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The dipharmacophore compound 3-cyclopropyl-5-(2-hydrazinylpyridin-3-yl)-1,2,4-oxadiazole, C
10H
11N
5O, was studied on the assumption of its potential biological activity. Two concomitant polymorphs were obtained on crystallization from isopropanol solution and these were thoroughly studied. Identical conformations of the molecules are found in both structures despite the low difference in energy between the four possible conformers. The two polymorphs differ crucially with respect to their crystal structures. A centrosymmetric dimer formed due to both stacking interactions of the `head-to-tail' type and N—H
N(π) hydrogen bonds is the building unit in the triclinic structure. The dimeric building units form an isotropic packing. In the orthorhombic polymorphic structure, the molecules form stacking interactions of the `head-to-head' type, which results in their organization in a column as the primary basic structural motif. The formation of N—H
N(lone pair) hydrogen bonds between two neighbouring columns allows the formation of a double column as the main structural motif. The correct packing motifs in the two polymorphs could not be identified without calculations of the pairwise interaction energies. The triclinic structure has a higher density and a lower (by 0.60 kcal mol
−1) lattice energy according to periodic calculations compared to the orthorhombic structure. This allows us to presume that the triclinic form of 3-cyclopropyl-5-(2-hydrazinylpyridin-3-yl)-1,2,4-oxadiazole is the more stable.
Supporting information
CCDC references: 2015686; 2015685
For both structures, data collection: CrysAlis PRO (Rigaku OD, 2018); cell refinement: CrysAlis PRO (Rigaku OD, 2018); data reduction: CrysAlis PRO (Rigaku OD, 2018); program(s) used to solve structure: SHELXT2014 (Sheldrick, 2015a); program(s) used to refine structure: SHELXL2016 (Sheldrick, 2015b); molecular graphics: Mercury (Macrae et al., 2020); software used to prepare material for publication: SHELXL2016 (Sheldrick, 2015b).
3-Cyclopropyl-5-(2-hydrazinylpyridin-3-yl)-1,2,4-oxadiazole (1t)
top
Crystal data top
C10H11N5O | Z = 2 |
Mr = 217.24 | F(000) = 228 |
Triclinic, P1 | Dx = 1.407 Mg m−3 |
a = 8.4476 (10) Å | Mo Kα radiation, λ = 0.71073 Å |
b = 8.5662 (8) Å | Cell parameters from 846 reflections |
c = 8.6125 (8) Å | θ = 4.2–25.7° |
α = 110.812 (9)° | µ = 0.10 mm−1 |
β = 115.048 (11)° | T = 293 K |
γ = 92.854 (9)° | Block, colorless |
V = 512.82 (10) Å3 | 0.20 × 0.17 × 0.10 mm |
Data collection top
Rigaku Xcalibur Sapphire3 diffractometer | 1795 independent reflections |
