Literature DB >> 21577509

2-(2-Hydroxy-ethyl)-3-[(2-hydroxy-ethyl)imino]isoindolin-1-one.

Jiří Urban, Jiří Ludvík, Jan Fábry, Michal Dušek, Karla Fejfarová.   

Abstract

In the crystal structure of the title compound, C(12)H(14)N(2)O(3), mol-ecules are packed into layers parallel to (100). Each layer contains centrosymmetric dimers formed by a pair of strong O-H⋯N hydrogen bonds with an R(2) (2)(10) motif, while strong O-H⋯O hydrogen bonds forming C(10) chains connect mol-ecules into a two-dimensional network. Additional stabilization is supplied by weak C-H⋯O hydrogen bonds and weak π-π stacking inter-actions with centroid-centroid distances in the range 3.4220 (7)-3.9616 (7) Å.

Entities:  

Year:  2009        PMID: 21577509      PMCID: PMC2970005          DOI: 10.1107/S1600536809030487

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


Related literature

For background to the chemical and electrochemical properties of aromatic dicarbonyl compounds, see: Zuman (2004 ▶). For the use of reactions between phthalaldehyde and nucleophiles for the fluorimetric determination of amino acids, see: Roth (1971 ▶); For other structures isolated from systems in which kolamine was reacted with phthalaldehyde, see: Urban (2007a ▶, 2007b ▶). For hydrogen bonding and graph-set motifs, see: Desiraju & Steiner (1999 ▶); Etter et al. (1990 ▶). For the extinction correction, see: Becker & Coppens (1974 ▶).

Experimental

Crystal data

C12H14N2O3 M = 234.3 Orthorhombic, a = 19.04539 (11) Å b = 7.14668 (5) Å c = 15.71068 (9) Å V = 2138.40 (5) Å3 Z = 8 Cu Kα radiation μ = 0.88 mm−1 T = 120 K 0.64 × 0.11 × 0.05 mm

Data collection

Oxford Diffraction Gemini diffractometer Absorption correction: multi-scan (CrysAlis RED; Oxford Diffraction, 2005 ▶) T min = 0.547, T max = 0.916 40508 measured reflections 1829 independent reflections 1676 reflections with I > 3σ(I) R int = 0.032

