In the approximately mirror-symmetric molecule of the title compound, C
18H
18N
4O·H
2O, each benzimidazole group is essentially planar and the dihedral angle between them is 75.10 (5)°. O—H
N and C—H
O hydrogen bonds generate a centrosymmetric
R44(10) cluster of two organic and two water molecules.
Supporting information
CCDC reference: 610728
Key indicators
- Single-crystal X-ray study
- T = 293 K
- Mean (C-C) = 0.002 Å
- R factor = 0.038
- wR factor = 0.101
- Data-to-parameter ratio = 14.8
checkCIF/PLATON results
No syntax errors found
Alert level C
PLAT066_ALERT_1_C Predicted and Reported Transmissions Identical . ?
PLAT125_ALERT_4_C No _symmetry_space_group_name_Hall Given ....... ?
PLAT152_ALERT_1_C Supplied and Calc Volume s.u. Inconsistent ..... ?
PLAT199_ALERT_1_C Check the Reported _cell_measurement_temperature 293 K
PLAT200_ALERT_1_C Check the Reported _diffrn_ambient_temperature . 293 K
PLAT230_ALERT_2_C Hirshfeld Test Diff for N4 - C12 .. 6.19 su
PLAT720_ALERT_4_C Number of Unusual/Non-Standard Label(s) ........ 2
0 ALERT level A = In general: serious problem
0 ALERT level B = Potentially serious problem
7 ALERT level C = Check and explain
0 ALERT level G = General alerts; check
4 ALERT type 1 CIF construction/syntax error, inconsistent or missing data
1 ALERT type 2 Indicator that the structure model may be wrong or deficient
0 ALERT type 3 Indicator that the structure quality may be low
2 ALERT type 4 Improvement, methodology, query or suggestion
Data collection: SMART (Siemens, 1996); cell refinement: SAINT (Siemens, 1996); data reduction: SAINT; program(s) used to solve structure: SHELXTL (Sheldrick, 1997); program(s) used to refine structure: SHELXTL; molecular graphics: SHELXTL; software used to prepare material for publication: SHELXTL, PARST (Nardelli, 1995) and PLATON (Spek, 2003).
Bis[2-(1
H-benzimidazol-1-yl)ethyl] ether monohydrate
top
Crystal data top
C18H18N4O·H2O | Dx = 1.284 Mg m−3 |
Mr = 324.38 | Mo Kα radiation, λ = 0.71073 Å |
Orthorhombic, Pbca | Cell parameters from 4253 reflections |
a = 18.230 (3) Å | θ = 2.4–25.8° |
b = 9.4065 (16) Å | µ = 0.09 mm−1 |
c = 19.578 (3) Å | T = 293 K |
V = 3357.2 (10) Å3 | Plate, colourless |
Z = 8 | 0.46 × 0.34 × 0.10 mm |
F(000) = 1376 | |
Data collection top
Siemens SMART 1000 CCD area-detector diffractometer | 3319 independent reflections |
Radiation source: fine-focus sealed tube | 2536 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.031 |