Radiation source: Enhance (Mo) X-ray Source | 1337 reflections with I > 2σ(I) |
Detector resolution: 16.1827 pixels mm-1 | Rint = 0.043 |
ω scans | θmax = 25.0°, θmin = 3.3° |
Absorption correction: multi-scan (CrysAlis PRO; Rigaku OD, 2018) | h = −5→10 |
Tmin = 0.188, Tmax = 1.000 | k = −10→10 |
3563 measured reflections | l = −10→9 |
Refinement top
Refinement on F2 | 0 restraints |
Least-squares matrix: full | Hydrogen site location: mixed |
R[F2 > 2σ(F2)] = 0.053 | H atoms treated by a mixture of independent and constrained refinement |
wR(F2) = 0.164 | w = 1/[σ2(Fo2) + (0.0858P)2] where P = (Fo2 + 2Fc2)/3 |
S = 1.06 | (Δ/σ)max < 0.001 |
1795 reflections | Δρmax = 0.20 e Å−3 |
157 parameters | Δρmin = −0.21 e Å−3 |
Special details top
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. |
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top | x | y | z | Uiso*/Ueq | |
O1 | 0.6672 (2) | 0.56003 (19) | 0.9056 (2) | 0.0672 (5) | |
N1 | 0.8289 (3) | 0.6863 (3) | 0.9853 (3) | 0.0741 (6) | |
N2 | 0.7711 (2) | 0.4883 (2) | 0.7013 (2) | 0.0554 (5) | |
N3 | 0.3083 (2) | 0.0515 (2) | 0.3385 (3) | 0.0597 (5) | |
N4 | 0.5318 (3) | 0.2269 (2) | 0.3501 (3) | 0.0604 (5) | |
H4 | 0.637 (4) | 0.302 (3) | 0.409 (4) | 0.086 (8)* | |
N5 | 0.4945 (3) | 0.1157 (3) | 0.1664 (3) | 0.0686 (6) | |
H5NA | 0.479 (4) | 0.005 (4) | 0.162 (4) | 0.106 (10)* | |
H5NB | 0.382 (4) | 0.125 (3) | 0.088 (4) | 0.089 (9)* | |
C1 | 0.6453 (3) | 0.4486 (3) | 0.7380 (3) | 0.0521 (5) | |
C2 | 0.8817 (3) | 0.6343 (3) | 0.8581 (3) | 0.0612 (6) | |
C3 | 1.0478 (3) | 0.7243 (3) | 0.8816 (3) | 0.0697 (7) | |
H3 | 1.115238 | 0.830316 | 0.996389 | 0.084* | |
C4 | 1.0535 (3) | 0.7184 (3) | 0.7084 (4) | 0.0739 (7) | |
H4A | 0.946671 | 0.655610 | 0.588201 | 0.089* | |
H4B | 1.120473 | 0.819869 | 0.718224 | 0.089* | |
C5 | 1.1560 (3) | 0.6188 (3) | 0.8065 (4) | 0.0762 (7) | |
H5A | 1.285910 | 0.659122 | 0.876536 | 0.091* | |
H5B | 1.112103 | 0.494859 | 0.746510 | 0.091* | |
C6 | 0.4923 (3) | 0.3020 (2) | 0.6283 (3) | 0.0515 (5) | |
C7 | 0.3911 (3) | 0.2607 (3) | 0.7049 (3) | 0.0583 (6) | |
H7 | 0.416969 | 0.330972 | 0.827516 | 0.070* | |
C8 | 0.2524 (3) | 0.1164 (3) | 0.6011 (3) | 0.0632 (6) | |
H8 | 0.183345 | 0.087335 | 0.651314 | 0.076* | |
C9 | 0.2187 (3) | 0.0162 (3) | 0.4206 (4) | 0.0656 (6) | |
H9 | 0.126635 | −0.083141 | 0.351538 | 0.079* | |
C10 | 0.4442 (3) | 0.1922 (3) | 0.4374 (3) | 0.0507 (5) | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
O1 | 0.0811 (11) | 0.0626 (10) | 0.0438 (9) | −0.0021 (8) | 0.0312 (9) | 0.0077 (8) |
N1 | 0.0835 (14) | 0.0646 (12) | 0.0472 (11) | −0.0130 (10) | 0.0275 (11) | 0.0031 (10) |
