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The experimental charge-density distribution was determined for 1-(2′-aminophenyl)-2-methyl-4-nitro-1H-imidazole crystals. An anharmonic model was applied to the N atoms of both amino groups and to one nitro group in order to account for high residual peaks after harmonic multipole refinement and to obtain a better charge-density model. Free R-factor calculations [Brünger (1992). Nature, 355, 472–475] with restrained models implemented in MoPro were used to determine the degree of similarity of the two symmetry-independent molecules in the unit cell. The results are compared with 1-phenyl-4-nitroimidazole in order to analyze the influence of the amine and methyl functional groups. The asymmetric unit contains two symmetry-independent molecules giving rise to a dimer connected via strong N—H...N hydrogen bonds; these dimers are the building blocks of the crystal. In the crystal structure there are also weaker interactions and many short directional contacts (C—H...O, C—H...N and C—H...π), for which the Koch–Popelier topological criteria were applied. This analysis revealed that the C—H...π interactions lie at the border between weak hydrogen bonds and van der Waals interactions. Special attention was also paid to stabilizing H...H interactions. It turned out that the electron density, Laplacian and density energies at the critical points show an exponential dependence on the contact distance, similar to the relation found for other interactions.

Supporting information

cif

Crystallographic Information File (CIF) https://doi.org/10.1107/S0108768111022683/gw5016sup1.cif
Contains datablock I

hkl

Structure factor file (CIF format) https://doi.org/10.1107/S0108768111022683/gw5016Isup2.hkl
Contains datablock I

pdf

Portable Document Format (PDF) file https://doi.org/10.1107/S0108768111022683/gw5016sup3.pdf
Extra figures and tables

CCDC reference: 800177

Computing details top

Program(s) used to refine structure: MoPro (J. Appl. Cryst. 2005, 38, 38-54).

