Two new 2-(pyridin-2-yl)-1H-benzimidazole derivatives, namely, 2-(4-phenoxypyridin-2-yl)-1H-benzimidazole, C18H13N3O, and 2-[4-(4-fluorophenoxy)pyridin-2-yl]-1H-benzimidazole, C18H12FN3O, were synthesized and characterized by NMR spectroscopy. Crystal structure, biological activity and ADME analyses were performed for these two new compounds and a third compound, namely, 5,6-dimethyl-2-[4-(4-phenylpiperazin-1-yl)pyridin-2-yl]-1H-benzimidazole methanol monosolvate, C24H25N5·CH3OH, the synthesis of which had been described previously. All three compounds have a similar chain hydrogen-bonding pattern. One of them (the fluorophenoxy derivative) showed good antimicrobial activity against Gram-positive bacteria. The ADME analysis indicates that the compounds could be good drug candidates.
Supporting information
CCDC references: 2304588; 2304587; 2304586
5,6-Dimethyl-2-[4-(4-phenylpiperazin-1-yl)pyridin-2-yl]-1
H-1,3-benzodiazole methanol monosolvate (B1)
top
Crystal data top
C24H25N5·CH4O | Dx = 1.270 Mg m−3 |
Mr = 415.53 | Cu Kα radiation, λ = 1.54184 Å |
Orthorhombic, Pbca | Cell parameters from 11676 reflections |
a = 11.20036 (16) Å | θ = 3.1–79.1° |
b = 13.57837 (16) Å | µ = 0.63 mm−1 |
c = 28.5899 (4) Å | T = 100 K |
V = 4348.02 (11) Å3 | Plate, clear light colourless |
Z = 8 | 0.19 × 0.08 × 0.03 mm |
F(000) = 1776 | |
Data collection top
Rigaku XtaLAB Synergy Dualflex diffractometer with a Pilatus 300K detector | 4049 independent reflections |
Radiation source: micro-focus sealed X-ray tube, PhotonJet (Cu) X-ray Source | 3496 reflections with I > 2σ(I) |
Mirror monochromator | Rint = 0.036 |
Detector resolution: 5.8140 pixels mm-1 | θmax = 70.1°, θmin = 3.1° |
ω scans | h = −13→10 |
Absorption correction: gaussian (CrysAlis PRO; Rigaku OD, 2023) | k = −13→16 |
Tmin = 0.857, Tmax = 1.000 | l = −33→33 |
23230 measured reflections | |
Refinement top
Refinement on F2 | Primary atom site location: dual |
Least-squares matrix: full | Hydrogen site location: mixed |
R[F2 > 2σ(F2)] = 0.055 | H atoms treated by a mixture of independent and constrained refinement |
wR(F2) = 0.157 | w = 1/[σ2(Fo2) + (0.1033P)2 + 1.240P] where P = (Fo2 + 2Fc2)/3 |
S = 1.06 | (Δ/σ)max < 0.001 |
4049 reflections | Δρmax = 0.32 e Å−3 |
296 parameters | Δρmin = −0.32 e Å−3 |
1 restraint | |
Special details top
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes)
are estimated using the full covariance matrix. The cell esds are taken
into account individually in the estimation of esds in distances, angles
and torsion angles; correlations between esds in cell parameters are only
used when they are defined by crystal symmetry. An approximate (isotropic)
treatment of cell esds is used for estimating esds involving l.s. planes. |
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top | x | y | z | Uiso*/Ueq | Occ. (<1) |
C1M | 0.5200 (2) | 0.57861 (16) | 0.61031 (8) | 0.0494 (5) | |
H1MA | 0.562801 | 0.546923 | 0.584481 | 0.074* | |
H1MB | 0.526328 | 0.537642 | 0.638423 | 0.074* | |
H1MC | 0.555093 | 0.643431 | 0.616470 | 0.074* | |
O1MA | 0.3996 (2) | 0.58978 (18) | 0.59826 (18) | 0.0344 (11) | 0.83 (2) |
H1MD | 0.374162 | 0.643583 | 0.608777 | 0.052* | 0.83 (2) |
O1MB | 0.3986 (13) | 0.5878 (13) | 0.6192 (18) | 0.081 (7) | 0.17 (2) |
H1ME | 0.359727 | 0.561122 | 0.597490 | 0.121* | 0.17 (2) |
C1 | 0.23333 (15) | 0.82852 (11) | 0.60082 (6) | 0.0294 (4) | |
C8 | 0.16015 (14) | 0.80278 (12) | 0.55966 (6) | 0.0289 (4) | |
C9 | 0.17085 (14) | 0.71156 (11) | 0.53816 (6) | 0.0290 (4) | |
H9 | 0.225601 | 0.664146 | 0.549863 | 0.035* | |
C10 | 0.09960 (15) | 0.68989 (11) | 0.49874 (6) | 0.0292 (4) | |
C11 | 0.02274 (15) | 0.76575 (12) | 0.48393 (6) | 0.0315 (4) | |
H11 | −0.027845 | 0.756070 | 0.457660 | 0.038* | |
C12 | 0.02107 (15) | 0.85440 (12) | 0.50773 (6) | 0.0319 (4) | |
H12 | −0.030918 | 0.904274 | 0.496395 | 0.038* | |
C13 | 0.04878 (16) | 0.59590 (12) | 0.42951 (6) | 0.0347 (4) | |
H13A | 0.094974 | 0.639147 | 0.408302 | 0.042* | |
H13B | −0.033641 | 0.621999 | 0.431172 | 0.042* | |
C14 | 0.04518 (16) | 0.49298 (12) | 0.40899 (6) | 0.0343 (4) | |
H14A | −0.016612 | 0.453772 | 0.425311 | 0.041* | |
H14B | 0.023035 | 0.496843 | 0.375515 | 0.041* | |
C15 | 0.18686 (15) | 0.43351 (12) | 0.46320 (6) | 0.0309 (4) | |
H15A | 0.260190 | 0.393809 | 0.467486 | 0.037* | |
H15B | 0.120128 | 0.399033 | 0.478935 | 0.037* | |
C16 | 0.20391 (15) | 0.53467 (12) | 0.48481 (6) | 0.0311 (4) | |
H16A | 0.215632 | 0.527376 | 0.518952 | 0.037* | |
H16B | 0.276896 | 0.565113 | 0.471668 | 0.037* | |
C17 | 0.16929 (15) | 0.35700 (12) | 0.38560 (6) | 0.0323 (4) | |
C18 | 0.17338 (18) | 0.36791 (14) | 0.33705 (7) | 0.0413 (4) | |
H18 | 0.169512 | 0.431883 | 0.323682 | 0.050* | |
