Literature DB >> 26090147

Crystal structures and hydrogen bonding in the anhydrous tryptaminium salts of the isomeric (2,4-di-chloro-phen-oxy)acetic and (3,5-di-chloro-phen-oxy)acetic acids.

Graham Smith1, Daniel E Lynch2.   

Abstract

The anhydrous salts of 2-(1H-indol-3-yl)ethanamine (tryptamine) with isomeric (2,4-di-chloro-phen-oxy)acetic acid (2,4-D) and (3,5-di-chloro-phen-oxy)acetic (3,5-D), both C10H13N2 (+)·C8H5Cl2O3 (-) [(I) and (II), respectively], have been determined and their one-dimensional hydrogen-bonded polymeric structures are described. In the crystal of (I), the aminium H atoms are involved in three separate inter-species N-H⋯O hydrogen-bonding inter-actions, two with carboxyl-ate O-atom acceptors and the third in an asymmetric three-centre bidentate carboxyl-ate O,O' chelate [graph set R 1 (2)(4)]. The indole H atom forms an N-H⋯Ocarboxyl-ate hydrogen bond, extending the chain structure along the b-axis direction. In (II), two of the three aminium H atoms are also involved in N-H⋯Ocarboxyl-ate hydrogen bonds similar to (I) but with the third, a three-centre asymmetric inter-action with carboxyl-ate and phen-oxy O atoms is found [graph set R 1 (2)(5)]. The chain polymeric extension is also along b. There are no π-π ring inter-actions in either of the structures. The aminium side-chain conformations differ significantly between the two structures, reflecting the conformational ambivalence of the tryptaminium cation, as found also in the benzoate salts.

Entities:  

Keywords:  2,4-D; 3,5-D; crystal structure; herbicides; hydrogen bonding; phen­oxy­acetic acids; tryptamine salts

Year:  2015        PMID: 26090147      PMCID: PMC4459305          DOI: 10.1107/S205698901500907X

Source DB:  PubMed          Journal:  Acta Crystallogr E Crystallogr Commun


Chemical context

2-(1H-Indol-3-yl)ethanamine (tryptamine) is an alkaloid found in plants and fungi and is a possible inter­mediate in the biosynthetic pathway to the plant hormone indole-3-acetic acid (Takahashi, 1986 ▸). It is also found in trace amounts in the mammalian brain, possibly acting as a neuromodulator or neurotransmitter (Jones, 1982 ▸). As a relatively strong base (pK a = 10.2), it readily forms salts with a number of organic acids. To investigate the modes of hydrogen-bonding inter­action in crystals of the tryptaminium salts of ring-substituted phen­oxy­acetic acid analogues, the reaction of tryptamine with two isomeric homologues, the herbicidally active (2,4-di­chloro­phen­oxy)acetic acid (2,4-D) (Zumdahl, 2010 ▸) and (3,5-di­chloro­phen­oxy)acetic acid (3,5-D), gave the anhydrous salts, C10H13N2 +·C8H5Cl2O3 −, (I) and (II), respectively. Their structures and hydrogen-bonding modes are reported herein. The structure of the anhydrous salt with phen­oxy­acetic acid (Koshima et al., 1999 ▸) represents the only reported example of a salt from this acid series. In that crystal, chirality was generated through hydrogen bonding, giving cation–anion units related along a 21 screw axes. A similar phenomenon was also observed in the tryptaminium 4-chloro­benzoate crystal (Koshima et al., 2005 ▸).

Structural commentary

The asymmetric units of (I) and (II) comprise a tryptaminium cation (A) and either a 2,4-di­chloro­phen­oxy­acetate anion (B) (I) (Fig. 1 ▸) or a (3,5-di­chloro­phen­oxy)acetate anion (II) (Fig. 2 ▸). Unlike a number of tryptaminium salts of benzoic acids in which the benzene rings in the cation and anion species are essentially parallel, giving π–π inter­actions, these planes in (I) and (II) are not so [dihedral angles = 74.1 (3) and 24.68 (17)°, respectively], giving no π–π inter­active effects.
Figure 1

The atom-numbering scheme and the mol­ecular conformation of the TRYP+ cation (A) and the 2,4-D− anion (B) in (I) with displacement ellipsoids drawn at the 40% probability level. The cation–anion hydrogen bonds are shown as dashed lines.

Figure 2

The atom-numbering scheme and the mol­ecular conformation of the TRYP+ cation (A) and the 3,5-D− anion (B) in (II) with displacement ellipsoids drawn at the 40% probability level. The cation–anion hydrogen bond is shown as a dashed line.

The alkyl­aminium side chains in the cations of (I) and (II) differ significantly, with the torsion angles C2A—C3A—C31A—C32A and C3A—C31A—C32A—C32A—N32A being −113.1 (5), 58.6 (5)° in (I), 7.3 (5) and in 75.7 (4)° (II), respectively. This variability is a standard feature in the structures of the known tryptaminium benzoate salts, which include the parent benzoate (Terakita et al., 2004 ▸), 4-chloro­benzoate (Koshima et al., 2005 ▸), 3,4-di­meth­oxy­benzoate (Siripaisarnpipat & Larsen, 1987 ▸), 3,5-di­nitro-2-hy­droxy­benzoate (Lynch et al., 2015 ▸) and the pseudopolymorphic anhydrous, mono- and dihydrate 3,5-di­nitro­benzoates salts (Lynch et al., 2015 ▸). In the structure of tryptamine, determined from powder diffraction data (Nowell et al., 2002 ▸), the corres­ponding angles are −89.4 (6) and 60.7 (6)°. In (I) the phen­oxy­acetate side chain of the 2,4-D anion is significantly rotated out of the benzene plane [defining torsion angle C1B—O11B—C12B—C13B = 81.2 (6)°], similar to that of the parent acid which also has the synclinal side chain conformation (torsion angle 90±30°) (comparative torsion angle = 75.2°; Smith et al., 1976 ▸). However, in the potassium salt (Kennard et al., 1983 ▸) and the ammonium salt (Liu et al., 2009 ▸) (both hemihydrates), the anti­periplanar (180±30°) conformation is found. The 3,5-D anion in (II) adopts the anti­periplanar conformation with the defining C1B—O1B—C12B—C13B torsion angle = −166.5 (3). The structure of the parent acid is not known but the equivalent angle in the ammonium salt is −171.35 (15)° (Smith, 2015 ▸) but in the 2:1 adduct of 3,5-D with 4,4′-bi­pyridine (Lynch et al., 2003 ▸), the angle is −71.6 (3)° (synclinal).

