Supporting information
Crystallographic Information File (CIF) https://doi.org/10.1107/S1600536807042973/hg2283sup1.cif | |
Structure factor file (CIF format) https://doi.org/10.1107/S1600536807042973/hg2283Isup2.hkl |
CCDC reference: 663748
Key indicators
- Single-crystal X-ray study
- T = 123 K
- Mean (C-C) = 0.006 Å
- Disorder in solvent or counterion
- R factor = 0.064
- wR factor = 0.158
- Data-to-parameter ratio = 13.1
checkCIF/PLATON results
No syntax errors found
Alert level C PLAT042_ALERT_1_C Calc. and Rep. MoietyFormula Strings Differ .... ? PLAT141_ALERT_4_C su on a - Axis Small or Missing (x 100000) ..... 20 Ang. PLAT243_ALERT_4_C High 'Solvent' Ueq as Compared to Neighbors for C35 PLAT243_ALERT_4_C High 'Solvent' Ueq as Compared to Neighbors for C36 PLAT244_ALERT_4_C Low 'Solvent' Ueq as Compared to Neighbors for C37 PLAT244_ALERT_4_C Low 'Solvent' Ueq as Compared to Neighbors for C32 PLAT302_ALERT_4_C Anion/Solvent Disorder ......................... 50.00 Perc. PLAT340_ALERT_3_C Low Bond Precision on C-C Bonds (x 1000) Ang ... 6 PLAT420_ALERT_2_C D-H Without Acceptor N4 - H4A ... ?
Alert level G PLAT860_ALERT_3_G Note: Number of Least-Squares Restraints ....... 9
0 ALERT level A = In general: serious problem 0 ALERT level B = Potentially serious problem 9 ALERT level C = Check and explain 1 ALERT level G = General alerts; check 1 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 2 ALERT type 3 Indicator that the structure quality may be low 6 ALERT type 4 Improvement, methodology, query or suggestion 0 ALERT type 5 Informative message, check
checkCIF publication errors
Alert level A PUBL024_ALERT_1_A The number of authors is greater than 5. Please specify the role of each of the co-authors for your paper.
Author Response: The work described in this contribution is part of a multi-disciplinary research program. The synthesis and characteristaion of compound was performed by Anna Podloucka under the combined supervision of Ben Capuano, Edward J. Lloyd, Ian Crosby and Elizabeth Yuriev. The crystallographic analysis was performed by Gary D. Fallon and Craig M. Forsyth. |
1 ALERT level A = Data missing that is essential or data in wrong format 0 ALERT level G = General alerts. Data that may be required is missing
For related literature, see: Andreasen et al. (1994); Capuano (1999); Capuano et al. (2006); Gerlach (1991); Gerson & Meltzer (1992); Hypercube Inc (2005); Petcher & Weber (1976); Veys et al. (1992).
The title compound was prepared according to a literature procedure (Capuano, 1999). Crystals suitable for X-ray diffraction were grown using the diffusion method, from an acetonic solution of the compound layered onto hexanes, affording bright yellow prisms. Isolation of the bulk solid after drying resulted in loss of lattice solvent (acetone / hexanes) (m.p. 606–608 K dec.).
After location of the primary molecules, residiual peaks located near the origin and the 2-fold axis (z =1/4) were assigned to disordered lattice solvent, acetone and pentane respectively. These were modelled with restrained geometries and the pentane was refined as isotropic atoms only. All H atoms for the primary molecules were initially located in the difference Fourier map. H1A and H4A (attached to N1 and N4 respectively) were freely refined but all other H atoms were placed in geometrically idealized positions and constrained to ride on their parent atoms with C—H distances in the range 0.95–1.00 Å and Uiso(H) = 1.2–1.5 Ueq(C).
Clozapine is an atypical (Gerlach, 1991) antipsychotic drug used clinically to treat schizophrenia (Andreasen et al., 1994). Clozapine, however, has been found to induce the potentially fatal blood disorder agranulocytosis. The major metabolite of clozapine, 8-chloro-11-piperazino-5H-dibenzo[b,e][1,4]diazepine (desmethylclozapine), has been implicated in this serious blood dyscrasia (Veys et al., 1992, Gerson & Meltzer, 1992). A modified synthetic procedure (Capuano, 1999) was employed to synthesize desmethylclozapine as this compound was envisaged as a versatile intermediate towards clozapine-like analogues potentially devoid of any blood disorders, and for use in haematological studies to investigate the possible mechanism of clozapine-induced agranulocytosis. During the synthesis, the title compound (Scheme 1) was isolated as a by-product of commercial significance, purified and structurally characterized by X-ray diffraction to examine its solid state confirmation.