C19 | 0.18303 (19) | 0.28624 (16) | 0.30815 (7) | 0.0467 (5) | |
H19 | 0.186354 | 0.294812 | 0.275200 | 0.056* | |
C20 | 0.18785 (18) | 0.19260 (15) | 0.32687 (7) | 0.0446 (5) | |
H20 | 0.194027 | 0.136746 | 0.307011 | 0.053* | |
C21 | 0.18358 (18) | 0.18118 (14) | 0.37473 (7) | 0.0433 (5) | |
H21 | 0.186888 | 0.116916 | 0.387808 | 0.052* | |
C22 | 0.17451 (16) | 0.26239 (13) | 0.40419 (7) | 0.0378 (4) | |
H22 | 0.171871 | 0.253219 | 0.437111 | 0.045* | |
C23 | 0.4544 (2) | 1.05835 (16) | 0.75573 (8) | 0.0523 (5) | |
H23A | 0.541261 | 1.067037 | 0.755820 | 0.079* | |
H23B | 0.427627 | 1.039154 | 0.787062 | 0.079* | |
H23C | 0.415969 | 1.120383 | 0.746763 | 0.079* | |
C24 | 0.5734 (2) | 0.86619 (17) | 0.75888 (7) | 0.0502 (5) | |
H24A | 0.603738 | 0.798938 | 0.755149 | 0.075* | |
H24B | 0.539620 | 0.873923 | 0.790277 | 0.075* | |
H24C | 0.639003 | 0.913146 | 0.754635 | 0.075* | |
C2 | 0.30412 (15) | 0.92373 (12) | 0.65653 (6) | 0.0318 (4) | |
C3 | 0.33442 (17) | 0.99862 (13) | 0.68789 (7) | 0.0373 (4) | |
H3 | 0.296739 | 1.061228 | 0.686469 | 0.045* | |
C4 | 0.42092 (18) | 0.97872 (14) | 0.72101 (6) | 0.0398 (4) | |
C5 | 0.47811 (17) | 0.88550 (14) | 0.72287 (6) | 0.0398 (4) | |
C6 | 0.44685 (17) | 0.81147 (13) | 0.69134 (6) | 0.0363 (4) | |
H6 | 0.485036 | 0.749039 | 0.692383 | 0.044* | |
C7 | 0.35823 (15) | 0.83094 (12) | 0.65815 (6) | 0.0310 (4) | |
N1 | 0.22564 (14) | 0.92042 (10) | 0.61954 (5) | 0.0316 (3) | |
H1 | 0.177 (2) | 0.9682 (18) | 0.6109 (9) | 0.047* | |
N2 | 0.31218 (13) | 0.77188 (10) | 0.62247 (5) | 0.0303 (3) | |
N3 | 0.08691 (12) | 0.87540 (10) | 0.54543 (5) | 0.0320 (3) | |
N4 | 0.10225 (12) | 0.59985 (10) | 0.47632 (5) | 0.0302 (3) | |
N5 | 0.16097 (12) | 0.44378 (10) | 0.41354 (5) | 0.0314 (3) | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
C1M | 0.0539 (13) | 0.0464 (11) | 0.0478 (12) | 0.0031 (9) | −0.0029 (9) | 0.0039 (9) |
O1MA | 0.0373 (14) | 0.0239 (9) | 0.0420 (19) | −0.0009 (7) | 0.0055 (8) | −0.0037 (9) |
O1MB | 0.106 (12) | 0.045 (6) | 0.092 (19) | −0.001 (6) | 0.056 (10) | −0.011 (9) |
C1 | 0.0317 (8) | 0.0242 (7) | 0.0323 (9) | −0.0037 (6) | 0.0049 (7) | −0.0017 (6) |
C8 | 0.0281 (8) | 0.0263 (7) | 0.0322 (9) | −0.0018 (6) | 0.0036 (6) | 0.0014 (6) |
C9 | 0.0295 (8) | 0.0251 (7) | 0.0325 (9) | −0.0008 (6) | 0.0000 (6) | 0.0016 (6) |
C10 | 0.0285 (8) | 0.0249 (8) | 0.0341 (9) | −0.0021 (6) | 0.0015 (7) | 0.0009 (6) |
C11 | 0.0296 (8) | 0.0294 (8) | 0.0356 (9) | −0.0005 (6) | −0.0013 (7) | 0.0007 (6) |
C12 | 0.0287 (8) | 0.0288 (8) | 0.0383 (10) | 0.0027 (6) | 0.0022 (7) | 0.0026 (6) |
C13 | 0.0355 (9) | 0.0316 (8) | 0.0369 (10) | 0.0049 (7) | −0.0072 (7) | −0.0020 (7) |
C14 | 0.0354 (9) | 0.0324 (9) | 0.0351 (9) | 0.0031 (7) | −0.0074 (7) | −0.0029 (7) |
C15 | 0.0312 (8) | 0.0275 (8) | 0.0339 (9) | 0.0014 (6) | −0.0038 (7) | 0.0004 (6) |
C16 | 0.0314 (8) | 0.0290 (8) | 0.0331 (9) | 0.0013 (6) | −0.0053 (7) | −0.0016 (6) |
C17 | 0.0275 (8) | 0.0310 (8) | 0.0383 (10) | 0.0000 (6) | −0.0032 (7) | −0.0036 (7) |
C18 | 0.0505 (11) | 0.0358 (9) | 0.0375 (10) | 0.0052 (8) | −0.0033 (8) | −0.0003 (8) |
C19 | 0.0559 (12) | 0.0476 (11) | 0.0365 (10) | 0.0080 (9) | −0.0036 (9) | −0.0069 (8) |
C20 | 0.0473 (11) | 0.0397 (10) | 0.0466 (12) | 0.0049 (8) | −0.0054 (9) | −0.0138 (8) |
C21 | 0.0486 (11) | 0.0308 (9) | 0.0506 (12) | −0.0004 (8) | −0.0048 (9) | −0.0025 (8) |
C22 | 0.0409 (10) | 0.0322 (9) | 0.0402 (10) | −0.0015 (7) | −0.0016 (8) | −0.0008 (7) |
C23 | 0.0638 (13) | 0.0518 (12) | 0.0414 (11) | −0.0153 (10) | 0.0020 (10) | −0.0157 (9) |
C24 | 0.0527 (12) | 0.0585 (12) | 0.0394 (11) | −0.0110 (10) | −0.0063 (9) | −0.0066 (9) |
C2 | 0.0350 (9) | 0.0301 (8) | 0.0304 (9) | −0.0060 (7) | 0.0067 (7) | −0.0015 (6) |
C3 | 0.0436 (10) | 0.0303 (8) | 0.0380 (10) | −0.0067 (7) | 0.0097 (8) | −0.0075 (7) |
C4 | 0.0476 (11) | 0.0398 (9) | 0.0319 (10) | −0.0146 (8) | 0.0083 (8) | −0.0082 (7) |
C5 | 0.0421 (10) | 0.0452 (10) | 0.0320 (9) | −0.0123 (8) | 0.0010 (7) | −0.0019 (8) |
C6 | 0.0420 (10) | 0.0335 (9) | 0.0334 (9) | −0.0057 (7) | −0.0006 (7) | 0.0000 (7) |
C7 | 0.0360 (9) | 0.0284 (8) | 0.0286 (9) | −0.0068 (6) | 0.0024 (7) | −0.0020 (6) |
N1 | 0.0343 (8) | 0.0256 (7) | 0.0350 (8) | −0.0010 (6) | 0.0029 (6) | −0.0026 (6) |
N2 | 0.0341 (7) | 0.0253 (6) | 0.0314 (7) | −0.0035 (5) | −0.0007 (6) | −0.0016 (5) |
N3 | 0.0317 (7) | 0.0271 (6) | 0.0372 (8) | −0.0003 (5) | 0.0031 (6) | −0.0006 (6) |
N4 | 0.0311 (7) | 0.0256 (6) | 0.0339 (8) | 0.0014 (5) | −0.0057 (6) | −0.0016 (5) |
N5 | 0.0323 (7) | 0.0289 (7) | 0.0330 (8) | 0.0027 (5) | −0.0043 (6) | −0.0022 (6) |
Geometric parameters (Å, º) top
C1M—H1MA | 0.9800 | C16—N4 | 1.462 (2) |
C1M—H1MB | 0.9800 | C17—C18 | 1.397 (3) |