(I) top
Crystal data top
C10H10N4O2F(000) = 912
Mr = 218.22Dx = 1.409 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 34615 reflections
a = 11.0299 (2) Åθ = 2.9–55.4°
b = 10.0921 (2) ŵ = 0.10 mm1
c = 18.6365 (3) ÅT = 100 K
β = 97.238 (2)°Cube, yellow
V = 2057.99 (6) Å30.35 × 0.35 × 0.35 mm
Z = 8
Data collection top
Xcalibur, Eos
diffractometer
15247 independent reflections
Radiation source: fine-focus sealed tube15219 reflections with > 2.0σ(I)
Graphite monochromatorθmax = 51.4°, θmin = 2.9°
ω scanh = 2424
Absorption correction: analytical
CrysAlisPro, Oxford Diffraction Ltd., Version 1.171.33.36d (release 24-03-2009 CrysAlis171 .NET) (compiled Mar 24 2009,17:36:51) Analytical numeric absorption correction using a multifaceted crystal model based on expressions derived by R.C. Clark & J.S. Reid. (Clark, R. C. & Reid, J. S. (1995). Acta Cryst. A51, 887-897)
k = 022
Tmin = 0.974, Tmax = 0.979l = 040
26440 measured reflections
Refinement top
Refinement on FPrimary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.030Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.025H-atom parameters constrained
S = 1.07 w = 1/[1.101*σ2(Fo2)]
15247 reflections(Δ/σ)max = 0.004
288 parametersΔρmax = 0.27 e Å3
0 restraintsΔρmin = 0.24 e Å3
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top
xyzUiso*/Ueq
C10.20139 (3)0.47967 (3)0.05249 (1)0.01334 (1)
C20.14946 (3)0.35848 (3)0.06743 (2)0.01927 (2)
H20.145280.333550.123590.03152
C30.10427 (3)0.27362 (3)0.01158 (2)0.02121 (2)
H30.064490.178860.022680.03526
C40.11304 (3)0.31204 (3)0.05958 (2)0.01825 (2)
H40.082430.246090.104030.03791
C50.16344 (3)0.43319 (3)0.07478 (2)0.01742 (2)
H50.169090.463280.130040.03649
C60.20865 (3)0.52098 (3)0.01885 (1)0.01444 (1)
N60.26254 (3)0.63837 (3)0.03415 (1)0.02266 (2)
H610.271470.712320.002570.02824
H620.254610.665650.086620.03143
N10.25181 (2)0.56179 (2)0.11193 (1)0.01246 (1)
C90.18793 (3)0.63551 (3)0.15614 (1)0.01373 (1)
H90.089260.643620.147620.03018
C80.27628 (3)0.68677 (3)0.20690 (1)0.01267 (1)
N80.25623 (3)0.76810 (3)0.26677 (1)0.01716 (1)
O810.15021 (3)0.80081 (3)0.27255 (2)0.02539 (2)
O820.34427 (3)0.80103 (3)0.30988 (2)0.02840 (2)
N20.39124 (2)0.64800 (2)0.19607 (1)0.01319 (1)
C70.37399 (3)0.57153 (3)0.13828 (1)0.01286 (1)
H710.556930.534850.128390.03578
H720.463650.396690.117870.03759
H730.458700.513070.049190.03607
C710.47019 (3)0.49884 (4)0.10595 (2)0.02044 (2)