Supra­molecular features

In the crystal structures of (I) and (II), one-dimensional hydrogen-bonded structures involving N—H⋯Ocarboxyl­ate inter­actions are found. However, the hydrogen-bonding patterns differ significantly. In the crystal of (I), the three aminium H atoms give different inter-species inter­actions, two with single carboxyl­ate O-atom acceptors (O13B iii, O14B ii) and third giving a three-centre O,O′ chelate with carboxyl­ate O atoms (O13, O14) [graph set R 2 1(4)] (Table 1 ▸). The indole H atom gives an N—H⋯Ocarboxyl­ate hydrogen bond, extending the chain structure down the [010] axis (Fig. 3 ▸). In the crystal of (II), as with (I), two of the three aminium N—H⋯O inter­actions are with single carboxyl­ate O atoms [(O13B, O14B iii) but the third differs in that it forms a three-centre asymmetric inter­action with carboxyl­ate and phen­oxy O atoms of the anion (O13B ii, O11B ii) [graph set (4)] (Table 2 ▸). The chain polymeric N1—H⋯ O14B extension is also along [010] (Fig. 4 ▸).
Table 1

Hydrogen-bond geometry (Å, °) for (I)

D—H⋯A D—HH⋯A DA D—H⋯A
N1A—H1A⋯O13B i 0.87 (4)2.13 (5)2.879 (6)144 (6)
N32A—H34A⋯O14B ii 0.89 (4)1.89 (4)2.782 (6)175 (2)
N32A—H35A⋯O13B iii 0.90 (4)2.10 (5)2.817 (6)137 (4)
N32A—H36A⋯O13B 0.89 (3)2.57 (4)3.231 (6)132 (4)
N32A—H36A⋯O14B 0.89 (3)1.94 (4)2.816 (6)171 (5)

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

Figure 3

The one-dimensional hydrogen-bonded polymeric structure of (I) extending along [010], with non-associative H atoms omitted. For symmetry codes, see Table 1 ▸.

Table 2

Hydrogen-bond geometry (Å, °) for (II)

D—H⋯A D—HH⋯A DA D—H⋯A
N1A—H1A⋯O14B i 0.87 (4)2.04 (4)2.838 (4)152 (4)
N32A—H34A⋯O13B 0.87 (2)2.05 (3)2.875 (4)160 (4)
N32A—H35A⋯O11B ii 0.89 (3)2.60 (4)3.160 (4)122 (3)
N32A—H35A⋯O13B ii 0.89 (3)1.87 (3)2.739 (4)164 (4)
N32A—H36A⋯O14B iii 0.89 (4)1.90 (4)2.775 (4)170 (4)
C2A—H2A⋯O13B iii 0.952.553.495 (4)177

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

Figure 4

The one-dimensional hydrogen-bonded polymeric structure of (II) extending along [010], with non-associative H-atoms omitted. For symmetry codes, see Table 2 ▸.

The present pair of structures of salts of tryptamine with isomeric (2,4-di­chloro­phen­oxy)acetic acid and (3,5-di­chloro­phen­oxy)acetic acid provide examples which further reflect the conformational ambivalence of the cationic alkyl­aminium side chain of the tryptamine cation, shown also in the benzoate salts.

Synthesis and crystallization

The title compounds (I) and (II) were prepared by warming together for 2 min, solutions containing equimolar qu­anti­ties of (2,4-di­chloro­phen­oxy)acetic acid (2,4-D) or (3,5-di­chloro­phen­oxy)acetic acid (3,5-D) (138 mg) with 100 mg of tryptamine in ethanol. Room temperature evaporation of the solutions gave in both cases, colourless needles of (I) and (II) from which specimens were cleaved for the X-ray analyses.

Refinement details

Crystal data, data collection and structure refinement details are given in Table 3 ▸. Hydrogen atoms were placed in calculated positions [C—Haromatic = 0.95 Å or C—Hmethyl­ene = 0.99 Å] and were allowed to ride in the refinements, with U iso(H) = 1.2U eq(C). The aminium H atoms were located in difference-Fourier analyses and were allowed to refine with bond length restraints [d(N—H = 0.88 (2) Å], and with U iso(H) = 1.2U eq(N). Although possibly not of relevance in these crystals involving achiral mol­ecules, the Flack absolute structure factors (Flack, 1983 ▸) were determined as 0.01 (7) for (II) (2232 Friedel pairs) and 0.45 (15) for (I) (1619 Friedel pairs), in the case of (I) suggesting possible racemic twinning. No indication of conventional twinning was found with the crystals of either isomer.
Table 3

Experimental details

 (I)(II)
Crystal data
Chemical formulaC10H13N2 +·C8H5Cl2O3 C10H13N2 +·C8H5Cl2O3
M r 381.25381.24
Crystal system, space groupMonoclinic, P21 Monoclinic, P21
Temperature (K)200200
a, b, c (Å)8.9818 (11), 6.8899 (7), 14.6850 (15)9.5154 (8), 6.1951 (5), 15.3646 (9)
β (°)93.565 (9)102.579 (7)
V3)907.00 (17)883.99 (12)
Z 22
Radiation typeMo KαMo Kα
μ (mm−1)0.380.39
Crystal size (mm)0.50 × 0.15 × 0.050.50 × 0.12 × 0.06
 
