Sorafenib, a drug that targets malignant cancer cells and cuts off the blood supply feeding the tumour, has been crystallized as the free base, 4-(4-{3-[4-chloro-3-(trifluoromethyl)phenyl]ureido}phenoxy)-
N-methylpyridine-2-carboxamide, C
21H
16ClF
3N
4O
3, (I), and as a tosylate salt, 4-(4-{3-[4-chloro-3-(trifluoromethyl)phenyl]ureido}phenoxy)-2-(
N-methylcarbamoyl)pyridinium 4-methylbenzenesulfonate, C
21H
17ClF
3N
4O
3+·C
7H
7O
3S
−, (II). In both structures, the sorafenib molecule is in an extended conformation. The pyridine-2-carboxamide group exhibits a
syn conformation of the N atoms in (I), whereas an almost
anti orientation is present in (II). In both crystal structures, the two terminal groups,
viz. pyridine-2-carboxamide and the trifluorophenyl ring, are oriented differently to the conformations found in enzyme-bound sorafenib. The sorafenib molecules in (I) are linked into zigzag chains by N—H
O hydrogen bonds, whereas in (II) the presence of the additional tosylate anion results in the formation of chains of fused hydrogen-bonded rings. This study reveals the variations in the solid-state conformation of the sorafenib molecule in different crystalline environments.
Supporting information
CCDC references: 813502; 813503
Sorafenib, (I) (Natco Research Centre, Hyderabad) (50 mg), was dissolved in
methanol (5 ml). After 2 d, crystals were obtained by slow evaporation.
Sorafenib tosylate, (II) (Natco Research Centre, Hyderabad) (50 mg), was
dissolved in a mixture of methanol (5 ml) and water (1 ml), and the solution
allowed to evaporate slowly. After 3 d, crystals were obtained.
All N-bound H atoms were located in a difference Fourier map and their positions
and isotropic displacement parameters were refined. All other H atoms were
located in a difference density map, but were positioned geometrically and
included as riding atoms, with C—H = 0.93–0.96 Å, and with
Uiso(H) = 1.5Ueq(C) for the methyl groups or
1.2Ueq(c) for the other H atoms. Distance restraints were
applied to N1—H1N, N2—H2N and N4—H4N of (II), with a set value of
0.87 (2) Å. The methyl groups were allowed to rotate but not to tip.
For both compounds, data collection: SMART (Bruker, 2001); cell refinement: SAINT (Bruker, 2001); data reduction: SAINT (Bruker, 2001); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: DIAMOND (Brandenburg & Putz, 2005) and Mercury (Macrae et al., 2008); software used to prepare material for publication: SHELXL97 (Sheldrick, 2008).
(I) 4-(4-{3-[4-chloro-3-(trifluoromethyl)phenyl]ureido}phenoxy)-
N-methylpyridine-2-carboxamide
top
Crystal data top
C21H16ClF3N4O3 | F(000) = 952 |
Mr = 464.83 | Dx = 1.394 Mg m−3 |
Monoclinic, P21/c | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: -P 2ybc | Cell parameters from 7634 reflections |
a = 8.1587 (16) Å | θ = 2.2–26.9° |
b = 9.8055 (19) Å | µ = 0.23 mm−1 |
c = 27.758 (5) Å | T = 294 K |
β = 94.358 (3)° | Needle, colourless |
V = 2214.2 (7) Å3 | 0.17 × 0.11 × 0.06 mm |
Z = 4 | |
Data collection top
Bruker SMART APEX CCD area-detector diffractometer | 3241 reflections with I > 2σ(I) |
Radiation source: fine-focus sealed tube | Rint = 0.024 |
Graphite monochromator | θmax = 25.0°, θmin = 1.5° |
ω scans | h = −9→9 |
20023 measured reflections | k = −11→11 |
3896 independent reflections | l = −32→32 |
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)] = 0.037 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.102 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.02 | w = 1/[σ2(Fo2) + (0.0506P)2 + 0.5662P] where P = (Fo2 + 2Fc2)/3 |
3896 reflections | (Δ/σ)max = 0.001 |
302 parameters | Δρmax = 0.23 e Å−3 |
0 restraints | Δρmin = −0.17 e Å−3 |
Crystal data top
C21H16ClF3N4O3 | V = 2214.2 (7) Å3 |
Mr = 464.83 | Z = 4 |
Monoclinic, P21/c | Mo Kα radiation |
a = 8.1587 (16) Å | µ = 0.23 mm−1 |
b = 9.8055 (19) Å | T = 294 K |
c = 27.758 (5) Å | 0.17 × 0.11 × 0.06 mm |
β = 94.358 (3)° | |
Data collection top
Bruker SMART APEX CCD area-detector diffractometer | 3241 reflections with I > 2σ(I) |
20023 measured reflections | Rint = 0.024 |
3896 independent reflections | |
Refinement top
R[F2 > 2σ(F2)] = 0.037 | 0 restraints |
wR(F2) = 0.102 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.02 | Δρmax = 0.23 e Å−3 |
3896 reflections | Δρmin = −0.17 e Å−3 |
302 parameters | |
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 | |
C1 | 1.0026 (2) | 0.7566 (2) | 1.13693 (6) | 0.0555 (4) | |
C2 | 0.95529 (19) | 0.62000 (18) | 1.12557 (5) | 0.0485 (4) | |
C3 | 0.8941 (2) | 0.58869 (17) | 1.07760 (6) | 0.0489 (4) | |
H3 | 0.8626 | 0.4997 | 1.0699 | 0.059* | |