Refinement

R[F 2 > 2σ(F 2)] = 0.029 wR(F 2) = 0.088 S = 3.44 1829 reflections 161 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.21 e Å−3 Δρmin = −0.19 e Å−3 Data collection: CrysAlis CCD (Oxford Diffraction, 2005 ▶); cell refinement: CrysAlis RED (Oxford Diffraction, 2005 ▶); data reduction: CrysAlis RED; program(s) used to solve structure: SIR97 (Altomare et al., 1997 ▶); program(s) used to refine structure: JANA2006 (Petříček et al., 2006 ▶); molecular graphics: PLATON (Spek, 2009 ▶); software used to prepare material for publication: JANA2006. Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536809030487/lh2865sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809030487/lh2865Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C12H14N2O3Dx = 1.455 Mg m3
Mr = 234.3Melting point = 373–375 K
Orthorhombic, PccnCu Kα radiation, λ = 1.54184 Å
Hall symbol: -P 2ab 2acCell parameters from 26197 reflections
a = 19.04539 (11) Åθ = 2.8–65.3°
b = 7.14668 (5) ŵ = 0.88 mm1
c = 15.71068 (9) ÅT = 120 K
V = 2138.40 (5) Å3Needle, brown
Z = 80.64 × 0.11 × 0.05 mm
F(000) = 992
Oxford Diffraction Gemini diffractometer1829 independent reflections
Radiation source: Ultra (Cu) X-ray Source1676 reflections with I > 3σ(I)
mirrorRint = 0.032
Detector resolution: 10.3784 pixels mm-1θmax = 65.4°, θmin = 2.8°
ω scansh = −21→22
Absorption correction: multi-scan (CrysAlis RED; Oxford Diffraction, 2005)k = −7→8
Tmin = 0.547, Tmax = 0.916l = −18→18
40508 measured reflections
Refinement on F2Secondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.029Hydrogen site location: difference Fourier map
wR(F2) = 0.088H atoms treated by a mixture of independent and constrained refinement
S = 3.44Weighting scheme based on measured s.u.'s w = 1/[σ2(I) + 0.0004I2]
1829 reflections(Δ/σ)max = 0.001
161 parametersΔρmax = 0.21 e Å3
0 restraintsΔρmin = −0.19 e Å3
50 constraintsExtinction correction: B–C type 1 Lorentzian isotropic (Becker & Coppens, 1974)
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 3600 (400)
xyzUiso*/Ueq
O30.01643 (4)0.37865 (12)0.58348 (5)0.0249 (3)
O20.02777 (4)0.42770 (13)0.19272 (5)0.0254 (3)
N20.12251 (5)0.53455 (13)0.46306 (6)0.0189 (3)
N10.17906 (5)0.53362 (14)0.33037 (6)0.0195 (3)
O10.26033 (5)0.52000 (13)0.22084 (5)0.0295 (3)
C80.17913 (6)0.52397 (15)0.41996 (7)0.0167 (4)
C100.08334 (6)0.38375 (17)0.24969 (7)0.0217 (3)
C30.25448 (7)0.50383 (14)0.44476 (7)0.0168 (3)
C20.29391 (7)0.50185 (15)0.36982 (7)0.0182 (4)
C60.40008 (7)0.47776 (16)0.44756 (8)0.0228 (4)
C90.11818 (6)0.56558 (17)0.27593 (7)0.0209 (4)
C40.28841 (6)0.49167 (15)0.52267 (8)0.0202 (4)
C120.05695 (6)0.54373 (18)0.59873 (7)0.0229 (4)
C110.12770 (6)0.52705 (16)0.55650 (7)0.0198 (4)
C70.36643 (6)0.49080 (15)0.36957 (8)0.0208 (4)
C50.36134 (7)0.47820 (16)0.52273 (8)0.0228 (4)
C10.24599 (6)0.51820 (16)0.29654 (7)0.0202 (4)
H1c100.1173230.304690.221040.026*
H2c100.0644040.3219050.2996330.026*
H1c90.1325490.6339580.2255210.0251*
H2c90.0844680.6434880.3056940.0251*
H1c120.0632130.5605060.6595240.0275*
H2c120.0323340.6515880.5760510.0275*
H1c110.1580480.6269550.5763230.0238*
H2c110.1496750.4103910.5734080.0238*
H1c60.4487640.4686860.449470.0273*
H1c40.2630620.4925170.5732560.0243*
H1c70.3916120.4920810.3188540.025*
H1c50.3848490.4692560.574460.0273*
H1o3−0.0255 (9)0.409 (2)0.5715 (10)0.0373*
H1o20.0205 (8)0.335 (2)0.1590 (10)0.0381*
U11U22U33U12U13U23
O30.0162 (5)0.0353 (5)0.0231 (4)0.0000 (4)−0.0010 (3)0.0066 (3)
O20.0200 (4)0.0346 (5)0.0217 (4)0.0008 (4)−0.0064 (3)−0.0041 (4)
N20.0179 (5)0.0237 (5)0.0150 (5)0.0000 (4)0.0003 (4)0.0005 (4)