The structure of the title compound displays two geometric forms, A (Fig. 1), and B (Fig. 2). Both have half a molecule in the asymmetric unit, the other half generated by a 2-fold axis (located at the mid-point of the C—C bonds in the piperazine ring in A) or an inversion centre (located at the centroid of the piperazine ring in B). These symmetry operations generate a cisoid relationship of the dibenzodiazepine nucleii for A and a transiod relationship for B. Each unique dibenzodiazepine exhibits a typical buckled nature with the central seven-membered heterocycle in a boat arrangement. Both forms A and B have the opposite boat conformation at either end of the molecule (as required by symmetry) and consequently conversion from A to B requires inversion of the dibenzodiazepine moiety as well as rotation about the C–N linkage between the dibenzodiazepine and piperazine units. Molecular mechanics single point calculations were carried out for both geometric forms present in the unit cell (HYPERCHEM v7.5 (Hypercube Inc, 2005), MM+ force field, in vacuo). This calculation, which accounts for the effects of crystal packing forces, determined an energy difference ΔE (EA—EB) of 27 kcal mol-1 indicating that geometric form B is the more thermodynamically stable form of (I). The observation of two distinct forms of the title compound contrasts the analogous pyridobenzoxazepine compound 8-chloro-5-[4-(8-chloropyrido [2,3-b][1,5]benzoxazepin-5-yl)piperazino]pyrido[2,3-b] [1,5]benzoxazepine which has only one form corresponding to B (Capuano et al., 2006). The dihedral angle between the planes of the aromatic rings is 126.1 (1)° for A and 119.6 (1)° for B, which is comparable to the 115° observed for clozapine (Petcher & Weber, 1976). Short N2—C13 and N5—C28 bond distances, 1.280 (4) Å and 1.291 (5) Å respectively, confirm the presence of double bonds at these positions. The piperazine ring adopts a chair conformation with the tricyclic groups assuming a pseudoequatorial orientation, by virtue of the sp2-like nature of the piperazine nitrogen atoms (Σ(°) 347.1). Alternating A and B forms are weakly associated by N1—H1A···N5 hydrogen bonds generating zigzag chains parallel to the c axis.
For related literature, see: Andreasen et al. (1994); Capuano (1999); Capuano et al. (2006); Gerlach (1991); Gerson & Meltzer (1992); Hypercube Inc (2005); Petcher & Weber (1976); Veys et al. (1992).
Data collection: COLLECT (Bruker AXS, 2000); cell refinement: DENZO SMN (Otwinowski & Minor, 1997); data reduction: DENZO SMN (Otwinowski & Minor, 1997); program(s) used to solve structure: SHELXS97 (Sheldrick, 1997); program(s) used to refine structure: SHELXL97 (Sheldrick, 1997); molecular graphics: X-SEED (Barbour, 2001); software used to prepare material for publication: Microsoft Office (2000).
Fig. 1. A view of geometric form A. Displacement ellipsoids are drawn at the 50% probability level. | |
Fig. 2. A view of geometric form B. Displacement ellipsoids are drawn at the 50% probability level. |
2C30H24Cl2N6·C5H12·C3H6O | F(000) = 2536 |
Mr = 1209.13 | Dx = 1.319 Mg m−3 |
Monoclinic, C2/c | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: -C 2yc | Cell parameters from 23817 reflections |
a = 31.3716 (2) Å | θ = 3.2–25.0° |
b = 11.3509 (2) Å | µ = 0.25 mm−1 |
c = 22.7030 (3) Å | T = 123 K |
β = 131.147 (1)° | Tabular, yellow |
V = 6087.77 (16) Å3 | 0.20 × 0.20 × 0.08 mm |
Z = 4 |
Enraf Nonius KAPPA CCD diffractometer | 5349 independent reflections |