Detector resolution: 8.33 pixels mm-1 | θmax = 26.1°, θmin = 2.1° |
ω scans | h = −15→22 |
Absorption correction: multi-scan (SADABS; Sheldrick, 1996) | k = −11→11 |
Tmin = 0.961, Tmax = 0.991 | l = −24→20 |
17849 measured reflections | |
Refinement top
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.039 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.101 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.05 | w = 1/[σ2(Fo2) + (0.0436P)2 + 0.4543P] where P = (Fo2 + 2Fc2)/3 |
3319 reflections | (Δ/σ)max < 0.001 |
225 parameters | Δρmax = 0.13 e Å−3 |
0 restraints | Δρmin = −0.15 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. |
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. |
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top | x | y | z | Uiso*/Ueq | |
O1 | 0.16613 (5) | 0.57575 (11) | 0.34219 (5) | 0.0554 (3) | |
N1 | 0.07058 (6) | 0.34889 (12) | 0.30281 (6) | 0.0503 (3) | |
N2 | 0.03898 (6) | 0.23259 (13) | 0.39807 (6) | 0.0554 (3) | |
N3 | 0.20997 (7) | 0.60202 (13) | 0.48353 (6) | 0.0562 (3) | |
N4 | 0.15284 (7) | 0.44652 (17) | 0.55207 (7) | 0.0675 (4) | |
C1 | 0.08199 (7) | 0.20679 (14) | 0.28914 (7) | 0.0465 (3) | |
C2 | 0.10645 (8) | 0.13668 (18) | 0.23108 (8) | 0.0628 (4) | |
H2B | 0.1190 | 0.1857 | 0.1915 | 0.075* | |
C3 | 0.11119 (10) | −0.0083 (2) | 0.23500 (10) | 0.0751 (5) | |
H3A | 0.1277 | −0.0591 | 0.1972 | 0.090* | |
C4 | 0.09198 (9) | −0.08159 (18) | 0.29407 (10) | 0.0732 (5) | |
H4B | 0.0963 | −0.1801 | 0.2948 | 0.088* | |
C5 | 0.06682 (8) | −0.01280 (16) | 0.35151 (9) | 0.0600 (4) | |
H5A | 0.0537 | −0.0630 | 0.3906 | 0.072* | |
C6 | 0.06177 (7) | 0.13511 (15) | 0.34888 (7) | 0.0471 (3) | |
C7 | 0.04553 (8) | 0.35586 (16) | 0.36789 (8) | 0.0552 (4) | |
H7A | 0.0340 | 0.4412 | 0.3893 | 0.066* | |
C8 | 0.09085 (9) | 0.46878 (16) | 0.25954 (8) | 0.0607 (4) | |
H8A | 0.0559 | 0.5453 | 0.2662 | 0.073* | |
H8B | 0.0885 | 0.4399 | 0.2120 | 0.073* | |
C9 | 0.16667 (9) | 0.52209 (17) | 0.27510 (7) | 0.0546 (4) | |
H9A | 0.2019 | 0.4453 | 0.2712 | 0.065* | |
H9B | 0.1803 | 0.5964 | 0.2432 | 0.065* | |
C10 | 0.23183 (8) | 0.64483 (16) | 0.36116 (7) | 0.0574 (4) | |
H10A | 0.2437 | 0.7186 | 0.3284 | 0.069* | |
H10B | 0.2720 | 0.5772 | 0.3624 | 0.069* | |
C11 | 0.22045 (10) | 0.70860 (17) | 0.43062 (9) | 0.0686 (5) | |
H11A | 0.2627 | 0.7666 | 0.4422 | 0.082* | |
H11B | 0.1778 | 0.7703 | 0.4293 | 0.082* | |
C12 | 0.14570 (8) | 0.5456 (2) | 0.50569 (8) | 0.0670 (5) | |