N2 | 0.0577 (10) | 0.0510 (10) | 0.0413 (10) | −0.0015 (8) | 0.0205 (9) | 0.0077 (9) |
N3 | 0.0547 (11) | 0.0542 (11) | 0.0527 (12) | 0.0004 (8) | 0.0217 (9) | 0.0102 (9) |
N4 | 0.0652 (12) | 0.0581 (11) | 0.0421 (10) | −0.0048 (9) | 0.0278 (9) | 0.0035 (9) |
N5 | 0.0751 (14) | 0.0660 (14) | 0.0453 (11) | −0.0041 (11) | 0.0318 (11) | 0.0012 (10) |
C1 | 0.0612 (12) | 0.0481 (11) | 0.0360 (11) | 0.0070 (9) | 0.0197 (10) | 0.0108 (9) |
C2 | 0.0649 (14) | 0.0553 (13) | 0.0425 (12) | −0.0017 (10) | 0.0160 (11) | 0.0119 (11) |
C3 | 0.0700 (15) | 0.0609 (14) | 0.0532 (14) | −0.0094 (11) | 0.0201 (12) | 0.0119 (12) |
C4 | 0.0705 (15) | 0.0751 (16) | 0.0703 (17) | 0.0012 (12) | 0.0265 (13) | 0.0345 (14) |
C5 | 0.0598 (14) | 0.0802 (17) | 0.0783 (18) | 0.0061 (12) | 0.0232 (13) | 0.0350 (15) |
C6 | 0.0535 (12) | 0.0509 (12) | 0.0442 (12) | 0.0089 (9) | 0.0210 (10) | 0.0169 (10) |
C7 | 0.0649 (13) | 0.0648 (13) | 0.0479 (13) | 0.0142 (11) | 0.0299 (11) | 0.0224 (11) |
C8 | 0.0560 (12) | 0.0696 (15) | 0.0637 (15) | 0.0049 (11) | 0.0281 (11) | 0.0290 (13) |
C9 | 0.0590 (13) | 0.0597 (14) | 0.0674 (16) | −0.0012 (11) | 0.0293 (12) | 0.0177 (13) |
C10 | 0.0508 (11) | 0.0511 (12) | 0.0441 (12) | 0.0081 (9) | 0.0203 (10) | 0.0166 (10) |
Geometric parameters (Å, º) top
O1—C1 | 1.344 (2) | C3—C5 | 1.496 (4) |
O1—N1 | 1.428 (2) | C3—H3 | 0.9800 |
N1—C2 | 1.299 (3) | C4—C5 | 1.469 (3) |
N2—C1 | 1.293 (3) | C4—H4A | 0.9700 |
N2—C2 | 1.369 (3) | C4—H4B | 0.9700 |
N3—C9 | 1.322 (3) | C5—H5A | 0.9700 |
N3—C10 | 1.342 (3) | C5—H5B | 0.9700 |
N4—C10 | 1.344 (3) | C6—C7 | 1.381 (3) |
N4—N5 | 1.410 (3) | C6—C10 | 1.432 (3) |
N4—H4 | 0.89 (3) | C7—C8 | 1.372 (3) |
N5—H5NA | 0.94 (3) | C7—H7 | 0.9300 |
N5—H5NB | 0.93 (3) | C8—C9 | 1.373 (3) |
C1—C6 | 1.449 (3) | C8—H8 | 0.9300 |
C2—C3 | 1.465 (3) | C9—H9 | 0.9300 |
C3—C4 | 1.495 (3) | | |
| | | |
C1—O1—N1 | 105.88 (15) | C5—C4—H4B | 117.7 |
C2—N1—O1 | 102.95 (18) | C3—C4—H4B | 117.7 |
C1—N2—C2 | 103.20 (17) | H4A—C4—H4B | 114.8 |
C9—N3—C10 | 118.7 (2) | C4—C5—C3 | 60.58 (16) |
C10—N4—N5 | 122.60 (18) | C4—C5—H5A | 117.7 |
C10—N4—H4 | 124.1 (18) | C3—C5—H5A | 117.7 |
N5—N4—H4 | 111.1 (18) | C4—C5—H5B | 117.7 |
N4—N5—H5NA | 105.2 (19) | C3—C5—H5B | 117.7 |
N4—N5—H5NB | 105.1 (17) | H5A—C5—H5B | 114.8 |
H5NA—N5—H5NB | 106 (3) | C7—C6—C10 | 117.7 (2) |
N2—C1—O1 | 113.07 (18) | C7—C6—C1 | 121.45 (19) |
N2—C1—C6 | 129.37 (18) | C10—C6—C1 | 120.79 (18) |
O1—C1—C6 | 117.54 (17) | C8—C7—C6 | 120.3 (2) |
N1—C2—N2 | 114.88 (19) | C8—C7—H7 | 119.8 |
N1—C2—C3 | 122.4 (2) | C6—C7—H7 | 119.8 |