C4 | 0.8799 (2) | 0.69043 (17) | 1.04100 (6) | 0.0486 (4) | |
C5 | 0.9362 (2) | 0.82454 (18) | 1.05254 (6) | 0.0597 (5) | |
H5 | 0.9335 | 0.8914 | 1.0287 | 0.072* | |
C6 | 0.9963 (3) | 0.85606 (19) | 1.10040 (7) | 0.0645 (5) | |
H6 | 1.0324 | 0.9441 | 1.1078 | 0.077* | |
C7 | 0.7692 (2) | 0.73446 (18) | 0.95428 (6) | 0.0539 (4) | |
C8 | 0.6343 (2) | 0.71823 (16) | 0.86926 (5) | 0.0480 (4) | |
C9 | 0.4903 (2) | 0.66724 (17) | 0.84432 (6) | 0.0526 (4) | |
H9 | 0.4235 | 0.6069 | 0.8597 | 0.063* | |
C10 | 0.4464 (2) | 0.70712 (18) | 0.79592 (6) | 0.0566 (4) | |
H10 | 0.3518 | 0.6726 | 0.7795 | 0.068* | |
C11 | 0.5472 (2) | 0.79926 (17) | 0.77315 (5) | 0.0523 (4) | |
C12 | 0.6892 (2) | 0.85257 (18) | 0.79774 (6) | 0.0596 (5) | |
H12 | 0.7543 | 0.9144 | 0.7824 | 0.071* | |
C13 | 0.7334 (2) | 0.81215 (19) | 0.84593 (6) | 0.0579 (5) | |
H13 | 0.8278 | 0.8474 | 0.8623 | 0.070* | |
C14 | 0.5178 (2) | 0.75891 (16) | 0.68634 (6) | 0.0470 (4) | |
C15 | 0.6009 (2) | 0.63316 (18) | 0.68937 (6) | 0.0547 (4) | |
H15 | 0.6504 | 0.6018 | 0.7186 | 0.066* | |
C16 | 0.6066 (2) | 0.55589 (19) | 0.64638 (7) | 0.0622 (5) | |
H16 | 0.6607 | 0.4724 | 0.6485 | 0.075* | |
C17 | 0.4612 (2) | 0.71866 (16) | 0.60018 (5) | 0.0447 (4) | |
C18 | 0.4464 (2) | 0.80324 (16) | 0.64079 (5) | 0.0472 (4) | |
H18 | 0.3912 | 0.8861 | 0.6378 | 0.057* | |
C19 | 0.3855 (2) | 0.76440 (17) | 0.55022 (6) | 0.0484 (4) | |
C20 | 0.2898 (3) | 0.6881 (2) | 0.46694 (6) | 0.0711 (6) | |
H20A | 0.1735 | 0.7023 | 0.4674 | 0.107* | |
H20B | 0.3097 | 0.6102 | 0.4473 | 0.107* | |
H20C | 0.3393 | 0.7673 | 0.4538 | 0.107* | |
C21 | 0.9677 (2) | 0.5069 (2) | 1.16348 (6) | 0.0603 (5) | |
N1 | 0.8102 (2) | 0.64977 (16) | 0.99427 (5) | 0.0599 (4) | |
H1N | 0.774 (2) | 0.567 (2) | 0.9915 (7) | 0.067 (6)* | |
N2 | 0.6806 (2) | 0.66506 (16) | 0.91699 (5) | 0.0560 (4) | |
H2N | 0.652 (2) | 0.583 (2) | 0.9235 (7) | 0.060 (5)* | |
N3 | 0.53854 (19) | 0.59478 (15) | 0.60211 (5) | 0.0562 (4) | |
N4 | 0.3622 (2) | 0.66439 (17) | 0.51688 (5) | 0.0600 (4) | |
H3N | 0.387 (3) | 0.581 (3) | 0.5272 (8) | 0.086 (7)* | |
O1 | 0.34845 (19) | 0.88759 (13) | 0.54173 (4) | 0.0697 (4) | |
O2 | 0.49976 (18) | 0.84699 (12) | 0.72516 (4) | 0.0629 (4) | |
O3 | 0.8075 (2) | 0.85716 (13) | 0.95244 (5) | 0.0815 (5) | |
F1 | 0.92783 (15) | 0.38124 (12) | 1.14415 (4) | 0.0777 (3) | |
F2 | 1.12158 (15) | 0.49440 (13) | 1.18595 (4) | 0.0818 (4) | |
F3 | 0.86219 (16) | 0.52690 (15) | 1.19909 (4) | 0.0887 (4) | |
Cl1 | 1.06648 (7) | 0.80683 (6) | 1.196991 (17) | 0.0823 (2) | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
C1 | 0.0571 (10) | 0.0691 (12) | 0.0390 (8) | −0.0011 (9) | −0.0045 (7) | −0.0119 (8) |
C2 | 0.0448 (8) | 0.0633 (11) | 0.0371 (8) | −0.0001 (8) | 0.0013 (7) | −0.0011 (7) |
C3 | 0.0559 (9) | 0.0500 (9) | 0.0404 (9) | −0.0052 (8) | 0.0006 (7) | −0.0020 (7) |
C4 | 0.0578 (10) | 0.0509 (9) | 0.0363 (8) | −0.0030 (7) | −0.0017 (7) | −0.0030 (7) |
C5 | 0.0826 (13) | 0.0495 (10) | 0.0453 (9) | −0.0070 (9) | −0.0061 (9) | −0.0008 (8) |
C6 | 0.0826 (13) | 0.0516 (10) | 0.0567 (11) | −0.0081 (9) | −0.0110 (9) | −0.0112 (9) |
C7 | 0.0724 (11) | 0.0486 (10) | 0.0394 (9) | −0.0078 (8) | −0.0051 (8) | 0.0011 (7) |
C8 | 0.0629 (10) | 0.0443 (9) | 0.0359 (8) | −0.0023 (7) | −0.0020 (7) | 0.0000 (7) |
C9 | 0.0635 (10) | 0.0515 (9) | 0.0422 (9) | −0.0108 (8) | −0.0006 (8) | 0.0050 (7) |
C10 | 0.0668 (11) | 0.0552 (10) | 0.0455 (9) | −0.0091 (8) | −0.0115 (8) | 0.0022 (8) |
C11 | 0.0775 (12) | 0.0452 (9) | 0.0331 (8) | 0.0018 (8) | −0.0024 (8) | 0.0017 (7) |
C12 | 0.0795 (12) | 0.0555 (10) | 0.0435 (9) | −0.0157 (9) | 0.0031 (9) | 0.0062 (8) |
C13 | 0.0673 (11) | 0.0600 (11) | 0.0447 (9) | −0.0163 (9) | −0.0071 (8) | 0.0030 (8) |
C14 | 0.0584 (10) | 0.0446 (9) | 0.0378 (8) | −0.0070 (7) | 0.0023 (7) | 0.0022 (7) |
C15 | 0.0633 (10) | 0.0560 (10) | 0.0438 (9) | 0.0042 (8) | −0.0020 (8) | 0.0092 (8) |
C16 | 0.0787 (13) | 0.0548 (10) | 0.0532 (10) | 0.0206 (9) | 0.0052 (9) | 0.0068 (8) |
C17 | 0.0519 (9) | 0.0435 (9) | 0.0392 (8) | −0.0005 (7) | 0.0054 (7) | 0.0029 (7) |
C18 | 0.0624 (10) | 0.0395 (8) | 0.0396 (8) | 0.0026 (7) | 0.0025 (7) | 0.0035 (7) |
C19 | 0.0609 (10) | 0.0462 (9) | 0.0384 (8) | 0.0039 (8) | 0.0063 (7) | −0.0003 (7) |
C20 | 0.0998 (16) | 0.0707 (13) | 0.0412 (10) | 0.0126 (11) | −0.0043 (10) | −0.0074 (9) |
C21 | 0.0584 (10) | 0.0779 (13) | 0.0440 (9) | −0.0018 (9) | 0.0001 (8) | 0.0043 (9) |
N1 | 0.0928 (12) | 0.0455 (8) | 0.0386 (8) | −0.0122 (8) | −0.0126 (7) | −0.0001 (6) |
N2 | 0.0800 (10) | 0.0469 (8) | 0.0389 (7) | −0.0127 (8) | −0.0101 (7) | 0.0053 (6) |
