > 2σ(F 2)] = 0.031 wR(F 2) = 0.084 S = 1.05 7693 reflections 190 parameters H-atom parameters constrained Δρmax = 0.45 e Å−3 Δρmin = −0.29 e Å−3 Data collection: APEX2 (Bruker, 2005 ▶); cell refinement: SAINT (Bruker, 2005 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXTL (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXTL; molecular graphics: SHELXTL; software used to prepare material for publication: SHELXTL and PLATON (Spek, 2009 ▶). Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536809054439/sj2710sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809054439/sj2710Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
(CH6N3)2[Zn2(C6H5O7)2(H2O)2]·2H2OF(000) = 1520
Mr = 737.21Dx = 1.748 Mg m3
Monoclinic, C2/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -C 2ycCell parameters from 9983 reflections
a = 28.9405 (4) Åθ = 2.5–34.8°
b = 8.5708 (1) ŵ = 1.81 mm1
c = 11.3395 (2) ÅT = 296 K
β = 95.249 (1)°Block, colourless
V = 2800.89 (7) Å30.32 × 0.30 × 0.18 mm
Z = 4
Bruker SMART APEXII CCD area-detector diffractometer7693 independent reflections
Radiation source: fine-focus sealed tube5495 reflections with I > 2σ(I)
graphiteRint = 0.026
φ and ω scansθmax = 38.3°, θmin = 2.5°
Absorption correction: multi-scan (SADABS; Bruker, 2005)h = −48→50
Tmin = 0.593, Tmax = 0.734k = −14→12
32332 measured reflectionsl = −19→16
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.031Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.084H-atom parameters constrained
S = 1.05w = 1/[σ2(Fo2) + (0.0404P)2 + 0.5068P] where P = (Fo2 + 2Fc2)/3
7693 reflections(Δ/σ)max = 0.002
190 parametersΔρmax = 0.45 e Å3
0 restraintsΔρmin = −0.29 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
Zn10.322092 (4)0.394890 (14)0.631912 (11)0.02481 (4)
O10.33231 (4)0.37163 (9)0.45220 (8)0.03439 (19)
O20.36716 (3)0.20991 (10)0.33603 (8)0.03573 (18)
O30.31089 (3)0.15045 (9)0.60117 (7)0.02494 (14)
H1O30.28150.14280.56510.037*
O40.39328 (3)0.33281 (11)0.66307 (9)0.03675 (19)
O50.44700 (3)0.16069 (13)0.72462 (10)0.0474 (2)
O60.24882 (3)0.07623 (10)0.42434 (9)0.0365 (2)
O70.25557 (3)−0.16794 (10)0.36365 (10)0.0427 (2)
C10.34724 (4)0.23880 (12)0.42612 (9)0.02427 (18)
C20.34175 (3)0.10406 (10)0.51507 (9)0.02214 (16)
C30.38848 (4)0.06848 (13)0.58412 (10)0.0288 (2)
H3A0.3844−0.02210.63340.035*
H3B0.41010.03930.52750.035*