C1M—H1MC | 0.9800 | C17—C22 | 1.391 (2) |
C1M—O1MA | 1.399 (3) | C17—N5 | 1.427 (2) |
C1M—O1MB | 1.389 (9) | C18—H18 | 0.9500 |
O1MA—H1MD | 0.8400 | C18—C19 | 1.387 (3) |
O1MB—H1ME | 0.8400 | C19—H19 | 0.9500 |
C1—C8 | 1.476 (2) | C19—C20 | 1.381 (3) |
C1—N1 | 1.360 (2) | C20—H20 | 0.9500 |
C1—N2 | 1.325 (2) | C20—C21 | 1.378 (3) |
C8—C9 | 1.388 (2) | C21—H21 | 0.9500 |
C8—N3 | 1.346 (2) | C21—C22 | 1.391 (3) |
C9—H9 | 0.9500 | C22—H22 | 0.9500 |
C9—C10 | 1.412 (2) | C23—H23A | 0.9800 |
C10—C11 | 1.408 (2) | C23—H23B | 0.9800 |
C10—N4 | 1.381 (2) | C23—H23C | 0.9800 |
C11—H11 | 0.9500 | C23—C4 | 1.515 (2) |
C11—C12 | 1.383 (2) | C24—H24A | 0.9800 |
C12—H12 | 0.9500 | C24—H24B | 0.9800 |
C12—N3 | 1.337 (2) | C24—H24C | 0.9800 |
C13—H13A | 0.9900 | C24—C5 | 1.506 (3) |
C13—H13B | 0.9900 | C2—C3 | 1.397 (2) |
C13—C14 | 1.516 (2) | C2—C7 | 1.399 (2) |
C13—N4 | 1.467 (2) | C2—N1 | 1.376 (2) |
C14—H14A | 0.9900 | C3—H3 | 0.9500 |
C14—H14B | 0.9900 | C3—C4 | 1.381 (3) |
C14—N5 | 1.465 (2) | C4—C5 | 1.420 (3) |
C15—H15A | 0.9900 | C5—C6 | 1.395 (3) |
C15—H15B | 0.9900 | C6—H6 | 0.9500 |
C15—C16 | 1.518 (2) | C6—C7 | 1.398 (3) |
C15—N5 | 1.456 (2) | C7—N2 | 1.396 (2) |
C16—H16A | 0.9900 | N1—H1 | 0.88 (3) |
C16—H16B | 0.9900 | | |
| | | |
H1MA—C1M—H1MB | 109.5 | C19—C18—H18 | 119.7 |
H1MA—C1M—H1MC | 109.5 | C18—C19—H19 | 119.7 |
H1MB—C1M—H1MC | 109.5 | C20—C19—C18 | 120.56 (19) |
O1MA—C1M—H1MA | 109.5 | C20—C19—H19 | 119.7 |
O1MA—C1M—H1MB | 109.5 | C19—C20—H20 | 120.4 |
O1MA—C1M—H1MC | 109.5 | C21—C20—C19 | 119.16 (18) |
C1M—O1MA—H1MD | 109.5 | C21—C20—H20 | 120.4 |
C1M—O1MB—H1ME | 109.5 | C20—C21—H21 | 119.5 |
N1—C1—C8 | 119.70 (15) | C20—C21—C22 | 120.95 (18) |
N2—C1—C8 | 127.25 (14) | C22—C21—H21 | 119.5 |
N2—C1—N1 | 113.02 (15) | C17—C22—H22 | 119.9 |
C9—C8—C1 | 121.09 (15) | C21—C22—C17 | 120.25 (18) |
N3—C8—C1 | 113.95 (14) | C21—C22—H22 | 119.9 |
N3—C8—C9 | 124.95 (16) | H23A—C23—H23B | 109.5 |
C8—C9—H9 | 120.3 | H23A—C23—H23C | 109.5 |
C8—C9—C10 | 119.38 (15) | H23B—C23—H23C | 109.5 |
C10—C9—H9 | 120.3 | C4—C23—H23A | 109.5 |
C11—C10—C9 | 115.67 (15) | C4—C23—H23B | 109.5 |
N4—C10—C9 | 122.89 (15) | C4—C23—H23C | 109.5 |
N4—C10—C11 | 121.43 (15) | H24A—C24—H24B | 109.5 |
C10—C11—H11 | 120.1 | H24A—C24—H24C | 109.5 |
C12—C11—C10 | 119.83 (16) | H24B—C24—H24C | 109.5 |
C12—C11—H11 | 120.1 | C5—C24—H24A | 109.5 |
C11—C12—H12 | 117.5 | C5—C24—H24B | 109.5 |
N3—C12—C11 | 125.09 (15) | C5—C24—H24C | 109.5 |
N3—C12—H12 | 117.5 | C3—C2—C7 | 121.93 (17) |
H13A—C13—H13B | 107.7 | N1—C2—C3 | 132.22 (16) |
C14—C13—H13A | 108.9 | N1—C2—C7 | 105.83 (14) |
C14—C13—H13B | 108.9 | C2—C3—H3 | 121.1 |
N4—C13—H13A | 108.9 | C4—C3—C2 | 117.89 (17) |
N4—C13—H13B | 108.9 | C4—C3—H3 | 121.1 |
N4—C13—C14 | 113.43 (14) | C3—C4—C23 | 118.89 (19) |
C13—C14—H14A | 109.4 | C3—C4—C5 | 121.11 (16) |
C13—C14—H14B | 109.4 | C5—C4—C23 | 120.01 (19) |
H14A—C14—H14B | 108.0 | C4—C5—C24 | 120.05 (17) |
N5—C14—C13 | 111.25 (14) | C6—C5—C24 | 119.62 (18) |
N5—C14—H14A | 109.4 | C6—C5—C4 | 120.33 (18) |
N5—C14—H14B | 109.4 | C5—C6—H6 | 120.6 |
H15A—C15—H15B | 108.2 | C5—C6—C7 | 118.72 (17) |
C16—C15—H15A | 109.8 | C7—C6—H6 | 120.6 |
C16—C15—H15B | 109.8 | C6—C7—C2 | 120.02 (16) |
N5—C15—H15A | 109.8 | N2—C7—C2 | 109.45 (15) |
N5—C15—H15B | 109.8 | N2—C7—C6 | 130.49 (16) |
N5—C15—C16 | 109.58 (13) | C1—N1—C2 | 106.97 (14) |
C15—C16—H16A | 109.1 | C1—N1—H1 | 127.0 (16) |
C15—C16—H16B | 109.1 | C2—N1—H1 | 125.9 (16) |
H16A—C16—H16B | 107.8 | C1—N2—C7 | 104.72 (14) |
N4—C16—C15 | 112.47 (13) | C12—N3—C8 | 115.07 (14) |
N4—C16—H16A | 109.1 | C10—N4—C13 | 116.56 (13) |
N4—C16—H16B | 109.1 | C10—N4—C16 | 118.40 (13) |
C18—C17—N5 | 118.10 (16) | C16—N4—C13 | 116.54 (13) |
C22—C17—C18 | 118.42 (17) | C15—N5—C14 | 107.86 (13) |
C22—C17—N5 | 123.47 (17) | C17—N5—C14 | 112.63 (13) |
C17—C18—H18 | 119.7 | C17—N5—C15 | 117.00 (13) |
C19—C18—C17 | 120.65 (18) | | |
| | | |
C1—C8—C9—C10 | −179.75 (15) | C23—C4—C5—C24 | −0.9 (3) |
C1—C8—N3—C12 | 178.97 (14) | C23—C4—C5—C6 | 179.32 (18) |
C8—C1—N1—C2 | −179.07 (14) | C24—C5—C6—C7 | −179.93 (17) |
C8—C1—N2—C7 | 178.71 (16) | C2—C3—C4—C23 | −179.36 (17) |
C8—C9—C10—C11 | 0.8 (2) | C2—C3—C4—C5 | 0.6 (3) |
C8—C9—C10—N4 | −177.91 (15) | C2—C7—N2—C1 | −0.20 (18) |
C9—C8—N3—C12 | 0.2 (2) | C3—C2—C7—C6 | −1.1 (3) |
C9—C10—C11—C12 | 0.1 (2) | C3—C2—C7—N2 | −179.08 (15) |
C9—C10—N4—C13 | −164.45 (16) | C3—C2—N1—C1 | 179.26 (18) |
C9—C10—N4—C16 | −17.5 (2) | C3—C4—C5—C24 | 179.09 (18) |
C10—C11—C12—N3 | −1.1 (3) | C3—C4—C5—C6 | −0.6 (3) |
C11—C10—N4—C13 | 16.9 (2) | C4—C5—C6—C7 | −0.2 (3) |
C11—C10—N4—C16 | 163.83 (15) | C5—C6—C7—C2 | 1.0 (3) |
C11—C12—N3—C8 | 0.9 (2) | C5—C6—C7—N2 | 178.54 (17) |
C13—C14—N5—C15 | 62.80 (18) | C6—C7—N2—C1 | −177.91 (18) |