N3 | 0.0712 (9) | 0.0514 (8) | 0.0463 (8) | 0.0108 (7) | 0.0058 (7) | 0.0015 (7) |
N4 | 0.0886 (11) | 0.0500 (9) | 0.0403 (8) | 0.0116 (8) | −0.0023 (7) | −0.0034 (7) |
O1 | 0.1163 (11) | 0.0474 (7) | 0.0434 (7) | 0.0133 (7) | −0.0078 (7) | 0.0010 (5) |
O2 | 0.1034 (10) | 0.0480 (7) | 0.0355 (6) | 0.0039 (6) | −0.0053 (6) | 0.0018 (5) |
O3 | 0.1322 (13) | 0.0539 (8) | 0.0536 (8) | −0.0262 (8) | −0.0247 (8) | 0.0080 (6) |
F1 | 0.0974 (9) | 0.0698 (7) | 0.0639 (7) | −0.0089 (6) | −0.0065 (6) | 0.0139 (6) |
F2 | 0.0731 (7) | 0.0979 (9) | 0.0704 (7) | 0.0032 (6) | −0.0198 (6) | 0.0181 (7) |
F3 | 0.0953 (9) | 0.1190 (11) | 0.0551 (7) | −0.0042 (7) | 0.0275 (6) | 0.0122 (7) |
Cl1 | 0.0972 (4) | 0.0991 (4) | 0.0472 (3) | −0.0052 (3) | −0.0163 (3) | −0.0219 (3) |
Geometric parameters (Å, º) top
C1—C6 | 1.405 (3) | C12—H12 | 0.9300 |
C1—C2 | 1.423 (3) | C13—H13 | 0.9300 |
C1—Cl1 | 1.7782 (17) | C14—O2 | 1.397 (2) |
C2—C3 | 1.420 (2) | C14—C15 | 1.407 (2) |
C2—C21 | 1.527 (2) | C14—C18 | 1.419 (2) |
C3—C4 | 1.422 (2) | C15—C16 | 1.417 (3) |
C3—H3 | 0.9300 | C15—H15 | 0.9300 |
C4—C5 | 1.422 (2) | C16—N3 | 1.364 (2) |
C4—N1 | 1.433 (2) | C16—H16 | 0.9300 |
C5—C6 | 1.415 (2) | C17—N3 | 1.368 (2) |
C5—H5 | 0.9300 | C17—C18 | 1.412 (2) |
C6—H6 | 0.9300 | C17—C19 | 1.541 (2) |
C7—O3 | 1.245 (2) | C18—H18 | 0.9300 |
C7—N2 | 1.394 (2) | C19—O1 | 1.263 (2) |
C7—N1 | 1.406 (2) | C19—N4 | 1.352 (2) |
C8—C9 | 1.409 (2) | C20—N4 | 1.483 (2) |
C8—C13 | 1.415 (2) | C20—H20A | 0.9600 |
C8—N2 | 1.447 (2) | C20—H20B | 0.9600 |
C9—C10 | 1.419 (2) | C20—H20C | 0.9600 |
C9—H9 | 0.9300 | C21—F2 | 1.365 (2) |
C10—C11 | 1.404 (2) | C21—F1 | 1.373 (2) |
C10—H10 | 0.9300 | C21—F3 | 1.373 (2) |
C11—C12 | 1.400 (3) | N1—H1N | 0.86 (2) |
C11—O2 | 1.4368 (18) | N2—H2N | 0.86 (2) |
C12—C13 | 1.415 (2) | N4—H3N | 0.88 (2) |
| | | |
C6—C1—C2 | 119.94 (15) | O2—C14—C18 | 115.96 (14) |
C6—C1—Cl1 | 118.45 (14) | C15—C14—C18 | 119.01 (15) |
C2—C1—Cl1 | 121.59 (14) | C14—C15—C16 | 117.68 (15) |
C3—C2—C1 | 118.79 (15) | C14—C15—H15 | 121.2 |
C3—C2—C21 | 119.31 (16) | C16—C15—H15 | 121.2 |
C1—C2—C21 | 121.90 (15) | N3—C16—C15 | 124.90 (16) |
C2—C3—C4 | 121.48 (15) | N3—C16—H16 | 117.5 |
C2—C3—H3 | 119.3 | C15—C16—H16 | 117.5 |
C4—C3—H3 | 119.3 | N3—C17—C18 | 123.86 (14) |
C5—C4—C3 | 118.71 (15) | N3—C17—C19 | 116.47 (13) |
C5—C4—N1 | 124.10 (15) | C18—C17—C19 | 119.66 (14) |
C3—C4—N1 | 117.18 (15) | C17—C18—C14 | 118.51 (15) |
C6—C5—C4 | 119.79 (16) | C17—C18—H18 | 120.7 |
C6—C5—H5 | 120.1 | C14—C18—H18 | 120.7 |
C4—C5—H5 | 120.1 | O1—C19—N4 | 123.14 (15) |
C1—C6—C5 | 121.13 (17) | O1—C19—C17 | 121.34 (14) |
C1—C6—H6 | 119.4 | N4—C19—C17 | 115.52 (14) |
C5—C6—H6 | 119.4 | N4—C20—H20A | 109.5 |
O3—C7—N2 | 123.99 (15) | N4—C20—H20B | 109.5 |
O3—C7—N1 | 123.90 (15) | H20A—C20—H20B | 109.5 |
N2—C7—N1 | 112.12 (15) | N4—C20—H20C | 109.5 |
C9—C8—C13 | 119.35 (15) | H20A—C20—H20C | 109.5 |
C9—C8—N2 | 118.14 (15) | H20B—C20—H20C | 109.5 |
C13—C8—N2 | 122.38 (15) | F2—C21—F1 | 106.28 (16) |
C8—C9—C10 | 120.57 (16) | F2—C21—F3 | 106.81 (14) |
C8—C9—H9 | 119.7 | F1—C21—F3 | 105.49 (15) |
C10—C9—H9 | 119.7 | F2—C21—C2 | 112.98 (15) |
C11—C10—C9 | 119.28 (16) | F1—C21—C2 | 112.40 (14) |
C11—C10—H10 | 120.4 | F3—C21—C2 | 112.34 (16) |
C9—C10—H10 | 120.4 | C7—N1—C4 | 127.19 (15) |
C12—C11—C10 | 120.80 (15) | C7—N1—H1N | 115.0 (13) |
C12—C11—O2 | 118.99 (15) | C4—N1—H1N | 116.9 (13) |
C10—C11—O2 | 120.08 (15) | C7—N2—C8 | 126.04 (15) |
C11—C12—C13 | 119.89 (16) | C7—N2—H2N | 115.7 (12) |
C11—C12—H12 | 120.1 | C8—N2—H2N | 118.3 (13) |
C13—C12—H12 | 120.1 | C16—N3—C17 | 116.01 (14) |
C8—C13—C12 | 120.10 (16) | C19—N4—C20 | 123.45 (16) |
C8—C13—H13 | 120.0 | C19—N4—H3N | 115.4 (15) |
C12—C13—H13 | 120.0 | C20—N4—H3N | 121.0 (15) |
O2—C14—C15 | 125.04 (14) | C14—O2—C11 | 118.48 (13) |
| | | |
C6—C1—C2—C3 | −3.3 (3) | C15—C14—C18—C17 | 0.3 (2) |
Cl1—C1—C2—C3 | 175.43 (13) | N3—C17—C19—O1 | −162.16 (16) |
C6—C1—C2—C21 | 177.05 (17) | C18—C17—C19—O1 | 18.5 (2) |
Cl1—C1—C2—C21 | −4.2 (2) | N3—C17—C19—N4 | 17.9 (2) |
C1—C2—C3—C4 | 0.2 (2) | C18—C17—C19—N4 | −161.45 (16) |
C21—C2—C3—C4 | 179.87 (15) | C3—C2—C21—F2 | 125.30 (17) |
C2—C3—C4—C5 | 3.2 (3) | C1—C2—C21—F2 | −55.0 (2) |
C2—C3—C4—N1 | −177.41 (15) | C3—C2—C21—F1 | 5.0 (2) |
C3—C4—C5—C6 | −3.5 (3) | C1—C2—C21—F1 | −175.30 (16) |
N1—C4—C5—C6 | 177.16 (18) | C3—C2—C21—F3 | −113.77 (18) |
C2—C1—C6—C5 | 3.0 (3) | C1—C2—C21—F3 | 65.9 (2) |
Cl1—C1—C6—C5 | −175.75 (16) | O3—C7—N1—C4 | 9.3 (3) |
C4—C5—C6—C1 | 0.4 (3) | N2—C7—N1—C4 | −170.62 (17) |
C13—C8—C9—C10 | 1.3 (3) | C5—C4—N1—C7 | −7.4 (3) |