Data collection
DiffractometerOxford Diffraction Gemini-S CCD-detectorOxford Diffraction Gemini-S CCD-detector
Absorption correctionMulti-scan (CrysAlis PRO; Agilent, 2013)Multi-scan (CrysAlis PRO; Agilent, 2013)
T min, T max 0.940, 0.9900.872, 0.980
No. of measured, independent and observed [I > 2σ(I)] reflections3991, 2896, 22993845, 2800, 2451
R int 0.0350.027
(sin θ/λ)max−1)0.6170.617
 
Refinement
R[F 2 > 2σ(F 2)], wR(F 2), S 0.068, 0.187, 1.060.042, 0.105, 1.08
No. of reflections28962800
No. of parameters226238
No. of restraints15
H-atom treatmentH atoms treated by a mixture of independent and constrained refinementH atoms treated by a mixture of independent and constrained refinement
Δρmax, Δρmin (e Å−3)0.37, −0.260.22, −0.24
Absolute structureFlack (1983)Flack (1983)
Absolute structure parameter0.45 (15)0.01 (7)

Computer programs: CrysAlis PRO (Agilent, 2013 ▸), SIR92 (Altomare et al., 1993 ▸), SHELX97 (Sheldrick, 2008 ▸) within WinGX (Farrugia, 2012 ▸) and PLATON (Spek, 2009 ▸).