C1A0.67116 (2)0.94115 (3)0.15119 (1)0.01222 (1)
C2A0.74248 (3)1.02703 (3)0.11566 (2)0.01590 (1)
H2A0.697441.083320.070480.03088
C3A0.86753 (3)1.03518 (3)0.13700 (2)0.01825 (2)
H3A0.923121.101300.109060.03401
C4A0.91980 (3)0.95470 (3)0.19360 (2)0.01646 (2)
H4A1.017270.958970.210700.03507
C5A0.84894 (3)0.86728 (3)0.22785 (2)0.01496 (1)
H5A0.890550.801450.269810.03377
C6A0.72162 (2)0.85922 (3)0.20808 (1)0.01325 (1)
N6A0.65079 (3)0.77623 (3)0.24388 (2)0.02222 (2)
H61A0.563340.756540.223880.02755
H62A0.694130.702590.273450.03009
N1A0.54298 (2)0.93187 (2)0.12634 (1)0.01224 (1)
C9A0.44946 (2)0.98788 (3)0.15771 (1)0.01320 (1)
H9A0.467731.045700.206840.03021
C8A0.34629 (2)0.94994 (3)0.11330 (1)0.01246 (1)
N8A0.22278 (2)0.98466 (3)0.12049 (1)0.01509 (1)
O81A0.20503 (2)1.06008 (3)0.17046 (2)0.02372 (2)
O82A0.14069 (2)0.93904 (3)0.07728 (2)0.02306 (2)
N2A0.37220 (2)0.87357 (2)0.05688 (1)0.01353 (1)
C7A0.49258 (3)0.86426 (3)0.06557 (1)0.01317 (1)
H71A0.505470.745970.023820.03679
H72A0.622330.861820.008480.03800
H73A0.624940.724040.044900.03618
C71A0.56653 (3)0.79452 (3)0.01612 (2)0.01949 (2)
Atomic displacement parameters (Å2) top
U11U22U33U12U13U23
C10.01619 (10)0.01350 (9)0.00990 (8)0.00211 (7)0.00009 (7)0.00102 (7)
C20.0252 (1)0.0166 (1)0.0155 (1)0.00664 (10)0.00156 (9)0.00012 (8)
H20.03980.03160.02250.00260.00250.0058
C30.0254 (1)0.0158 (1)0.0217 (1)0.00639 (10)0.00004 (10)0.00242 (9)
H30.04280.02570.03630.00060.00190.0112
C40.0192 (1)0.0163 (1)0.0182 (1)0.00078 (9)0.00307 (9)0.00583 (8)
H40.05000.03330.02900.01110.00120.0116
C50.0219 (1)0.0179 (1)0.01168 (9)0.00110 (9)0.00196 (8)0.00356 (8)
H50.04990.03930.01940.00160.00190.0101
C60.0190 (1)0.01408 (9)0.00964 (8)0.00201 (8)0.00065 (7)0.00104 (7)
N60.0371 (2)0.0186 (1)0.01171 (8)0.0094 (1)0.00196 (9)0.00028 (7)
H610.03700.02530.02160.00450.00060.0014
H620.04220.03370.01730.00200.00040.0036
N10.01335 (8)0.01428 (8)0.00939 (7)0.00069 (6)0.00010 (6)0.00178 (6)
C90.01247 (9)0.01621 (9)0.01221 (8)0.00041 (7)0.00068 (7)0.00167 (7)
H90.01910.03750.03330.00580.00170.0000
C80.01465 (9)0.01308 (8)0.01003 (8)0.000060 (7)0.00118 (7)0.00135 (6)
N80.0229 (1)0.01553 (9)0.01297 (8)0.00013 (8)0.00400 (8)0.00325 (7)
O810.0286 (1)0.0252 (1)0.0225 (1)0.00962 (10)0.00728 (9)0.00393 (9)
O820.0300 (1)0.0356 (1)0.01920 (10)0.0084 (1)0.00280 (9)0.01462 (10)
N20.01354 (8)0.01570 (8)0.00991 (7)0.00098 (7)0.00016 (6)0.00149 (6)
