Literature DB >> 21523144

3-(4-Carb-oxy-5-carboxyl-ato-1H-imidazol-2-yl)pyridin-1-ium monohydrate.

Guang-Jun Liu, Guang-Wang Zhao, Li Li, Hong-Tao Gao.   

Abstract

In the zwitterionic mol-ecule of the title compound, C(10)H(7)N(3)O(4)·H(2)O, one carboxyl group is deprotonated and the n class="Chemical">pyridine N atom is protonated. The pyridinium and imidazole rings form a dihedral angle of 5.23 (1)°. An intramolecular O-H⋯O hydrogen bond occurs. In the crystal, inter-molecular N-H⋯O, O-H⋯N and O-H⋯O hydrogen bonds link the zwitterions and water mol-ecules into sheets parallel to (102).

Entities:  

Year:  2011        PMID: 21523144      PMCID: PMC3051609          DOI: 10.1107/S1600536811002248

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


Related literature

For the use of 4,5-imidazole­dicarb­oxy­lic acid in coordination chemistry and for related structures, see: Sun et al. (2006 ▶); Chen (2008 ▶); Liu et al. (2009 ▶). For the synthesis of the title compound, see: Lebedev et al. (2007 ▶). For bond-length data, see: Allen et al. (1987 ▶).

Experimental

Crystal data

C10H7N3O4·H2O M = 251.20 Monoclinic, a = 3.7342 (18) Å b = 16.354 (8) Å c = 16.634 (8) Å β = 97.019 (10)° V = 1008.2 (8) Å3 Z = 4 Mo Kα radiation μ = 0.14 mm−1 T = 298 K 0.32 × 0.28 × 0.25 mm

Data collection

Bruker SMART APEX CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2005 ▶) T min = 0.958, T max = 0.967 5038 measured reflections 1777 independent reflections 1314 reflections with I > 2σ(I) R int = 0.028