Crystal structure: contains datablock(s) global, I, II. DOI: 10.1107/S205698901500907X/sj5460sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S205698901500907X/sj5460Isup2.hkl Structure factors: contains datablock(s) II. DOI: 10.1107/S205698901500907X/sj5460IIsup3.hkl Click here for additional data file. Supporting information file. DOI: 10.1107/S205698901500907X/sj5460Isup4.cml Click here for additional data file. Supporting information file. DOI: 10.1107/S205698901500907X/sj5460IIsup5.cml CCDC references: 1400285, 1400284 Additional supporting information: crystallographic information; 3D view; checkCIF report
C10H13N2+·C8H5Cl2O3F(000) = 396
Mr = 381.25Dx = 1.396 Mg m3
Monoclinic, P21Mo Kα radiation, λ = 0.71073 Å
Hall symbol: P 2ybCell parameters from 940 reflections
a = 8.9818 (11) Åθ = 3.8–24.0°
b = 6.8899 (7) ŵ = 0.38 mm1
c = 14.6850 (15) ÅT = 200 K
β = 93.565 (9)°Needle, colourless
V = 907.00 (17) Å30.50 × 0.15 × 0.05 mm
Z = 2
Oxford Diffraction Gemini-S CCD-detector diffractometer2896 independent reflections
Radiation source: Enhance (Mo) X-ray source2299 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.035
Detector resolution: 16.077 pixels mm-1θmax = 26.0°, θmin = 3.3°
ω scansh = −10→11
Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2013)k = −7→8
Tmin = 0.940, Tmax = 0.990l = −17→18
3991 measured reflections
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.068H atoms treated by a mixture of independent and constrained refinement
wR(F2) = 0.187w = 1/[σ2(Fo2) + (0.0918P)2 + 0.3461P] where P = (Fo2 + 2Fc2)/3
S = 1.06(Δ/σ)max < 0.001
2896 reflectionsΔρmax = 0.37 e Å3
226 parametersΔρmin = −0.26 e Å3
1 restraintAbsolute structure: Flack (1983)
Primary atom site location: structure-invariant direct methodsAbsolute structure parameter: 0.45 (15)
Geometry. Bond distances, angles etc. have been calculated using the rounded fractional coordinates. All su's are estimated from the variances of the (full) variance-covariance matrix. The cell esds are taken into account in the estimation of distances, angles and torsion angles
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
Cl2B0.28249 (19)0.2639 (3)0.84021 (11)0.0625 (6)
Cl4B0.8117 (2)0.2352 (4)1.03185 (12)0.0817 (8)
O11B0.3858 (5)0.6285 (7)0.7750 (3)0.0565 (16)
O13B0.5619 (4)0.6213 (5)0.6335 (3)0.0378 (12)
O14B0.5207 (4)0.9327 (5)0.6033 (3)0.0346 (11)
C1B0.4889 (7)0.5483 (10)0.8340 (4)0.0444 (19)
C2B0.4569 (7)0.3677 (10)0.8717 (4)0.047 (2)
C3B0.5495 (7)0.2673 (11)0.9322 (3)0.049 (2)
C4B0.6859 (8)0.3564 (12)0.9564 (4)0.057 (3)
C5B0.7253 (7)0.5320 (11)0.9216 (4)0.051 (2)
C6B0.6281 (8)0.6256 (11)0.8585 (4)0.055 (2)
C12B0.4160 (7)0.8064 (9)0.7333 (4)0.045 (2)
C13B0.5129 (5)0.7839 (8)0.6498 (3)0.0290 (17)
N1A0.7673 (5)1.3071 (7)0.6100 (3)0.0397 (16)
N32A0.6027 (5)0.7972 (7)0.4326 (3)0.0317 (14)
C2A0.7670 (5)1.2445 (7)0.5215 (3)0.0262 (14)
C3A0.8329 (5)1.0707 (7)0.5166 (3)0.0274 (16)
C4A0.9521 (6)0.8575 (9)0.6506 (4)0.0410 (17)
C5A0.9790 (7)0.8583 (11)0.7434 (4)0.052 (2)
C6A0.9345 (8)1.0100 (12)0.7973 (5)0.060 (3)
C7A0.8638 (7)1.1725 (11)0.7595 (4)0.055 (2)
C8A0.8359 (6)1.1754 (9)0.6647 (4)0.0388 (19)
C9A0.8793 (5)1.0155 (8)0.6100 (4)0.0296 (16)
C31A0.8527 (6)0.9501 (7)0.4333 (3)0.0304 (17)
C32A0.7656 (5)0.7611 (8)0.4290 (3)0.0296 (16)
H3B0.522900.145000.956200.0580*
H5B0.818400.589500.940300.0620*
H6B0.657600.744200.831900.0660*
H12B0.468400.892500.778800.0550*
H13B0.320400.869400.713200.0550*
H1A0.743 (7)1.423 (5)0.627 (4)0.0480*
H2A0.725501.314900.470400.0310*
H4A0.982600.751300.615000.0490*
H5A1.029800.751300.771800.0620*
H6A0.952801.002500.861600.0720*
H7A0.835401.277700.796500.0660*
H30B0.960100.919700.430500.0360*
H31B0.822301.028300.378800.0360*
H32B0.784600.691900.371800.0360*
H33B0.800100.677200.480900.0360*
H34A0.559 (6)0.684 (5)0.419 (3)0.0380*
H35A0.581 (6)0.883 (6)0.388 (3)0.0380*
H36A0.581 (6)0.828 (8)0.4889 (19)0.0380*
U11U22U33U12U13U23
Cl2B0.0639 (11)0.0664 (11)0.0572 (10)−0.0152 (10)0.0030 (7)−0.0014 (9)
Cl4B0.0779 (13)0.1142 (19)0.0512 (10)0.0072 (13)−0.0110 (8)0.0160 (11)
O11B0.055 (3)0.064 (3)0.051 (2)0.004 (2)0.007 (2)0.017 (2)
O13B0.044 (2)0.024 (2)0.045 (2)0.0037 (17)−0.0007 (17)0.0043 (16)
O14B0.0250 (19)0.029 (2)0.050 (2)−0.0007 (16)0.0030 (15)0.0017 (17)
C1B0.047 (3)0.055 (4)0.032 (3)0.005 (3)0.009 (2)−0.002 (3)
C2B0.063 (4)0.050 (4)0.029 (3)0.004 (3)0.009 (3)−0.005 (3)