Radiation source: fine-focus sealed tube | 3743 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.061 |
phi and ω scans | θmax = 25.0°, θmin = 3.2° |
Absorption correction: multi-scan (SORTAV; Blessing, 1997) | h = −37→37 |
Tmin = 0.94, Tmax = 0.99 | k = −13→13 |
23817 measured reflections | l = −26→26 |
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)] = 0.065 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.158 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.06 | w = 1/[σ2(Fo2) + (0.0566P)2 + 21.5958P] where P = (Fo2 + 2Fc2)/3 |
5349 reflections | (Δ/σ)max < 0.001 |
408 parameters | Δρmax = 0.83 e Å−3 |
9 restraints | Δρmin = −0.54 e Å−3 |
2C30H24Cl2N6·C5H12·C3H6O | V = 6087.77 (16) Å3 |
Mr = 1209.13 | Z = 4 |
Monoclinic, C2/c | Mo Kα radiation |
a = 31.3716 (2) Å | µ = 0.25 mm−1 |
b = 11.3509 (2) Å | T = 123 K |
c = 22.7030 (3) Å | 0.20 × 0.20 × 0.08 mm |
β = 131.147 (1)° |
Enraf Nonius KAPPA CCD diffractometer | 5349 independent reflections |
Absorption correction: multi-scan (SORTAV; Blessing, 1997) | 3743 reflections with I > 2σ(I) |
Tmin = 0.94, Tmax = 0.99 | Rint = 0.061 |
23817 measured reflections |
R[F2 > 2σ(F2)] = 0.065 | 9 restraints |
wR(F2) = 0.158 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.06 | w = 1/[σ2(Fo2) + (0.0566P)2 + 21.5958P] where P = (Fo2 + 2Fc2)/3 |
5349 reflections | Δρmax = 0.83 e Å−3 |
408 parameters | Δρmin = −0.54 e Å−3 |
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. |
x | y | z | Uiso*/Ueq | Occ. (<1) | |
Cl1 | 0.20014 (4) | 0.30149 (8) | 0.21264 (6) | 0.0310 (3) | |
Cl2 | −0.16231 (5) | 0.00760 (9) | 0.07128 (7) | 0.0448 (3) | |
O1 | −0.0158 (3) | 0.1161 (6) | 0.0546 (4) | 0.0589 (18) | 0.50 |
N1 | 0.11606 (12) | −0.1904 (3) | 0.15222 (18) | 0.0227 (7) | |
N2 | 0.08616 (12) | −0.0153 (3) | 0.21214 (16) | 0.0204 (7) | |
N3 | 0.04554 (11) | −0.1185 (2) | 0.25006 (17) | 0.0203 (7) | |
N4 | −0.21603 (14) | 0.4267 (3) | −0.12315 (18) | 0.0282 (8) | |
N5 | −0.10501 (12) | 0.3277 (3) | −0.02192 (18) | 0.0273 (7) | |
N6 | −0.04850 (12) | 0.4712 (3) | −0.00987 (19) | 0.0286 (8) | |
C1 | 0.17546 (14) | 0.1569 (3) | 0.19392 (19) | 0.0217 (8) | |
C2 | 0.18875 (14) | 0.0779 (3) | 0.1620 (2) | 0.0236 (8) | |
H2 | 0.2104 | 0.1022 | 0.1485 | 0.028* | |
C3 | 0.17007 (14) | −0.0379 (3) | 0.1498 (2) | 0.0226 (8) | |
H3 | 0.1792 | −0.0930 | 0.1281 | 0.027* | |
C4 | 0.13800 (14) | −0.0741 (3) | 0.16895 (19) | 0.0184 (8) | |
C5 | 0.12407 (13) | 0.0067 (3) | 0.20035 (19) | 0.0192 (8) | |
C6 | 0.14297 (14) | 0.1234 (3) | 0.21229 (19) | 0.0202 (8) | |
H6 | 0.1335 | 0.1795 | 0.2331 | 0.024* | |
C7 | 0.13325 (14) | −0.2585 (3) | 0.2171 (2) | 0.0195 (8) | |
C8 | 0.16246 (14) | −0.3641 (3) | 0.2363 (2) | 0.0251 (8) | |
H8 | 0.1703 | −0.3925 | 0.2050 | 0.030* | |
C9 | 0.18005 (15) | −0.4278 (3) | 0.3010 (2) | 0.0277 (9) | |
H9 | 0.1990 | −0.5008 | 0.3130 | 0.033* | |
C10 | 0.17021 (15) | −0.3859 (3) | 0.3484 (2) | 0.0279 (9) | |
H10 | 0.1839 | −0.4279 | 0.3942 | 0.033* | |
C11 | 0.14026 (14) | −0.2824 (3) | 0.3284 (2) | 0.0218 (8) | |
H11 | 0.1337 | −0.2535 | 0.3611 | 0.026* | |
C12 | 0.11958 (13) | −0.2197 (3) | 0.26174 (19) | 0.0192 (8) | |
C13 | 0.08344 (13) | −0.1134 (3) | 0.23741 (19) | 0.0188 (8) | |
C14 | 0.01166 (14) | −0.2250 (3) | 0.2293 (2) | 0.0213 (8) | |
H14A | 0.0355 | −0.2957 | 0.2449 | 0.026* | |
H14B | −0.0200 | −0.2278 | 0.1720 | 0.026* | |
C15 | 0.01207 (16) | −0.0122 (3) | 0.2301 (2) | 0.0275 (9) | |