C70.01305 (9)0.01540 (9)0.00986 (8)0.00060 (7)0.00068 (7)0.00127 (7)
H710.02360.04010.04260.01140.00010.0029
H720.04250.02100.04950.00320.01310.0017
H730.04170.04520.02080.00100.00450.0098
C710.0172 (1)0.0266 (1)0.0173 (1)0.00521 (10)0.00293 (9)0.00456 (10)
C1A0.01077 (8)0.01291 (8)0.01261 (8)0.00051 (7)0.000043 (7)0.00082 (7)
C2A0.01453 (10)0.01590 (10)0.01693 (10)0.00179 (8)0.00129 (8)0.00362 (8)
H2A0.02810.03390.02940.00960.00170.0001
C3A0.01409 (10)0.0195 (1)0.0210 (1)0.00354 (9)0.00337 (9)0.00238 (9)
H3A0.02660.03770.03740.00860.00550.0067
C4A0.01108 (9)0.0204 (1)0.0176 (1)0.00180 (8)0.00169 (8)0.00121 (8)
H4A0.01880.04200.04300.00590.00290.0026
C5A0.01087 (9)0.0198 (1)0.01379 (9)0.00021 (8)0.00018 (7)0.00063 (8)
H5A0.02780.03660.03530.01150.00490.0014
C6A0.01062 (8)0.01579 (9)0.01301 (8)0.00049 (7)0.00030 (7)0.00212 (7)
N6A0.01394 (9)0.0274 (1)0.0246 (1)0.00278 (9)0.00076 (8)0.01325 (10)
H61A0.02120.03170.02860.00100.00320.0029
H62A0.02860.02970.03050.00740.00430.0012
N1A0.01083 (7)0.01311 (7)0.01232 (7)0.00044 (6)0.00056 (6)0.00103 (6)
C9A0.01189 (9)0.01469 (9)0.01260 (8)0.00038 (7)0.00016 (7)0.00226 (7)
H9A0.02890.03330.02770.01270.00130.0008
C8A0.01126 (8)0.01238 (8)0.01330 (8)0.00010 (7)0.00041 (7)0.00068 (7)
N8A0.01157 (8)0.01473 (8)0.01857 (9)0.00089 (7)0.00058 (7)0.00119 (7)
O81A0.01442 (9)0.0265 (1)0.0303 (1)0.00247 (8)0.00611 (8)0.01099 (9)
O82A0.01229 (8)0.0281 (1)0.0277 (1)0.00057 (8)0.00337 (8)0.00608 (9)
N2A0.01281 (8)0.01337 (8)0.01378 (8)0.000056 (6)0.00174 (6)0.00146 (6)
C7A0.01318 (9)0.01268 (8)0.01320 (8)0.00109 (7)0.00019 (7)0.00162 (7)
H71A0.03250.04800.02870.01380.00070.0048
H72A0.04070.03410.04030.00010.01860.0090
H73A0.03840.03990.02970.00430.00400.0147
C71A0.0194 (1)0.0192 (1)0.0196 (1)0.00247 (9)0.00275 (9)0.00576 (9)
Geometric parameters (Å, º) top
C1—N11.4379 (3)C1A—N1A1.4342 (3)
C1—C61.4053 (4)C1A—C6A1.4031 (4)
C1—C21.3934 (4)C1A—C2A1.3928 (4)
C2—C31.3908 (4)C2A—C3A1.3890 (4)
C2—H21.083C2A—H2A1.083
C3—C41.3966 (5)C3A—C4A1.3969 (4)
C3—H31.083C3A—H3A1.083
C4—C51.3870 (5)C4A—C5A1.3865 (4)
C4—H41.083C4A—H4A1.083
C5—C61.4104 (4)C5A—C6A1.4087 (4)
C5—H51.083C5A—H5A1.083
C6—N61.3714 (4)C6A—N6A1.3742 (4)
N6—H611.009N6A—H61A1.009
N6—H621.009N6A—H62A1.009
N1—C71.3785 (4)N1A—C7A1.3778 (3)
N1—C91.3694 (4)N1A—C9A1.3702 (4)
C9—C81.3709 (4)C9A—C8A1.3744 (4)
C9—H91.083C9A—H9A1.083
C8—N81.4247 (4)C8A—N8A1.4292 (4)
C8—N21.3661 (4)C8A—N2A1.3627 (4)
