Literature DB >> 21577956

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

Mohammad T M Al-Dajani, Hassan H Abdallah, Nornisah Mohamed, Jia Hao Goh, Hoong-Kun Fun.   

Abstract

In the title hydrated salt, CH(6)N(3) (+)·C(4)H(5)O(6) (-)·H(2)O, the deprotonated carboxyl group is disordered over two positions with a site-occupancy ratio of 0.945 (3):0.055 (3). The bond lengths in the guanidinium cation are inter-mediate between normal C-N and C=N bond lengths, indicating significant delocalization in this species. In the crystal structure, anions and water mol-ecules are linked into sheets parallel to the ab plane by inter-molecular O-H⋯O hydrogen bonds. The linking of the anions and water mol-ecules with the cations by inter-molecular N-H⋯O hydrogen bonds creates a three-dimensional network.

Entities:  

Year:  2009        PMID: 21577956      PMCID: PMC2970441          DOI: 10.1107/S1600536809037313

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


Related literature

For general background to and applications of guanidine derivatives, see: Angyal & Warburton (1951 ▶); Raczyńska et al. (2003 ▶); Yamada et al. (2009 ▶). For closely related guanidinium structures, see: Najafpour et al. (2007 ▶); Pereira Silva et al. (2007 ▶). For bond-length data, see: Allen et al. (1987 ▶). For the stability of the temperature controller used for the data collection, see: Cosier & Glazer (1986 ▶).

Experimental

Crystal data

CH6N3C4H5O6 −·H2O M = 227.18 Triclinic, a = 7.4588 (1) Å b = 8.0931 (1) Å c = 8.6423 (1) Å α = 72.415 (1)° β = 71.620 (1)° γ = 81.558 (1)° V = 471.18 (1) Å3 Z = 2 Mo Kα radiation μ = 0.15 mm−1 T = 100 K 0.45 × 0.32 × 0.14 mm

Data collection

Bruker SMART APEXII CCD area-detector diffractometer Absorption correction: multi-scan (; Bruker, 2005 ▶) T min = 0.937, T max = 0.979 10837 measured reflections 3418 independent reflections 3115 reflections with I > 2σ(I) R int = 0.018

