Literature DB >> 21583183

4-Amino-2,3,5-trimethyl-pyridine monohydrate.

Li-Yan Dai, Fu-Liang Zhang, Liang Shen, Ying-Qi Chen.   

Abstract

In the title compound, C(8)H(12)N(2)·H(2)O, four substituted pyridine mol-ecules alternate with four water mol-ecules, forming a large ring via O(water)-H⋯N(pyridine) and N(amine)-H⋯O(water) hydrogen bonding. Adjacent rings are connected via O(water)-H⋯O(water) hydrogen-bonds, forming a three-dimensional network.

Entities:  

Year:  2009        PMID: 21583183      PMCID: PMC2969585          DOI: 10.1107/S1600536809016833

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


Related literature

For pyridine-amine derivatives, see: Smith et al. (2005 ▶); Tsuzuki et al. (2005 ▶). For their role as chemical inter­mediates in the formation of diverse mol­ecules possessing biological activity, see: Birault et al. (2005 ▶); Gordon et al. (1996 ▶); Player et al. (2007 ▶). For related structures, see: Li et al. (2008 ▶); Lin et al. (2005 ▶); Xie et al. (2008 ▶); Yu et al. (2005 ▶); Zhou et al. (2005 ▶). For the extinction correction, see: Larson (1970 ▶).

Experimental

Crystal data

C8H12N2·H2O M = 154.21 Tetragonal, a = 19.5710 (9) Å c = 4.8819 (2) Å V = 1869.89 (14) Å3 Z = 8 Mo Kα radiation μ = 0.07 mm−1 T = 296 K 0.33 × 0.27 × 0.22 mm

Data collection

Rigaku R-AXIS RAPID diffractometer Absorption correction: multi-scan (ABSCOR; Higashi, 1995 ▶) T min = 0.967, T max = 0.984 17243 measured reflections 1250 independent reflections 951 reflections with F 2 > 2.0σ(F 2) R int = 0.045