C40.41101 (4)0.19654 (14)0.66293 (10)0.0295 (2)
C50.32367 (4)−0.04392 (12)0.44989 (10)0.0273 (2)
H5A0.3410−0.05860.38140.033*
H5B0.3302−0.13250.50200.033*
C60.27248 (4)−0.04513 (12)0.40863 (10)0.02705 (19)
C70.45073 (5)0.64963 (16)0.50364 (12)0.0382 (3)
N10.45132 (5)0.61025 (16)0.61676 (12)0.0511 (3)
H1N10.46440.66410.67510.061*
H2N10.43930.51870.64240.061*
N20.47821 (5)0.76043 (17)0.47097 (13)0.0552 (3)
H1N20.47830.78880.39660.066*
H2N20.50000.79450.52350.066*
N30.42259 (5)0.57429 (17)0.42351 (13)0.0547 (3)
H1N30.42080.62090.35590.066*
H2N30.40200.51350.44540.066*
O1W0.46013 (4)0.85648 (15)0.82510 (11)0.0525 (3)
H1W10.43350.83730.83060.079*
H2W10.45930.94700.80200.079*
O2W0.31354 (4)0.38177 (10)0.80498 (8)0.0388 (2)
H1W20.31630.46100.84920.058*
H2W20.29750.32360.83210.058*
O3W0.33513 (3)0.63182 (9)0.63707 (8)0.03042 (16)
H1W30.34940.66610.70040.046*
H2W30.31060.65610.63280.046*
U11U22U33U12U13U23
Zn10.02665 (6)0.02218 (6)0.02509 (7)0.00090 (4)−0.00047 (4)−0.00195 (4)
O10.0534 (5)0.0230 (3)0.0269 (4)0.0080 (3)0.0047 (4)0.0038 (3)
O20.0384 (4)0.0412 (4)0.0285 (4)0.0094 (4)0.0079 (3)0.0043 (3)
O30.0251 (3)0.0245 (3)0.0252 (3)−0.0002 (3)0.0025 (3)−0.0024 (3)
O40.0276 (4)0.0324 (4)0.0490 (5)−0.0006 (3)−0.0035 (3)−0.0064 (4)
O50.0344 (5)0.0509 (6)0.0527 (6)0.0026 (4)−0.0192 (4)−0.0009 (5)
O60.0275 (4)0.0277 (4)0.0521 (5)0.0073 (3)−0.0089 (4)−0.0145 (4)
O70.0306 (4)0.0291 (4)0.0666 (7)0.0027 (3)−0.0057 (4)−0.0205 (4)
C10.0243 (4)0.0252 (4)0.0226 (4)0.0018 (3)−0.0016 (3)0.0015 (3)
C20.0221 (4)0.0207 (4)0.0231 (4)0.0036 (3)−0.0010 (3)−0.0007 (3)
C30.0259 (5)0.0282 (4)0.0307 (5)0.0052 (4)−0.0055 (4)0.0016 (4)
C40.0226 (4)0.0355 (5)0.0298 (5)−0.0006 (4)−0.0011 (4)0.0022 (4)
C50.0246 (4)0.0220 (4)0.0345 (5)0.0042 (3)−0.0010 (4)−0.0040 (4)
C60.0262 (4)0.0242 (4)0.0302 (5)0.0032 (4)−0.0005 (4)−0.0051 (4)
C70.0341 (6)0.0395 (6)0.0399 (7)−0.0022 (5)−0.0028 (5)0.0025 (5)
N10.0547 (8)0.0579 (8)0.0388 (7)−0.0176 (6)−0.0058 (6)0.0040 (5)
N20.0531 (7)0.0576 (8)0.0534 (8)−0.0190 (6)−0.0043 (6)0.0139 (6)
N30.0586 (8)0.0594 (8)0.0436 (7)−0.0202 (7)−0.0091 (6)0.0033 (6)
O1W0.0347 (5)0.0645 (7)0.0585 (7)0.0026 (5)0.0055 (5)0.0105 (6)
O2W0.0571 (6)0.0320 (4)0.0284 (4)−0.0179 (4)0.0093 (4)−0.0048 (3)
O3W0.0321 (4)0.0257 (3)0.0332 (4)−0.0030 (3)0.0009 (3)−0.0003 (3)
Zn1—O2W2.0036 (9)C3—H3B0.9700
Zn1—O3W2.0653 (8)C5—C61.5123 (15)