N2—C2—C3 | 122.7 (2) | C7—C8—C9 | 117.93 (18) |
C2—C3—C4 | 117.8 (2) | C7—C8—H8 | 121.0 |
C2—C3—C5 | 118.1 (2) | C9—C8—H8 | 121.0 |
C4—C3—C5 | 58.81 (16) | N3—C9—C8 | 124.3 (2) |
C2—C3—H3 | 116.6 | N3—C9—H9 | 117.8 |
C4—C3—H3 | 116.6 | C8—C9—H9 | 117.8 |
C5—C3—H3 | 116.6 | N3—C10—N4 | 117.64 (19) |
C5—C4—C3 | 60.61 (17) | N3—C10—C6 | 120.90 (18) |
C5—C4—H4A | 117.7 | N4—C10—C6 | 121.46 (19) |
C3—C4—H4A | 117.7 | | |
| | | |
C1—O1—N1—C2 | −0.3 (2) | O1—C1—C6—C7 | −11.2 (3) |
C2—N2—C1—O1 | 0.8 (2) | N2—C1—C6—C10 | −11.5 (3) |
C2—N2—C1—C6 | −177.3 (2) | O1—C1—C6—C10 | 170.48 (17) |
N1—O1—C1—N2 | −0.3 (2) | C10—C6—C7—C8 | 1.6 (3) |
N1—O1—C1—C6 | 177.99 (17) | C1—C6—C7—C8 | −176.74 (18) |
O1—N1—C2—N2 | 0.9 (3) | C6—C7—C8—C9 | 0.0 (3) |
O1—N1—C2—C3 | −178.65 (19) | C10—N3—C9—C8 | 1.5 (4) |
C1—N2—C2—N1 | −1.1 (3) | C7—C8—C9—N3 | −1.6 (4) |
C1—N2—C2—C3 | 178.5 (2) | C9—N3—C10—N4 | −179.08 (19) |
N1—C2—C3—C4 | −149.0 (2) | C9—N3—C10—C6 | 0.3 (3) |
N2—C2—C3—C4 | 31.5 (3) | N5—N4—C10—N3 | −4.6 (3) |
N1—C2—C3—C5 | 143.4 (3) | N5—N4—C10—C6 | 176.1 (2) |
N2—C2—C3—C5 | −36.1 (3) | C7—C6—C10—N3 | −1.8 (3) |
C2—C3—C4—C5 | −107.6 (3) | C1—C6—C10—N3 | 176.59 (18) |
C2—C3—C5—C4 | 107.2 (2) | C7—C6—C10—N4 | 177.56 (19) |
N2—C1—C6—C7 | 166.7 (2) | C1—C6—C10—N4 | −4.1 (3) |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
N4—H4···N2 | 0.89 (3) | 2.17 (3) | 2.795 (3) | 127 (2) |
N5—H5NA···C8i | 0.94 (3) | 2.87 (3) | 3.487 (3) | 125 (2) |
N5—H5NB···N1ii | 0.93 (3) | 2.50 (3) | 3.325 (4) | 148 (2) |
N5—H5NA···N3 | 0.94 (3) | 2.45 (3) | 2.728 (2) | 97 (2) |
Symmetry codes: (i) −x+1, −y, −z+1; (ii) −x+1, −y+1, −z+1. |
3-Cyclopropyl-5-(2-hydrazinylpyridin-3-yl)-1,2,4-oxadiazole (1r)
top
Crystal data top
C10H11N5O | Dx = 1.364 Mg m−3 |
Mr = 217.24 | Mo Kα radiation, λ = 0.71073 Å |
Orthorhombic, P212121 | Cell parameters from 655 reflections |
a = 4.8240 (11) Å | θ = 4.0–20.0° |
b = 8.2685 (19) Å | µ = 0.10 mm−1 |
c = 26.527 (10) Å | T = 293 K |
V = 1058.1 (5) Å3 | Stick, colourless |
Z = 4 | 0.20 × 0.05 × 0.05 mm |
F(000) = 456 | |
Data collection top
Rigaku Xcalibur Sapphire3 diffractometer | 1859 independent reflections |
Radiation source: Enhance (Mo) X-ray Source | 1194 reflections with I > 2σ(I) |
Detector resolution: 16.1827 pixels mm-1 | Rint = 0.080 |
ω scans | θmax = 25.0°, θmin = 3.4° |
Absorption correction: multi-scan (CrysAlis PRO; Rigaku OD, 2018) | h = −5→5 |
Tmin = 0.176, Tmax = 1.000 | k = −9→9 |
7941 measured reflections | l = −31→31 |
Refinement top
Refinement on F2 | H atoms treated by a mixture of independent and constrained refinement |
Least-squares matrix: full | w = 1/[σ2(Fo2) + (0.0373P)2] where P = (Fo2 + 2Fc2)/3 |