H12A | 0.1003 | 0.5750 | 0.4892 | 0.080* | |
C13 | 0.26440 (8) | 0.53302 (15) | 0.51928 (7) | 0.0485 (3) | |
C14 | 0.34028 (8) | 0.54576 (17) | 0.51741 (8) | 0.0575 (4) | |
H14A | 0.3635 | 0.6120 | 0.4896 | 0.069* | |
C15 | 0.37896 (9) | 0.45572 (19) | 0.55871 (8) | 0.0655 (4) | |
H15A | 0.4299 | 0.4607 | 0.5588 | 0.079* | |
C16 | 0.34446 (10) | 0.35711 (19) | 0.60047 (8) | 0.0666 (4) | |
H16A | 0.3729 | 0.2972 | 0.6274 | 0.080* | |
C17 | 0.26937 (9) | 0.34559 (17) | 0.60311 (7) | 0.0622 (4) | |
H17A | 0.2467 | 0.2798 | 0.6316 | 0.075* | |
C18 | 0.22842 (8) | 0.43598 (16) | 0.56154 (7) | 0.0525 (4) | |
O1W | 0.00965 (7) | 0.29809 (17) | 0.54666 (8) | 0.0775 (4) | |
H1W1 | 0.0541 (14) | 0.333 (2) | 0.5576 (10) | 0.105 (8)* | |
H2W1 | 0.0155 (14) | 0.262 (3) | 0.5045 (15) | 0.131 (10)* | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
O1 | 0.0492 (6) | 0.0694 (7) | 0.0476 (5) | −0.0113 (5) | −0.0001 (4) | −0.0023 (5) |
N1 | 0.0513 (7) | 0.0516 (7) | 0.0481 (7) | −0.0059 (5) | −0.0045 (5) | 0.0044 (5) |
N2 | 0.0534 (7) | 0.0626 (8) | 0.0502 (7) | −0.0063 (6) | 0.0048 (5) | 0.0014 (6) |
N3 | 0.0551 (8) | 0.0633 (8) | 0.0504 (7) | 0.0067 (6) | −0.0079 (6) | −0.0093 (6) |
N4 | 0.0513 (8) | 0.0972 (11) | 0.0539 (8) | −0.0039 (7) | 0.0041 (6) | −0.0109 (8) |
C1 | 0.0393 (7) | 0.0518 (8) | 0.0483 (8) | −0.0061 (6) | −0.0054 (6) | −0.0019 (6) |
C2 | 0.0581 (10) | 0.0767 (11) | 0.0537 (9) | −0.0102 (8) | 0.0025 (7) | −0.0089 (8) |
C3 | 0.0664 (11) | 0.0779 (12) | 0.0808 (13) | 0.0014 (9) | 0.0035 (9) | −0.0269 (10) |
C4 | 0.0601 (11) | 0.0535 (9) | 0.1059 (15) | 0.0060 (8) | −0.0120 (10) | −0.0131 (10) |
C5 | 0.0478 (9) | 0.0560 (9) | 0.0763 (11) | −0.0046 (7) | −0.0099 (8) | 0.0109 (8) |
C6 | 0.0363 (7) | 0.0531 (8) | 0.0519 (8) | −0.0043 (6) | −0.0043 (6) | 0.0029 (7) |
C7 | 0.0517 (9) | 0.0560 (9) | 0.0581 (9) | −0.0022 (7) | 0.0006 (7) | −0.0056 (8) |
C8 | 0.0681 (10) | 0.0589 (9) | 0.0552 (9) | −0.0115 (8) | −0.0159 (7) | 0.0147 (7) |
C9 | 0.0603 (9) | 0.0606 (9) | 0.0428 (8) | −0.0094 (7) | −0.0016 (6) | 0.0088 (7) |
C10 | 0.0538 (9) | 0.0589 (9) | 0.0596 (9) | −0.0123 (7) | −0.0088 (7) | 0.0072 (7) |
C11 | 0.0832 (12) | 0.0529 (9) | 0.0697 (11) | 0.0036 (8) | −0.0213 (9) | −0.0057 (8) |
C12 | 0.0455 (9) | 0.0941 (13) | 0.0614 (10) | 0.0101 (9) | −0.0062 (7) | −0.0211 (10) |
C13 | 0.0492 (8) | 0.0545 (8) | 0.0417 (7) | 0.0029 (6) | −0.0042 (6) | −0.0126 (6) |