C13—C14—N5—C17 | −166.58 (15) | C7—C2—C3—C4 | 0.3 (3) |
C14—C13—N4—C10 | −174.85 (15) | C7—C2—N1—C1 | 0.64 (18) |
C14—C13—N4—C16 | 37.6 (2) | N1—C1—C8—C9 | 176.35 (15) |
C15—C16—N4—C10 | 172.30 (14) | N1—C1—C8—N3 | −2.4 (2) |
C15—C16—N4—C13 | −40.7 (2) | N1—C1—N2—C7 | 0.63 (19) |
C16—C15—N5—C14 | −65.78 (17) | N1—C2—C3—C4 | −178.19 (18) |
C16—C15—N5—C17 | 166.06 (14) | N1—C2—C7—C6 | 177.71 (15) |
C17—C18—C19—C20 | 0.5 (3) | N1—C2—C7—N2 | −0.28 (19) |
C18—C17—C22—C21 | 0.0 (3) | N2—C1—C8—C9 | −1.6 (3) |
C18—C17—N5—C14 | 69.2 (2) | N2—C1—C8—N3 | 179.60 (15) |
C18—C17—N5—C15 | −164.96 (16) | N2—C1—N1—C2 | −0.82 (19) |
C18—C19—C20—C21 | −0.3 (3) | N3—C8—C9—C10 | −1.1 (3) |
C19—C20—C21—C22 | 0.0 (3) | N4—C10—C11—C12 | 178.91 (15) |
C20—C21—C22—C17 | 0.2 (3) | N4—C13—C14—N5 | −48.2 (2) |
C22—C17—C18—C19 | −0.3 (3) | N5—C15—C16—N4 | 54.72 (19) |
C22—C17—N5—C14 | −111.33 (19) | N5—C17—C18—C19 | 179.16 (17) |
C22—C17—N5—C15 | 14.5 (2) | N5—C17—C22—C21 | −179.45 (17) |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
O1MA—H1MD···N2 | 0.84 | 1.92 | 2.748 (3) | 171 |
O1MB—H1ME···N1i | 0.84 | 2.23 | 2.665 (16) | 113 |
C9—H9···O1MA | 0.95 | 2.59 | 3.500 (3) | 160 |
N1—H1···O1MAii | 0.88 (3) | 1.90 (3) | 2.762 (3) | 167 (2) |
N1—H1···O1MBii | 0.88 (3) | 1.85 (3) | 2.665 (16) | 153 (3) |
Symmetry codes: (i) −x+1/2, y−1/2, z; (ii) −x+1/2, y+1/2, z. |
2-(4-Phenoxypyridin-2-yl)-1
H-1,3-benzodiazole (B2)
top
Crystal data top
C18H13N3O | F(000) = 600 |
Mr = 287.31 | Dx = 1.365 Mg m−3 |
Monoclinic, P21/c | Cu Kα radiation, λ = 1.54184 Å |
a = 11.0255 (3) Å | Cell parameters from 7686 reflections |
b = 13.8022 (3) Å | θ = 4.5–77.1° |
c = 10.1885 (3) Å | µ = 0.70 mm−1 |
β = 115.648 (3)° | T = 100 K |
V = 1397.68 (7) Å3 | Plate, clear light colourless |
Z = 4 | 0.60 × 0.14 × 0.02 mm |
Data collection top
Rigaku XtaLAB Synergy Dualflex diffractometer with a Pilatus 300K detector | 2824 independent reflections |
Radiation source: micro-focus sealed X-ray tube, PhotonJet (Cu) X-ray Source | 2502 reflections with I > 2σ(I) |
Mirror monochromator | Rint = 0.047 |
Detector resolution: 5.8140 pixels mm-1 | θmax = 78.3°, θmin = 4.5° |
ω scans | h = −13→12 |
Absorption correction: gaussian (CrysAlis PRO; Rigaku OD, 2023) | k = −17→16 |
Tmin = 0.512, Tmax = 1.000 | l = −12→12 |
17391 measured reflections | |
Refinement top
Refinement on F2 | Primary atom site location: dual |
Least-squares matrix: full | Hydrogen site location: mixed |
R[F2 > 2σ(F2)] = 0.046 | H atoms treated by a mixture of independent and constrained refinement |
wR(F2) = 0.124 | w = 1/[σ2(Fo2) + (0.0742P)2 + 0.3403P] where P = (Fo2 + 2Fc2)/3 |
S = 1.09 | (Δ/σ)max < 0.001 |
2824 reflections | Δρmax = 0.26 e Å−3 |
202 parameters | Δρmin = −0.31 e Å−3 |
0 restraints | |
Special details top
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes)
are estimated using the full covariance matrix. The cell esds are taken
into account individually in the estimation of esds in distances, angles
and torsion angles; correlations between esds in cell parameters are only
used when they are defined by crystal symmetry. An approximate (isotropic)
treatment of cell esds is used for estimating esds involving l.s. planes. |
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top | x | y | z | Uiso*/Ueq | |
N1 | 0.64883 (11) | 0.73729 (8) | 0.40006 (11) | 0.0223 (3) | |
H1 | 0.6202 (17) | 0.7237 (13) | 0.301 (2) | 0.033* | |
O1 | 0.22642 (10) | 0.52750 (8) | 0.53489 (10) | 0.0287 (3) | |
N2 | 0.63390 (11) | 0.75725 (8) | 0.61109 (11) | 0.0220 (3) | |
N3 | 0.43977 (12) | 0.60524 (9) | 0.29906 (12) | 0.0247 (3) | |
C1 | 0.58107 (13) | 0.71534 (10) | 0.48093 (13) | 0.0211 (3) | |
C2 | 0.75451 (13) | 0.79656 (10) | 0.48359 (13) | 0.0221 (3) | |
C3 | 0.85979 (14) | 0.83712 (10) | 0.46105 (14) | 0.0244 (3) | |
H3 | 0.867645 | 0.827246 | 0.372768 | 0.029* | |
C4 | 0.95190 (14) | 0.89212 (10) | 0.57237 (15) | 0.0257 (3) | |
H4 | 1.025239 | 0.920424 | 0.560831 | 0.031* | |
C5 | 0.93984 (14) | 0.90745 (10) | 0.70341 (15) | 0.0259 (3) | |
H5 | 1.004068 | 0.946980 | 0.777085 | 0.031* | |
C6 | 0.83686 (14) | 0.86623 (10) | 0.72650 (14) | 0.0238 (3) | |
H6 | 0.829673 | 0.876315 | 0.815100 | 0.029* | |
C7 | 0.74328 (13) | 0.80911 (10) | 0.61546 (13) | 0.0215 (3) | |
C8 | 0.46862 (13) | 0.64688 (10) | 0.42880 (13) | 0.0214 (3) | |
C9 | 0.40202 (13) | 0.62599 (10) | 0.51510 (14) | 0.0229 (3) | |
H9 | 0.424323 | 0.658615 | 0.604711 | 0.028* | |
C10 | 0.30257 (14) | 0.55611 (10) | 0.46519 (14) | 0.0233 (3) | |
C11 | 0.27382 (14) | 0.50946 (10) | 0.33357 (15) | 0.0244 (3) | |
H11 | 0.208134 | 0.459552 | 0.298685 | 0.029* | |
C12 | 0.34340 (14) | 0.53777 (11) | 0.25538 (14) | 0.0256 (3) | |
H12 | 0.321264 | 0.507197 | 0.164304 | 0.031* | |