Zn1—O12.0953 (9)C5—H5A0.9700
Zn1—O6i2.1071 (9)C5—H5B0.9700
Zn1—O42.1259 (9)C7—N21.3135 (18)
Zn1—O32.1436 (8)C7—N11.3250 (19)
O1—C11.2624 (12)C7—N31.3305 (18)
O2—C11.2430 (13)N1—H1N10.8653
O3—C21.4382 (12)N1—H2N10.9161
O3—H1O30.9125N2—H1N20.8782
O4—C41.2757 (15)N2—H2N20.8767
O5—C41.2389 (14)N3—H1N30.8616
O6—C61.2669 (12)N3—H2N30.8455
O6—Zn1i2.1071 (9)O1W—H1W10.7969
O7—C61.2498 (13)O1W—H2W10.8189
C1—C21.5510 (14)O2W—H1W20.8432
C2—C31.5302 (14)O2W—H2W20.7641
C2—C51.5355 (14)O3W—H1W30.8481
C3—C41.5237 (16)O3W—H2W30.7377
C3—H3A0.9700
O2W—Zn1—O3W93.79 (3)C2—C3—H3B107.8
O2W—Zn1—O1171.26 (3)H3A—C3—H3B107.2
O3W—Zn1—O194.55 (3)O5—C4—O4122.94 (11)
O2W—Zn1—O6i95.68 (4)O5—C4—C3116.42 (11)
O3W—Zn1—O6i93.63 (3)O4—C4—C3120.64 (9)
O1—Zn1—O6i86.38 (4)C6—C5—C2115.82 (8)
O2W—Zn1—O491.59 (4)C6—C5—H5A108.3
O3W—Zn1—O494.00 (4)C2—C5—H5A108.3
O1—Zn1—O485.24 (4)C6—C5—H5B108.3
O6i—Zn1—O4169.08 (3)C2—C5—H5B108.3
O2W—Zn1—O394.25 (3)H5A—C5—H5B107.4
O3W—Zn1—O3171.92 (3)O7—C6—O6123.51 (10)
O1—Zn1—O377.38 (3)O7—C6—C5117.91 (9)
O6i—Zn1—O386.39 (3)O6—C6—C5118.54 (9)
O4—Zn1—O384.96 (3)N2—C7—N1120.18 (13)
C1—O1—Zn1113.29 (7)N2—C7—N3120.45 (14)
C2—O3—Zn1106.65 (6)N1—C7—N3119.36 (13)
C2—O3—H1O3106.7C7—N1—H1N1124.8
Zn1—O3—H1O3105.3C7—N1—H2N1123.6
C4—O4—Zn1127.79 (7)H1N1—N1—H2N1111.5
C6—O6—Zn1i125.31 (7)C7—N2—H1N2121.7
O2—C1—O1124.51 (10)C7—N2—H2N2117.8
O2—C1—C2117.97 (9)H1N2—N2—H2N2119.7
O1—C1—C2117.48 (9)C7—N3—H1N3111.4
O3—C2—C3106.41 (8)C7—N3—H2N3120.1
O3—C2—C5110.47 (8)H1N3—N3—H2N3124.1
C3—C2—C5109.15 (8)H1W1—O1W—H2W1102.7
O3—C2—C1110.03 (7)Zn1—O2W—H1W2121.5
C3—C2—C1110.05 (9)Zn1—O2W—H2W2124.3
C5—C2—C1110.64 (9)H1W2—O2W—H2W2108.4
C4—C3—C2117.86 (9)Zn1—O3W—H1W3116.0
C4—C3—H3A107.8Zn1—O3W—H2W395.9
C2—C3—H3A107.8H1W3—O3W—H2W3110.5
C4—C3—H3B107.8
O3W—Zn1—O1—C1150.43 (8)O1—C1—C2—O312.55 (13)
O6i—Zn1—O1—C1−116.20 (9)O2—C1—C2—C373.57 (12)
O4—Zn1—O1—C156.79 (8)O1—C1—C2—C3−104.39 (11)
O3—Zn1—O1—C1−29.10 (8)O2—C1—C2—C5−47.13 (12)
O2W—Zn1—O3—C2−143.52 (7)O1—C1—C2—C5134.91 (10)
O1—Zn1—O3—C233.95 (6)O3—C2—C3—C4−56.32 (12)
O6i—Zn1—O3—C2121.05 (6)C5—C2—C3—C4−175.54 (10)
O4—Zn1—O3—C2−52.29 (6)C1—C2—C3—C462.86 (12)
O2W—Zn1—O4—C491.34 (10)Zn1—O4—C4—O5−150.02 (10)
O3W—Zn1—O4—C4−174.75 (10)Zn1—O4—C4—C330.55 (16)
O1—Zn1—O4—C4−80.50 (10)C2—C3—C4—O5174.68 (11)
O6i—Zn1—O4—C4−40.5 (3)C2—C3—C4—O4−5.86 (17)
O3—Zn1—O4—C4−2.78 (10)O3—C2—C5—C645.40 (12)