Refinement

R[F 2 > 2σ(F 2)] = 0.042 wR(F 2) = 0.119 S = 1.14 1777 reflections 179 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.21 e Å−3 Δρmin = −0.18 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. Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536811002248/cv5038sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536811002248/cv5038Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C10H7N3O4·H2OF(000) = 520
Mr = 251.20Dx = 1.655 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 1155 reflections
a = 3.7342 (18) Åθ = 2.5–21.9°
b = 16.354 (8) ŵ = 0.14 mm1
c = 16.634 (8) ÅT = 298 K
β = 97.019 (10)°Block, yellow
V = 1008.2 (8) Å30.32 × 0.28 × 0.25 mm
Z = 4
Bruker SMART APEX CCD area-detector diffractometer1777 independent reflections
Radiation source: fine-focus sealed tube1314 reflections with I > 2σ(I)
graphiteRint = 0.028
φ and ω scansθmax = 25.1°, θmin = 1.8°
Absorption correction: multi-scan (SADABS; Bruker, 2005)h = −4→4
Tmin = 0.958, Tmax = 0.967k = −18→19
5038 measured reflectionsl = −19→15
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.042Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.119H atoms treated by a mixture of independent and constrained refinement
S = 1.14w = 1/[σ2(Fo2) + (0.0612P)2] where P = (Fo2 + 2Fc2)/3
1777 reflections(Δ/σ)max < 0.001
179 parametersΔρmax = 0.21 e Å3
0 restraintsΔρmin = −0.18 e Å3
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
O10.5287 (5)0.93482 (10)0.16289 (9)0.0556 (5)
O20.7858 (5)1.05235 (10)0.19683 (9)0.0573 (5)
H20.91291.07210.23570.086*
O31.1698 (5)1.11399 (9)0.31442 (9)0.0576 (5)
O41.4072 (5)1.07667 (9)0.43806 (9)0.0525 (5)
N11.1259 (5)0.92199 (10)0.41497 (10)0.0348 (4)
N20.7955 (5)0.86368 (10)0.31150 (9)0.0356 (4)
N31.0972 (6)0.70365 (11)0.55425 (11)0.0455 (5)
C10.7137 (6)0.97627 (13)0.21234 (13)0.0415 (6)
C20.8660 (6)0.94325 (12)0.29214 (11)0.0347 (5)
C31.0711 (5)0.98027 (11)0.35661 (11)0.0335 (5)
C41.2301 (6)1.06322 (12)0.37174 (12)0.0391 (5)
C50.9577 (6)0.85300 (11)0.38601 (11)0.0329 (5)
C60.9521 (6)0.77649 (12)0.43184 (12)0.0338 (5)
C71.1011 (6)0.77284 (13)0.51242 (12)0.0396 (5)
H71.20500.81940.53750.047*
C80.7973 (6)0.70592 (13)0.39780 (13)0.0424 (6)
H80.69160.70620.34420.051*
C90.7986 (7)0.63518 (13)0.44279 (13)0.0466 (6)
H90.69450.58770.41970.056*
C100.9544 (7)0.63514 (14)0.52181 (13)0.0478 (6)
H100.95990.58750.55240.057*
O1W0.4229 (6)0.75493 (12)0.19730 (11)0.0711 (6)
H11.271 (5)0.9320 (11)0.4672 (12)0.032 (5)*
H31.211 (8)0.7089 (16)0.6111 (18)0.080 (9)*
H1B0.556 (12)0.797 (2)0.228 (2)0.143 (15)*
H1A0.570 (11)0.709 (2)0.193 (2)0.122 (13)*
U11U22U33U12U13U23
O10.0640 (12)0.0629 (10)0.0351 (9)−0.0017 (9)−0.0135 (8)−0.0030 (7)
O20.0700 (13)0.0532 (10)0.0441 (9)−0.0053 (9)−0.0114 (8)0.0136 (7)
O30.0715 (13)0.0442 (9)0.0524 (10)−0.0060 (8)−0.0111 (9)0.0120 (8)
O40.0650 (12)0.0457 (9)0.0419 (9)−0.0067 (8)−0.0127 (8)−0.0030 (7)
N10.0393 (11)0.0355 (9)0.0286 (9)−0.0006 (8)0.0004 (8)−0.0026 (7)
N20.0354 (11)0.0405 (10)0.0298 (9)0.0014 (8)−0.0001 (8)−0.0026 (7)
N30.0547 (14)0.0490 (11)0.0312 (10)0.0002 (9)−0.0017 (9)0.0036 (9)
C10.0408 (14)0.0468 (13)0.0363 (12)0.0044 (11)0.0021 (10)−0.0003 (10)