N2—C8—C9—C10 | −174.71 (16) | C3—C4—N1—C7 | 173.19 (17) |
C8—C9—C10—C11 | −0.6 (3) | O3—C7—N2—C8 | 6.8 (3) |
C9—C10—C11—C12 | −0.4 (3) | N1—C7—N2—C8 | −173.28 (16) |
C9—C10—C11—O2 | −176.37 (15) | C9—C8—N2—C7 | −151.49 (18) |
C10—C11—C12—C13 | 0.8 (3) | C13—C8—N2—C7 | 32.6 (3) |
O2—C11—C12—C13 | 176.77 (16) | C15—C16—N3—C17 | 0.6 (3) |
C9—C8—C13—C12 | −1.0 (3) | C18—C17—N3—C16 | −1.4 (2) |
N2—C8—C13—C12 | 174.90 (17) | C19—C17—N3—C16 | 179.34 (15) |
C11—C12—C13—C8 | −0.1 (3) | O1—C19—N4—C20 | −0.4 (3) |
O2—C14—C15—C16 | 179.57 (16) | C17—C19—N4—C20 | 179.51 (16) |
C18—C14—C15—C16 | −1.0 (2) | C15—C14—O2—C11 | −9.8 (2) |
C14—C15—C16—N3 | 0.6 (3) | C18—C14—O2—C11 | 170.80 (15) |
N3—C17—C18—C14 | 0.9 (3) | C12—C11—O2—C14 | 108.49 (19) |
C19—C17—C18—C14 | −179.78 (14) | C10—C11—O2—C14 | −75.5 (2) |
O2—C14—C18—C17 | 179.79 (14) | | |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1N···O1i | 0.86 (2) | 2.19 (2) | 3.014 (2) | 159.0 (18) |
N2—H2N···O1i | 0.86 (2) | 2.15 (2) | 2.969 (2) | 159.8 (17) |
N4—H3N···N3 | 0.88 (2) | 2.34 (2) | 2.760 (2) | 109.4 (18) |
Symmetry code: (i) −x+1, y−1/2, −z+3/2. |
(II) 4-(4-{3-[4-chloro-3-(trifluoromethyl)phenyl]ureido}phenoxy)-2-(
N-
methylcarbamoyl)pyridinium 4-methylbenzenesulfonate
top
Crystal data top
C21H17ClF3N4O3+·C7H7O3S− | F(000) = 1312 |
Mr = 637.02 | Dx = 1.428 Mg m−3 |
Monoclinic, P21/c | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: -P 2ybc | Cell parameters from 5897 reflections |
a = 21.276 (4) Å | θ = 2.5–22.5° |
b = 9.1160 (17) Å | µ = 0.27 mm−1 |
c = 16.077 (3) Å | T = 294 K |
β = 108.143 (3)° | Block, colourless |
V = 2963.2 (10) Å3 | 0.14 × 0.11 × 0.07 mm |
Z = 4 | |
Data collection top
Bruker SMART APEX CCD area-detector diffractometer | 3604 reflections with I > 2σ(I) |
Radiation source: fine-focus sealed tube | Rint = 0.045 |
Graphite monochromator | θmax = 25.0°, θmin = 2.0° |
ω scans | h = −25→25 |
25287 measured reflections | k = −10→10 |
5198 independent reflections | l = −19→19 |
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)] = 0.050 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.142 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.05 | w = 1/[σ2(Fo2) + (0.0687P)2 + 0.772P] where P = (Fo2 + 2Fc2)/3 |
5198 reflections | (Δ/σ)max = 0.001 |
406 parameters | Δρmax = 0.67 e Å−3 |
3 restraints | Δρmin = −0.53 e Å−3 |
Crystal data top
C21H17ClF3N4O3+·C7H7O3S− | V = 2963.2 (10) Å3 |
Mr = 637.02 | Z = 4 |
Monoclinic, P21/c | Mo Kα radiation |
a = 21.276 (4) Å | µ = 0.27 mm−1 |
b = 9.1160 (17) Å | T = 294 K |
c = 16.077 (3) Å | 0.14 × 0.11 × 0.07 mm |
β = 108.143 (3)° | |
Data collection top
Bruker SMART APEX CCD area-detector diffractometer | 3604 reflections with I > 2σ(I) |
25287 measured reflections | Rint = 0.045 |
5198 independent reflections | |
Refinement top
R[F2 > 2σ(F2)] = 0.050 | 3 restraints |
wR(F2) = 0.142 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.05 | Δρmax = 0.67 e Å−3 |
5198 reflections | Δρmin = −0.53 e Å−3 |
406 parameters | |
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 | |
C1 | 0.51073 (15) | 0.7718 (4) | 0.3696 (3) | 0.0786 (10) | |
C2 | 0.55028 (15) | 0.7874 (3) | 0.3167 (2) | 0.0638 (8) | |
C3 | 0.61352 (13) | 0.8434 (3) | 0.35387 (19) | 0.0576 (7) | |
H3 | 0.6409 | 0.8537 | 0.3190 | 0.069* | |
C4 | 0.63728 (13) | 0.8846 (3) | 0.44087 (19) | 0.0562 (7) | |
C5 | 0.59663 (15) | 0.8725 (4) | 0.4924 (2) | 0.0809 (11) | |
H5 | 0.6111 | 0.9030 | 0.5505 | 0.097* | |
C6 | 0.53317 (16) | 0.8136 (5) | 0.4560 (3) | 0.0941 (13) | |
H6 | 0.5058 | 0.8026 | 0.4908 | 0.113* | |
C7 | 0.74502 (14) | 0.9122 (3) | 0.55559 (19) | 0.0535 (7) | |
C8 | 0.86510 (13) | 0.9296 (3) | 0.63840 (16) | 0.0444 (6) | |
C9 | 0.92318 (13) | 0.9999 (3) | 0.63931 (18) | 0.0504 (7) | |
H9 | 0.9231 | 1.0621 | 0.5934 | 0.060* | |
C10 | 0.98135 (14) | 0.9789 (3) | 0.70771 (19) | 0.0560 (7) | |
H10 | 1.0203 | 1.0245 | 0.7073 | 0.067* | |
C11 | 0.98020 (13) | 0.8891 (3) | 0.77628 (17) | 0.0504 (7) | |
C12 | 0.92379 (14) | 0.8172 (3) | 0.77633 (18) | 0.0529 (7) | |
H12 | 0.9243 | 0.7552 | 0.8225 | 0.064* | |
C13 | 0.86586 (14) | 0.8364 (3) | 0.70763 (18) | 0.0541 (7) | |
H13 | 0.8276 | 0.7873 | 0.7077 | 0.065* | |
C14 | 1.05976 (13) | 0.9779 (3) | 0.90513 (17) | 0.0457 (6) | |
C15 | 1.02296 (13) | 1.1043 (3) | 0.90419 (17) | 0.0470 (6) | |
H15 | 0.9812 | 1.1158 | 0.8637 | 0.056* | |
C16 | 1.04991 (13) | 1.2110 (3) | 0.96449 (17) | 0.0477 (6) | |
H16 | 1.0260 | 1.2961 | 0.9653 | 0.057* | |
C17 | 1.14623 (12) | 1.0711 (3) | 1.02715 (16) | 0.0437 (6) | |
C18 | 1.12134 (13) | 0.9605 (3) | 0.96861 (17) | 0.0497 (7) | |