Refinement

R[F 2 > 2σ(F 2)] = 0.035 wR(F 2) = 0.088 S = 1.00 1250 reflections 101 parameters H-atom parameters constrained Δρmax = 0.23 e Å−3 Δρmin = −0.20 e Å−3 Data collection: PROCESS-AUTO (Rigaku, 2007 ▶); cell refinement: PROCESS-AUTO; data reduction: CrystalStructure (Rigaku, 2007 ▶); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 for Windows (Farrugia, 1997 ▶); software used to prepare material for publication: WinGX (Farrugia, 1999 ▶). Crystal structure: contains datablocks General, I. DOI: 10.1107/S1600536809016833/fl2246sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809016833/fl2246Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C8H12N2·H2ODx = 1.095 Mg m3
Mr = 154.21Mo Kα radiation, λ = 0.71075 Å
Tetragonal, P421cCell parameters from 10766 reflections
Hall symbol: P -4 2nθ = 3.3–27.4°
a = 19.5710 (9) ŵ = 0.07 mm1
c = 4.8819 (2) ÅT = 296 K
V = 1869.89 (14) Å3Chunk, colorless
Z = 80.33 × 0.27 × 0.22 mm
F(000) = 672.00
Rigaku R-AXIS RAPID diffractometer951 reflections with F2 > 2.0σ(F2)
Detector resolution: 10.00 pixels mm-1Rint = 0.045
ω scansθmax = 27.4°
Absorption correction: multi-scan (ABSCOR; Higashi, 1995)h = −25→25
Tmin = 0.967, Tmax = 0.984k = −25→25
17243 measured reflectionsl = −6→5
1250 independent reflections
Refinement on F2w = 1/[0.0001Fo2 + 1.1100σ(Fo2)]/(4Fo2)
R[F2 > 2σ(F2)] = 0.035(Δ/σ)max < 0.001
wR(F2) = 0.088Δρmax = 0.23 e Å3
S = 1.00Δρmin = −0.20 e Å3
1250 reflectionsExtinction correction: Larson (1970)
101 parametersExtinction coefficient: 460 (64)
H-atom parameters constrained
Geometry. ENTER SPECIAL DETAILS OF THE MOLECULAR GEOMETRY
Refinement. Refinement using all reflections. The weighted R-factor (wR) and goodness of fit (S) are based on F2. R-factor (gt) are based on F. The threshold expression of F2 > 2.0 σ(F2) is used only for calculating R-factor (gt).
xyzUiso*/Ueq
O10.25888 (6)0.28901 (6)0.2514 (3)0.0571 (4)
N10.23938 (11)0.42486 (10)0.3906 (4)0.0581 (6)
N20.19626 (9)0.61921 (9)0.6961 (4)0.0534 (6)
C10.27642 (12)0.47949 (12)0.3109 (5)0.0528 (7)
C20.26474 (11)0.54519 (11)0.4090 (5)0.0472 (6)
C30.21206 (11)0.55487 (11)0.6011 (4)0.0427 (6)
C40.17323 (12)0.49824 (12)0.6859 (4)0.0465 (6)
C50.18992 (12)0.43602 (12)0.5762 (5)0.0556 (8)
C60.33136 (13)0.46412 (12)0.1049 (7)0.0756 (9)
C70.30672 (12)0.60551 (12)0.3136 (6)0.0690 (9)
C80.11654 (12)0.50507 (12)0.8924 (5)0.0603 (7)
H50.16490.39840.63500.067*
H610.37530.46740.19130.091*
H620.32510.41870.03450.091*
H630.32880.4964−0.04280.091*
H710.32900.59430.14420.083*
H720.27740.64420.28650.083*
H730.34050.61630.44950.083*
H810.13530.51841.06600.072*
H820.08470.53910.83150.072*
H830.09350.46200.91130.072*
H1010.25300.33170.29010.069*
H1020.24570.27710.09210.069*
H2010.17550.62290.84890.064*
H2020.22660.65110.67430.064*
U11U22U33U12U13U23
O10.0663 (10)0.0465 (9)0.0584 (10)0.0063 (8)−0.0044 (9)−0.0047 (9)
N10.0701 (14)0.0454 (11)0.0587 (14)0.0003 (10)0.0039 (14)−0.0022 (11)
N20.0624 (13)0.0433 (11)0.0545 (12)−0.0029 (9)0.0092 (11)−0.0006 (10)
C10.0563 (16)0.0549 (16)0.0471 (14)0.0083 (12)0.0024 (13)−0.0024 (13)
C20.0504 (14)0.0454 (14)0.0459 (13)0.0003 (11)0.0032 (14)0.0021 (13)
C30.0472 (13)0.0398 (12)0.0411 (12)0.0003 (10)−0.0022 (12)0.0001 (12)
C40.0507 (14)0.0452 (13)0.0435 (12)−0.0002 (12)−0.0022 (12)0.0036 (13)
C50.0658 (17)0.0454 (15)0.0557 (15)−0.0047 (12)0.0015 (15)0.0042 (14)
C60.086 (2)0.0690 (19)0.0717 (19)0.0162 (16)0.021 (2)−0.0020 (18)
C70.0674 (17)0.0627 (17)0.077 (2)−0.0054 (14)0.0164 (17)0.0013 (16)
C80.0640 (16)0.0609 (15)0.0562 (14)−0.0072 (13)0.0067 (15)0.0060 (16)
N1—C11.349 (3)N2—H2010.852
N1—C51.344 (3)N2—H2020.868
N2—C31.377 (2)C5—H50.930
C1—C21.391 (3)C6—H610.960
C1—C61.503 (3)C6—H620.960
C2—C31.407 (3)C6—H630.960
C2—C71.512 (3)C7—H710.960
C3—C41.406 (3)C7—H720.960
C4—C51.370 (3)C7—H730.960
C4—C81.505 (3)C8—H810.960
O1—H1010.864C8—H820.960
O1—H1020.852C8—H830.960
C1—N1—C5116.9 (2)C4—C5—H5117.3
N1—C1—C2123.0 (2)C1—C6—H61109.5
N1—C1—C6114.8 (2)C1—C6—H62109.5
C2—C1—C6122.2 (2)C1—C6—H63109.5
C1—C2—C3118.3 (2)H61—C6—H62109.5
C1—C2—C7121.8 (2)H61—C6—H63109.5
C3—C2—C7119.9 (2)H62—C6—H63109.5
N2—C3—C2120.82 (19)C2—C7—H71109.5
N2—C3—C4120.0 (2)C2—C7—H72109.5
C2—C3—C4119.1 (2)C2—C7—H73109.5
C3—C4—C5117.2 (2)H71—C7—H72109.5
C3—C4—C8121.7 (2)H71—C7—H73109.5
C5—C4—C8121.1 (2)H72—C7—H73109.5
N1—C5—C4125.4 (2)C4—C8—H81109.5
H101—O1—H102115.0C4—C8—H82109.5
C3—N2—H201118.6C4—C8—H83109.5
C3—N2—H202117.5H81—C8—H82109.5
H201—N2—H202111.9H81—C8—H83109.5
N1—C5—H5117.3H82—C8—H83109.5
C1—N1—C5—C41.5 (3)C7—C2—C3—N22.6 (3)
C5—N1—C1—C2−0.9 (3)C7—C2—C3—C4179.6 (2)
C5—N1—C1—C6179.6 (2)N2—C3—C4—C5177.6 (2)
N1—C1—C2—C30.3 (3)N2—C3—C4—C8−3.5 (3)
N1—C1—C2—C7−179.4 (2)C2—C3—C4—C50.6 (3)
C6—C1—C2—C3179.8 (2)C2—C3—C4—C8179.5 (2)
C6—C1—C2—C70.1 (2)C3—C4—C5—N1−1.3 (3)
C1—C2—C3—N2−177.1 (2)C8—C4—C5—N1179.8 (2)
C1—C2—C3—C4−0.2 (3)
D—H···AD—HH···AD···AD—H···A
O1—H101···N10.861.912.771 (2)178
O1—H102···O1i0.851.932.778 (2)173
N2—H202···O1ii0.872.173.009 (2)161
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O1—H101⋯N10.861.912.771 (2)178
O1—H102⋯O1i0.851.932.778 (2)173
N2—H202⋯O1ii0.872.173.009 (2)161

Symmetry codes: (i) ; (ii) .

  5 in total

1.  2,6-diaminopyridine derivatives as models of molecular sensor for nucleic acid base detection: ab initio calculations of electronic effects induced by hydrogen bonds formation.

Authors:  Seiji Tsuzuki; Yuji Kawanishi; Shuji Abe
Journal:  Biosens Bioelectron       Date:  2005-01-15       Impact factor: 10.618

2.  A short history of SHELX.

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

3.  Development of novel 4-aminopyridine derivatives as potential treatments for neurological injury and disease.

Authors:  Daniel T Smith; Riyi Shi; Richard B Borgens; Jennifer M McBride; Kevin Jackson; Stephen R Byrn
Journal:  Eur J Med Chem       Date:  2005-09       Impact factor: 6.514

4.  3,6-Dichloro-catechol.

Authors:  An-Le Xie; Tong-Jian Ding; Xiao-Ping Cao
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2008-08-13

5.  3,5-Dinitro-pyridin-4(1H)-one monohydrate.

Authors:  Ying Li; Ping Li; Qiu-Ping Zhou; Guo-Fang Zhang; Seik Weng Ng
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2008-08-06
  5 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.