Zn1—O1—C1—O2−160.08 (9)C3—C2—C5—C6162.07 (10)
Zn1—O1—C1—C217.74 (12)C1—C2—C5—C6−76.69 (12)
Zn1—O3—C2—C384.83 (8)Zn1i—O6—C6—O7−4.75 (18)
Zn1—O3—C2—C5−156.82 (6)Zn1i—O6—C6—C5177.29 (8)
Zn1—O3—C2—C1−34.36 (9)C2—C5—C6—O7−174.40 (11)
O2—C1—C2—O3−169.49 (9)C2—C5—C6—O63.68 (16)
D—H···AD—HH···AD···AD—H···A
O3—H1O3···O60.911.872.6445 (13)142
N1—H1N1···O1W0.862.383.1607 (19)150
N1—H2N1···O40.922.102.9855 (17)161
N2—H1N2···O5ii0.882.122.9351 (18)154
N2—H2N2···O1Wiii0.882.052.9077 (19)166
N3—H1N3···O4ii0.862.293.1011 (18)156
N3—H1N3···O5ii0.862.553.3221 (18)150
N3—H2N3···O10.852.363.1788 (18)162
O1W—H1W1···O2iv0.801.972.7640 (15)177
O1W—H2W1···O5v0.822.052.8568 (17)170
O2W—H1W2···O1iv0.841.882.7172 (12)171
O2W—H2W2···O7vi0.761.862.6116 (13)167
O3W—H1W3···O2iv0.851.902.7215 (12)163
O3W—H2W3···O7i0.741.922.6424 (12)166
C5—H5B···O3Wvii0.972.533.4943 (13)172
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O3—H1O3⋯O60.911.872.6445 (13)142
N1—H1N1⋯O1W0.862.383.1607 (19)150
N1—H2N1⋯O40.922.102.9855 (17)161
N2—H1N2⋯O5i0.882.122.9351 (18)154
N2—H2N2⋯O1Wii0.882.052.9077 (19)166
N3—H1N3⋯O4i0.862.293.1011 (18)156
N3—H1N3⋯O5i0.862.553.3221 (18)150
N3—H2N3⋯O10.852.363.1788 (18)162
O1W—H1W1⋯O2iii0.801.972.7640 (15)177
O1W—H2W1⋯O5iv0.822.052.8568 (17)170
O2W—H1W2⋯O1iii0.841.882.7172 (12)171
O2W—H2W2⋯O7v0.761.862.6116 (13)167
O3W—H1W3⋯O2iii0.851.902.7215 (12)163
O3W—H2W3⋯O7vi0.741.922.6424 (12)166
C5—H5B⋯O3Wvii0.972.533.4943 (13)172

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

  5 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.  Solid-state structure of free base guanidine achieved at last.

Authors:  Takahiro Yamada; Xiaohui Liu; Ulli Englert; Hisanori Yamane; Richard Dronskowski
Journal:  Chemistry       Date:  2009-06-02       Impact factor: 5.236

3.  Tetra-guanidinium bis-[citrato(3-)]cuprate(II) dihydrate.

Authors:  Mohammad T M Al-Dajani; Hassan H Abdallah; Nornisah Mohamed; Chin Sing Yeap; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-11-07

4.  Guanidinium 3-carb-oxy-2,3-dihydroxy-propanoate monohydrate.

Authors:  Mohammad T M Al-Dajani; Hassan H Abdallah; Nornisah Mohamed; Jia Hao Goh; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-09-19

5.  Structure validation in chemical crystallography.

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

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