R[F2 > 2σ(F2)] = 0.051 | (Δ/σ)max < 0.001 |
wR(F2) = 0.119 | Δρmax = 0.14 e Å−3 |
S = 0.99 | Δρmin = −0.13 e Å−3 |
1859 reflections | Extinction correction: SHELXL2016 (Sheldrick, 2015b), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4 |
158 parameters | Extinction coefficient: 0.007 (3) |
0 restraints | Absolute structure: Flack x determined using 320 quotients [(I+)-(I-)]/[(I+)+(I-)]
(Parsons et al., 2013) |
Hydrogen site location: mixed | Absolute structure parameter: −0.7 (10) |
Special details top
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. |
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top | x | y | z | Uiso*/Ueq | |
O1 | 0.3081 (6) | 0.5574 (4) | 0.66612 (13) | 0.0744 (10) | |
N1 | 0.1474 (7) | 0.6666 (5) | 0.69605 (17) | 0.0774 (11) | |
N2 | 0.4560 (6) | 0.8019 (4) | 0.64848 (14) | 0.0577 (9) | |
N3 | 1.0284 (7) | 0.5842 (4) | 0.54210 (14) | 0.0650 (10) | |
N4 | 0.8594 (7) | 0.8191 (4) | 0.57554 (15) | 0.0627 (10) | |
H4N | 0.733 (8) | 0.878 (5) | 0.6013 (18) | 0.078 (14)* | |
N5 | 1.0260 (11) | 0.9131 (5) | 0.5430 (2) | 0.0726 (12) | |
H5NA | 1.190 (10) | 0.871 (6) | 0.5497 (18) | 0.082 (18)* | |
H5NB | 0.960 (10) | 0.900 (6) | 0.514 (2) | 0.10 (2)* | |
C1 | 0.4820 (8) | 0.6484 (5) | 0.63948 (16) | 0.0568 (11) | |
C2 | 0.2470 (7) | 0.8070 (6) | 0.68382 (18) | 0.0630 (12) | |
C3 | 0.1501 (8) | 0.9554 (6) | 0.70658 (19) | 0.0690 (13) | |
H3 | 0.003885 | 0.944058 | 0.731985 | 0.083* | |
C4 | 0.1412 (10) | 1.1041 (6) | 0.6759 (2) | 0.0820 (15) | |
H4A | 0.201476 | 1.096713 | 0.641069 | 0.098* | |
H4B | −0.010220 | 1.178923 | 0.681769 | 0.098* | |
C5 | 0.3504 (9) | 1.0890 (6) | 0.7148 (2) | 0.0913 (18) | |
H5A | 0.328856 | 1.154211 | 0.744962 | 0.110* | |
H5B | 0.540637 | 1.071967 | 0.704246 | 0.110* | |
C6 | 0.6711 (8) | 0.5670 (5) | 0.60523 (17) | 0.0530 (11) | |
C7 | 0.6770 (9) | 0.4014 (5) | 0.6022 (2) | 0.0677 (13) | |
H7 | 0.558548 | 0.339649 | 0.622056 | 0.081* | |
C8 | 0.8581 (10) | 0.3271 (6) | 0.5697 (2) | 0.0782 (15) | |
H8 | 0.866570 | 0.214969 | 0.567491 | 0.094* | |
C9 | 1.0241 (10) | 0.4218 (6) | 0.5411 (2) | 0.0744 (14) | |
H9 | 1.144768 | 0.370362 | 0.518949 | 0.089* | |
C10 | 0.8517 (8) | 0.6557 (5) | 0.57396 (17) | 0.0541 (11) | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
O1 | 0.0751 (18) | 0.0711 (19) | 0.077 (2) | −0.0089 (17) | 0.0060 (18) | 0.0124 (19) |
N1 | 0.066 (2) | 0.090 (3) | 0.076 (3) | −0.002 (2) | 0.011 (2) | 0.011 (3) |
N2 | 0.0500 (17) | 0.063 (2) | 0.060 (2) | 0.0007 (17) | 0.0040 (18) | 0.002 (2) |
N3 | 0.071 (2) | 0.066 (2) | 0.057 (3) | 0.0128 (19) | −0.004 (2) | −0.009 (2) |