C3B0.069 (4)0.049 (4)0.029 (3)−0.005 (3)0.011 (2)0.004 (3)
C4B0.069 (5)0.074 (5)0.028 (3)0.007 (4)0.012 (3)0.005 (3)
C5B0.036 (3)0.064 (5)0.054 (4)−0.010 (3)0.004 (3)−0.008 (4)
C6B0.059 (4)0.059 (4)0.047 (4)0.000 (4)0.008 (3)0.004 (3)
C12B0.048 (4)0.042 (4)0.047 (3)0.016 (3)0.010 (3)0.015 (3)
C13B0.028 (3)0.025 (3)0.033 (3)0.006 (2)−0.0060 (18)−0.002 (2)
N1A0.031 (2)0.028 (3)0.060 (3)0.004 (2)0.003 (2)−0.009 (2)
N32A0.024 (2)0.035 (3)0.036 (2)−0.003 (2)0.0010 (17)0.000 (2)
C2A0.019 (2)0.016 (2)0.043 (3)−0.004 (2)−0.0016 (18)0.001 (2)
C3A0.018 (2)0.023 (3)0.041 (3)0.000 (2)0.0008 (19)−0.004 (2)
C4A0.030 (3)0.043 (3)0.050 (3)0.013 (3)0.003 (2)0.003 (3)
C5A0.042 (3)0.062 (4)0.050 (4)0.013 (3)−0.008 (3)0.000 (3)
C6A0.068 (5)0.072 (5)0.041 (4)−0.016 (4)0.003 (3)−0.002 (4)
C7A0.045 (4)0.075 (5)0.045 (3)0.003 (4)0.009 (3)−0.012 (3)
C8A0.027 (3)0.044 (4)0.046 (3)−0.002 (3)0.008 (2)−0.005 (3)
C9A0.020 (2)0.027 (3)0.042 (3)−0.005 (2)0.0047 (19)−0.003 (2)
C31A0.026 (3)0.030 (3)0.035 (3)−0.002 (2)0.001 (2)−0.004 (2)
C32A0.025 (2)0.023 (3)0.041 (3)−0.001 (2)0.0029 (19)−0.001 (2)
Cl2B—C2B1.758 (7)C6B—H6B0.9500
Cl4B—C4B1.745 (7)C12B—H13B0.9900
O11B—C1B1.347 (8)C12B—H12B0.9900
O11B—C12B1.404 (8)C2A—C3A1.340 (7)
O13B—C13B1.233 (6)C3A—C9A1.459 (7)
O14B—C13B1.236 (6)C3A—C31A1.499 (6)
N1A—C8A1.337 (8)C4A—C5A1.369 (8)
N1A—C2A1.369 (6)C4A—C9A1.386 (8)
N32A—C32A1.488 (6)C5A—C6A1.385 (10)
N1A—H1A0.87 (4)C6A—C7A1.386 (11)
N32A—H34A0.89 (4)C7A—C8A1.399 (8)
N32A—H36A0.89 (3)C8A—C9A1.432 (8)
N32A—H35A0.90 (4)C31A—C32A1.518 (7)
C1B—C2B1.399 (9)C2A—H2A0.9500
C1B—C6B1.386 (10)C4A—H4A0.9500
C2B—C3B1.367 (9)C5A—H5A0.9500
C3B—C4B1.396 (10)C6A—H6A0.9500
C4B—C5B1.369 (11)C7A—H7A0.9500
C5B—C6B1.391 (9)C31A—H30B0.9900
C12B—C13B1.555 (7)C31A—H31B0.9900
C3B—H3B0.9500C32A—H32B0.9900
C5B—H5B0.9500C32A—H33B0.9900
C1B—O11B—C12B119.7 (5)N1A—C2A—C3A111.0 (4)
C2A—N1A—C8A109.3 (5)C2A—C3A—C9A106.5 (4)
C8A—N1A—H1A125 (4)C2A—C3A—C31A127.9 (4)
C2A—N1A—H1A125 (4)C9A—C3A—C31A125.6 (4)
C32A—N32A—H35A105 (3)C5A—C4A—C9A118.3 (6)
H34A—N32A—H36A107 (5)C4A—C5A—C6A122.2 (7)
C32A—N32A—H36A110 (3)C5A—C6A—C7A121.5 (6)
H34A—N32A—H35A110 (4)C6A—C7A—C8A117.3 (6)
C32A—N32A—H34A105 (3)N1A—C8A—C9A108.5 (5)
H35A—N32A—H36A118 (4)C7A—C8A—C9A120.6 (6)
O11B—C1B—C2B118.0 (6)N1A—C8A—C7A130.9 (6)
C2B—C1B—C6B116.3 (6)C3A—C9A—C4A135.2 (5)
O11B—C1B—C6B125.6 (6)C3A—C9A—C8A104.8 (5)
Cl2B—C2B—C1B117.4 (5)C4A—C9A—C8A120.1 (5)
C1B—C2B—C3B125.2 (6)C3A—C31A—C32A115.0 (4)
Cl2B—C2B—C3B117.5 (5)N32A—C32A—C31A111.1 (4)
C2B—C3B—C4B115.6 (6)N1A—C2A—H2A125.00
Cl4B—C4B—C5B119.2 (5)C3A—C2A—H2A125.00
Cl4B—C4B—C3B118.3 (6)C5A—C4A—H4A121.00
C3B—C4B—C5B122.5 (6)C9A—C4A—H4A121.00
C4B—C5B—C6B119.5 (6)C4A—C5A—H5A119.00
C1B—C6B—C5B120.9 (7)C6A—C5A—H5A119.00
O11B—C12B—C13B112.9 (5)C5A—C6A—H6A119.00
O13B—C13B—O14B127.8 (5)C7A—C6A—H6A119.00
O13B—C13B—C12B117.9 (5)C6A—C7A—H7A121.00
O14B—C13B—C12B114.0 (5)C8A—C7A—H7A121.00
C2B—C3B—H3B122.00C3A—C31A—H30B108.00
C4B—C3B—H3B122.00C3A—C31A—H31B109.00
C6B—C5B—H5B120.00C32A—C31A—H30B109.00
C4B—C5B—H5B120.00C32A—C31A—H31B109.00
C1B—C6B—H6B120.00H30B—C31A—H31B108.00
C5B—C6B—H6B120.00N32A—C32A—H32B109.00
O11B—C12B—H13B109.00N32A—C32A—H33B109.00
C13B—C12B—H13B109.00C31A—C32A—H32B109.00
H12B—C12B—H13B108.00C31A—C32A—H33B109.00
C13B—C12B—H12B109.00H32B—C32A—H33B108.00
O11B—C12B—H12B109.00
C12B—O11B—C1B—C2B−177.8 (5)N1A—C2A—C3A—C9A0.3 (5)
C12B—O11B—C1B—C6B−0.5 (9)N1A—C2A—C3A—C31A178.5 (5)
C1B—O11B—C12B—C13B81.2 (6)C2A—C3A—C9A—C4A−179.6 (6)
C8A—N1A—C2A—C3A0.9 (6)C2A—C3A—C9A—C8A−1.3 (5)
C2A—N1A—C8A—C7A−179.8 (6)C31A—C3A—C9A—C4A2.1 (9)
C2A—N1A—C8A—C9A−1.7 (6)C31A—C3A—C9A—C8A−179.6 (5)
C6B—C1B—C2B—C3B2.3 (10)C2A—C3A—C31A—C32A−113.1 (5)
O11B—C1B—C6B—C5B178.8 (6)C9A—C3A—C31A—C32A64.8 (6)
C2B—C1B—C6B—C5B−3.8 (9)C9A—C4A—C5A—C6A0.7 (9)
O11B—C1B—C2B—C3B179.9 (6)C5A—C4A—C9A—C3A179.0 (6)
C6B—C1B—C2B—Cl2B−178.9 (5)C5A—C4A—C9A—C8A0.8 (8)
O11B—C1B—C2B—Cl2B−1.3 (8)C4A—C5A—C6A—C7A−1.9 (11)
Cl2B—C2B—C3B—C4B−179.1 (5)C5A—C6A—C7A—C8A1.5 (10)
C1B—C2B—C3B—C4B−0.2 (9)C6A—C7A—C8A—N1A178.0 (6)
C2B—C3B—C4B—Cl4B−178.9 (5)C6A—C7A—C8A—C9A0.1 (9)
C2B—C3B—C4B—C5B−0.4 (9)N1A—C8A—C9A—C3A1.8 (6)
C3B—C4B—C5B—C6B−1.1 (10)N1A—C8A—C9A—C4A−179.5 (5)
Cl4B—C4B—C5B—C6B177.3 (5)C7A—C8A—C9A—C3A−179.9 (5)
C4B—C5B—C6B—C1B3.4 (10)C7A—C8A—C9A—C4A−1.2 (8)
O11B—C12B—C13B—O13B−5.6 (7)C3A—C31A—C32A—N32A58.6 (5)
O11B—C12B—C13B—O14B168.9 (5)
D—H···AD—HH···AD···AD—H···A
N1A—H1A···O13Bi0.87 (4)2.13 (5)2.879 (6)144 (6)