C14 | 0.0519 (9) | 0.0659 (10) | 0.0548 (9) | −0.0077 (7) | −0.0002 (7) | −0.0070 (8) |
C15 | 0.0500 (9) | 0.0853 (12) | 0.0611 (10) | 0.0053 (8) | −0.0070 (7) | −0.0097 (9) |
C16 | 0.0710 (11) | 0.0786 (11) | 0.0503 (9) | 0.0176 (9) | −0.0100 (8) | −0.0062 (8) |
C17 | 0.0765 (12) | 0.0698 (10) | 0.0404 (8) | −0.0019 (8) | 0.0026 (7) | −0.0030 (7) |
C18 | 0.0502 (9) | 0.0674 (10) | 0.0399 (7) | −0.0019 (7) | 0.0030 (6) | −0.0141 (7) |
O1W | 0.0548 (8) | 0.1017 (10) | 0.0759 (9) | 0.0040 (7) | 0.0161 (6) | 0.0099 (8) |
Geometric parameters (Å, º) top
O1—C9 | 1.4070 (16) | C8—C9 | 1.502 (2) |
O1—C10 | 1.4123 (17) | C8—H8A | 0.970 |
N1—C7 | 1.3551 (18) | C8—H8B | 0.970 |
N1—C1 | 1.3790 (17) | C9—H9A | 0.970 |
N1—C8 | 1.4580 (18) | C9—H9B | 0.970 |
N2—C7 | 1.3069 (19) | C10—C11 | 1.501 (2) |
N2—C6 | 1.3932 (18) | C10—H10A | 0.970 |
N3—C12 | 1.357 (2) | C10—H10B | 0.970 |
N3—C13 | 1.3770 (18) | C11—H11A | 0.970 |
N3—C11 | 1.454 (2) | C11—H11B | 0.970 |
N4—C12 | 1.308 (2) | C12—H12A | 0.930 |
N4—C18 | 1.3937 (18) | C13—C14 | 1.389 (2) |
C1—C2 | 1.388 (2) | C13—C18 | 1.396 (2) |
C1—C6 | 1.3994 (18) | C14—C15 | 1.367 (2) |
C2—C3 | 1.369 (2) | C14—H14A | 0.930 |
C2—H2B | 0.930 | C15—C16 | 1.387 (2) |
C3—C4 | 1.391 (2) | C15—H15A | 0.930 |
C3—H3A | 0.930 | C16—C17 | 1.374 (2) |
C4—C5 | 1.376 (2) | C16—H16A | 0.930 |
C4—H4B | 0.930 | C17—C18 | 1.394 (2) |
C5—C6 | 1.395 (2) | C17—H17A | 0.930 |
C5—H5A | 0.930 | O1W—H1W1 | 0.90 (2) |
C7—H7A | 0.930 | O1W—H2W1 | 0.90 (3) |
| | | |
C9—O1—C10 | 113.87 (11) | C8—C9—H9A | 110.2 |
C7—N1—C1 | 106.27 (11) | O1—C9—H9B | 110.2 |
C7—N1—C8 | 126.46 (13) | C8—C9—H9B | 110.2 |
C1—N1—C8 | 126.78 (12) | H9A—C9—H9B | 108.5 |
C7—N2—C6 | 104.13 (12) | O1—C10—C11 | 107.75 (13) |
C12—N3—C13 | 105.97 (13) | O1—C10—H10A | 110.2 |
C12—N3—C11 | 127.64 (14) | C11—C10—H10A | 110.2 |
C13—N3—C11 | 126.33 (13) | O1—C10—H10B | 110.2 |
C12—N4—C18 | 103.97 (13) | C11—C10—H10B | 110.2 |
N1—C1—C2 | 131.92 (14) | H10A—C10—H10B | 108.5 |
N1—C1—C6 | 105.38 (12) | N3—C11—C10 | 112.84 (13) |
C2—C1—C6 | 122.70 (14) | N3—C11—H11A | 109.0 |
C3—C2—C1 | 116.61 (16) | C10—C11—H11A | 109.0 |
C3—C2—H2B | 121.7 | N3—C11—H11B | 109.0 |
C1—C2—H2B | 121.7 | C10—C11—H11B | 109.0 |
C2—C3—C4 | 121.62 (16) | H11A—C11—H11B | 107.8 |
C2—C3—H3A | 119.2 | N4—C12—N3 | 114.50 (14) |
C4—C3—H3A | 119.2 | N4—C12—H12A | 122.8 |
C5—C4—C3 | 122.03 (16) | N3—C12—H12A | 122.8 |
C5—C4—H4B | 119.0 | N3—C13—C14 | 131.58 (14) |
C3—C4—H4B | 119.0 | N3—C13—C18 | 105.72 (13) |