N8—O821.2256 (4)N8A—O82A1.2232 (3)
N8—O811.2328 (4)N8A—O81A1.2373 (4)
N2—C71.3190 (3)N2A—C7A1.3206 (4)
C7—C711.4793 (4)C7A—C71A1.4830 (4)
H71—C711.059H71A—C71A1.059
H72—C711.059H72A—C71A1.059
H73—C711.059H73A—C71A1.059
C1—N1—C7125.55 (3)C1A—N1A—C7A125.23 (3)
C1—N1—C9126.75 (2)C1A—N1A—C9A126.86 (3)
C1—C6—N6122.06 (3)C1A—C6A—N6A122.03 (3)
C1—C6—C5117.12 (3)C1A—C6A—C5A116.82 (2)
C1—C2—C3120.57 (4)C1A—C2A—C3A120.05 (2)
C1—C2—H2117.7C1A—C2A—H2A117.7
C2—C1—N1118.74 (3)C2A—C1A—N1A118.69 (3)
C2—C1—C6121.55 (3)C2A—C1A—C6A122.13 (3)
C2—C3—C4118.58 (4)C2A—C3A—C4A118.83 (3)
C2—C3—H3121.1C2A—C3A—H3A120.0
H2—C2—C3121.7H2A—C2A—C3A122.2
C3—C4—C5121.08 (3)C3A—C4A—C5A120.98 (3)
C3—C4—H4120.2C3A—C4A—H4A119.9
H3—C3—C4120.3H3A—C3A—C4A121.1
C4—C5—C6121.08 (3)C4A—C5A—C6A121.16 (3)
C4—C5—H5120.9C4A—C5A—H5A120.7
H4—C4—C5118.7H4A—C4A—C5A119.1
C5—C6—N6120.74 (3)C5A—C6A—N6A121.14 (3)
H5—C5—C6118.0H5A—C5A—C6A118.1
C6—N6—H61120.4C6A—N6A—H61A121.1
C6—N6—H62116.8C6A—N6A—H62A117.1
C6—C1—N1119.68 (2)C6A—C1A—N1A119.11 (3)
H61—N6—H62116.4H61A—N6A—H62A114.9
N1—C7—N2111.50 (2)N1A—C7A—N2A111.15 (3)
N1—C7—C71122.59 (2)N1A—C7A—C71A123.31 (3)
N1—C9—C8104.20 (2)N1A—C9A—C8A103.82 (3)
N1—C9—H9122.4N1A—C9A—H9A120.9
C9—N1—C7107.51 (2)C9A—N1A—C7A107.91 (2)
C9—C8—N8126.21 (3)C9A—C8A—N8A127.01 (4)
C9—C8—N2112.47 (2)C9A—C8A—N2A112.58 (3)
H9—C9—C8133.4H9A—C9A—C8A135.3
C8—N8—O82118.77 (3)C8A—N8A—O82A118.77 (3)
C8—N8—O81117.73 (3)C8A—N8A—O81A117.67 (3)
C8—N2—C7104.31 (2)C8A—N2A—C7A104.53 (2)
N8—C8—N2121.28 (3)N8A—C8A—N2A120.40 (3)
O81—N8—O82123.51 (3)O81A—N8A—O82A123.56 (4)
N2—C7—C71125.85 (3)N2A—C7A—C71A125.51 (3)
C7—C71—H72109.0C7A—C71A—H73A110.6
C7—C71—H71109.1C7A—C71A—H72A111.1
C7—C71—H73109.8C7A—C71A—H71A107.8
H71—C71—H72109.5H71A—C71A—H73A109.7
H71—C71—H73109.7H71A—C71A—H72A110.2
H72—C71—H73109.8H72A—C71A—H73A107.5
C1—N1—C7—N2175.80 (2)C1A—N1A—C7A—N2A179.87 (2)
C1—N1—C7—C711.75 (3)C1A—N1A—C7A—C71A1.89 (2)
C1—N1—C9—C8175.51 (2)C1A—N1A—C9A—C8A179.83 (2)
C1—N1—C9—H94.2C1A—N1A—C9A—H9A0.7
C1—C6—N6—H6121.9C1A—C6A—N6A—H61A13.3
C1—C6—N6—H62172.7C1A—C6A—N6A—H62A162.7
C1—C6—C5—C40.61 (2)C1A—C6A—C5A—C4A1.55 (2)
C1—C6—C5—H5179.5C1A—C6A—C5A—H5A177.0
C1—C2—C3—C40.54 (3)C1A—C2A—C3A—C4A0.92 (3)
C1—C2—C3—H3179.4C1A—C2A—C3A—H3A179.4
C2—C1—N1—C799.67 (3)C2A—C1A—N1A—C7A76.61 (2)
C2—C1—N1—C974.60 (2)C2A—C1A—N1A—C9A103.08 (3)
C2—C1—C6—N6178.18 (3)C2A—C1A—C6A—N6A178.85 (3)
C2—C1—C6—C51.32 (3)C2A—C1A—C6A—C5A0.17 (2)