Refinement

R[F 2 > 2σ(F 2)] = 0.034 wR(F 2) = 0.093 S = 1.02 3418 reflections 197 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.49 e Å−3 Δρmin = −0.27 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/S1600536809037313/tk2542sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809037313/tk2542Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
CH6N3+·C4H5O6·H2OZ = 2
Mr = 227.18F(000) = 240
Triclinic, P1Dx = 1.601 Mg m3
Hall symbol: -P 1Mo Kα radiation, λ = 0.71073 Å
a = 7.4588 (1) ÅCell parameters from 6392 reflections
b = 8.0931 (1) Åθ = 2.6–32.6°
c = 8.6423 (1) ŵ = 0.15 mm1
α = 72.415 (1)°T = 100 K
β = 71.620 (1)°Block, colourless
γ = 81.558 (1)°0.45 × 0.32 × 0.14 mm
V = 471.18 (1) Å3
Bruker SMART APEXII CCD area-detector diffractometer3418 independent reflections
Radiation source: fine-focus sealed tube3115 reflections with I > 2σ(I)
graphiteRint = 0.018
φ and ω scansθmax = 32.6°, θmin = 2.6°
Absorption correction: multi-scan (SADABS; Bruker, 2005)h = −11→11
Tmin = 0.937, Tmax = 0.979k = −11→12
10837 measured reflectionsl = −12→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)] = 0.034Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.093H atoms treated by a mixture of independent and constrained refinement
S = 1.02w = 1/[σ2(Fo2) + (0.0471P)2 + 0.1755P] where P = (Fo2 + 2Fc2)/3
3418 reflections(Δ/σ)max < 0.001
197 parametersΔρmax = 0.49 e Å3
0 restraintsΔρmin = −0.27 e Å3
Experimental. The crystal was placed in the cold stream of an Oxford Cyrosystems Cobra open-flow nitrogen cryostat (Cosier & Glazer, 1986) operating at 100.0 (1)K.
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*/UeqOcc. (<1)
O1−0.00986 (9)0.73134 (10)0.50517 (8)0.02036 (14)
O2−0.09291 (9)0.54671 (9)0.76558 (8)0.01726 (13)
H1O2−0.20050.58110.76040.026*
O30.35923 (9)0.69520 (8)0.49515 (8)0.01562 (12)
O40.19600 (9)0.77452 (8)0.81295 (8)0.01573 (12)
C10.02941 (11)0.62976 (11)0.62883 (10)0.01333 (14)
C20.23376 (10)0.58428 (10)0.63385 (9)0.01179 (13)
C30.25872 (11)0.60619 (10)0.79571 (9)0.01189 (13)
C40.46665 (12)0.55432 (14)0.78966 (10)0.01126 (17)0.945 (3)
O50.57222 (9)0.66863 (9)0.77930 (9)0.01673 (17)0.945 (3)
O60.52211 (9)0.39998 (9)0.79084 (8)0.01420 (16)0.945 (3)
C4A0.480 (3)0.606 (3)0.793 (2)0.01126 (17)0.055 (3)
O5A0.503 (3)0.736 (3)0.823 (3)0.042 (5)*0.055 (3)
O6A0.5654 (17)0.4820 (18)0.7605 (14)0.015 (3)*0.055 (3)
N10.29076 (11)1.10920 (10)−0.04338 (10)0.01787 (14)
N20.13002 (11)0.86542 (10)0.12497 (9)0.01554 (13)
N30.25830 (11)1.02160 (10)0.24365 (10)0.01706 (14)
C50.22818 (11)0.99832 (10)0.10812 (10)0.01293 (14)
O1W0.31892 (10)0.09289 (9)0.60724 (9)0.01863 (13)
H2A0.2663 (17)0.4572 (16)0.6371 (16)0.011 (3)*
H3A0.1831 (18)0.5272 (17)0.8903 (17)0.014 (3)*
H1O30.382 (2)0.660 (2)0.409 (2)0.032 (4)*
H1O40.261 (2)0.851 (2)0.731 (2)0.035 (4)*
H1N10.277 (2)1.093 (2)−0.131 (2)0.029 (4)*
H2N10.356 (2)1.194 (2)−0.0562 (19)0.024 (3)*
H1N20.112 (2)0.789 (2)0.219 (2)0.029 (4)*
H2N20.136 (2)0.8370 (19)0.0359 (19)0.023 (3)*
H1N30.325 (2)1.105 (2)0.233 (2)0.026 (3)*
H2N30.227 (2)0.944 (2)0.337 (2)0.025 (3)*
H1W10.417 (3)0.143 (2)0.551 (2)0.039 (4)*
H2W10.240 (2)0.154 (2)0.559 (2)0.036 (4)*
U11U22U33U12U13U23
O10.0161 (3)0.0283 (3)0.0131 (3)0.0031 (2)−0.0054 (2)−0.0013 (2)
O20.0102 (2)0.0224 (3)0.0168 (3)−0.0034 (2)−0.0044 (2)−0.0001 (2)
O30.0144 (3)0.0197 (3)0.0112 (2)−0.0052 (2)−0.00005 (19)−0.0039 (2)
O40.0180 (3)0.0138 (3)0.0148 (3)−0.0006 (2)−0.0026 (2)−0.0054 (2)
C10.0121 (3)0.0160 (3)0.0126 (3)−0.0009 (2)−0.0042 (2)−0.0042 (3)
C20.0100 (3)0.0140 (3)0.0113 (3)−0.0016 (2)−0.0027 (2)−0.0032 (2)
C30.0101 (3)0.0138 (3)0.0116 (3)−0.0012 (2)−0.0029 (2)−0.0030 (2)
C40.0101 (3)0.0143 (4)0.0099 (3)−0.0040 (3)−0.0026 (2)−0.0027 (3)