N32A—H34A···O14Bii0.89 (4)1.89 (4)2.782 (6)175 (2)
N32A—H35A···O13Biii0.90 (4)2.10 (5)2.817 (6)137 (4)
N32A—H36A···O13B0.89 (3)2.57 (4)3.231 (6)132 (4)
N32A—H36A···O14B0.89 (3)1.94 (4)2.816 (6)171 (5)
C2A—H2A···O14Biii0.952.533.336 (6)142
C10H13N2+·C8H5Cl2O3F(000) = 396
Mr = 381.24Dx = 1.432 Mg m3
Monoclinic, P21Mo Kα radiation, λ = 0.71073 Å
Hall symbol: P 2ybCell parameters from 1140 reflections
a = 9.5154 (8) Åθ = 3.9–28.2°
b = 6.1951 (5) ŵ = 0.39 mm1
c = 15.3646 (9) ÅT = 200 K
β = 102.579 (7)°Needle, colourless
V = 883.99 (12) Å30.50 × 0.12 × 0.06 mm
Z = 2
Oxford Diffraction Gemini-S CCD-detector diffractometer2800 independent reflections
Radiation source: fine-focus sealed tube2451 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.027
Detector resolution: 16.077 pixels mm-1θmax = 26.0°, θmin = 3.1°
ω scansh = −11→7
Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2013)k = −7→7
Tmin = 0.872, Tmax = 0.980l = −18→18
3845 measured reflections
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.042H atoms treated by a mixture of independent and constrained refinement
wR(F2) = 0.105w = 1/[σ2(Fo2) + (0.0513P)2] where P = (Fo2 + 2Fc2)/3
S = 1.08(Δ/σ)max = 0.001
2800 reflectionsΔρmax = 0.22 e Å3
238 parametersΔρmin = −0.24 e Å3
5 restraintsAbsolute structure: Flack (1983)
Primary atom site location: structure-invariant direct methodsAbsolute structure parameter: 0.01 (7)
Geometry. Bond distances, angles etc. have been calculated using the rounded fractional coordinates. All su's are estimated from the variances of the (full) variance-covariance matrix. The cell esds are taken into account in the estimation of distances, angles and torsion angles
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
Cl3B0.88773 (13)1.0762 (2)0.94414 (6)0.0556 (4)
Cl5B0.61601 (10)0.46571 (17)1.09183 (5)0.0421 (3)
O11B0.6022 (3)0.4935 (4)0.75745 (13)0.0337 (8)
O13B0.5666 (3)0.2827 (4)0.60040 (14)0.0269 (7)
O14B0.4608 (3)0.0059 (4)0.65216 (15)0.0353 (8)
C1B0.6435 (3)0.5773 (6)0.84115 (19)0.0266 (10)
C2B0.7290 (4)0.7600 (6)0.8496 (2)0.0304 (10)
C3B0.7776 (4)0.8496 (6)0.9324 (2)0.0301 (11)
C4B0.7436 (4)0.7632 (6)1.0088 (2)0.0306 (10)
C5B0.6601 (4)0.5807 (7)0.99749 (19)0.0298 (10)
C6B0.6062 (3)0.4868 (6)0.91596 (19)0.0279 (10)
C12B0.5268 (4)0.2927 (6)0.7495 (2)0.0297 (11)
C13B0.5178 (3)0.1909 (5)0.6593 (2)0.0243 (10)
N1A0.2443 (3)0.6837 (5)0.6332 (2)0.0339 (10)
N32A0.3860 (3)0.2111 (5)0.42680 (18)0.0238 (8)
C2A0.2536 (3)0.5745 (7)0.5567 (2)0.0314 (11)
C3A0.1828 (3)0.3819 (6)0.5518 (2)0.0238 (10)
C4A0.0375 (4)0.2219 (7)0.6612 (2)0.0366 (11)
C5A−0.0092 (4)0.2656 (7)0.7385 (2)0.0435 (14)
C6A0.0307 (4)0.4575 (8)0.7856 (2)0.0420 (13)
C7A0.1174 (4)0.6077 (7)0.7582 (2)0.0366 (11)
C8A0.1640 (3)0.5635 (6)0.6792 (2)0.0293 (10)
C9A0.1237 (3)0.3729 (6)0.6306 (2)0.0258 (10)
C31A0.1548 (4)0.2190 (6)0.4786 (2)0.0307 (11)
C32A0.2298 (3)0.2630 (6)0.4028 (2)0.0290 (10)
H2B0.753800.822800.798500.0360*
H4B0.776600.827201.065800.0370*
H6B0.545300.363800.910800.0340*
H12B0.428300.316800.758900.0350*
H13B0.576700.192700.796500.0350*
H1A0.291 (4)0.803 (5)0.649 (3)0.0530*
H2A0.302600.626100.513200.0380*
H4A0.011300.091100.629600.0440*
H5A−0.068900.164600.759800.0530*
H6A−0.003500.484200.838300.0500*
H7A0.144900.736400.791200.0440*
H30A0.049700.211900.454000.0370*
H31A0.185800.075600.504300.0370*
H32A0.183500.175900.350300.0350*
H33A0.217600.417200.385900.0350*
H34A0.420 (4)0.237 (7)0.4830 (14)0.0530*
H35A0.407 (4)0.080 (4)0.409 (3)0.0530*
H36A0.438 (4)0.292 (7)0.398 (3)0.0530*
U11U22U33U12U13U23
Cl3B0.0674 (7)0.0572 (7)0.0408 (5)−0.0354 (6)0.0090 (5)−0.0097 (5)
Cl5B0.0558 (6)0.0482 (6)0.0235 (4)−0.0057 (5)0.0112 (4)0.0014 (4)
O11B0.0576 (15)0.0254 (14)0.0187 (10)−0.0111 (13)0.0099 (10)−0.0035 (10)
O13B0.0352 (13)0.0241 (13)0.0215 (11)−0.0037 (11)0.0061 (10)−0.0029 (10)
O14B0.0435 (14)0.0235 (15)0.0423 (13)−0.0097 (12)0.0168 (11)−0.0078 (11)
C1B0.0358 (18)0.0236 (18)0.0205 (15)−0.0006 (16)0.0066 (14)−0.0050 (15)
C2B0.0355 (18)0.032 (2)0.0243 (16)−0.0005 (17)0.0081 (15)0.0001 (16)
C3B0.0319 (19)0.027 (2)0.0300 (17)−0.0034 (16)0.0038 (16)−0.0043 (16)
C4B0.0289 (17)0.037 (2)0.0240 (16)−0.0029 (16)0.0015 (14)−0.0103 (16)
C5B0.0341 (18)0.034 (2)0.0215 (15)0.0066 (18)0.0066 (13)0.0039 (16)
C6B0.0336 (17)0.0249 (19)0.0251 (15)−0.0020 (16)0.0059 (14)0.0008 (15)
C12B0.042 (2)0.024 (2)0.0236 (16)−0.0046 (17)0.0085 (15)−0.0044 (15)