H15A | −0.0192 | −0.0082 | 0.1727 | 0.033* | |
H15B | 0.0362 | 0.0582 | 0.2466 | 0.033* | |
C16 | −0.17895 (16) | 0.1280 (3) | 0.0112 (2) | 0.0288 (9) | |
C17 | −0.23464 (16) | 0.1655 (3) | −0.0429 (2) | 0.0281 (9) | |
H17 | −0.2639 | 0.1242 | −0.0496 | 0.034* | |
C18 | −0.24668 (16) | 0.2646 (4) | −0.0871 (2) | 0.0295 (9) | |
H18 | −0.2846 | 0.2921 | −0.1239 | 0.035* | |
C19 | −0.20440 (15) | 0.3242 (3) | −0.0785 (2) | 0.0243 (8) | |
C20 | −0.14847 (15) | 0.2832 (3) | −0.0256 (2) | 0.0234 (8) | |
C21 | −0.13644 (16) | 0.1835 (3) | 0.0192 (2) | 0.0286 (9) | |
H21 | −0.0988 | 0.1540 | 0.0552 | 0.034* | |
C22 | −0.18879 (14) | 0.5297 (3) | −0.07650 (19) | 0.0226 (8) | |
C23 | −0.21963 (15) | 0.6224 (3) | −0.0810 (2) | 0.0261 (9) | |
H23 | −0.2597 | 0.6170 | −0.1150 | 0.031* | |
C24 | −0.19268 (16) | 0.7223 (3) | −0.0364 (2) | 0.0307 (9) | |
H24 | −0.2142 | 0.7859 | −0.0406 | 0.037* | |
C25 | −0.13406 (15) | 0.7302 (3) | 0.0147 (2) | 0.0284 (9) | |
H25 | −0.1154 | 0.7987 | 0.0458 | 0.034* | |
C26 | −0.10309 (15) | 0.6379 (3) | 0.0198 (2) | 0.0266 (9) | |
H26 | −0.0630 | 0.6434 | 0.0550 | 0.032* | |
C27 | −0.12948 (14) | 0.5367 (3) | −0.02575 (19) | 0.0210 (8) | |
C28 | −0.09638 (14) | 0.4389 (3) | −0.0221 (2) | 0.0244 (8) | |
C29 | −0.04984 (15) | 0.5690 (3) | −0.0536 (2) | 0.0296 (9) | |
H29A | −0.0762 | 0.6307 | −0.0636 | 0.036* | |
H29B | −0.0637 | 0.5399 | −0.1048 | 0.036* | |
C30 | −0.00914 (15) | 0.3787 (3) | 0.0074 (2) | 0.0311 (9) | |
H30A | −0.0219 | 0.3442 | −0.0420 | 0.037* | |
H30B | −0.0082 | 0.3153 | 0.0382 | 0.037* | |
C31 | −0.0300 (7) | −0.0738 (9) | 0.0164 (10) | 0.050 (4) | 0.50 |
H31A | 0.0015 | −0.1288 | 0.0511 | 0.075* | 0.50 |
H31B | −0.0526 | −0.0996 | −0.0379 | 0.075* | 0.50 |
H31C | −0.0538 | −0.0720 | 0.0301 | 0.075* | 0.50 |
C32 | −0.0085 (3) | 0.0391 (7) | 0.0251 (5) | 0.036 (2) | 0.50 |
C33 | 0.0213 (7) | 0.0692 (15) | 0.0010 (10) | 0.061 (5) | 0.50 |
H33A | 0.0431 | 0.1412 | 0.0279 | 0.091* | 0.50 |
H33B | −0.0055 | 0.0824 | −0.0556 | 0.091* | 0.50 |
H33C | 0.0471 | 0.0049 | 0.0139 | 0.091* | 0.50 |
C34 | 0.0776 (6) | 0.3420 (19) | 0.2628 (11) | 0.141 (5)* | 0.50 |
H34A | 0.1088 | 0.3808 | 0.2702 | 0.212* | 0.50 |
H34B | 0.0702 | 0.2650 | 0.2380 | 0.212* | 0.50 |
H34C | 0.0880 | 0.3312 | 0.3136 | 0.212* | 0.50 |
C35 | 0.0249 (8) | 0.4176 (17) | 0.2109 (14) | 0.194 (10)* | 0.50 |
H35A | 0.0299 | 0.4943 | 0.2355 | 0.233* | 0.50 |
H35B | 0.0133 | 0.4311 | 0.1589 | 0.233* | 0.50 |
C36 | −0.0151 (7) | 0.3412 (14) | 0.2058 (12) | 0.190 (10)* | 0.50 |
H36A | −0.0314 | 0.2816 | 0.1641 | 0.227* | 0.50 |
H36B | 0.0039 | 0.3002 | 0.2561 | 0.227* | 0.50 |
C37 | −0.0587 (7) | 0.4201 (13) | 0.1878 (12) | 0.141 (6)* | 0.50 |
H37A | −0.0804 | 0.4563 | 0.1355 | 0.169* | 0.50 |
H37B | −0.0427 | 0.4827 | 0.2277 | 0.169* | 0.50 |
C38 | −0.0949 (7) | 0.3330 (17) | 0.1902 (12) | 0.141 (5)* | 0.50 |
H38A | −0.1282 | 0.3738 | 0.1757 | 0.212* | 0.50 |
H38B | −0.0725 | 0.3010 | 0.2432 | 0.212* | 0.50 |
H38C | −0.1071 | 0.2686 | 0.1533 | 0.212* | 0.50 |
H1A | 0.1197 (16) | −0.228 (3) | 0.124 (2) | 0.030 (11)* | |
H4A | −0.2518 (17) | 0.443 (3) | −0.159 (2) | 0.026 (10)* |
U11 | U22 | U33 | U12 | U13 | U23 | |
Cl1 | 0.0352 (5) | 0.0277 (5) | 0.0341 (5) | −0.0082 (4) | 0.0246 (5) | 0.0011 (4) |
Cl2 | 0.0598 (7) | 0.0321 (6) | 0.0560 (7) | 0.0076 (5) | 0.0439 (6) | 0.0093 (5) |
O1 | 0.058 (4) | 0.054 (4) | 0.060 (4) | 0.018 (3) | 0.037 (4) | 0.021 (4) |