H18 | 1.1453 | 0.8743 | 0.9711 | 0.060* | |
C19 | 1.21185 (13) | 1.0762 (3) | 1.09940 (17) | 0.0488 (7) | |
C20 | 1.30126 (15) | 0.9396 (4) | 1.2013 (2) | 0.0763 (10) | |
H20A | 1.3358 | 0.9894 | 1.1857 | 0.114* | |
H20B | 1.3132 | 0.8385 | 1.2136 | 0.114* | |
H20C | 1.2953 | 0.9849 | 1.2522 | 0.114* | |
C21 | 0.5282 (2) | 0.7430 (5) | 0.2219 (3) | 0.0948 (12) | |
N1 | 0.70262 (12) | 0.9394 (3) | 0.47353 (17) | 0.0656 (7) | |
H1N | 0.7196 (13) | 0.966 (3) | 0.4354 (15) | 0.057 (9)* | |
N2 | 0.80881 (11) | 0.9516 (3) | 0.56508 (15) | 0.0534 (6) | |
H2N | 0.8149 (14) | 0.999 (3) | 0.5240 (15) | 0.055 (9)* | |
N3 | 1.11009 (11) | 1.1950 (2) | 1.02220 (15) | 0.0466 (6) | |
H3N | 1.1281 (14) | 1.262 (3) | 1.0562 (19) | 0.056 (9)* | |
N4 | 1.23951 (12) | 0.9488 (3) | 1.12850 (17) | 0.0606 (7) | |
H4N | 1.2211 (14) | 0.866 (2) | 1.1151 (19) | 0.069 (10)* | |
O1 | 1.23485 (10) | 1.1967 (2) | 1.12619 (14) | 0.0674 (6) | |
O2 | 1.03907 (9) | 0.86635 (19) | 0.84726 (12) | 0.0616 (6) | |
O3 | 0.72679 (10) | 0.8638 (3) | 0.61514 (15) | 0.0850 (7) | |
F1 | 0.57259 (13) | 0.7741 (4) | 0.18275 (16) | 0.1407 (11) | |
F2 | 0.51541 (18) | 0.6034 (3) | 0.2097 (2) | 0.1714 (14) | |
F3 | 0.47348 (13) | 0.8151 (4) | 0.17657 (16) | 0.1439 (11) | |
Cl1 | 0.43132 (5) | 0.69613 (16) | 0.33071 (8) | 0.1303 (5) | |
C22 | 0.6514 (2) | 1.0798 (6) | 0.0037 (2) | 0.1105 (15) | |
H22A | 0.6085 | 1.0702 | 0.0111 | 0.166* | |
H22B | 0.6594 | 0.9978 | −0.0291 | 0.166* | |
H22C | 0.6531 | 1.1691 | −0.0272 | 0.166* | |
C23 | 0.70397 (16) | 1.0838 (4) | 0.0931 (2) | 0.0697 (9) | |
C24 | 0.7495 (2) | 1.1948 (4) | 0.1163 (2) | 0.0810 (10) | |
H24 | 0.7488 | 1.2680 | 0.0758 | 0.097* | |
C25 | 0.79710 (17) | 1.2016 (3) | 0.1990 (2) | 0.0677 (9) | |
H25 | 0.8274 | 1.2782 | 0.2130 | 0.081* | |
C26 | 0.79855 (13) | 1.0927 (3) | 0.25972 (17) | 0.0463 (6) | |
C27 | 0.75373 (14) | 0.9786 (3) | 0.2358 (2) | 0.0578 (8) | |
H27 | 0.7550 | 0.9034 | 0.2754 | 0.069* | |
C28 | 0.70697 (16) | 0.9750 (4) | 0.1536 (2) | 0.0696 (9) | |
H28 | 0.6770 | 0.8976 | 0.1390 | 0.084* | |
O4 | 0.80990 (10) | 1.1404 (2) | 0.42143 (12) | 0.0616 (5) | |
O5 | 0.88266 (10) | 0.9593 (2) | 0.39154 (13) | 0.0638 (6) | |
O6 | 0.89983 (10) | 1.2172 (2) | 0.37058 (15) | 0.0765 (7) | |
S1 | 0.85259 (3) | 1.10295 (7) | 0.36806 (5) | 0.0480 (2) | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
C1 | 0.0416 (17) | 0.100 (3) | 0.080 (2) | −0.0034 (17) | −0.0012 (17) | 0.030 (2) |
C2 | 0.0490 (17) | 0.0658 (19) | 0.065 (2) | −0.0005 (15) | 0.0016 (16) | 0.0089 (16) |
C3 | 0.0436 (16) | 0.0672 (19) | 0.0579 (19) | 0.0026 (14) | 0.0098 (14) | 0.0018 (15) |
C4 | 0.0384 (15) | 0.0726 (19) | 0.0537 (18) | 0.0024 (14) | 0.0086 (14) | 0.0053 (15) |
C5 | 0.0440 (18) | 0.133 (3) | 0.061 (2) | 0.0031 (19) | 0.0099 (16) | 0.007 (2) |
C6 | 0.047 (2) | 0.152 (4) | 0.084 (3) | 0.002 (2) | 0.0225 (19) | 0.034 (3) |
C7 | 0.0442 (16) | 0.0629 (18) | 0.0502 (17) | −0.0037 (13) | 0.0102 (14) | 0.0022 (14) |
C8 | 0.0450 (15) | 0.0449 (15) | 0.0397 (15) | −0.0041 (12) | 0.0080 (12) | −0.0031 (11) |
C9 | 0.0501 (16) | 0.0474 (15) | 0.0475 (16) | −0.0078 (12) | 0.0060 (14) | 0.0030 (12) |
C10 | 0.0485 (17) | 0.0505 (16) | 0.0627 (19) | −0.0126 (13) | 0.0083 (15) | −0.0061 (14) |
C11 | 0.0492 (16) | 0.0441 (15) | 0.0469 (16) | 0.0035 (13) | −0.0013 (13) | −0.0112 (13) |
C12 | 0.0612 (18) | 0.0533 (16) | 0.0425 (16) | 0.0048 (14) | 0.0136 (14) | 0.0015 (12) |
C13 | 0.0486 (16) | 0.0604 (17) | 0.0525 (17) | −0.0066 (13) | 0.0147 (14) | 0.0033 (14) |
C14 | 0.0476 (15) | 0.0392 (14) | 0.0451 (15) | 0.0013 (12) | 0.0068 (13) | −0.0053 (11) |
C15 | 0.0438 (15) | 0.0438 (15) | 0.0471 (15) | 0.0047 (12) | 0.0050 (12) | −0.0039 (12) |
C16 | 0.0486 (16) | 0.0401 (14) | 0.0515 (16) | 0.0050 (12) | 0.0114 (14) | −0.0020 (12) |
C17 | 0.0429 (14) | 0.0421 (14) | 0.0438 (15) | −0.0007 (11) | 0.0102 (12) | −0.0004 (11) |
C18 | 0.0467 (16) | 0.0421 (15) | 0.0527 (17) | 0.0079 (12) | 0.0045 (13) | −0.0041 (12) |
C19 | 0.0435 (15) | 0.0524 (17) | 0.0474 (16) | −0.0052 (13) | 0.0097 (13) | −0.0047 (13) |
C20 | 0.0559 (19) | 0.092 (2) | 0.062 (2) | 0.0036 (17) | −0.0087 (16) | 0.0044 (18) |
C21 | 0.075 (3) | 0.116 (3) | 0.076 (3) | −0.029 (2) | −0.002 (2) | −0.009 (2) |
N1 | 0.0427 (14) | 0.105 (2) | 0.0458 (15) | −0.0112 (14) | 0.0093 (12) | 0.0035 (14) |
N2 | 0.0448 (14) | 0.0699 (16) | 0.0417 (14) | −0.0095 (12) | 0.0080 (11) | 0.0082 (12) |
N3 | 0.0491 (14) | 0.0405 (13) | 0.0474 (14) | −0.0052 (11) | 0.0111 (11) | −0.0071 (11) |
N4 | 0.0496 (14) | 0.0554 (16) | 0.0625 (16) | −0.0069 (13) | −0.0029 (12) | 0.0012 (13) |