N4 | 0.070 (2) | 0.055 (2) | 0.063 (3) | −0.001 (2) | 0.017 (2) | −0.003 (2) |
N5 | 0.086 (3) | 0.064 (2) | 0.068 (3) | −0.003 (2) | 0.017 (3) | 0.001 (3) |
C1 | 0.049 (2) | 0.067 (3) | 0.055 (3) | −0.006 (2) | −0.005 (2) | 0.012 (2) |
C2 | 0.048 (2) | 0.084 (3) | 0.057 (3) | 0.000 (2) | 0.000 (2) | 0.005 (3) |
C3 | 0.053 (2) | 0.092 (3) | 0.063 (3) | 0.010 (3) | 0.013 (2) | 0.002 (3) |
C4 | 0.074 (3) | 0.086 (3) | 0.086 (4) | 0.004 (3) | 0.008 (3) | −0.002 (3) |
C5 | 0.056 (2) | 0.119 (4) | 0.099 (5) | 0.003 (3) | 0.002 (3) | −0.039 (4) |
C6 | 0.051 (2) | 0.053 (2) | 0.055 (3) | 0.002 (2) | −0.010 (2) | −0.001 (2) |
C7 | 0.079 (3) | 0.053 (2) | 0.072 (3) | −0.003 (3) | −0.012 (3) | −0.001 (3) |
C8 | 0.102 (3) | 0.052 (2) | 0.080 (4) | 0.013 (3) | −0.019 (3) | −0.013 (3) |
C9 | 0.088 (3) | 0.070 (3) | 0.066 (3) | 0.021 (3) | −0.012 (3) | −0.018 (3) |
C10 | 0.056 (2) | 0.056 (2) | 0.050 (3) | 0.002 (2) | −0.007 (2) | −0.002 (2) |
Geometric parameters (Å, º) top
O1—C1 | 1.330 (5) | C3—C5 | 1.484 (6) |
O1—N1 | 1.431 (5) | C3—H3 | 0.9800 |
N1—C2 | 1.297 (5) | C4—C5 | 1.449 (7) |
N2—C1 | 1.298 (5) | C4—H4A | 0.9700 |
N2—C2 | 1.377 (5) | C4—H4B | 0.9700 |
N3—C10 | 1.338 (5) | C5—H5A | 0.9700 |
N3—C9 | 1.343 (5) | C5—H5B | 0.9700 |
N4—C10 | 1.352 (5) | C6—C7 | 1.372 (5) |
N4—N5 | 1.413 (5) | C6—C10 | 1.409 (6) |
N4—H4N | 1.04 (4) | C7—C8 | 1.371 (6) |
N5—H5NA | 0.88 (5) | C7—H7 | 0.9300 |
N5—H5NB | 0.84 (5) | C8—C9 | 1.354 (6) |
C1—C6 | 1.453 (6) | C8—H8 | 0.9300 |
C2—C3 | 1.445 (6) | C9—H9 | 0.9300 |
C3—C4 | 1.475 (6) | | |
| | | |
C1—O1—N1 | 106.2 (3) | C5—C4—H4B | 117.7 |
C2—N1—O1 | 103.0 (3) | C3—C4—H4B | 117.7 |
C1—N2—C2 | 103.0 (4) | H4A—C4—H4B | 114.8 |
C10—N3—C9 | 116.4 (4) | C4—C5—C3 | 60.4 (3) |
C10—N4—N5 | 123.1 (4) | C4—C5—H5A | 117.7 |
C10—N4—H4N | 118 (2) | C3—C5—H5A | 117.7 |
N5—N4—H4N | 119 (2) | C4—C5—H5B | 117.7 |
N4—N5—H5NA | 100 (3) | C3—C5—H5B | 117.7 |
N4—N5—H5NB | 106 (4) | H5A—C5—H5B | 114.9 |
H5NA—N5—H5NB | 118 (5) | C7—C6—C10 | 118.2 (4) |
N2—C1—O1 | 113.3 (4) | C7—C6—C1 | 120.8 (4) |
N2—C1—C6 | 129.0 (4) | C10—C6—C1 | 121.0 (4) |
O1—C1—C6 | 117.8 (4) | C8—C7—C6 | 119.8 (5) |
N1—C2—N2 | 114.5 (4) | C8—C7—H7 | 120.1 |
N1—C2—C3 | 122.4 (4) | C6—C7—H7 | 120.1 |
N2—C2—C3 | 123.2 (4) | C9—C8—C7 | 118.0 (4) |
C2—C3—C4 | 119.1 (4) | C9—C8—H8 | 121.0 |
C2—C3—C5 | 118.9 (4) | C7—C8—H8 | 121.0 |
C4—C3—C5 | 58.6 (3) | N3—C9—C8 | 125.2 (5) |
C2—C3—H3 | 116.0 | N3—C9—H9 | 117.4 |
C4—C3—H3 | 116.0 | C8—C9—H9 | 117.4 |
C5—C3—H3 | 116.0 | N3—C10—N4 | 116.4 (4) |
C5—C4—C3 | 61.0 (3) | N3—C10—C6 | 122.4 (4) |
C5—C4—H4A | 117.7 | N4—C10—C6 | 121.3 (4) |