N1 | 0.0256 (17) | 0.0260 (18) | 0.0223 (16) | −0.0035 (14) | 0.0182 (15) | −0.0051 (14) |
N2 | 0.0214 (15) | 0.0222 (16) | 0.0251 (16) | −0.0027 (13) | 0.0187 (14) | −0.0014 (13) |
N3 | 0.0198 (15) | 0.0177 (15) | 0.0298 (17) | −0.0021 (12) | 0.0192 (14) | −0.0025 (13) |
N4 | 0.0182 (17) | 0.039 (2) | 0.0171 (16) | −0.0089 (15) | 0.0074 (15) | −0.0020 (15) |
N5 | 0.0230 (17) | 0.0286 (18) | 0.0354 (19) | −0.0068 (14) | 0.0215 (16) | −0.0116 (15) |
N6 | 0.0188 (16) | 0.0298 (18) | 0.042 (2) | −0.0049 (13) | 0.0221 (16) | −0.0076 (15) |
C1 | 0.0156 (17) | 0.0242 (19) | 0.0181 (18) | −0.0032 (15) | 0.0079 (16) | 0.0050 (15) |
C2 | 0.0174 (18) | 0.036 (2) | 0.0208 (19) | 0.0008 (16) | 0.0139 (17) | 0.0047 (17) |
C3 | 0.0199 (18) | 0.031 (2) | 0.0201 (19) | 0.0027 (16) | 0.0144 (17) | 0.0013 (16) |
C4 | 0.0181 (17) | 0.0201 (18) | 0.0171 (18) | −0.0002 (15) | 0.0116 (16) | −0.0017 (15) |
C5 | 0.0136 (17) | 0.0249 (19) | 0.0173 (17) | −0.0013 (15) | 0.0093 (16) | 0.0024 (15) |
C6 | 0.0189 (18) | 0.026 (2) | 0.0173 (18) | 0.0016 (15) | 0.0125 (16) | 0.0013 (15) |
C7 | 0.0163 (17) | 0.0210 (19) | 0.0224 (19) | −0.0064 (15) | 0.0133 (16) | −0.0051 (15) |
C8 | 0.0225 (19) | 0.025 (2) | 0.033 (2) | −0.0024 (16) | 0.0209 (19) | −0.0062 (17) |
C9 | 0.0207 (19) | 0.023 (2) | 0.040 (2) | 0.0044 (16) | 0.0207 (19) | 0.0022 (18) |
C10 | 0.022 (2) | 0.030 (2) | 0.032 (2) | 0.0030 (17) | 0.0180 (19) | 0.0059 (17) |
C11 | 0.0199 (18) | 0.026 (2) | 0.025 (2) | −0.0020 (15) | 0.0173 (17) | −0.0022 (16) |
C12 | 0.0139 (17) | 0.0211 (18) | 0.0216 (19) | −0.0050 (14) | 0.0112 (16) | −0.0043 (15) |
C13 | 0.0143 (17) | 0.026 (2) | 0.0162 (17) | −0.0013 (15) | 0.0102 (16) | −0.0042 (15) |
C14 | 0.0177 (18) | 0.0206 (19) | 0.028 (2) | −0.0001 (14) | 0.0160 (17) | −0.0023 (15) |
C15 | 0.031 (2) | 0.0188 (19) | 0.049 (2) | 0.0032 (16) | 0.034 (2) | 0.0024 (18) |
C16 | 0.039 (2) | 0.024 (2) | 0.032 (2) | −0.0020 (18) | 0.027 (2) | −0.0053 (17) |
C17 | 0.035 (2) | 0.029 (2) | 0.031 (2) | −0.0103 (18) | 0.026 (2) | −0.0086 (18) |
C18 | 0.024 (2) | 0.042 (2) | 0.023 (2) | −0.0082 (18) | 0.0155 (18) | −0.0085 (18) |
C19 | 0.0227 (19) | 0.034 (2) | 0.0171 (18) | −0.0094 (16) | 0.0135 (17) | −0.0088 (16) |
C20 | 0.0241 (19) | 0.024 (2) | 0.027 (2) | −0.0078 (16) | 0.0190 (18) | −0.0122 (16) |
C21 | 0.027 (2) | 0.030 (2) | 0.031 (2) | −0.0014 (17) | 0.0207 (19) | −0.0089 (18) |
C22 | 0.0208 (18) | 0.033 (2) | 0.0158 (18) | −0.0055 (16) | 0.0127 (16) | 0.0003 (16) |
C23 | 0.0150 (18) | 0.038 (2) | 0.023 (2) | 0.0059 (17) | 0.0117 (17) | 0.0091 (18) |
C24 | 0.032 (2) | 0.034 (2) | 0.032 (2) | 0.0120 (18) | 0.023 (2) | 0.0108 (18) |
C25 | 0.028 (2) | 0.030 (2) | 0.029 (2) | 0.0023 (17) | 0.0191 (19) | −0.0005 (17) |
C26 | 0.0179 (18) | 0.035 (2) | 0.025 (2) | −0.0049 (17) | 0.0130 (17) | −0.0060 (17) |
C27 | 0.0186 (18) | 0.027 (2) | 0.0180 (18) | −0.0049 (15) | 0.0121 (16) | −0.0049 (15) |
C28 | 0.0174 (18) | 0.033 (2) | 0.0220 (19) | −0.0056 (16) | 0.0128 (17) | −0.0100 (17) |
C29 | 0.0201 (19) | 0.037 (2) | 0.033 (2) | −0.0040 (17) | 0.0178 (19) | −0.0073 (18) |
C30 | 0.023 (2) | 0.031 (2) | 0.044 (2) | −0.0042 (17) | 0.024 (2) | −0.0092 (19) |
C31 | 0.038 (7) | 0.063 (8) | 0.039 (9) | 0.018 (6) | 0.020 (6) | −0.006 (6) |
C32 | 0.034 (5) | 0.031 (5) | 0.026 (5) | 0.014 (4) | 0.013 (4) | 0.002 (4) |
C33 | 0.040 (8) | 0.102 (12) | 0.034 (9) | 0.029 (7) | 0.022 (6) | 0.004 (7) |
Cl1—C1 | 1.744 (4) | C17—H17 | 0.9500 |
Cl2—C16 | 1.751 (4) | C18—C19 | 1.384 (5) |