C13B0.0266 (17)0.0200 (19)0.0257 (15)−0.0023 (16)0.0041 (14)0.0012 (15)
N1A0.0349 (17)0.0248 (17)0.0427 (16)−0.0066 (14)0.0099 (14)−0.0069 (15)
N32A0.0264 (14)0.0230 (17)0.0216 (12)0.0016 (13)0.0044 (12)0.0005 (13)
C2A0.0261 (17)0.033 (2)0.0366 (18)−0.0040 (17)0.0103 (14)−0.0023 (17)
C3A0.0202 (16)0.0249 (19)0.0268 (16)−0.0021 (14)0.0064 (14)0.0008 (15)
C4A0.041 (2)0.034 (2)0.0362 (18)−0.0090 (19)0.0115 (17)0.0043 (17)
C5A0.044 (2)0.052 (3)0.038 (2)−0.008 (2)0.0163 (19)0.007 (2)
C6A0.040 (2)0.061 (3)0.0260 (16)0.009 (2)0.0092 (16)0.004 (2)
C7A0.0336 (19)0.044 (2)0.0280 (17)0.0066 (18)−0.0026 (15)−0.0081 (18)
C8A0.0212 (16)0.035 (2)0.0297 (17)0.0061 (16)0.0010 (14)0.0006 (17)
C9A0.0213 (16)0.028 (2)0.0262 (16)0.0012 (15)0.0012 (14)0.0018 (15)
C31A0.0281 (17)0.029 (2)0.0348 (18)−0.0045 (16)0.0062 (15)−0.0042 (16)
C32A0.0267 (17)0.032 (2)0.0269 (17)0.0044 (16)0.0027 (15)−0.0013 (16)
Cl3B—C3B1.738 (4)C6B—H6B0.9500
Cl5B—C5B1.746 (3)C12B—H13B0.9900
O11B—C1B1.363 (4)C12B—H12B0.9900
O11B—C12B1.428 (5)C2A—C3A1.364 (5)
O13B—C13B1.241 (4)C3A—C9A1.443 (4)
O14B—C13B1.263 (4)C3A—C31A1.491 (5)
N1A—C8A1.369 (4)C4A—C5A1.383 (5)
N1A—C2A1.376 (5)C4A—C9A1.392 (5)
N32A—C32A1.487 (4)C5A—C6A1.401 (6)
N1A—H1A0.87 (4)C6A—C7A1.369 (6)
N32A—H34A0.87 (2)C7A—C8A1.407 (4)
N32A—H36A0.89 (4)C8A—C9A1.405 (5)
N32A—H35A0.89 (3)C31A—C32A1.517 (5)
C1B—C2B1.383 (5)C2A—H2A0.9500
C1B—C6B1.393 (4)C4A—H4A0.9500
C2B—C3B1.373 (4)C5A—H5A0.9500
C3B—C4B1.391 (5)C6A—H6A0.9500
C4B—C5B1.371 (6)C7A—H7A0.9500
C5B—C6B1.375 (4)C31A—H30A0.9900
C12B—C13B1.508 (4)C31A—H31A0.9900
C2B—H2B0.9500C32A—H32A0.9900
C4B—H4B0.9500C32A—H33A0.9900
C1B—O11B—C12B116.7 (2)N1A—C2A—C3A110.8 (3)
C2A—N1A—C8A108.7 (3)C2A—C3A—C9A105.4 (3)
C8A—N1A—H1A129 (3)C2A—C3A—C31A129.7 (3)
C2A—N1A—H1A122 (3)C9A—C3A—C31A124.6 (3)
C32A—N32A—H35A114 (3)C5A—C4A—C9A118.8 (4)
H34A—N32A—H36A105 (4)C4A—C5A—C6A120.6 (4)
C32A—N32A—H36A113 (3)C5A—C6A—C7A122.1 (3)
H34A—N32A—H35A114 (4)C6A—C7A—C8A117.2 (4)
C32A—N32A—H34A110 (3)N1A—C8A—C9A107.5 (3)
H35A—N32A—H36A100 (4)C7A—C8A—C9A121.4 (3)
O11B—C1B—C2B116.3 (3)N1A—C8A—C7A131.0 (3)
C2B—C1B—C6B120.2 (3)C3A—C9A—C4A132.5 (3)
O11B—C1B—C6B123.5 (3)C3A—C9A—C8A107.6 (3)
C1B—C2B—C3B119.4 (3)C4A—C9A—C8A119.9 (3)
C2B—C3B—C4B122.2 (3)C3A—C31A—C32A114.9 (3)
Cl3B—C3B—C4B118.0 (3)N32A—C32A—C31A112.5 (3)
Cl3B—C3B—C2B119.8 (3)N1A—C2A—H2A125.00
C3B—C4B—C5B116.4 (3)C3A—C2A—H2A125.00
Cl5B—C5B—C4B117.9 (2)C5A—C4A—H4A121.00
Cl5B—C5B—C6B118.3 (3)C9A—C4A—H4A121.00
C4B—C5B—C6B123.7 (3)C4A—C5A—H5A120.00
C1B—C6B—C5B118.0 (3)C6A—C5A—H5A120.00
O11B—C12B—C13B111.7 (3)C5A—C6A—H6A119.00
O13B—C13B—O14B125.1 (3)C7A—C6A—H6A119.00
O13B—C13B—C12B121.5 (3)C6A—C7A—H7A121.00
O14B—C13B—C12B113.4 (3)C8A—C7A—H7A121.00
C1B—C2B—H2B120.00C3A—C31A—H30A109.00
C3B—C2B—H2B120.00C3A—C31A—H31A109.00
C5B—C4B—H4B122.00C32A—C31A—H30A109.00
C3B—C4B—H4B122.00C32A—C31A—H31A109.00
C1B—C6B—H6B121.00H30A—C31A—H31A107.00
C5B—C6B—H6B121.00N32A—C32A—H32A109.00
O11B—C12B—H13B109.00N32A—C32A—H33A109.00
C13B—C12B—H13B109.00C31A—C32A—H32A109.00
H12B—C12B—H13B108.00C31A—C32A—H33A109.00
C13B—C12B—H12B109.00H32A—C32A—H33A108.00
O11B—C12B—H12B109.00
C12B—O11B—C1B—C2B173.6 (3)N1A—C2A—C3A—C9A0.8 (4)
C12B—O11B—C1B—C6B−5.2 (5)N1A—C2A—C3A—C31A174.8 (3)
C1B—O11B—C12B—C13B−166.5 (3)C2A—C3A—C9A—C4A177.5 (4)
C2A—N1A—C8A—C7A−176.4 (3)C2A—C3A—C9A—C8A−0.3 (4)
C2A—N1A—C8A—C9A0.8 (4)C31A—C3A—C9A—C4A3.1 (6)
C8A—N1A—C2A—C3A−1.0 (4)C31A—C3A—C9A—C8A−174.8 (3)
O11B—C1B—C6B—C5B177.0 (3)C2A—C3A—C31A—C32A7.3 (5)
C2B—C1B—C6B—C5B−1.8 (5)C9A—C3A—C31A—C32A−179.7 (3)
O11B—C1B—C2B—C3B−178.3 (3)C9A—C4A—C5A—C6A−0.6 (6)
C6B—C1B—C2B—C3B0.6 (5)C5A—C4A—C9A—C3A−176.3 (3)
C1B—C2B—C3B—Cl3B178.8 (3)C5A—C4A—C9A—C8A1.3 (5)
C1B—C2B—C3B—C4B−0.1 (6)C4A—C5A—C6A—C7A−0.5 (6)
Cl3B—C3B—C4B—C5B−178.1 (3)C5A—C6A—C7A—C8A0.9 (6)
C2B—C3B—C4B—C5B0.9 (6)C6A—C7A—C8A—N1A176.6 (4)
C3B—C4B—C5B—C6B−2.3 (6)C6A—C7A—C8A—C9A−0.2 (5)
C3B—C4B—C5B—Cl5B179.5 (3)N1A—C8A—C9A—C3A−0.3 (4)
Cl5B—C5B—C6B—C1B−179.1 (3)N1A—C8A—C9A—C4A−178.4 (3)
C4B—C5B—C6B—C1B2.7 (6)C7A—C8A—C9A—C3A177.2 (3)
O11B—C12B—C13B—O13B−2.9 (5)C7A—C8A—C9A—C4A−0.9 (5)
O11B—C12B—C13B—O14B175.3 (3)C3A—C31A—C32A—N32A75.7 (4)
D—H···AD—HH···AD···AD—H···A
N1A—H1A···O14Bi0.87 (4)2.04 (4)2.838 (4)152 (4)
N32A—H34A···O13B0.87 (2)2.05 (3)2.875 (4)160 (4)
N32A—H35A···O11Bii0.89 (3)2.60 (4)3.160 (4)122 (3)
N32A—H35A···O13Bii0.89 (3)1.87 (3)2.739 (4)164 (4)
N32A—H36A···O14Biii0.89 (4)1.90 (4)2.775 (4)170 (4)
C2A—H2A···O13Biii0.952.553.495 (4)177
  7 in total