C3—C4—H4A | 117.7 | | |
| | | |
C1—O1—N1—C2 | −0.5 (4) | O1—C1—C6—C7 | −2.6 (6) |
C2—N2—C1—O1 | −0.1 (5) | N2—C1—C6—C10 | −3.3 (7) |
C2—N2—C1—C6 | −180.0 (4) | O1—C1—C6—C10 | 176.8 (4) |
N1—O1—C1—N2 | 0.4 (5) | C10—C6—C7—C8 | 0.8 (7) |
N1—O1—C1—C6 | −179.7 (3) | C1—C6—C7—C8 | −179.7 (4) |
O1—N1—C2—N2 | 0.5 (5) | C6—C7—C8—C9 | −0.8 (7) |
O1—N1—C2—C3 | −178.0 (4) | C10—N3—C9—C8 | −0.5 (7) |
C1—N2—C2—N1 | −0.3 (5) | C7—C8—C9—N3 | 0.7 (8) |
C1—N2—C2—C3 | 178.2 (4) | C9—N3—C10—N4 | 179.0 (4) |
N1—C2—C3—C4 | −146.1 (5) | C9—N3—C10—C6 | 0.4 (6) |
N2—C2—C3—C4 | 35.5 (6) | N5—N4—C10—N3 | 5.0 (7) |
N1—C2—C3—C5 | 145.8 (5) | N5—N4—C10—C6 | −176.4 (4) |
N2—C2—C3—C5 | −32.5 (7) | C7—C6—C10—N3 | −0.6 (6) |
C2—C3—C4—C5 | −107.9 (5) | C1—C6—C10—N3 | 179.9 (4) |
C2—C3—C5—C4 | 108.3 (5) | C7—C6—C10—N4 | −179.1 (4) |
N2—C1—C6—C7 | 177.2 (4) | C1—C6—C10—N4 | 1.4 (6) |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
N4—H4N···N2 | 1.04 (4) | 1.93 (4) | 2.748 (5) | 133 (3) |
N5—H5NB···N3i | 0.84 (5) | 2.56 (5) | 3.295 (7) | 146 (5) |
N5—H5NA···N3 | 0.88 (5) | 2.51 (5) | 2.720 (6) | 94 (3) |
Symmetry code: (i) x−1/2, −y+3/2, −z+1. |
Selected geometric parameters for molecule 1 in triclinic and
orthorhombic polymorphic crystals topParameter | Structure 1t | Structure 1r |
Bond lengths (Å) | | |
C1—C6 | 1.450 (3) | 1.453 (6) |
N4—N5 | 1.410 (3) | 1.412 (6) |
N4—C10 | 1.345 (4) | 1.352 (5) |
C2—C3 | 1.465 (4) | 1.445 (7) |
| | |
Torsion angles (°) | | |
C7—C6—C1—O1 | -11.2 (4) | -2.7 (6) |
N1—C2—C3—H3 | -3.0 | 0.0 |
N3—C10—N4—N5 | -4.6 (4) | 5.0 (6) |
| | |
Intramolecular hydrogen bonds (Å, °) | | |
N4—H···N2 | | |
H···N | 2.17 (3) | 1.94 (4) |
N—-H···N | 127 (2) | 133 (3) |
N5–H···N3 | | |
H···N | 2.45 (3) | 2.50 (5) |
N—H···N | 97 (2) | 94 (3) |
Geometric characteristics of the intermolecular hydrogen bonds and stacking
interactions in different polymorphic crystals of compound 1 topInteraction | Symmetry operation | Geometric characteristics | |
| | H···A (Å) | D—H···A (°) |
Polymorph 1t | | | |
N5—H5NA···C8(π) | -x+1, -y, -z+1 | 2.87 (3) | 125 (3) |
N5—H5NB···N1(π) | -x+1, -y+1, -z+1 | 2.50 (3) | 148 (3) |
C3—H3···N3(lp) | x+1, y+1, z+1 | 2.57 | 165 |
Stacking mol–mol | -x+1, -y+1, -z+1 | Distance between mean planes is 3.56 Å
Plane-to-plane shift is 2.709 Å
Plane-to-plane twist angle is 0.0° | |
Stacking pyr–pyr | -x+1, -y, -z+1 | Distance between mean planes is 3.41 Å
Plane-to-plane shift is 1.669 Å
Plane-to-plane twist angle is 0.0° | |
Polymorph 1r | | | |
N5—H5NB···N3(lp) | x-1/2, -y+3/2, -z+1 | 2.56 (5) | 146 (4) |
C8—H8···N5(lp) | x, y-1, z | 2.69 | 162 |