O1—C32 | 1.211 (10) | C18—H18 | 0.9500 |
N1—C7 | 1.418 (4) | C19—C20 | 1.402 (5) |
N1—C4 | 1.420 (4) | C20—C21 | 1.397 (5) |
N1—H1A | 0.85 (4) | C21—H21 | 0.9500 |
N2—C13 | 1.280 (4) | C22—C23 | 1.387 (5) |
N2—C5 | 1.403 (4) | C22—C27 | 1.405 (5) |
N3—C13 | 1.396 (4) | C23—C24 | 1.378 (5) |
N3—C15 | 1.462 (4) | C23—H23 | 0.9500 |
N3—C14 | 1.468 (4) | C24—C25 | 1.389 (5) |
N4—C19 | 1.423 (5) | C24—H24 | 0.9500 |
N4—C22 | 1.424 (5) | C25—C26 | 1.381 (5) |
N4—H4A | 0.87 (4) | C25—H25 | 0.9500 |
N5—C28 | 1.291 (5) | C26—C27 | 1.396 (5) |
N5—C20 | 1.404 (4) | C26—H26 | 0.9500 |
N6—C28 | 1.385 (4) | C27—C28 | 1.485 (5) |
N6—C30 | 1.464 (5) | C29—C30ii | 1.524 (5) |
N6—C29 | 1.472 (5) | C29—H29A | 0.9900 |
C1—C2 | 1.379 (5) | C29—H29B | 0.9900 |
C1—C6 | 1.385 (5) | C30—C29ii | 1.524 (5) |
C2—C3 | 1.390 (5) | C30—H30A | 0.9900 |
C2—H2 | 0.9500 | C30—H30B | 0.9900 |
C3—C4 | 1.395 (5) | C31—C32 | 1.4003 (10) |
C3—H3 | 0.9500 | C31—H31A | 0.9800 |
C4—C5 | 1.397 (5) | C31—H31B | 0.9800 |
C5—C6 | 1.403 (5) | C31—H31C | 0.9800 |
C6—H6 | 0.9500 | C32—C33 | 1.4008 (10) |
C7—C8 | 1.393 (5) | C33—H33A | 0.9800 |
C7—C12 | 1.406 (5) | C33—H33B | 0.9800 |
C8—C9 | 1.384 (5) | C33—H33C | 0.9800 |
C8—H8 | 0.9500 | C34—C35 | 1.515 (10) |
C9—C10 | 1.385 (5) | C34—H34A | 0.9800 |
C9—H9 | 0.9500 | C34—H34B | 0.9800 |
C10—C11 | 1.381 (5) | C34—H34C | 0.9800 |
C10—H10 | 0.9500 | C35—C36 | 1.467 (10) |
C11—C12 | 1.389 (5) | C35—H35A | 0.9900 |
C11—H11 | 0.9500 | C35—H35B | 0.9900 |
C12—C13 | 1.491 (5) | C36—C37 | 1.450 (9) |
C14—C14i | 1.522 (6) | C36—H36A | 0.9900 |
C14—H14A | 0.9900 | C36—H36B | 0.9900 |
C14—H14B | 0.9900 | C37—C38 | 1.534 (9) |
C15—C15i | 1.514 (7) | C37—H37A | 0.9900 |
C15—H15A | 0.9900 | C37—H37B | 0.9900 |
C15—H15B | 0.9900 | C38—H38A | 0.9800 |
C16—C21 | 1.374 (5) | C38—H38B | 0.9800 |
C16—C17 | 1.385 (5) | C38—H38C | 0.9800 |
C17—C18 | 1.383 (5) | ||
C7—N1—C4 | 116.3 (3) | C16—C21—H21 | 120.0 |
C7—N1—H1A | 112 (3) | C20—C21—H21 | 120.0 |
C4—N1—H1A | 113 (3) | C23—C22—C27 | 120.0 (3) |
C13—N2—C5 | 123.7 (3) | C23—C22—N4 | 121.3 (3) |
C13—N3—C15 | 115.9 (3) | C27—C22—N4 | 118.6 (3) |
C13—N3—C14 | 120.3 (3) | C24—C23—C22 | 120.6 (3) |
C15—N3—C14 | 111.1 (3) | C24—C23—H23 | 119.7 |
C19—N4—C22 | 113.2 (3) | C22—C23—H23 | 119.7 |
C19—N4—H4A | 114 (2) | C23—C24—C25 | 120.1 (3) |
C22—N4—H4A | 107 (2) | C23—C24—H24 | 119.9 |
C28—N5—C20 | 123.3 (3) | C25—C24—H24 | 119.9 |
C28—N6—C30 | 118.4 (3) | C26—C25—C24 | 119.6 (4) |
C28—N6—C29 | 121.3 (3) | C26—C25—H25 | 120.2 |
C30—N6—C29 | 111.5 (3) | C24—C25—H25 | 120.2 |
C2—C1—C6 | 121.1 (3) | C25—C26—C27 | 121.4 (3) |
C2—C1—Cl1 | 120.1 (3) | C25—C26—H26 | 119.3 |
C6—C1—Cl1 | 118.8 (3) | C27—C26—H26 | 119.3 |
C1—C2—C3 | 119.1 (3) | C26—C27—C22 | 118.3 (3) |
C1—C2—H2 | 120.5 | C26—C27—C28 | 121.5 (3) |
C3—C2—H2 | 120.5 | C22—C27—C28 | 120.2 (3) |
C2—C3—C4 | 120.8 (3) | N5—C28—N6 | 117.4 (3) |
C2—C3—H3 | 119.6 | N5—C28—C27 | 126.2 (3) |
C4—C3—H3 | 119.6 | N6—C28—C27 | 116.0 (3) |
C3—C4—C5 | 119.8 (3) | N6—C29—C30ii | 110.3 (3) |
C3—C4—N1 | 120.9 (3) | N6—C29—H29A | 109.6 |
C5—C4—N1 | 119.2 (3) | C30ii—C29—H29A | 109.6 |
C4—C5—C6 | 119.0 (3) | N6—C29—H29B | 109.6 |
C4—C5—N2 | 124.8 (3) | C30ii—C29—H29B | 109.6 |
C6—C5—N2 | 115.8 (3) | H29A—C29—H29B | 108.1 |
C1—C6—C5 | 120.2 (3) | N6—C30—C29ii | 109.5 (3) |
C1—C6—H6 | 119.9 | N6—C30—H30A | 109.8 |
C5—C6—H6 | 119.9 | C29ii—C30—H30A | 109.8 |
C8—C7—C12 | 119.6 (3) | N6—C30—H30B | 109.8 |
C8—C7—N1 | 121.1 (3) | C29ii—C30—H30B | 109.8 |