C20.0340 (13)0.0389 (11)0.0313 (11)0.0053 (9)0.0048 (9)0.0008 (9)
C30.0330 (12)0.0355 (11)0.0314 (10)0.0047 (9)0.0018 (9)−0.0015 (9)
C40.0400 (14)0.0394 (12)0.0373 (12)0.0049 (10)0.0021 (10)0.0019 (10)
C50.0331 (12)0.0358 (11)0.0292 (10)0.0027 (9)0.0013 (9)−0.0044 (8)
C60.0296 (12)0.0385 (11)0.0331 (11)0.0028 (9)0.0027 (9)−0.0015 (9)
C70.0409 (14)0.0401 (12)0.0366 (12)−0.0007 (10)0.0005 (10)−0.0009 (9)
C80.0451 (15)0.0466 (12)0.0337 (12)−0.0034 (10)−0.0027 (10)−0.0026 (10)
C90.0492 (15)0.0401 (12)0.0501 (14)−0.0070 (11)0.0045 (11)−0.0059 (10)
C100.0524 (16)0.0460 (13)0.0447 (14)−0.0051 (11)0.0044 (12)0.0052 (10)
O1W0.1032 (17)0.0470 (11)0.0534 (11)0.0091 (11)−0.0304 (11)−0.0099 (8)
O1—C11.214 (2)C2—C31.379 (3)
O2—C11.305 (3)C3—C41.490 (3)
O2—H20.8201C5—C61.467 (3)
O3—C41.264 (2)C6—C81.381 (3)
O4—C41.235 (2)C6—C71.388 (3)
N1—C51.351 (2)C7—H70.9300
N1—C31.358 (3)C8—C91.377 (3)
N1—H10.98 (2)C8—H80.9300
N2—C51.323 (2)C9—C101.371 (3)
N2—C21.374 (3)C9—H90.9300
N3—C101.327 (3)C10—H100.9300
N3—C71.329 (3)O1W—H1B0.95 (4)
N3—H30.99 (3)O1W—H1A0.94 (4)
C1—C21.481 (3)
C1—O2—H2109.5N2—C5—N1111.31 (17)
C5—N1—C3107.96 (17)N2—C5—C6124.45 (18)
C5—N1—H1129.6 (10)N1—C5—C6124.24 (17)
C3—N1—H1122.4 (11)C8—C6—C7117.27 (19)
C5—N2—C2105.42 (16)C8—C6—C5122.13 (18)
C10—N3—C7122.4 (2)C7—C6—C5120.60 (18)
C10—N3—H3124.4 (16)N3—C7—C6120.88 (19)
C7—N3—H3113.2 (16)N3—C7—H7119.6
O1—C1—O2120.8 (2)C6—C7—H7119.6
O1—C1—C2121.9 (2)C9—C8—C6120.4 (2)
O2—C1—C2117.32 (19)C9—C8—H8119.8
N2—C2—C3109.74 (17)C6—C8—H8119.8
N2—C2—C1119.47 (18)C10—C9—C8119.6 (2)
C3—C2—C1130.76 (19)C10—C9—H9120.2
N1—C3—C2105.58 (17)C8—C9—H9120.2
N1—C3—C4119.74 (17)N3—C10—C9119.5 (2)
C2—C3—C4134.67 (18)N3—C10—H10120.3
O4—C4—O3125.7 (2)C9—C10—H10120.3
O4—C4—C3118.17 (18)H1B—O1W—H1A110 (4)
O3—C4—C3116.11 (18)
C5—N2—C2—C3−0.5 (2)C2—N2—C5—N10.3 (2)
C5—N2—C2—C1−178.48 (19)C2—N2—C5—C6179.57 (19)
O1—C1—C2—N2−0.4 (3)C3—N1—C5—N2−0.1 (2)
O2—C1—C2—N2179.53 (19)C3—N1—C5—C6−179.32 (19)
O1—C1—C2—C3−178.0 (2)N2—C5—C6—C85.3 (3)
O2—C1—C2—C32.0 (4)N1—C5—C6—C8−175.5 (2)
C5—N1—C3—C2−0.2 (2)N2—C5—C6—C7−174.0 (2)
C5—N1—C3—C4−179.47 (18)N1—C5—C6—C75.2 (3)
N2—C2—C3—N10.4 (2)C10—N3—C7—C60.3 (3)
C1—C2—C3—N1178.2 (2)C8—C6—C7—N30.8 (3)
N2—C2—C3—C4179.5 (2)C5—C6—C7—N3−179.91 (19)
C1—C2—C3—C4−2.8 (4)C7—C6—C8—C9−0.9 (3)
N1—C3—C4—O4−0.5 (3)C5—C6—C8—C9179.8 (2)
C2—C3—C4—O4−179.5 (2)C6—C8—C9—C100.1 (3)
N1—C3—C4—O3179.49 (19)C7—N3—C10—C9−1.2 (4)
C2—C3—C4—O30.5 (4)C8—C9—C10—N31.0 (4)
D—H···AD—HH···AD···AD—H···A
N1—H1···O4i0.98 (2)1.87 (2)2.824 (3)164.8 (16)
N3—H3···O1Wii0.99 (3)1.66 (3)2.625 (3)163 (2)
O1W—H1A···O3iii0.94 (4)1.84 (4)2.782 (3)176 (4)
O1W—H1B···O10.95 (4)2.50 (4)3.032 (3)115 (3)
O1W—H1B···N20.95 (4)1.90 (4)2.839 (2)166 (3)
O2—H2···O30.821.672.493 (2)179
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1⋯O4i0.98 (2)1.87 (2)2.824 (3)164.8 (16)
N3—H3⋯O1Wii0.99 (3)1.66 (3)2.625 (3)163 (2)
O1W—H1A⋯O3iii0.94 (4)1.84 (4)2.782 (3)176 (4)
O1W—H1B⋯O10.95 (4)2.50 (4)3.032 (3)115 (3)
O1W—H1B⋯N20.95 (4)1.90 (4)2.839 (2)166 (3)
O2—H2⋯O30.821.672.493 (2)179

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

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