O50.0117 (3)0.0165 (3)0.0236 (3)−0.0037 (2)−0.0053 (2)−0.0063 (2)
O60.0133 (3)0.0135 (3)0.0157 (3)−0.0003 (2)−0.0044 (2)−0.0040 (2)
C4A0.0101 (3)0.0143 (4)0.0099 (3)−0.0040 (3)−0.0026 (2)−0.0027 (3)
N10.0182 (3)0.0184 (3)0.0147 (3)−0.0050 (3)−0.0037 (2)−0.0003 (3)
N20.0188 (3)0.0143 (3)0.0139 (3)−0.0032 (2)−0.0050 (2)−0.0030 (2)
N30.0212 (3)0.0164 (3)0.0156 (3)−0.0027 (3)−0.0073 (3)−0.0043 (3)
C50.0112 (3)0.0133 (3)0.0136 (3)0.0011 (2)−0.0034 (2)−0.0036 (2)
O1W0.0148 (3)0.0186 (3)0.0192 (3)−0.0026 (2)−0.0058 (2)0.0013 (2)
O1—C11.2246 (10)C4—O51.2662 (12)
O2—C11.3042 (10)C4A—O6A1.17 (2)
O2—H1O20.8200C4A—O5A1.20 (3)
O3—C21.4169 (9)N1—C51.3286 (10)
O3—H1O30.840 (18)N1—H1N10.844 (17)
O4—C31.4101 (10)N1—H2N10.859 (15)
O4—H1O40.851 (18)N2—C51.3355 (10)
C1—C21.5258 (11)N2—H1N20.846 (16)
C2—C31.5319 (11)N2—H2N20.854 (16)
C2—H2A1.015 (13)N3—C51.3303 (10)
C3—C41.5347 (11)N3—H1N30.865 (16)
C3—C4A1.641 (18)N3—H2N30.851 (15)
C3—H3A0.945 (13)O1W—H1W10.822 (19)
C4—O61.2549 (12)O1W—H2W10.842 (18)
C1—O2—H1O2109.5C4A—C3—H3A115.5 (10)
C2—O3—H1O3109.6 (11)O6—C4—O5124.13 (8)
C3—O4—H1O4110.8 (12)O6—C4—C3116.93 (8)
O1—C1—O2125.21 (8)O5—C4—C3118.92 (8)
O1—C1—C2121.76 (7)O6A—C4A—O5A140 (2)
O2—C1—C2113.01 (7)O6A—C4A—C3110.4 (14)
O3—C2—C1111.04 (6)O5A—C4A—C3109.7 (16)
O3—C2—C3107.06 (6)C5—N1—H1N1121.2 (11)
C1—C2—C3110.81 (6)C5—N1—H2N1120.5 (10)
O3—C2—H2A112.1 (7)H1N1—N1—H2N1118.0 (14)
C1—C2—H2A109.1 (7)C5—N2—H1N2115.7 (11)
C3—C2—H2A106.6 (7)C5—N2—H2N2118.2 (10)
O4—C3—C2111.00 (6)H1N2—N2—H2N2119.5 (14)
O4—C3—C4115.34 (7)C5—N3—H1N3120.5 (10)
C2—C3—C4106.58 (6)C5—N3—H2N3118.7 (10)
O4—C3—C4A99.2 (7)H1N3—N3—H2N3119.9 (15)
C2—C3—C4A114.6 (6)N1—C5—N3120.41 (8)
C4—C3—C4A16.1 (7)N1—C5—N2119.70 (7)
O4—C3—H3A107.2 (8)N3—C5—N2119.87 (7)
C2—C3—H3A108.8 (8)H1W1—O1W—H2W1101.2 (17)
C4—C3—H3A107.8 (8)
O1—C1—C2—O310.22 (11)C2—C3—C4—O6−62.98 (9)
O2—C1—C2—O3−171.38 (7)C4A—C3—C4—O6175 (2)
O1—C1—C2—C3129.07 (8)O4—C3—C4—O5−8.52 (11)
O2—C1—C2—C3−52.53 (9)C2—C3—C4—O5115.16 (8)
O3—C2—C3—O466.54 (8)C4A—C3—C4—O5−7(2)
C1—C2—C3—O4−54.69 (8)O4—C3—C4A—O6A−172.1 (12)
O3—C2—C3—C4−59.80 (8)C2—C3—C4A—O6A−53.8 (14)
C1—C2—C3—C4178.98 (7)C4—C3—C4A—O6A9.2 (12)
O3—C2—C3—C4A−44.8 (7)O4—C3—C4A—O5A6.8 (16)
C1—C2—C3—C4A−166.1 (7)C2—C3—C4A—O5A125.0 (14)
O4—C3—C4—O6173.34 (7)C4—C3—C4A—O5A−172 (3)
D—H···AD—HH···AD···AD—H···A
O2—H1O2···O5i0.821.722.5272 (10)170
O3—H1O3···O6ii0.836 (16)1.832 (16)2.6564 (9)168.6 (16)
O4—H1O4···O1Wiii0.852 (16)1.963 (16)2.7455 (10)152.1 (15)
N1—H1N1···O1Wiv0.845 (16)2.184 (16)3.0019 (11)162.8 (15)
N1—H2N1···O6iv0.859 (16)2.075 (16)2.8573 (11)151.2 (14)
N2—H1N2···O10.844 (16)2.274 (16)3.0131 (10)146.3 (15)
N2—H2N2···O4v0.854 (15)2.036 (15)2.8828 (10)170.7 (15)
N3—H1N3···O5vi0.862 (16)2.049 (16)2.8973 (11)167.6 (15)
N3—H2N3···O10.847 (16)2.441 (16)3.1540 (11)142.3 (14)
N3—H2N3···O30.847 (16)2.345 (16)3.0410 (11)139.7 (14)
O1W—H1W1···O3ii0.82 (2)2.14 (2)2.9051 (10)155.0 (15)
O1W—H2W1···O1vii0.842 (16)1.984 (16)2.8100 (11)166.4 (16)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O2—H1O2⋯O5i0.821.722.5272 (10)170
O3—H1O3⋯O6ii0.836 (16)1.832 (16)2.6564 (9)168.6 (16)
O4—H1O4⋯O1Wiii0.852 (16)1.963 (16)2.7455 (10)152.1 (15)
N1—H1N1⋯O1Wiv0.845 (16)2.184 (16)3.0019 (11)162.8 (15)
N1—H2N1⋯O6iv0.859 (16)2.075 (16)2.8573 (11)151.2 (14)
N2—H1N2⋯O10.844 (16)2.274 (16)3.0131 (10)146.3 (15)
N2—H2N2⋯O4v0.854 (15)2.036 (15)2.8828 (10)170.7 (15)
N3—H1N3⋯O5vi0.862 (16)2.049 (16)2.8973 (11)167.6 (15)
N3—H2N3⋯O10.847 (16)2.441 (16)3.1540 (11)142.3 (14)
N3—H2N3⋯O30.847 (16)2.345 (16)3.0410 (11)139.7 (14)
O1W—H1W1⋯O3ii0.82 (2)2.14 (2)2.9051 (10)155.0 (15)
O1W—H2W1⋯O1vii0.842 (16)1.984 (16)2.8100 (11)166.4 (16)

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

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