C13 | 0.23766 (14) | 0.57783 (10) | 0.65961 (14) | 0.0255 (3) | |
C14 | 0.13158 (16) | 0.63543 (11) | 0.64702 (16) | 0.0323 (3) | |
H14 | 0.058650 | 0.646814 | 0.554599 | 0.039* | |
C15 | 0.13298 (18) | 0.67696 (12) | 0.77272 (18) | 0.0375 (4) | |
H15 | 0.060176 | 0.716542 | 0.766473 | 0.045* | |
C16 | 0.24039 (18) | 0.66039 (11) | 0.90613 (17) | 0.0354 (4) | |
H16 | 0.240724 | 0.688051 | 0.991668 | 0.043* | |
C17 | 0.34768 (16) | 0.60362 (11) | 0.91587 (15) | 0.0325 (4) | |
H17 | 0.422153 | 0.593764 | 1.007659 | 0.039* | |
C18 | 0.34662 (15) | 0.56110 (11) | 0.79179 (15) | 0.0282 (3) | |
H18 | 0.419187 | 0.521393 | 0.797678 | 0.034* | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
N1 | 0.0268 (6) | 0.0282 (6) | 0.0140 (5) | −0.0003 (5) | 0.0108 (4) | 0.0001 (4) |
O1 | 0.0338 (6) | 0.0363 (6) | 0.0224 (5) | −0.0103 (4) | 0.0183 (4) | −0.0068 (4) |
N2 | 0.0255 (6) | 0.0269 (6) | 0.0146 (5) | 0.0004 (5) | 0.0097 (4) | −0.0002 (4) |
N3 | 0.0274 (6) | 0.0315 (6) | 0.0159 (5) | 0.0005 (5) | 0.0102 (4) | −0.0018 (4) |
C1 | 0.0244 (7) | 0.0265 (7) | 0.0148 (5) | 0.0031 (5) | 0.0107 (5) | 0.0019 (5) |
C2 | 0.0281 (7) | 0.0231 (7) | 0.0165 (6) | 0.0029 (5) | 0.0111 (5) | 0.0026 (5) |
C3 | 0.0297 (7) | 0.0271 (7) | 0.0194 (6) | 0.0024 (5) | 0.0133 (5) | 0.0051 (5) |
C4 | 0.0282 (7) | 0.0247 (7) | 0.0265 (7) | 0.0002 (6) | 0.0141 (6) | 0.0043 (5) |
C5 | 0.0287 (7) | 0.0240 (7) | 0.0235 (7) | −0.0001 (5) | 0.0097 (6) | 0.0001 (5) |
C6 | 0.0283 (7) | 0.0250 (7) | 0.0188 (6) | 0.0020 (5) | 0.0107 (5) | −0.0005 (5) |
C7 | 0.0254 (7) | 0.0239 (6) | 0.0169 (6) | 0.0031 (5) | 0.0108 (5) | 0.0025 (5) |
C8 | 0.0246 (7) | 0.0256 (7) | 0.0148 (6) | 0.0034 (5) | 0.0093 (5) | 0.0018 (5) |
C9 | 0.0265 (7) | 0.0275 (7) | 0.0160 (6) | 0.0012 (5) | 0.0102 (5) | 0.0002 (5) |
C10 | 0.0256 (7) | 0.0274 (7) | 0.0190 (6) | 0.0027 (5) | 0.0118 (5) | 0.0034 (5) |
C11 | 0.0248 (7) | 0.0257 (7) | 0.0219 (6) | −0.0004 (5) | 0.0094 (5) | −0.0017 (5) |
C12 | 0.0272 (7) | 0.0323 (7) | 0.0173 (6) | 0.0004 (6) | 0.0097 (5) | −0.0042 (5) |
C13 | 0.0333 (8) | 0.0278 (7) | 0.0209 (6) | −0.0061 (6) | 0.0168 (6) | −0.0014 (5) |
C14 | 0.0375 (8) | 0.0348 (8) | 0.0265 (7) | 0.0045 (7) | 0.0157 (6) | 0.0075 (6) |
C15 | 0.0527 (10) | 0.0308 (8) | 0.0413 (9) | 0.0087 (7) | 0.0317 (8) | 0.0052 (7) |
C16 | 0.0579 (10) | 0.0286 (8) | 0.0300 (7) | −0.0085 (7) | 0.0286 (7) | −0.0050 (6) |
C17 | 0.0393 (9) | 0.0371 (8) | 0.0216 (7) | −0.0114 (7) | 0.0139 (6) | −0.0013 (6) |
C18 | 0.0290 (7) | 0.0327 (8) | 0.0268 (7) | −0.0027 (6) | 0.0156 (6) | 0.0014 (6) |
Geometric parameters (Å, º) top
N1—H1 | 0.938 (19) | C6—C7 | 1.3984 (19) |
N1—C1 | 1.3644 (16) | C8—C9 | 1.3980 (17) |
N1—C2 | 1.3758 (18) | C9—H9 | 0.9500 |
O1—C10 | 1.3716 (16) | C9—C10 | 1.381 (2) |
O1—C13 | 1.4058 (16) | C10—C11 | 1.3948 (19) |
N2—C1 | 1.3281 (16) | C11—H11 | 0.9500 |
N2—C7 | 1.3864 (17) | C11—C12 | 1.3801 (19) |
N3—C8 | 1.3471 (16) | C12—H12 | 0.9500 |
N3—C12 | 1.3360 (19) | C13—C14 | 1.373 (2) |
C1—C8 | 1.4635 (19) | C13—C18 | 1.382 (2) |
C2—C3 | 1.3944 (19) | C14—H14 | 0.9500 |
C2—C7 | 1.4122 (17) | C14—C15 | 1.397 (2) |
C3—H3 | 0.9500 | C15—H15 | 0.9500 |
C3—C4 | 1.377 (2) | C15—C16 | 1.382 (2) |
C4—H4 | 0.9500 | C16—H16 | 0.9500 |
C4—C5 | 1.4136 (19) | C16—C17 | 1.386 (2) |
C5—H5 | 0.9500 | C17—H17 | 0.9500 |
C5—C6 | 1.378 (2) | C17—C18 | 1.389 (2) |
C6—H6 | 0.9500 | C18—H18 | 0.9500 |
| | | |
C1—N1—H1 | 126.1 (11) | C8—C9—H9 | 121.2 |
C1—N1—C2 | 107.28 (10) | C10—C9—C8 | 117.50 (12) |
C2—N1—H1 | 125.8 (11) | C10—C9—H9 | 121.2 |
C10—O1—C13 | 119.44 (11) | O1—C10—C9 | 125.21 (12) |
C1—N2—C7 | 104.86 (10) | O1—C10—C11 | 115.45 (12) |
C12—N3—C8 | 116.13 (11) | C9—C10—C11 | 119.34 (12) |
N1—C1—C8 | 121.56 (11) | C10—C11—H11 | 120.9 |
N2—C1—N1 | 112.83 (12) | C12—C11—C10 | 118.20 (13) |
N2—C1—C8 | 125.46 (11) | C12—C11—H11 | 120.9 |
N1—C2—C3 | 132.80 (12) | N3—C12—C11 | 124.44 (12) |
N1—C2—C7 | 105.18 (11) | N3—C12—H12 | 117.8 |
C3—C2—C7 | 121.97 (12) | C11—C12—H12 | 117.8 |
C2—C3—H3 | 121.5 | C14—C13—O1 | 117.60 (13) |
C4—C3—C2 | 117.09 (12) | C14—C13—C18 | 122.25 (13) |
C4—C3—H3 | 121.5 | C18—C13—O1 | 119.84 (13) |
C3—C4—H4 | 119.2 | C13—C14—H14 | 120.6 |
C3—C4—C5 | 121.53 (13) | C13—C14—C15 | 118.74 (14) |
C5—C4—H4 | 119.2 | C15—C14—H14 | 120.6 |
C4—C5—H5 | 119.3 | C14—C15—H15 | 120.0 |
C6—C5—C4 | 121.38 (13) | C16—C15—C14 | 119.90 (15) |
C6—C5—H5 | 119.3 | C16—C15—H15 | 120.0 |
C5—C6—H6 | 121.0 | C15—C16—H16 | 119.8 |
C5—C6—C7 | 117.94 (12) | C15—C16—C17 | 120.37 (14) |
C7—C6—H6 | 121.0 | C17—C16—H16 | 119.8 |
N2—C7—C2 | 109.84 (11) | C16—C17—H17 | 119.9 |
N2—C7—C6 | 130.09 (11) | C16—C17—C18 | 120.19 (14) |
C6—C7—C2 | 120.07 (12) | C18—C17—H17 | 119.9 |
N3—C8—C1 | 115.77 (11) | C13—C18—C17 | 118.53 (14) |