Stacking oxadiaz–pyr | x+1, y, z | Distance between mean planes is 3.36 Å
Plane-to-plane shift is 1.761 Å
Plane-to-plane twist angle is 3.3° | |
Symmetry codes, interaction energies of the basic unit with neighbouring units
(Eint, kcal mol-1) with the highest values (more than 5% of the
total interaction energy) and the contribution of this energy to the total
interaction energy (%) in polymorphic crystals 1t (for full list of dimers,
see Tables S1 and S2 in the supporting information) topDimer | Symmetry operation | Eint (kcal mol-1) | Contribution to the total interaction energy (%) | Type of interaction |
Building unit is a molecule | | | | |
1t_m1 | -x+1, -y+1, -z+1 | -14.07 | 23.6 | stacking, N—H···π |
1t_m2 | -x+1, -y, -z+1 | -9.41 | 15.8 | stacking, N—H···π |
1t_m3 | -x+2, -y+1, -z+1 | -6.38 | 10.7 | dispersion |
1t_m4 | -x+2, -y+1, -z+2 | -5.74 | 9.6 | dispersion |
1t_m5 | -x+1, -y+1, -z+2 | -4.78 | 8.0 | C—H···O |
1t_m6 | x+1, y+1, z+1 | -4.15 | 7.0 | C—H···N(pyr) |
1t_m7 | x-1, y-1, z-1 | -4.15 | 7.0 | C—H···N(pyr) |
| | | | |
Building unit is a dimer
(symmetry operation -x+1, -y+1, -z+1) | | | | |
1t_d1 | x+1, y, z | -10.84 | 11.1 | dispersion |
1t_d2 | x-1, y, z | -10.84 | 11.1 | dispersion |
1t_d3 | x+1, y+1, z+1 | -10.47 | 10.7 | C—H···N(pyr) |
1t_d4 | x-1, y-1, z-1 | -10.47 | 10.7 | C—H···N(pyr) |
1t_d5 | x, y-1, z | -10.12 | 10.3 | stacking pyr–pyr |
1t_d6 | x, y+1, z | -10.12 | 10.3 | stacking pyr–pyr |
1t_d7 | x, y, z-1 | -6.48 | 6.6 | C—H···.O (2) |
1t_d8 | x, y,, z+1 | -6.48 | 6.6 | C—H···.O (2) |
1t_d9 | x-1,, z-1 | -6.19 | 6.3 | dispersion |
1t_d10 | x+1, y, z+1 | -6.19 | 6.3 | dispersion |
Symmetry codes, interaction energies of the basic molecule with neighbouring
molecules (Eint, kcal mol-1) with the highest values (more than 5%
of the total interaction energy) and the contribution of this energy to the
total interaction energy (%) in polymorphic crystals 1r (for full list of
dimers, see Table S3 in the supporting information) topDimer | Symmetry operation | Eint (kcal mol-1) | Contribution to the total interaction energy (%) | Type of interaction |
1r_m1 | x+1, y, z | -10.46 | 17.4 | stacking oxadiaz–hydrazine |
1r_m2 | x-1, y, z | -10.46 | 17.4 | stacking oxadiaz–hydrazine |
1r_m3 | x+1/2, -y+3/2, -z+1 | -6.99 | 11.7 | N—H···N(pyr) |
1r_m4 | x-1/2, -y+3/2, -z+1 | -6.99 | 11.7 | N—H···N(pyr) |
1r_m5 | x, y-1, z | -3.96 | 6.6 | C—H···N(lp) |
1r_m6 | x, y+1, z | -3.96 | 6.6 | C—H···N(lp) |
1r_m7 | -x, y+1/2, -z+3/2 | -3.14 | 5.2 | dispersion |
1r_m8 | -x, y-1/2, -z+3/2 | -3.14 | 5.2 | dispersion |
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