1.  The use of restraints in Rietveld refinement of molecular compounds; a case study using the crystal structure determination of tryptamine free base.

Authors:  Harriott Nowell; J Paul Attfield; Jason C Cole
Journal:  Acta Crystallogr B       Date:  2002-09-24

2.  Investigation of intermolecular interaction in molecular complex of tryptamine and benzoic acid by solid-state 2D NMR.

Authors:  Akira Terakita; Hirokazu Matsunaga; Takahiro Ueda; Taro Eguchi; Midori Echigoya; Kazuichi Umemoto; Masayuki Godo
Journal:  Chem Pharm Bull (Tokyo)       Date:  2004-05       Impact factor: 1.645

3.  Optical activity induced by helical arrangements of tryptamine and 4-chlorobenzoic acid in their cocrystal.

Authors:  Hideko Koshima; Masaki Nagano; Toru Asahi
Journal:  J Am Chem Soc       Date:  2005-03-02       Impact factor: 15.419

4.  A short history of SHELX.

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

5.  Ammonium 2-(2,4-dichloro-phen-oxy)acetate hemihydrate.

Authors:  Hui-Lian Liu; Shu-Hua Guo; Yun-Ying Li; Fang-Fang Jian
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-07-18

6.  Tryptamine: a neuromodulator or neurotransmitter in mammalian brain?

Authors:  R S Jones
Journal:  Prog Neurobiol       Date:  1982       Impact factor: 11.685

7.  Structure validation in chemical crystallography.

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

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