N3—C8—C9 | 124.32 (13) | C13—C18—H18 | 120.7 |
C9—C8—C1 | 119.87 (11) | C17—C18—H18 | 120.7 |
| | | |
N1—C1—C8—N3 | 2.00 (19) | C5—C6—C7—N2 | 177.72 (13) |
N1—C1—C8—C9 | 179.76 (12) | C5—C6—C7—C2 | −1.16 (19) |
N1—C2—C3—C4 | −178.25 (13) | C7—N2—C1—N1 | −0.42 (15) |
N1—C2—C7—N2 | 0.73 (15) | C7—N2—C1—C8 | 175.31 (12) |
N1—C2—C7—C6 | 179.83 (12) | C7—C2—C3—C4 | −1.3 (2) |
O1—C10—C11—C12 | 177.50 (12) | C8—N3—C12—C11 | 0.1 (2) |
O1—C13—C14—C15 | 172.41 (13) | C8—C9—C10—O1 | −179.23 (12) |
O1—C13—C18—C17 | −172.98 (12) | C8—C9—C10—C11 | 0.5 (2) |
N2—C1—C8—N3 | −173.38 (12) | C9—C10—C11—C12 | −2.3 (2) |
N2—C1—C8—C9 | 4.4 (2) | C10—O1—C13—C14 | 108.48 (15) |
N3—C8—C9—C10 | 1.8 (2) | C10—O1—C13—C18 | −77.72 (17) |
C1—N1—C2—C3 | 176.37 (14) | C10—C11—C12—N3 | 2.0 (2) |
C1—N1—C2—C7 | −0.95 (14) | C12—N3—C8—C1 | 175.56 (12) |
C1—N2—C7—C2 | −0.21 (14) | C12—N3—C8—C9 | −2.1 (2) |
C1—N2—C7—C6 | −179.19 (14) | C13—O1—C10—C9 | 6.8 (2) |
C1—C8—C9—C10 | −175.78 (12) | C13—O1—C10—C11 | −172.94 (12) |
C2—N1—C1—N2 | 0.90 (15) | C13—C14—C15—C16 | 0.6 (2) |
C2—N1—C1—C8 | −175.02 (11) | C14—C13—C18—C17 | 0.5 (2) |
C2—C3—C4—C5 | −0.4 (2) | C14—C15—C16—C17 | 0.7 (2) |
C3—C2—C7—N2 | −176.95 (12) | C15—C16—C17—C18 | −1.5 (2) |
C3—C2—C7—C6 | 2.1 (2) | C16—C17—C18—C13 | 0.8 (2) |
C3—C4—C5—C6 | 1.4 (2) | C18—C13—C14—C15 | −1.2 (2) |
C4—C5—C6—C7 | −0.5 (2) | | |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1···N2i | 0.938 (19) | 2.021 (19) | 2.8778 (14) | 151.1 (15) |
Symmetry code: (i) x, −y+3/2, z−1/2. |
2-[4-(4-Fluorophenoxy)pyridin-2-yl]-1
H-1,3-benzodiazole (B3)
top
Crystal data top
C18H12FN3O | Dx = 1.393 Mg m−3 |
Mr = 305.31 | Cu Kα radiation, λ = 1.54184 Å |
Orthorhombic, Pbca | Cell parameters from 24629 reflections |
a = 9.91438 (15) Å | θ = 4.7–78.6° |
b = 9.90501 (15) Å | µ = 0.81 mm−1 |
c = 29.6408 (4) Å | T = 100 K |
V = 2910.78 (7) Å3 | Block, clear light brown |
Z = 8 | 0.73 × 0.10 × 0.08 mm |
F(000) = 1264 | |
Data collection top
Rigaku XtaLAB Synergy Dualflex diffractometer with a Pilatus 300K detector | 2991 independent reflections |
Radiation source: micro-focus sealed X-ray tube, PhotonJet (Cu) X-ray Source | 2777 reflections with I > 2σ(I) |
Mirror monochromator | Rint = 0.089 |
Detector resolution: 5.8140 pixels mm-1 | θmax = 78.7°, θmin = 3.0° |
ω scans | h = −11→12 |
Absorption correction: gaussian (CrysAlis PRO; Rigaku OD, 2023) | k = −11→12 |
Tmin = 0.424, Tmax = 1.000 | l = −35→36 |
45410 measured reflections | |
Refinement top
Refinement on F2 | Hydrogen site location: mixed |
Least-squares matrix: full | H atoms treated by a mixture of independent and constrained refinement |
R[F2 > 2σ(F2)] = 0.038 | w = 1/[σ2(Fo2) + (0.052P)2 + 0.9564P] where P = (Fo2 + 2Fc2)/3 |
wR(F2) = 0.101 | (Δ/σ)max = 0.001 |
S = 1.05 | Δρmax = 0.28 e Å−3 |
2991 reflections | Δρmin = −0.23 e Å−3 |
212 parameters | Extinction correction: SHELXL-2019/2 (Sheldrick 2019), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4 |
0 restraints | Extinction coefficient: 0.00077 (14) |
Primary atom site location: dual | |
Special details top
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes)
are estimated using the full covariance matrix. The cell esds are taken
into account individually in the estimation of esds in distances, angles
and torsion angles; correlations between esds in cell parameters are only
used when they are defined by crystal symmetry. An approximate (isotropic)
treatment of cell esds is used for estimating esds involving l.s. planes. |
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top | x | y | z | Uiso*/Ueq | |
F1 | 0.71449 (9) | −0.03890 (9) | 0.51292 (3) | 0.0485 (3) | |
O1 | 0.38866 (9) | 0.37489 (9) | 0.56804 (3) | 0.0323 (2) | |
N1 | 0.77708 (10) | 0.72855 (10) | 0.67477 (3) | 0.0214 (2) | |
H1 | 0.7379 (14) | 0.8126 (15) | 0.6716 (5) | 0.026* | |
N2 | 0.80628 (10) | 0.50410 (9) | 0.67013 (3) | 0.0214 (2) | |
N3 | 0.51128 (10) | 0.70449 (11) | 0.64462 (4) | 0.0290 (2) | |
C1 | 0.72521 (11) | 0.60747 (11) | 0.66194 (4) | 0.0209 (2) | |
C2 | 0.90391 (12) | 0.70266 (11) | 0.69204 (3) | 0.0211 (3) | |
C3 | 1.00568 (12) | 0.78775 (12) | 0.70779 (4) | 0.0250 (3) | |
H3 | 0.993116 | 0.882643 | 0.709822 | 0.030* | |
C4 | 1.12558 (13) | 0.72742 (13) | 0.72030 (4) | 0.0275 (3) | |
H4 | 1.197241 | 0.782161 | 0.731161 | 0.033* | |
C5 | 1.14423 (13) | 0.58678 (13) | 0.71735 (4) | 0.0274 (3) | |
H5 | 1.228155 | 0.548968 | 0.726263 | 0.033* | |
C6 | 1.04348 (12) | 0.50243 (12) | 0.70180 (4) | 0.0240 (3) | |
H6 | 1.056669 | 0.407609 | 0.699859 | 0.029* | |
C7 | 0.92108 (12) | 0.56193 (11) | 0.68899 (3) | 0.0210 (2) | |
C8 | 0.59324 (11) | 0.59771 (12) | 0.63931 (4) | 0.0226 (3) | |