O1 | 0.0596 (12) | 0.0572 (13) | 0.0730 (14) | −0.0100 (10) | 0.0024 (11) | −0.0149 (10) |
O2 | 0.0606 (12) | 0.0448 (11) | 0.0587 (12) | 0.0112 (9) | −0.0113 (10) | −0.0151 (9) |
O3 | 0.0513 (13) | 0.131 (2) | 0.0696 (15) | −0.0071 (13) | 0.0141 (11) | 0.0310 (15) |
F1 | 0.115 (2) | 0.225 (3) | 0.0781 (16) | −0.051 (2) | 0.0237 (15) | −0.0510 (18) |
F2 | 0.215 (3) | 0.118 (2) | 0.154 (3) | −0.062 (2) | 0.019 (2) | −0.054 (2) |
F3 | 0.0958 (18) | 0.216 (3) | 0.0823 (16) | 0.0093 (19) | −0.0271 (14) | 0.0067 (17) |
Cl1 | 0.0531 (6) | 0.1863 (13) | 0.1294 (10) | −0.0378 (7) | −0.0036 (6) | 0.0463 (9) |
C22 | 0.095 (3) | 0.172 (4) | 0.054 (2) | 0.024 (3) | 0.008 (2) | 0.006 (2) |
C23 | 0.064 (2) | 0.091 (3) | 0.0521 (19) | 0.0181 (19) | 0.0159 (16) | 0.0011 (18) |
C24 | 0.105 (3) | 0.083 (3) | 0.055 (2) | 0.016 (2) | 0.025 (2) | 0.0279 (18) |
C25 | 0.083 (2) | 0.0588 (19) | 0.061 (2) | −0.0078 (16) | 0.0229 (18) | 0.0140 (15) |
C26 | 0.0452 (15) | 0.0449 (15) | 0.0524 (16) | 0.0043 (12) | 0.0205 (13) | 0.0082 (12) |
C27 | 0.0514 (17) | 0.0560 (17) | 0.0615 (19) | 0.0003 (14) | 0.0110 (15) | 0.0123 (14) |
C28 | 0.0573 (19) | 0.075 (2) | 0.069 (2) | −0.0044 (16) | 0.0097 (17) | −0.0028 (18) |
O4 | 0.0634 (12) | 0.0690 (13) | 0.0526 (12) | 0.0064 (10) | 0.0184 (10) | 0.0054 (10) |
O5 | 0.0626 (13) | 0.0510 (11) | 0.0699 (13) | 0.0104 (10) | 0.0090 (11) | 0.0156 (10) |
O6 | 0.0659 (14) | 0.0670 (14) | 0.0886 (16) | −0.0246 (11) | 0.0124 (12) | 0.0171 (12) |
S1 | 0.0435 (4) | 0.0418 (4) | 0.0559 (4) | −0.0024 (3) | 0.0116 (3) | 0.0103 (3) |
Geometric parameters (Å, º) top
C1—C6 | 1.375 (5) | C17—C18 | 1.369 (3) |
C1—C2 | 1.377 (5) | C17—C19 | 1.513 (4) |
C1—Cl1 | 1.750 (3) | C18—H18 | 0.9300 |
C2—C3 | 1.388 (4) | C19—O1 | 1.225 (3) |
C2—C21 | 1.504 (5) | C19—N4 | 1.320 (4) |
C3—C4 | 1.383 (4) | C20—N4 | 1.465 (4) |
C3—H3 | 0.9300 | C20—H20A | 0.9600 |
C4—C5 | 1.376 (4) | C20—H20B | 0.9600 |
C4—N1 | 1.416 (4) | C20—H20C | 0.9600 |
C5—C6 | 1.400 (5) | C21—F2 | 1.304 (5) |
C5—H5 | 0.9300 | C21—F1 | 1.318 (4) |
C6—H6 | 0.9300 | C21—F3 | 1.338 (5) |
C7—O3 | 1.222 (3) | N1—H1N | 0.838 (17) |
C7—N2 | 1.366 (4) | N2—H2N | 0.834 (17) |
C7—N1 | 1.369 (4) | N3—H3N | 0.83 (3) |
C8—C9 | 1.388 (4) | N4—H4N | 0.845 (18) |
C8—C13 | 1.396 (4) | C22—C23 | 1.521 (5) |
C8—N2 | 1.409 (3) | C22—H22A | 0.9600 |
C9—C10 | 1.389 (4) | C22—H22B | 0.9600 |
C9—H9 | 0.9300 | C22—H22C | 0.9600 |
C10—C11 | 1.380 (4) | C23—C24 | 1.370 (5) |
C10—H10 | 0.9300 | C23—C28 | 1.377 (5) |
C11—C12 | 1.368 (4) | C24—C25 | 1.399 (5) |
C11—O2 | 1.423 (3) | C24—H24 | 0.9300 |
C12—C13 | 1.386 (4) | C25—C26 | 1.386 (4) |
C12—H12 | 0.9300 | C25—H25 | 0.9300 |
C13—H13 | 0.9300 | C26—C27 | 1.382 (4) |
C14—O2 | 1.356 (3) | C26—S1 | 1.766 (3) |
C14—C15 | 1.390 (3) | C27—C28 | 1.385 (4) |
C14—C18 | 1.397 (3) | C27—H27 | 0.9300 |
C15—C16 | 1.367 (3) | C28—H28 | 0.9300 |
C15—H15 | 0.9300 | O4—S1 | 1.471 (2) |
C16—N3 | 1.335 (3) | O5—S1 | 1.4551 (19) |
C16—H16 | 0.9300 | O6—S1 | 1.439 (2) |
C17—N3 | 1.355 (3) | | |
| | | |
C6—C1—C2 | 120.6 (3) | N4—C19—C17 | 116.6 (2) |
C6—C1—Cl1 | 117.6 (3) | N4—C20—H20A | 109.5 |
C2—C1—Cl1 | 121.9 (3) | N4—C20—H20B | 109.5 |
C1—C2—C3 | 118.0 (3) | H20A—C20—H20B | 109.5 |
C1—C2—C21 | 122.7 (3) | N4—C20—H20C | 109.5 |
C3—C2—C21 | 119.3 (3) | H20A—C20—H20C | 109.5 |
C4—C3—C2 | 122.3 (3) | H20B—C20—H20C | 109.5 |
C4—C3—H3 | 118.8 | F2—C21—F1 | 106.6 (4) |
C2—C3—H3 | 118.8 | F2—C21—F3 | 107.0 (3) |
C5—C4—C3 | 119.2 (3) | F1—C21—F3 | 105.4 (4) |
C5—C4—N1 | 122.3 (3) | F2—C21—C2 | 113.5 (4) |
C3—C4—N1 | 118.6 (3) | F1—C21—C2 | 112.5 (3) |
C4—C5—C6 | 119.0 (3) | F3—C21—C2 | 111.3 (4) |
C4—C5—H5 | 120.5 | C7—N1—C4 | 124.7 (3) |
C6—C5—H5 | 120.5 | C7—N1—H1N | 117 (2) |
C1—C6—C5 | 121.0 (3) | C4—N1—H1N | 115 (2) |
C1—C6—H6 | 119.5 | C7—N2—C8 | 127.8 (2) |
C5—C6—H6 | 119.5 | C7—N2—H2N | 116 (2) |
O3—C7—N2 | 123.7 (3) | C8—N2—H2N | 116 (2) |
O3—C7—N1 | 123.1 (3) | C16—N3—C17 | 122.4 (2) |
N2—C7—N1 | 113.2 (3) | C16—N3—H3N | 122 (2) |
C9—C8—C13 | 118.9 (2) | C17—N3—H3N | 116 (2) |
C9—C8—N2 | 117.7 (2) | C19—N4—C20 | 121.6 (3) |
C13—C8—N2 | 123.3 (2) | C19—N4—H4N | 125 (2) |
C8—C9—C10 | 121.0 (3) | C20—N4—H4N | 112 (2) |
C8—C9—H9 | 119.5 | C14—O2—C11 | 117.23 (19) |
C10—C9—H9 | 119.5 | C23—C22—H22A | 109.5 |
C11—C10—C9 | 118.8 (3) | C23—C22—H22B | 109.5 |
C11—C10—H10 | 120.6 | H22A—C22—H22B | 109.5 |
C9—C10—H10 | 120.6 | C23—C22—H22C | 109.5 |
C12—C11—C10 | 121.3 (3) | H22A—C22—H22C | 109.5 |
C12—C11—O2 | 118.9 (3) | H22B—C22—H22C | 109.5 |
C10—C11—O2 | 119.8 (3) | C24—C23—C28 | 117.8 (3) |
C11—C12—C13 | 120.1 (3) | C24—C23—C22 | 121.6 (3) |
