Literature DB >> 21754551

1,3-Dihy-droxy-2-(hy-droxy-meth-yl)propan-2-aminium formate.

Guo-Bin Ren1, Ming-Hui Qi, Jin-Yao Chen, Kun-Yan Meng, Jia-Liang Zhong.   

Abstract

The title compound, C(4)H(12)NO(3) (+)·CHO(2) (-), was obtained from 1,3-dihy-droxy-2-(hy-droxy-meth-yl)propan-2-aminium acetate and ethyl formate. In the crystal, the cations and anions are held together by inter-molecular N-H⋯O and O-H⋯O hydrogen bonds.

Entities:  

Year:  2011        PMID: 21754551      PMCID: PMC3089189          DOI: 10.1107/S1600536811015534

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


Related literature

For background to the use of tris­(hy­droxy­meth­yl)amino­methane in biochemistry and mol­ecular biology, see: Gomori (1955 ▶). For related structrues, see: Stepniak et al. (2003 ▶); Yu & Qian (2009 ▶).

Experimental

Crystal data

C4H12NO3CHO2 M = 167.16 Orthorhombic, a = 6.4980 (1) Å b = 11.8740 (1) Å c = 20.5897 (2) Å V = 1588.64 (3) Å3 Z = 8 Cu Kα radiation μ = 1.08 mm−1 T = 296 K 0.23 × 0.18 × 0.10 mm

Data collection

Bruker APEXII diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2005 ▶) T min = 0.789, T max = 0.899 4402 measured reflections 1368 independent reflections 1304 reflections with I > 2σ(I) R int = 0.016