C12—C7—N1 | 119.3 (3) | H30A—C30—H30B | 108.2 |
C9—C8—C7 | 120.2 (3) | C32—C31—H31A | 109.5 |
C9—C8—H8 | 119.9 | C32—C31—H31B | 109.5 |
C7—C8—H8 | 119.9 | H31A—C31—H31B | 109.5 |
C8—C9—C10 | 120.6 (3) | C32—C31—H31C | 109.5 |
C8—C9—H9 | 119.7 | H31A—C31—H31C | 109.5 |
C10—C9—H9 | 119.7 | H31B—C31—H31C | 109.5 |
C11—C10—C9 | 119.2 (4) | O1—C32—C31 | 119.4 (10) |
C11—C10—H10 | 120.4 | O1—C32—C33 | 117.2 (8) |
C9—C10—H10 | 120.4 | C31—C32—C33 | 123.4 (12) |
C10—C11—C12 | 121.6 (3) | C32—C33—H33A | 109.5 |
C10—C11—H11 | 119.2 | C32—C33—H33B | 109.5 |
C12—C11—H11 | 119.2 | H33A—C33—H33B | 109.5 |
C11—C12—C7 | 118.7 (3) | C32—C33—H33C | 109.5 |
C11—C12—C13 | 121.0 (3) | H33A—C33—H33C | 109.5 |
C7—C12—C13 | 120.3 (3) | H33B—C33—H33C | 109.5 |
N2—C13—N3 | 116.5 (3) | C35—C34—H34A | 109.5 |
N2—C13—C12 | 127.7 (3) | C35—C34—H34B | 109.5 |
N3—C13—C12 | 115.6 (3) | H34A—C34—H34B | 109.5 |
N3—C14—C14i | 110.0 (2) | C35—C34—H34C | 109.5 |
N3—C14—H14A | 109.7 | H34A—C34—H34C | 109.5 |
C14i—C14—H14A | 109.7 | H34B—C34—H34C | 109.5 |
N3—C14—H14B | 109.7 | C36—C35—C34 | 99.5 (8) |
C14i—C14—H14B | 109.7 | C36—C35—H35A | 111.9 |
H14A—C14—H14B | 108.2 | C34—C35—H35A | 111.9 |
N3—C15—C15i | 110.7 (3) | C36—C35—H35B | 111.9 |
N3—C15—H15A | 109.5 | C34—C35—H35B | 111.9 |
C15i—C15—H15A | 109.5 | H35A—C35—H35B | 109.6 |
N3—C15—H15B | 109.5 | C37—C36—C35 | 104.9 (9) |
C15i—C15—H15B | 109.5 | C37—C36—H36A | 110.8 |
H15A—C15—H15B | 108.1 | C35—C36—H36A | 110.8 |
C21—C16—C17 | 121.7 (4) | C37—C36—H36B | 110.8 |
C21—C16—Cl2 | 119.3 (3) | C35—C36—H36B | 110.8 |
C17—C16—Cl2 | 119.1 (3) | H36A—C36—H36B | 108.8 |
C18—C17—C16 | 118.4 (3) | C36—C37—C38 | 100.1 (8) |
C18—C17—H17 | 120.8 | C36—C37—H37A | 111.7 |
C16—C17—H17 | 120.8 | C38—C37—H37A | 111.7 |
C17—C18—C19 | 121.1 (4) | C36—C37—H37B | 111.7 |
C17—C18—H18 | 119.5 | C38—C37—H37B | 111.7 |
C19—C18—H18 | 119.5 | H37A—C37—H37B | 109.5 |
C18—C19—C20 | 120.1 (3) | C37—C38—H38A | 109.5 |
C18—C19—N4 | 121.8 (3) | C37—C38—H38B | 109.5 |
C20—C19—N4 | 118.1 (3) | H38A—C38—H38B | 109.5 |
C21—C20—C19 | 118.6 (3) | C37—C38—H38C | 109.5 |
C21—C20—N5 | 117.5 (3) | H38A—C38—H38C | 109.5 |
C19—C20—N5 | 123.4 (3) | H38B—C38—H38C | 109.5 |
C16—C21—C20 | 120.0 (4) |
Symmetry codes: (i) −x, y, −z+1/2; (ii) −x, −y+1, −z. |
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1A···N5iii | 0.85 (4) | 2.33 (4) | 3.154 (4) | 166 (3) |
Symmetry code: (iii) −x, −y, −z. |
Experimental details
Crystal data | |
Chemical formula | 2C30H24Cl2N6·C5H12·C3H6O |
Mr | 1209.13 |
Crystal system, space group | Monoclinic, C2/c |
Temperature (K) | 123 |
a, b, c (Å) | 31.3716 (2), 11.3509 (2), 22.7030 (3) |
β (°) | 131.147 (1) |
V (Å3) | 6087.77 (16) |
Z | 4 |
Radiation type | Mo Kα |
µ (mm−1) | 0.25 |
Crystal size (mm) | 0.20 × 0.20 × 0.08 |
Data collection | |
Diffractometer | Enraf Nonius KAPPA CCD |
Absorption correction | Multi-scan (SORTAV; Blessing, 1997) |
Tmin, Tmax | 0.94, 0.99 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 23817, 5349, 3743 |
Rint | 0.061 |
(sin θ/λ)max (Å−1) | 0.595 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.065, 0.158, 1.06 |
No. of reflections | 5349 |
No. of parameters | 408 |
No. of restraints | 9 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
w = 1/[σ2(Fo2) + (0.0566P)2 + 21.5958P] where P = (Fo2 + 2Fc2)/3 | |
Δρmax, Δρmin (e Å−3) | 0.83, −0.54 |
Computer programs: COLLECT (Bruker AXS, 2000), DENZO SMN (Otwinowski & Minor, 1997), SHELXS97 (Sheldrick, 1997), SHELXL97 (Sheldrick, 1997), X-SEED (Barbour, 2001), Microsoft Office (2000).