C11—C12—H12 | 120.0 | C28—C23—C22 | 120.6 (4) |
C13—C12—H12 | 120.0 | C23—C24—C25 | 122.2 (3) |
C12—C13—C8 | 119.9 (3) | C23—C24—H24 | 118.9 |
C12—C13—H13 | 120.0 | C25—C24—H24 | 118.9 |
C8—C13—H13 | 120.0 | C26—C25—C24 | 119.2 (3) |
O2—C14—C15 | 123.6 (2) | C26—C25—H25 | 120.4 |
O2—C14—C18 | 116.5 (2) | C24—C25—H25 | 120.4 |
C15—C14—C18 | 120.0 (2) | C27—C26—C25 | 118.7 (3) |
C16—C15—C14 | 118.2 (2) | C27—C26—S1 | 119.7 (2) |
C16—C15—H15 | 120.9 | C25—C26—S1 | 121.5 (2) |
C14—C15—H15 | 120.9 | C26—C27—C28 | 120.7 (3) |
N3—C16—C15 | 121.0 (2) | C26—C27—H27 | 119.6 |
N3—C16—H16 | 119.5 | C28—C27—H27 | 119.6 |
C15—C16—H16 | 119.5 | C23—C28—C27 | 121.2 (3) |
N3—C17—C18 | 118.9 (2) | C23—C28—H28 | 119.4 |
N3—C17—C19 | 113.0 (2) | C27—C28—H28 | 119.4 |
C18—C17—C19 | 128.1 (2) | O6—S1—O5 | 113.41 (13) |
C17—C18—C14 | 119.5 (2) | O6—S1—O4 | 111.63 (13) |
C17—C18—H18 | 120.2 | O5—S1—O4 | 111.04 (12) |
C14—C18—H18 | 120.2 | O6—S1—C26 | 107.49 (12) |
O1—C19—N4 | 125.4 (3) | O5—S1—C26 | 107.88 (12) |
O1—C19—C17 | 118.0 (2) | O4—S1—C26 | 104.89 (12) |
| | | |
C6—C1—C2—C3 | 1.3 (5) | C1—C2—C21—F1 | 176.9 (4) |
Cl1—C1—C2—C3 | −177.6 (2) | C3—C2—C21—F1 | −4.6 (5) |
C6—C1—C2—C21 | 179.8 (4) | C1—C2—C21—F3 | 58.9 (5) |
Cl1—C1—C2—C21 | 0.9 (5) | C3—C2—C21—F3 | −122.6 (4) |
C1—C2—C3—C4 | −0.6 (5) | O3—C7—N1—C4 | −15.8 (5) |
C21—C2—C3—C4 | −179.1 (3) | N2—C7—N1—C4 | 167.3 (3) |
C2—C3—C4—C5 | −1.3 (5) | C5—C4—N1—C7 | 37.7 (5) |
C2—C3—C4—N1 | 179.4 (3) | C3—C4—N1—C7 | −143.0 (3) |
C3—C4—C5—C6 | 2.4 (5) | O3—C7—N2—C8 | 7.8 (5) |
N1—C4—C5—C6 | −178.3 (3) | C9—C8—N2—C7 | −169.5 (3) |
C2—C1—C6—C5 | −0.2 (6) | C13—C8—N2—C7 | 13.3 (4) |
Cl1—C1—C6—C5 | 178.8 (3) | C15—C16—N3—C17 | −3.2 (4) |
C4—C5—C6—C1 | −1.8 (6) | C18—C17—N3—C16 | 2.7 (4) |
C13—C8—C9—C10 | −0.1 (4) | C19—C17—N3—C16 | −178.1 (2) |
N2—C8—C9—C10 | −177.4 (3) | O1—C19—N4—C20 | 3.0 (5) |
C8—C9—C10—C11 | −1.5 (4) | C17—C19—N4—C20 | −176.8 (3) |
C9—C10—C11—C12 | 2.4 (4) | C15—C14—O2—C11 | 7.6 (4) |
C9—C10—C11—O2 | −179.7 (2) | C18—C14—O2—C11 | −173.0 (2) |
C10—C11—C12—C13 | −1.6 (4) | C12—C11—O2—C14 | −107.6 (3) |
O2—C11—C12—C13 | −179.5 (2) | C10—C11—O2—C14 | 74.4 (3) |
C11—C12—C13—C8 | −0.1 (4) | C28—C23—C24—C25 | −1.3 (5) |
C9—C8—C13—C12 | 0.9 (4) | C22—C23—C24—C25 | 178.4 (3) |
N2—C8—C13—C12 | 178.1 (2) | C23—C24—C25—C26 | 0.0 (5) |
O2—C14—C15—C16 | −178.2 (3) | C24—C25—C26—C27 | 1.5 (4) |
C18—C14—C15—C16 | 2.4 (4) | C24—C25—C26—S1 | −174.5 (2) |
C14—C15—C16—N3 | 0.5 (4) | C25—C26—C27—C28 | −1.8 (4) |
N3—C17—C18—C14 | 0.3 (4) | S1—C26—C27—C28 | 174.3 (2) |
C19—C17—C18—C14 | −178.7 (3) | C24—C23—C28—C27 | 1.1 (5) |
O2—C14—C18—C17 | 177.7 (2) | C22—C23—C28—C27 | −178.7 (3) |
C15—C14—C18—C17 | −2.8 (4) | C26—C27—C28—C23 | 0.5 (5) |
N3—C17—C19—O1 | −22.1 (4) | C27—C26—S1—O6 | 171.2 (2) |
C18—C17—C19—O1 | 157.0 (3) | C25—C26—S1—O6 | −12.8 (3) |
N3—C17—C19—N4 | 157.7 (2) | C27—C26—S1—O5 | 48.5 (2) |
C18—C17—C19—N4 | −23.1 (4) | C25—C26—S1—O5 | −135.4 (2) |
C1—C2—C21—F2 | −61.9 (5) | C27—C26—S1—O4 | −69.9 (2) |
C3—C2—C21—F2 | 116.6 (4) | C25—C26—S1—O4 | 106.1 (2) |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1N···O4 | 0.84 (2) | 2.56 (2) | 3.234 (3) | 138 (2) |
N2—H2N···O4 | 0.83 (2) | 2.07 (2) | 2.886 (3) | 167 (3) |
N3—H3N···O1 | 0.83 (3) | 2.28 (3) | 2.660 (3) | 109 (2) |
N3—H3N···O5i | 0.83 (3) | 2.03 (3) | 2.760 (3) | 147 (3) |
N4—H4N···O4ii | 0.85 (2) | 2.19 (2) | 3.021 (3) | 170 (3) |
Symmetry codes: (i) −x+2, y+1/2, −z+3/2; (ii) −x+2, y−1/2, −z+3/2. |
Experimental details
| (I) | (II) |
Crystal data |
Chemical formula | C21H16ClF3N4O3 | C21H17ClF3N4O3+·C7H7O3S− |
Mr | 464.83 | 637.02 |
Crystal system, space group | Monoclinic, P21/c | Monoclinic, P21/c |
Temperature (K) | 294 | 294 |
a, b, c (Å) | 8.1587 (16), 9.8055 (19), 27.758 (5) | 21.276 (4), 9.1160 (17), 16.077 (3) |
β (°) | 94.358 (3) | 108.143 (3) |
V (Å3) | 2214.2 (7) | 2963.2 (10) |
Z | 4 | 4 |
Radiation type | Mo Kα | Mo Kα |
µ (mm−1) | 0.23 | 0.27 |
Crystal size (mm) | 0.17 × 0.11 × 0.06 | 0.14 × 0.11 × 0.07 |
|
Data collection |
Diffractometer | Bruker SMART APEX CCD area-detector diffractometer | Bruker SMART APEX CCD area-detector diffractometer |
Absorption correction | – | – |
No. of measured, independent and observed [I > 2σ(I)] reflections | 20023, 3896, 3241 | 25287, 5198, 3604 |
Rint | 0.024 | 0.045 |
(sin θ/λ)max (Å−1) | 0.595 | 0.595 |
|
Refinement |
R[F2 > 2σ(F2)], wR(F2), S | 0.037, 0.102, 1.02 | 0.050, 0.142, 1.05 |
No. of reflections | 3896 | 5198 |
No. of parameters | 302 | 406 |
No. of restraints | 0 | 3 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.23, −0.17 | 0.67, −0.53 |