Refinement

R[F 2 > 2σ(F 2)] = 0.034 wR(F 2) = 0.095 S = 1.09 1368 reflections 117 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.28 e Å−3 Δρmin = −0.20 e Å−3 Data collection: APEX2 (Bruker, 2005 ▶); cell refinement: SAINT (Bruker, 2005 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: SHELXTL (Sheldrick, 2008 ▶); software used to prepare material for publication: SHELXL97. Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536811015534/cv5073sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536811015534/cv5073Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811015534/cv5073Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C4H12NO3+·CHO2F(000) = 720
Mr = 167.16Dx = 1.398 Mg m3
Orthorhombic, PbcaCu Kα radiation, λ = 1.54178 Å
Hall symbol: -P 2ac 2abCell parameters from 3109 reflections
a = 6.4980 (1) Åθ = 7.5–66.8°
b = 11.8740 (1) ŵ = 1.08 mm1
c = 20.5897 (2) ÅT = 296 K
V = 1588.64 (3) Å3Block, colourless
Z = 80.23 × 0.18 × 0.10 mm
Bruker APEXII diffractometer1368 independent reflections
Radiation source: fine-focus sealed tube1304 reflections with I > 2σ(I)
graphiteRint = 0.016
Detector resolution: 0 pixels mm-1θmax = 67.3°, θmin = 7.5°
φ and ω scansh = −7→7
Absorption correction: multi-scan (SADABS; Bruker, 2005)k = −13→13
Tmin = 0.789, Tmax = 0.899l = −22→24
4402 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)] = 0.034H atoms treated by a mixture of independent and constrained refinement
wR(F2) = 0.095w = 1/[σ2(Fo2) + (0.055P)2 + 0.4117P] where P = (Fo2 + 2Fc2)/3
S = 1.09(Δ/σ)max < 0.001
1368 reflectionsΔρmax = 0.28 e Å3
117 parametersΔρmin = −0.20 e Å3
0 restraintsExtinction correction: SHELXL97 (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 0.0049 (6)
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
O10.12876 (16)0.52355 (9)0.22191 (4)0.0392 (3)
H1A0.16660.57650.24450.059*
O20.20496 (15)0.43932 (8)0.02376 (4)0.0340 (3)
H2A0.28080.39260.04070.051*
O30.06605 (15)0.77248 (7)0.07395 (5)0.0349 (3)
H3A−0.03950.79450.09170.052*
N1−0.06449 (16)0.55746 (9)0.10599 (5)0.0254 (3)
C10.16134 (18)0.58258 (10)0.10896 (6)0.0251 (3)
C20.2530 (2)0.51726 (11)0.16588 (6)0.0322 (3)
H2B0.26940.43890.15350.039*
H2C0.38830.54720.17580.039*
C30.2620 (2)0.54863 (11)0.04459 (6)0.0308 (3)
H3B0.22340.60260.01140.037*
H3C0.41030.55160.04950.037*
C40.1855 (2)0.70956 (11)0.11900 (7)0.0318 (3)
H4A0.14350.72880.16280.038*
H4B0.32930.72980.11420.038*
O40.23553 (18)0.69672 (9)0.30298 (5)0.0481 (3)
O50.22296 (18)0.84393 (9)0.36823 (5)0.0454 (3)
C50.1807 (2)0.79327 (12)0.31701 (7)0.0360 (4)
H5A0.098 (3)0.8304 (16)0.2871 (8)0.051 (5)*
H1B−0.120 (3)0.5727 (13)0.0659 (9)0.040 (4)*
H1C−0.142 (2)0.6018 (15)0.1363 (8)0.041 (4)*
H1D−0.098 (3)0.4814 (16)0.1148 (8)0.044 (4)*
U11U22U33U12U13U23
O10.0514 (6)0.0413 (6)0.0248 (5)−0.0045 (5)−0.0007 (4)−0.0006 (4)
O20.0468 (6)0.0275 (5)0.0277 (5)0.0099 (4)−0.0082 (4)−0.0036 (3)
O30.0403 (6)0.0239 (5)0.0406 (6)0.0002 (4)0.0064 (4)0.0060 (4)
N10.0302 (6)0.0215 (5)0.0244 (6)−0.0025 (4)−0.0019 (4)0.0015 (4)
C10.0274 (6)0.0227 (6)0.0253 (6)−0.0020 (5)−0.0008 (5)−0.0011 (5)
C20.0378 (7)0.0317 (7)0.0272 (7)0.0042 (5)−0.0046 (5)−0.0019 (5)
C30.0352 (7)0.0297 (7)0.0276 (7)0.0003 (5)0.0027 (5)−0.0001 (5)
C40.0354 (7)0.0239 (7)0.0360 (7)−0.0044 (5)−0.0009 (5)−0.0019 (5)
O40.0633 (7)0.0367 (6)0.0444 (6)0.0148 (5)−0.0142 (5)−0.0112 (4)
O50.0551 (7)0.0359 (6)0.0451 (6)0.0153 (5)−0.0088 (5)−0.0116 (4)
C50.0388 (8)0.0327 (7)0.0366 (8)0.0069 (6)−0.0024 (6)−0.0001 (6)
O1—C21.4100 (16)C1—C41.5299 (16)
O1—H1A0.8200C1—C31.5317 (17)
O2—C31.4163 (16)C2—H2B0.9700
O2—H2A0.8200C2—H2C0.9700
O3—C41.4217 (16)C3—H3B0.9700
O3—H3A0.8200C3—H3C0.9700
N1—C11.4987 (15)C4—H4A0.9700
N1—H1B0.918 (18)C4—H4B0.9700
N1—H1C0.960 (18)O4—C51.2348 (18)
N1—H1D0.946 (18)O5—C51.2449 (18)
C1—C21.5265 (17)C5—H5A0.928 (19)
C2—O1—H1A109.5O1—C2—H2C109.2
C3—O2—H2A109.5C1—C2—H2C109.2
C4—O3—H3A109.5H2B—C2—H2C107.9
C1—N1—H1B112.4 (11)O2—C3—C1113.05 (10)
C1—N1—H1C112.2 (10)O2—C3—H3B109.0
H1B—N1—H1C105.7 (14)C1—C3—H3B109.0
C1—N1—H1D113.9 (10)O2—C3—H3C109.0
H1B—N1—H1D105.7 (14)C1—C3—H3C109.0
H1C—N1—H1D106.2 (14)H3B—C3—H3C107.8
N1—C1—C2108.19 (10)O3—C4—C1111.94 (10)
N1—C1—C4107.59 (10)O3—C4—H4A109.2
C2—C1—C4110.91 (10)C1—C4—H4A109.2
N1—C1—C3109.28 (10)O3—C4—H4B109.2
C2—C1—C3111.35 (10)C1—C4—H4B109.2
C4—C1—C3109.43 (10)H4A—C4—H4B107.9
O1—C2—C1112.20 (10)O4—C5—O5125.67 (14)
O1—C2—H2B109.2O4—C5—H5A116.9 (12)
C1—C2—H2B109.2O5—C5—H5A117.4 (11)
N1—C1—C2—O1−43.81 (13)C4—C1—C3—O2−165.66 (10)
C4—C1—C2—O173.96 (13)N1—C1—C4—O3−49.91 (13)
C3—C1—C2—O1−163.92 (11)C2—C1—C4—O3−168.05 (10)
N1—C1—C3—O2−48.09 (14)C3—C1—C4—O368.72 (13)
C2—C1—C3—O271.38 (14)
D—H···AD—HH···AD···AD—H···A
O1—H1A···O40.821.922.7378 (14)175
O2—H2A···O3i0.821.872.6845 (12)173
O3—H3A···O5ii0.821.852.6659 (14)180
N1—H1B···O2iii0.918 (18)1.933 (19)2.8233 (14)163.0 (15)
N1—H1C···O4ii0.960 (18)1.861 (18)2.8171 (15)173.4 (15)
N1—H1D···O5iv0.946 (18)1.857 (19)2.7876 (14)167.2 (15)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O1—H1A⋯O40.821.922.7378 (14)175
O2—H2A⋯O3i0.821.872.6845 (12)173
O3—H3A⋯O5ii0.821.852.6659 (14)180
N1—H1B⋯O2iii0.918 (18)1.933 (19)2.8233 (14)163.0 (15)
N1—H1C⋯O4ii0.960 (18)1.861 (18)2.8171 (15)173.4 (15)
N1—H1D⋯O5iv0.946 (18)1.857 (19)2.7876 (14)167.2 (15)

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

  2 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.  1,3-Dihydr-oxy-2-(hydroxy-meth-yl)propan-2-aminium 2,2-dichloro-acetate.

Authors:  Yan-Hong Yu; Kun Qian
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-05-14
  2 in total

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