C2—C3—C4—C51.24 (3)C2A—C3A—C4A—C5A0.44 (3)
C2—C3—C4—H4177.2C2A—C3A—C4A—H4A179.4
H2—C2—C1—N13.0H2A—C2A—C1A—N1A0.0
H2—C2—C1—C6178.9H2A—C2A—C1A—C6A176.9
H2—C2—C3—C4179.8H2A—C2A—C3A—C4A177.0
H2—C2—C3—H30.9H2A—C2A—C3A—H3A1.6
C3—C2—C1—N1177.31 (3)C3A—C2A—C1A—N1A178.00 (3)
C3—C2—C1—C60.76 (3)C3A—C2A—C1A—C6A1.06 (3)
C3—C4—C5—C60.67 (3)C3A—C4A—C5A—C6A1.72 (3)
C3—C4—C5—H5179.2C3A—C4A—C5A—H5A176.8
H3—C3—C4—C5179.8H3A—C3A—C4A—C5A178.1
H3—C3—C4—H41.7H3A—C3A—C4A—H4A0.9
C4—C5—C6—N6177.52 (3)C4A—C5A—C6A—N6A177.49 (3)
H4—C4—C5—C6177.8H4A—C4A—C5A—C6A179.3
H4—C4—C5—H52.3H4A—C4A—C5A—H5A2.2
C5—C6—N6—H61161.4C5A—C6A—N6A—H61A167.7
C5—C6—N6—H6210.6C5A—C6A—N6A—H62A18.3
C5—C6—C1—N1176.74 (2)C5A—C6A—C1A—N1A176.75 (2)
H5—C5—C6—N62.6H5A—C5A—C6A—N6A4.0
C6—C1—N1—C778.44 (2)C6A—C1A—N1A—C7A100.42 (2)
C6—C1—N1—C9107.29 (3)C6A—C1A—N1A—C9A79.88 (2)
N6—C6—C1—N10.12 (2)N6A—C6A—C1A—N1A4.22 (2)
N1—C7—N2—C80.54 (2)N1A—C7A—N2A—C8A0.51 (2)
N1—C7—C71—H7271.0N1A—C7A—C71A—H73A56.4
N1—C7—C71—H71169.5N1A—C7A—C71A—H72A62.9
N1—C7—C71—H7349.3N1A—C7A—C71A—H71A176.3
N1—C9—C8—N8178.07 (2)N1A—C9A—C8A—N8A178.34 (2)
N1—C9—C8—N20.08 (2)N1A—C9A—C8A—N2A0.23 (2)
C9—N1—C7—N20.61 (2)C9A—N1A—C7A—N2A0.39 (2)
C9—N1—C7—C71176.94 (2)C9A—N1A—C7A—C71A177.85 (2)
C9—C8—N8—O82176.29 (3)C9A—C8A—N8A—O82A177.83 (3)
C9—C8—N8—O813.19 (3)C9A—C8A—N8A—O81A2.32 (3)
C9—C8—N2—C70.28 (2)C9A—C8A—N2A—C7A0.46 (2)
H9—C9—N1—C7179.3H9A—C9A—N1A—C7A179.6
H9—C9—C8—N81.6H9A—C9A—C8A—N8A2.3
H9—C9—C8—N2179.6H9A—C9A—C8A—N2A179.2
C8—N2—C7—C71176.92 (2)C8A—N2A—C7A—C71A177.69 (2)
C8—C9—N1—C70.40 (2)C8A—C9A—N1A—C7A0.09 (2)
N8—C8—N2—C7177.82 (2)N8A—C8A—N2A—C7A178.22 (2)
O81—N8—C8—N2178.98 (3)O81A—N8A—C8A—N2A176.15 (3)
O82—N8—C8—N21.54 (3)O82A—N8A—C8A—N2A3.70 (3)
N2—C7—C71—H72106.2N2A—C7A—C71A—H73A125.6
N2—C7—C71—H7113.3N2A—C7A—C71A—H72A115.1
N2—C7—C71—H73133.5N2A—C7A—C71A—H71A5.7
Hydrogen-bond geometry (Å, º) top
D—H···AD—HH···AD···AD—H···A
N6—H61···N2A1.012.153.0754 (4)152
N6A—H61A···N21.012.203.1657 (4)161
N6—H62···O82i1.012.303.2087 (4)149
C71—H72···O82ii1.062.553.1345 (4)114
N6A—H62A···O81Aii1.012.033.0325 (4)175
C4A—H4A···O81iii1.082.373.1770 (4)130
C4A—H4A···O81Aiii1.082.513.3996 (4)139
C9A—H9A···N2iv1.082.463.4522 (3)152
C2A—H2A···N2Av1.082.443.4526 (4)155
Symmetry codes: (i) x, y+3/2, z1/2; (ii) x+1, y1/2, z+1/2; (iii) x+1, y, z; (iv) x+1, y+1/2, z+1/2; (v) x+1, y+2, z.
 

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