C9 | 0.56187 (12) | 0.48401 (11) | 0.61366 (4) | 0.0223 (2) | |
H9 | 0.624387 | 0.412068 | 0.610192 | 0.027* | |
C10 | 0.43571 (12) | 0.48002 (12) | 0.59339 (4) | 0.0248 (3) | |
C11 | 0.34880 (13) | 0.58854 (14) | 0.59851 (4) | 0.0310 (3) | |
H11 | 0.262244 | 0.588250 | 0.584767 | 0.037* | |
C12 | 0.39107 (14) | 0.69701 (14) | 0.62406 (5) | 0.0337 (3) | |
H12 | 0.331115 | 0.771192 | 0.627297 | 0.040* | |
C13 | 0.47788 (12) | 0.27181 (13) | 0.55537 (4) | 0.0267 (3) | |
C14 | 0.49642 (12) | 0.16264 (14) | 0.58345 (4) | 0.0302 (3) | |
H14 | 0.454715 | 0.160204 | 0.612294 | 0.036* | |
C15 | 0.57679 (14) | 0.05614 (14) | 0.56911 (4) | 0.0331 (3) | |
H15 | 0.590435 | −0.020810 | 0.587690 | 0.040* | |
C16 | 0.63625 (13) | 0.06515 (14) | 0.52717 (5) | 0.0333 (3) | |
C17 | 0.61887 (14) | 0.17365 (14) | 0.49899 (5) | 0.0347 (3) | |
H17 | 0.661681 | 0.176497 | 0.470330 | 0.042* | |
C18 | 0.53741 (13) | 0.27903 (13) | 0.51329 (4) | 0.0308 (3) | |
H18 | 0.522707 | 0.355154 | 0.494428 | 0.037* | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
F1 | 0.0456 (5) | 0.0384 (5) | 0.0613 (6) | 0.0139 (4) | −0.0028 (4) | −0.0159 (4) |
O1 | 0.0241 (4) | 0.0356 (5) | 0.0374 (5) | 0.0036 (4) | −0.0069 (4) | −0.0128 (4) |
N1 | 0.0255 (5) | 0.0170 (5) | 0.0217 (5) | 0.0012 (4) | 0.0003 (4) | −0.0006 (4) |
N2 | 0.0249 (5) | 0.0185 (5) | 0.0208 (5) | −0.0004 (4) | −0.0003 (4) | 0.0007 (3) |
N3 | 0.0285 (5) | 0.0257 (6) | 0.0328 (5) | 0.0052 (4) | −0.0022 (4) | −0.0032 (4) |
C1 | 0.0249 (6) | 0.0184 (6) | 0.0192 (5) | −0.0004 (4) | 0.0023 (4) | −0.0001 (4) |
C2 | 0.0271 (6) | 0.0198 (6) | 0.0166 (5) | 0.0002 (4) | 0.0016 (4) | 0.0006 (4) |
C3 | 0.0347 (6) | 0.0201 (6) | 0.0202 (5) | −0.0028 (5) | −0.0007 (5) | −0.0010 (4) |
C4 | 0.0325 (6) | 0.0264 (6) | 0.0236 (6) | −0.0056 (5) | −0.0053 (5) | −0.0003 (5) |
C5 | 0.0296 (6) | 0.0271 (6) | 0.0255 (6) | 0.0002 (5) | −0.0056 (5) | 0.0033 (5) |
C6 | 0.0305 (6) | 0.0201 (6) | 0.0214 (5) | 0.0008 (5) | −0.0018 (4) | 0.0024 (4) |
C7 | 0.0278 (6) | 0.0181 (5) | 0.0172 (5) | −0.0013 (4) | 0.0003 (4) | 0.0007 (4) |
C8 | 0.0249 (6) | 0.0217 (6) | 0.0211 (5) | 0.0005 (4) | 0.0021 (4) | 0.0019 (4) |
C9 | 0.0233 (5) | 0.0213 (6) | 0.0223 (5) | 0.0015 (4) | 0.0010 (4) | 0.0007 (4) |
C10 | 0.0256 (6) | 0.0276 (6) | 0.0210 (5) | −0.0005 (5) | −0.0001 (4) | −0.0016 (4) |
C11 | 0.0253 (6) | 0.0364 (7) | 0.0313 (6) | 0.0057 (5) | −0.0036 (5) | −0.0029 (5) |
C12 | 0.0306 (6) | 0.0324 (7) | 0.0383 (7) | 0.0107 (5) | −0.0030 (5) | −0.0050 (6) |
C13 | 0.0216 (6) | 0.0281 (6) | 0.0303 (6) | −0.0014 (5) | −0.0049 (5) | −0.0081 (5) |
C14 | 0.0284 (6) | 0.0375 (7) | 0.0248 (6) | −0.0045 (5) | −0.0061 (5) | −0.0035 (5) |
C15 | 0.0358 (7) | 0.0297 (7) | 0.0339 (7) | −0.0015 (6) | −0.0131 (5) | −0.0013 (5) |
C16 | 0.0288 (6) | 0.0301 (7) | 0.0411 (7) | 0.0026 (5) | −0.0044 (5) | −0.0116 (5) |
C17 | 0.0333 (7) | 0.0350 (7) | 0.0357 (7) | −0.0042 (6) | 0.0077 (5) | −0.0058 (6) |
C18 | 0.0313 (6) | 0.0270 (7) | 0.0342 (7) | −0.0039 (5) | 0.0021 (5) | 0.0003 (5) |
Geometric parameters (Å, º) top
F1—C16 | 1.3573 (15) | C6—H6 | 0.9500 |
O1—C10 | 1.3662 (14) | C6—C7 | 1.4014 (17) |
O1—C13 | 1.4021 (15) | C8—C9 | 1.3938 (16) |
N1—H1 | 0.923 (15) | C9—H9 | 0.9500 |
N1—C1 | 1.3593 (15) | C9—C10 | 1.3882 (17) |
N1—C2 | 1.3816 (15) | C10—C11 | 1.3860 (18) |
N2—C1 | 1.3241 (15) | C11—H11 | 0.9500 |
N2—C7 | 1.3915 (15) | C11—C12 | 1.3796 (19) |
N3—C8 | 1.3430 (15) | C12—H12 | 0.9500 |
N3—C12 | 1.3406 (17) | C13—C14 | 1.3767 (18) |
C1—C8 | 1.4735 (16) | C13—C18 | 1.3817 (18) |
C2—C3 | 1.3952 (16) | C14—H14 | 0.9500 |
C2—C7 | 1.4072 (16) | C14—C15 | 1.3887 (19) |
C3—H3 | 0.9500 | C15—H15 | 0.9500 |
C3—C4 | 1.3812 (18) | C15—C16 | 1.379 (2) |
C4—H4 | 0.9500 | C16—C17 | 1.372 (2) |
C4—C5 | 1.4080 (18) | C17—H17 | 0.9500 |
C5—H5 | 0.9500 | C17—C18 | 1.3862 (19) |
C5—C6 | 1.3813 (17) | C18—H18 | 0.9500 |
| | | |
C10—O1—C13 | 119.14 (9) | C8—C9—H9 | 121.3 |
C1—N1—H1 | 127.5 (9) | C10—C9—C8 | 117.39 (11) |
C1—N1—C2 | 106.51 (9) | C10—C9—H9 | 121.3 |
C2—N1—H1 | 126.0 (9) | O1—C10—C9 | 124.57 (11) |
C1—N2—C7 | 104.59 (9) | O1—C10—C11 | 116.05 (11) |
C12—N3—C8 | 116.17 (11) | C11—C10—C9 | 119.38 (11) |
N1—C1—C8 | 121.42 (10) | C10—C11—H11 | 120.8 |
N2—C1—N1 | 113.66 (10) | C12—C11—C10 | 118.38 (11) |
N2—C1—C8 | 124.87 (10) | C12—C11—H11 | 120.8 |
N1—C2—C3 | 132.07 (11) | N3—C12—C11 | 124.24 (12) |
N1—C2—C7 | 105.68 (10) | N3—C12—H12 | 117.9 |
C3—C2—C7 | 122.17 (11) | C11—C12—H12 | 117.9 |
C2—C3—H3 | 121.6 | C14—C13—O1 | 119.63 (11) |
C4—C3—C2 | 116.80 (11) | C14—C13—C18 | 121.96 (12) |
C4—C3—H3 | 121.6 | C18—C13—O1 | 118.26 (12) |
C3—C4—H4 | 119.2 | C13—C14—H14 | 120.4 |
C3—C4—C5 | 121.63 (11) | C13—C14—C15 | 119.22 (12) |
C5—C4—H4 | 119.2 | C15—C14—H14 | 120.4 |