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1A···N5i | 0.85 (4) | 2.33 (4) | 3.154 (4) | 166 (3) |
Symmetry code: (i) −x, −y, −z. |
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Clozapine is an atypical (Gerlach, 1991) antipsychotic drug used clinically to treat schizophrenia (Andreasen et al., 1994). Clozapine, however, has been found to induce the potentially fatal blood disorder agranulocytosis. The major metabolite of clozapine, 8-chloro-11-piperazino-5H-dibenzo[b,e][1,4]diazepine (desmethylclozapine), has been implicated in this serious blood dyscrasia (Veys et al., 1992, Gerson & Meltzer, 1992). A modified synthetic procedure (Capuano, 1999) was employed to synthesize desmethylclozapine as this compound was envisaged as a versatile intermediate towards clozapine-like analogues potentially devoid of any blood disorders, and for use in haematological studies to investigate the possible mechanism of clozapine-induced agranulocytosis. During the synthesis, the title compound (Scheme 1) was isolated as a by-product of commercial significance, purified and structurally characterized by X-ray diffraction to examine its solid state confirmation.
The structure of the title compound displays two geometric forms, A (Fig. 1), and B (Fig. 2). Both have half a molecule in the asymmetric unit, the other half generated by a 2-fold axis (located at the mid-point of the C—C bonds in the piperazine ring in A) or an inversion centre (located at the centroid of the piperazine ring in B). These symmetry operations generate a cisoid relationship of the dibenzodiazepine nucleii for A and a transiod relationship for B. Each unique dibenzodiazepine exhibits a typical buckled nature with the central seven-membered heterocycle in a boat arrangement. Both forms A and B have the opposite boat conformation at either end of the molecule (as required by symmetry) and consequently conversion from A to B requires inversion of the dibenzodiazepine moiety as well as rotation about the C–N linkage between the dibenzodiazepine and piperazine units. Molecular mechanics single point calculations were carried out for both geometric forms present in the unit cell (HYPERCHEM v7.5 (Hypercube Inc, 2005), MM+ force field, in vacuo). This calculation, which accounts for the effects of crystal packing forces, determined an energy difference ΔE (EA—EB) of 27 kcal mol-1 indicating that geometric form B is the more thermodynamically stable form of (I). The observation of two distinct forms of the title compound contrasts the analogous pyridobenzoxazepine compound 8-chloro-5-[4-(8-chloropyrido [2,3-b][1,5]benzoxazepin-5-yl)piperazino]pyrido[2,3-b] [1,5]benzoxazepine which has only one form corresponding to B (Capuano et al., 2006). The dihedral angle between the planes of the aromatic rings is 126.1 (1)° for A and 119.6 (1)° for B, which is comparable to the 115° observed for clozapine (Petcher & Weber, 1976). Short N2—C13 and N5—C28 bond distances, 1.280 (4) Å and 1.291 (5) Å respectively, confirm the presence of double bonds at these positions. The piperazine ring adopts a chair conformation with the tricyclic groups assuming a pseudoequatorial orientation, by virtue of the sp2-like nature of the piperazine nitrogen atoms (Σ(°) 347.1). Alternating A and B forms are weakly associated by N1—H1A···N5 hydrogen bonds generating zigzag chains parallel to the c axis.