N10.0172 (5)0.0284 (6)0.0128 (5)0.0002 (4)−0.0020 (4)0.0000 (4)
O10.0266 (5)0.0491 (6)0.0130 (4)0.0007 (4)0.0017 (3)−0.0006 (3)
C80.0195 (6)0.0183 (6)0.0123 (6)−0.0009 (4)−0.0015 (5)0.0000 (4)
C100.0191 (6)0.0295 (7)0.0163 (6)0.0012 (5)−0.0023 (4)0.0000 (4)
C30.0184 (6)0.0168 (6)0.0152 (6)−0.0005 (4)0.0009 (5)−0.0003 (4)
C20.0201 (7)0.0186 (6)0.0159 (6)0.0005 (4)0.0000 (4)−0.0010 (4)
C60.0179 (7)0.0268 (7)0.0235 (7)0.0024 (5)−0.0006 (5)−0.0006 (5)
C90.0195 (6)0.0293 (7)0.0140 (6)0.0014 (5)−0.0030 (4)0.0022 (5)
C40.0205 (7)0.0242 (6)0.0161 (6)0.0005 (4)0.0001 (5)0.0005 (4)
C120.0221 (6)0.0302 (7)0.0163 (6)0.0018 (5)0.0012 (5)0.0003 (4)
C110.0194 (6)0.0264 (7)0.0137 (6)−0.0005 (4)0.0001 (4)0.0016 (4)
C70.0202 (7)0.0228 (6)0.0194 (7)0.0013 (4)0.0034 (5)−0.0015 (4)
C50.0227 (7)0.0271 (7)0.0185 (6)0.0009 (5)−0.0036 (5)0.0011 (4)
C10.0220 (6)0.0243 (6)0.0143 (6)−0.0007 (5)0.0003 (5)−0.0010 (4)
O3—C121.4300 (15)C4—C51.3923 (18)
O2—C101.4213 (13)C12—C111.5067 (16)
N2—C81.2756 (15)O3—H1o30.848 (17)
N2—C111.4724 (15)O2—H1o20.859 (16)
N1—C81.4092 (15)C10—H1c100.9700
N1—C91.4587 (14)C10—H2c100.9700
N1—C11.3856 (15)C6—H1c60.9300
O1—C11.2204 (14)C9—H1c90.9700
C8—C31.4940 (17)C9—H2c90.9700
C10—C91.5163 (17)C4—H1c40.9300
C3—C21.3966 (16)C12—H1c120.9700
C3—C41.3867 (17)C12—H2c120.9700
C2—C71.3833 (17)C11—H1c110.9700
C2—C11.4737 (16)C11—H2c110.9700
C6—C71.3860 (17)C7—H1c70.9300
C6—C51.3925 (17)C5—H1c50.9300
C8—N2—C11118.06 (10)O2—C10—H2c10109.47
C8—N1—C9126.45 (9)C9—C10—H1c10109.47
C8—N1—C1112.22 (9)C9—C10—H2c10109.47
C9—N1—C1121.26 (9)H1c10—C10—H2c10110.98
N2—C8—N1121.76 (10)N1—C9—H1c9109.47
N2—C8—C3132.79 (10)N1—C9—H2c9109.47
N1—C8—C3105.44 (9)C10—C9—H1c9109.47
O2—C10—C9107.92 (9)C10—C9—H2c9109.47
C8—C3—C2107.31 (10)H1c9—C9—H2c9106.93
C8—C3—C4133.15 (11)O3—C12—H1c12109.47
C2—C3—C4119.53 (11)O3—C12—H2c12109.47
C3—C2—C7122.67 (11)C11—C12—H1c12109.47
C3—C2—C1108.95 (10)C11—C12—H2c12109.47
C7—C2—C1128.36 (11)H1c12—C12—H2c12108.84
C7—C6—C5120.31 (12)N2—C11—H1c11109.47
N1—C9—C10111.90 (10)N2—C11—H2c11109.47
C3—C4—C5118.03 (11)C12—C11—H1c11109.47
O3—C12—C11110.10 (9)C12—C11—H2c11109.47
N2—C11—C12112.09 (9)H1c11—C11—H2c11106.72
C2—C7—C6117.58 (11)C3—C4—H1c4120.79
C6—C5—C4121.87 (11)C5—C4—H1c4121.18
N1—C1—O1125.37 (11)C6—C5—H1c5119.07
N1—C1—C2106.05 (9)C4—C5—H1c5119.06
O1—C1—C2128.58 (11)C7—C6—H1c6119.61
C12—O3—H1o3109.5 (10)C5—C6—H1c6120.07
C10—O2—H1o2109.8 (10)C2—C7—H1c7121.12
O2—C10—H1c10109.47C6—C7—H1c7121.30
D—H···AD—HH···AD···AD—H···A
O3—H1O3···N2i0.849 (17)1.968 (17)2.8145 (12)175.8 (16)
O2—H1O2···O3ii0.860 (15)1.935 (15)2.7903 (12)173.0 (15)
C9—H2C9···O3i0.972.603.4074 (14)141
C4—H1C4···O1iii0.932.373.2553 (15)159
C5—H1C5···O2iii0.932.513.4239 (15)167
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O3—H1O3⋯N2i0.85 (2)1.97 (2)2.8145 (12)176 (2)
O2—H1O2⋯O3ii0.86 (2)1.94 (2)2.7903 (12)173 (2)
C9—H2C9⋯O3i0.972.603.4074 (14)141
C4—H1C4⋯O1iii0.932.373.2553 (15)159
C5—H1C5⋯O2iii0.932.513.4239 (15)167

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

  4 in total

Review 1.  Reactions of orthophthalaldehyde with nucleophiles.

Authors:  Petr Zuman
Journal:  Chem Rev       Date:  2004-07       Impact factor: 60.622

2.  Graph-set analysis of hydrogen-bond patterns in organic crystals.

Authors:  M C Etter; J C MacDonald; J Bernstein
Journal:  Acta Crystallogr B       Date:  1990-04-01

3.  Fluorescence reaction for amino acids.

Authors:  M Roth
Journal:  Anal Chem       Date:  1971-06       Impact factor: 6.986

4.  Structure validation in chemical crystallography.

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

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