C4—C5—C6 | 117.43 (16) | C14—C13—C18 | 122.69 (13) |
C4—C5—H5A | 121.3 | C15—C14—C13 | 116.40 (15) |
C6—C5—H5A | 121.3 | C15—C14—H14A | 121.8 |
N2—C6—C5 | 130.57 (14) | C13—C14—H14A | 121.8 |
N2—C6—C1 | 109.83 (12) | C14—C15—C16 | 121.95 (15) |
C5—C6—C1 | 119.60 (14) | C14—C15—H15A | 119.0 |
N2—C7—N1 | 114.39 (13) | C16—C15—H15A | 119.0 |
N2—C7—H7A | 122.8 | C17—C16—C15 | 121.77 (15) |
N1—C7—H7A | 122.8 | C17—C16—H16A | 119.1 |
N1—C8—C9 | 111.94 (12) | C15—C16—H16A | 119.1 |
N1—C8—H8A | 109.2 | C16—C17—C18 | 117.62 (15) |
C9—C8—H8A | 109.2 | C16—C17—H17A | 121.2 |
N1—C8—H8B | 109.2 | C18—C17—H17A | 121.2 |
C9—C8—H8B | 109.2 | N4—C18—C17 | 130.58 (15) |
H8A—C8—H8B | 107.9 | N4—C18—C13 | 109.83 (13) |
O1—C9—C8 | 107.63 (12) | C17—C18—C13 | 119.56 (14) |
O1—C9—H9A | 110.2 | H1W1—O1W—H2W1 | 104 (2) |
| | | |
C7—N1—C1—C2 | 179.35 (14) | C9—O1—C10—C11 | 174.41 (12) |
C8—N1—C1—C2 | −8.3 (2) | C12—N3—C11—C10 | −91.23 (18) |
C7—N1—C1—C6 | 0.45 (14) | C13—N3—C11—C10 | 85.57 (17) |
C8—N1—C1—C6 | 172.83 (12) | O1—C10—C11—N3 | 65.81 (16) |
N1—C1—C2—C3 | −179.73 (15) | C18—N4—C12—N3 | −0.08 (17) |
C6—C1—C2—C3 | −1.0 (2) | C13—N3—C12—N4 | −0.22 (17) |
C1—C2—C3—C4 | 0.4 (2) | C11—N3—C12—N4 | 177.10 (14) |
C2—C3—C4—C5 | 0.4 (3) | C12—N3—C13—C14 | 179.33 (14) |
C3—C4—C5—C6 | −0.6 (2) | C11—N3—C13—C14 | 2.0 (2) |
C7—N2—C6—C5 | 179.96 (14) | C12—N3—C13—C18 | 0.42 (14) |
C7—N2—C6—C1 | 0.19 (14) | C11—N3—C13—C18 | −176.95 (13) |
C4—C5—C6—N2 | −179.69 (14) | N3—C13—C14—C15 | −177.67 (14) |
C4—C5—C6—C1 | 0.1 (2) | C18—C13—C14—C15 | 1.1 (2) |
N1—C1—C6—N2 | −0.41 (14) | C13—C14—C15—C16 | −0.2 (2) |
C2—C1—C6—N2 | −179.44 (12) | C14—C15—C16—C17 | −0.7 (2) |
N1—C1—C6—C5 | 179.80 (12) | C15—C16—C17—C18 | 0.7 (2) |
C2—C1—C6—C5 | 0.8 (2) | C12—N4—C18—C17 | −177.84 (15) |
C6—N2—C7—N1 | 0.11 (16) | C12—N4—C18—C13 | 0.36 (16) |
C1—N1—C7—N2 | −0.37 (16) | C16—C17—C18—N4 | 178.23 (14) |
C8—N1—C7—N2 | −172.78 (13) | C16—C17—C18—C13 | 0.2 (2) |
C7—N1—C8—C9 | 80.84 (18) | N3—C13—C18—N4 | −0.49 (15) |
C1—N1—C8—C9 | −90.05 (17) | C14—C13—C18—N4 | −179.52 (13) |
C10—O1—C9—C8 | −173.02 (12) | N3—C13—C18—C17 | 177.94 (12) |
N1—C8—C9—O1 | −64.56 (17) | C14—C13—C18—C17 | −1.1 (2) |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
O1W—H1W1···N4 | 0.90 (2) | 2.10 (2) | 2.962 (2) | 161 (2) |
O1W—H2W1···N2 | 0.90 (3) | 2.15 (3) | 3.021 (2) | 165 (3) |
C12—H12A···O1Wi | 0.93 | 2.44 | 3.352 (2) | 168 |
Symmetry code: (i) −x, −y+1, −z+1. |