C4—C5—H5 | 119.2 | C14—C15—H15 | 120.9 |
C6—C5—C4 | 121.61 (12) | C16—C15—C14 | 118.17 (12) |
C6—C5—H5 | 119.2 | C16—C15—H15 | 120.9 |
C5—C6—H6 | 121.2 | F1—C16—C15 | 118.41 (13) |
C5—C6—C7 | 117.53 (11) | F1—C16—C17 | 118.50 (12) |
C7—C6—H6 | 121.2 | C17—C16—C15 | 123.09 (12) |
N2—C7—C2 | 109.55 (10) | C16—C17—H17 | 120.8 |
N2—C7—C6 | 130.09 (11) | C16—C17—C18 | 118.48 (12) |
C6—C7—C2 | 120.26 (11) | C18—C17—H17 | 120.8 |
N3—C8—C1 | 115.60 (10) | C13—C18—C17 | 119.08 (12) |
N3—C8—C9 | 124.42 (11) | C13—C18—H18 | 120.5 |
C9—C8—C1 | 119.96 (10) | C17—C18—H18 | 120.5 |
| | | |
F1—C16—C17—C18 | 179.10 (12) | C5—C6—C7—N2 | 176.14 (11) |
O1—C10—C11—C12 | 179.58 (11) | C5—C6—C7—C2 | 0.17 (16) |
O1—C13—C14—C15 | 175.05 (11) | C7—N2—C1—N1 | −1.16 (12) |
O1—C13—C18—C17 | −175.77 (11) | C7—N2—C1—C8 | 176.20 (10) |
N1—C1—C8—N3 | −19.81 (15) | C7—C2—C3—C4 | 0.20 (16) |
N1—C1—C8—C9 | 158.86 (11) | C8—N3—C12—C11 | 0.0 (2) |
N1—C2—C3—C4 | −175.97 (11) | C8—C9—C10—O1 | −178.59 (11) |
N1—C2—C7—N2 | 0.06 (12) | C8—C9—C10—C11 | 1.44 (17) |
N1—C2—C7—C6 | 176.79 (9) | C9—C10—C11—C12 | −0.44 (18) |
N2—C1—C8—N3 | 163.02 (11) | C10—O1—C13—C14 | 88.48 (14) |
N2—C1—C8—C9 | −18.30 (16) | C10—O1—C13—C18 | −96.03 (13) |
N3—C8—C9—C10 | −1.89 (17) | C10—C11—C12—N3 | −0.3 (2) |
C1—N1—C2—C3 | 175.90 (11) | C12—N3—C8—C1 | 179.78 (11) |
C1—N1—C2—C7 | −0.73 (11) | C12—N3—C8—C9 | 1.18 (18) |
C1—N2—C7—C2 | 0.64 (12) | C13—O1—C10—C9 | −10.10 (17) |
C1—N2—C7—C6 | −175.67 (11) | C13—O1—C10—C11 | 169.87 (11) |
C1—C8—C9—C10 | 179.56 (10) | C13—C14—C15—C16 | 0.69 (18) |
C2—N1—C1—N2 | 1.23 (12) | C14—C13—C18—C17 | −0.39 (19) |
C2—N1—C1—C8 | −176.24 (9) | C14—C15—C16—F1 | −179.75 (11) |
C2—C3—C4—C5 | −0.07 (17) | C14—C15—C16—C17 | −0.5 (2) |
C3—C2—C7—N2 | −176.98 (9) | C15—C16—C17—C18 | −0.2 (2) |
C3—C2—C7—C6 | −0.25 (16) | C16—C17—C18—C13 | 0.61 (19) |
C3—C4—C5—C6 | 0.00 (18) | C18—C13—C14—C15 | −0.28 (18) |
C4—C5—C6—C7 | −0.05 (17) | | |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1···N2i | 0.923 (15) | 1.947 (15) | 2.8550 (14) | 167.3 (13) |
C6—H6···N3ii | 0.95 | 2.68 | 3.4461 (16) | 138 |
C15—H15···N2ii | 0.95 | 2.66 | 3.2520 (15) | 121 |
C17—H17···O1iii | 0.95 | 2.57 | 3.3664 (16) | 141 |
Symmetry codes: (i) −x+3/2, y+1/2, z; (ii) −x+3/2, y−1/2, z; (iii) x+1/2, −y+1/2, −z+1. |
The antibacterial and antifungal activities of tested compounds topCompound | 1 | 1 | 2 | 2 | 3 | 3 | Standard drugs | |
Microorganisms | MIC (mg l-1) | MBC (mg l-1) | MIC (mg l-1) | MBC (mg l-1) | MIC (mg l-1) | MBC (mg l-1) | MIC (mg l-1) | MBC (mg l-1) |
Gram-positive bacteria | | | | | | | Vancomycin | |
S. aureus ATCC 25923 | 31.3 | 500 | 1000 | >1000 | 125 | >1000 | 0.98 | 0.98 |
S. aureus ATCC 6538 | 31.3 | 500 | 1000 | >1000 | 250 | >1000 | 0.98 | 0.98 |
S. aureus ATCC 43300* | 15.6 | 500 | 500 | >1000 | 1000 | >1000 | 0.98 | 0.98 |
S. epidermidis ATCC 12228 | 15.6 | 500 | 500 | 1000 | 250 | 250 | 0.98 | 0.98 |
M. luteus ATCC 10240 | 7.8 | 7.8 | 500 | >1000 | 62.5 | >1000 | 0.12 | 0.12 |
E. faecalis ATCC 29212 | 15.6 | 250 | 1000 | >1000 | 250 | >1000 | 0.98 | 1.95 |
B. subtilis ATCC 6633 | 31.3 | 500 | 500 | >1000 | 125 | >1000 | 0.24 | 0.49 |
B. cereus ATCC 10876 | 62.5 | 500 | 250 | >1000 | 500 | >1000 | 1.95 | 15.6 |
S. pyogenes ATCC 19615 | 125 | 500 | >1000 | >1000 | 1000 | 1000 | 0.24 | 0.49 |
S. pneumoniae ATCC 49619 | 15.6 | 15.6 | 500 | >1000 | 1000 | 1000 | 0.24 | 0.49 |
S. mutans ATCC 25175 | 125 | >1000 | >1000 | >1000 | 1000 | 1000 | 0.98 | 0.98 |
| | | | | | | | |
Gram-negative bacteria | | | | | | | Ciprofloxacin | |
S. typhimurium ATCC 14028 | 1000 | >1000 | 1000 | >1000 | 1000 | >1000 | 0.061 | 0.061 |
E. coli ATCC 25922 | 1000 | >1000 | 500 | >1000 | 1000 | >1000 | 0.015 | 0.08 |
P. mirabilis ATCC 12453 | >1000 | >1000 | 500 | >1000 | >1000 | >1000 | 0.03 | 0.03 |
K. pneumoniae ATCC 13883 | >1000 | >1000 | 1000 | >1000 | >1000 | >1000 | 0.12 | 0.12 |
P. aeruginosa ATCC 9027 | >1000 | >1000 | >1000 | >1000 | 1000 | >1000 | 0.49 | 0.98 |
| | | | | | | | |
Yeasts | | | | | | | Nystatin | |
C. albicans ATCC 2091 | 500 | >1000 | 500 | >1000 | 250 | 250 | 0.24 | 0.48 |
C. parapsilosis ATCC 22019 | 500 | >1000 | 500 | >1000 | 62.5 | 500 | 0.24 | 0.48 |
C. glabrata ATCC 90030 | 1000 | >1000 | >1000 | >1000 | 250 | 250 | 0.48 | 0.48 |
Note: (*) MRSA, i.e. methicillin-resistant S. aureus. |
Selected geometric parameters (Å, °) top | B1 | B2 | B3 |
N1—C1 | 1.360 (2) | 1.3644 (16) | 1.3593 (15) |
N1—C2 | 1.376 (2) | 1.3758 (18) | 1.3816 (15) |
N2—C1 | 1.325 (2) | 1.3281 (16) | 1.3241 (15) |
N2—C7 | 1.396 (2) | 1.3864 (17) | 1.3915 (15) |
C1—C8 | 1.476 (2) | 1.4635 (19) | 1.4735 (16) |
N3—C8 | 1.346 (2) | 1.3471 (16) | 1.3430 (15) |
N1—C1—C8—N3 | -2.4 (2) | 2.00 (19) | -19.81 (15) |