Literature DB >> 23795061

Pyrimidine-4-carb-oxy-lic acid.

Katarzyna Kiegiel1, Wojciech Starosta, Janusz Leciejewicz.   

Abstract

The crystal structure of the title compound, C5H4N2O2, is built of acid mol-ecules located on a mirror plane. They form sheets stacked along the b-axis direction. The mol-ecules inter-act via O-H⋯N hydrogen bonds, forming [001] chains, and weak van der Waals inter-actions.

Entities:  

Year:  2013        PMID: 23795061      PMCID: PMC3685042          DOI: 10.1107/S1600536813012610

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


Related literature

For the structure of a Li complex with pyrimidine-4-carboxyl­ate and aqua ligands, see: Starosta & Leciejewicz (2012 ▶).

Experimental

Crystal data

C5H4N2O2 M = 124.10 Monoclinic, a = 6.0080 (12) Å b = 6.3519 (13) Å c = 7.4834 (15) Å β = 112.20 (3)° V = 264.41 (9) Å3 Z = 2 Mo Kα radiation μ = 0.12 mm−1 T = 293 K 0.17 × 0.16 × 0.06 mm

Data collection

Kuma KM-4 four-circle diffractometer Absorption correction: analytical (CrysAlis RED; Oxford Diffraction, 2008 ▶) T min = 0.973, T max = 0.994 1981 measured reflections 545 independent reflections 349 reflections with I > 2σ(I) R int = 0.129 3 standard reflections every 200 reflections intensity decay: 0.9%

Refinement

R[F 2 > 2σ(F 2)] = 0.048 wR(F 2) = 0.124 S = 1.00 545 reflections 58 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.15 e Å−3 Δρmin = −0.34 e Å−3 Data collection: KM-4 Software (Kuma, 1996 ▶); cell refinement: KM-4 Software; data reduction: DATAPROC (Kuma, 2001 ▶); 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: SHELXTL. Click here for additional data file. Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536813012610/bt6903sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536813012610/bt6903Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536813012610/bt6903Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C5H4N2O2F(000) = 128
Mr = 124.10Dx = 1.559 Mg m3
Monoclinic, P21/mMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybCell parameters from 25 reflections
a = 6.0080 (12) Åθ = 6–15°
b = 6.3519 (13) ŵ = 0.12 mm1
c = 7.4834 (15) ÅT = 293 K
β = 112.20 (3)°Plate, colourless
V = 264.41 (9) Å30.17 × 0.16 × 0.06 mm
Z = 2
Kuma KM-4 four-circle diffractometer349 reflections with I > 2σ(I)
Radiation source: fine-focus sealed tubeRint = 0.129
Graphite monochromatorθmax = 25.7°, θmin = 2.9°
profile data from ω/2θ scanh = −7→7
Absorption correction: analytical (CrysAlis RED; Oxford Diffraction, 2008)k = −7→7
Tmin = 0.973, Tmax = 0.994l = −9→9
1981 measured reflections3 standard reflections every 200 reflections
545 independent reflections intensity decay: 0.9%
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.048Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.124H atoms treated by a mixture of independent and constrained refinement
S = 1.00w = 1/[σ2(Fo2) + (0.0689P)2] where P = (Fo2 + 2Fc2)/3
545 reflections(Δ/σ)max < 0.001
58 parametersΔρmax = 0.15 e Å3
0 restraintsΔρmin = −0.34 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
O11.0036 (4)0.25000.2735 (3)0.0416 (6)
C40.8398 (5)0.25000.5171 (4)0.0308 (7)
N10.9072 (4)0.25000.8961 (3)0.0397 (7)
N31.0647 (4)0.25000.6476 (3)0.0371 (7)
O20.6049 (4)0.25000.1835 (3)0.0649 (8)
C70.8036 (5)0.25000.3063 (4)0.0364 (7)
C50.6416 (5)0.25000.5672 (4)0.0403 (8)
H50.48600.25000.47470.048*
C60.6868 (5)0.25000.7631 (4)0.0448 (9)
H60.55730.25000.80240.054*
C21.0847 (5)0.25000.8311 (4)0.0401 (8)
H41.24010.25000.92400.048*
H10.967 (6)0.25000.126 (5)0.064 (11)*
U11U22U33U12U13U23
O10.0403 (11)0.0677 (13)0.0196 (9)0.0000.0145 (8)0.000
C40.0308 (14)0.0389 (14)0.0225 (13)0.0000.0097 (11)0.000
N10.0401 (13)0.0606 (16)0.0208 (11)0.0000.0142 (11)0.000
N30.0276 (11)0.0651 (16)0.0173 (12)0.0000.0071 (9)0.000
O20.0364 (12)0.130 (2)0.0206 (10)0.0000.0020 (9)0.000
C70.0366 (15)0.0507 (16)0.0217 (13)0.0000.0109 (12)0.000
C50.0287 (14)0.0613 (19)0.0293 (15)0.0000.0093 (13)0.000
C60.0325 (14)0.072 (2)0.0342 (15)0.0000.0179 (12)0.000
C20.0304 (13)0.0718 (19)0.0160 (12)0.0000.0062 (11)0.000
O1—C71.314 (4)N3—C21.332 (3)
O1—H11.04 (4)O2—C71.200 (3)
C4—N31.335 (3)C5—C61.386 (4)
C4—C51.376 (4)C5—H50.9300
C4—C71.509 (3)C6—H60.9300
N1—C61.322 (4)C2—H40.9300
N1—C21.329 (4)
C7—O1—H1110.9 (19)C4—C5—C6116.4 (3)
N3—C4—C5122.8 (2)C4—C5—H5121.8
N3—C4—C7118.1 (2)C6—C5—H5121.8
C5—C4—C7119.1 (3)N1—C6—C5122.4 (3)
C6—N1—C2116.0 (2)N1—C6—H6118.8
C2—N3—C4115.2 (2)C5—C6—H6118.8
O2—C7—O1124.9 (2)N1—C2—N3127.3 (2)
O2—C7—C4120.6 (3)N1—C2—H4116.4
O1—C7—C4114.5 (2)N3—C2—H4116.4
D—H···AD—HH···AD···AD—H···A
O1—H1···N1i1.04 (4)1.62 (4)2.660 (3)179 (3)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
O1—H1⋯N1i 1.04 (4)1.62 (4)2.660 (3)179 (3)

Symmetry code: (i) .

  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.  Bis(μ(3)-pyrimidine-4-carboxyl-ato)bis-(μ(2)-pyrimidine-4-carboxyl-ato)tetra-kis-(aqua-lithium).

Authors:  Wojciech Starosta; Janusz Leciejewicz
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-07-14
  2 in total

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