Hydrogen-bond geometry (Å, º) for (I) top
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1N···O1i | 0.86 (2) | 2.19 (2) | 3.014 (2) | 159.0 (18) |
N2—H2N···O1i | 0.86 (2) | 2.15 (2) | 2.969 (2) | 159.8 (17) |
N4—H3N···N3 | 0.88 (2) | 2.34 (2) | 2.760 (2) | 109.4 (18) |
Symmetry code: (i) −x+1, y−1/2, −z+3/2. |
Hydrogen-bond geometry (Å, º) for (II) top
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1N···O4 | 0.838 (17) | 2.56 (2) | 3.234 (3) | 138 (2) |
N2—H2N···O4 | 0.834 (17) | 2.068 (18) | 2.886 (3) | 167 (3) |
N3—H3N···O1 | 0.83 (3) | 2.28 (3) | 2.660 (3) | 109 (2) |
N3—H3N···O5i | 0.83 (3) | 2.03 (3) | 2.760 (3) | 147 (3) |
N4—H4N···O4ii | 0.845 (18) | 2.186 (19) | 3.021 (3) | 170 (3) |
Symmetry codes: (i) −x+2, y+1/2, −z+3/2; (ii) −x+2, y−1/2, −z+3/2. |
Selected bond distances (Å) and angles (°) for (I) and (II) top | (I) | (II) |
C14—C15 | 1.407 (2) | 1.390 (3) |
C14—C18 | 1.419 (2) | 1.397 (3) |
C15—C16 | 1.417 (3) | 1.367 (3) |
C16—N3 | 1.364 (2) | 1.335 (3) |
N3—C17 | 1.368 (2) | 1.355 (3) |
C17—C18 | 1.412 (2) | 1.369 (3) |
C17—C19 | 1.541 (2) | 1.513 (4) |
C19—O1 | 1.263 (2) | 1.225 (3) |
C19—N4 | 1.352 (2) | 1.320 (4) |
C15—C16—N3 | 124.90 (16) | 121.0 (2) |
C18—C17—C19 | 119.66 (14) | 128.1 (2) |
C18—C17—N3 | 123.86 (14) | 118.9 (2) |
C19—C17—N3 | 116.47 (13) | 113.0 (2) |
C17—C19—O1 | 121.34 (14) | 118.0 (2) |
N4—C19—O1 | 123.14 (15) | 125.4 (3) |
C16—N3—C17 | 116.01 (14) | 122.4 (2) |
C19—N4—C20 | 123.45 (16) | 121.6 (3) |
N4—C19—C17 | 115.52 (14) | 116.6 (2) |
Solid-state conformation of sorafenib molecules, indicated by
selected torsion angles (° ) topTorsion angle | (I) | (II) | 3GCS | 3HEG | 1UWH (molecule 1) | 1UWH (molecule 2) |
N4—C19—C17—N3 | 17.9 (2) | 157.7 (2) | 7.4 | -17.3 | 24.6 | 23.0 |
O1—C19—C17—C18 | 18.5 (2) | 157.0 (3) | 7.2 | -17.3 | -8.6 | -9.2 |
C18—C14—O2—C11 | 170.80 (15) | -173.0 (2) | -146.3 | 128.0 | 151.0 | 151.7 |
C14—O2—C11—C12 | 108.49 (19) | -107.6 (3) | 49.7 | -42.3 | -77.2 | -70.3 |
C12—C13—C8—N2 | 174.90 (17) | 178.1 (2) | -179.6 | 179.9 | -177.7 | -176.8 |
C13—C8—N2—C7 | 32.6 (3) | 13.3 (4) | -148.6 | -154.9 | -163.9 | -151.7 |
C8—N2—C7—N1 | -173.28 (16) | -175.3 (3) | 179.5 | -162.2 | 177.2 | 177.9 |
N2—C7—N1—C4 | -170.62 (17) | 167.3 (3) | 179.7 | -167.9 | 174.8 | 174.4 |
C7—N1—C4—C5 | -7.4 (3) | 37.7 (5) | -147.3 | -157.0 | -126.4 | -130.1 |
N1—C4—C5—C6 | 177.16 (18) | -178.3 (3) | -179.5 | -179.7 | 179.0 | 179.1 |
Angiogenesis, the formation of new blood vessels from existing vasculature, is required for tumour growth and metastasis, and the concept of inhibiting tumour angiogenesis has become a compelling approach in the development of anticancer agents (Ferrara & Kerbal, 2005). Vascular endothelial growth factor (VEGF) is a known promoter of angiogenesis, and the increased expression of VEGF has been implicated in tumour growth and metastasis (Yancopoulos et al., 2000). VEGF signalling through its three tyrosine kinase receptors (RTK), VEGFR-1, VEGFR-2 and VEGFR-3, promotes several events required for the formation of new blood vessels, such as endothelial cell survival, proliferation and migration, and vascular permeability (Holmes et al., 2007). Therefore, the blockage of VEGF signalling by small-molecule inhibitors, particularly at the VEGFR-2 kinase domain, has been shown to be an attractive strategy in the treatment of cancers (Ferrara et al., 2004).
Sorafenib is an oral multikinase inhibitor acting on tumour cells and cells of the tumour vasculature. It also inhibits tumour cell proliferation by targeting the mitogen-activated protein kinase pathway at the level of RAF kinase (Wilhelm et al., 2004). Sorafenib is approved for use in advanced renal cell carcinoma (primary kidney cancer) when anticancer treatment with interferon-α or interleukin-2 has failed or cannot be used (Escudier et al., 2007). In 2007, the US Food and Drug Administration (FDA) approved sorafenib tosylate (BAY43–9006, Nexavar, 200 mg tablets; Bayer Pharmaceuticals Corporation, Montville, New Jersey, USA, and Onyx Pharmaceuticals Corporation, Emeryville, California, USA), an oral kinase inhibitor, for the treatment of patients with unresectable hepatocellular carcinoma (Kane et al., 2009). As part of our ongoing structural studies of pharmaceutical compounds (Ravikumar et al., 2008; Ravikumar & Sridhar, 2009, 2010), the crystal structures of sorafenib, (I), and its tosylate salt, (II), have been determined and are reported here.
The sorafenib molecule consists of a derivative of a bi-aryl urea joined to a pyridine carboxamide group. In both structures (I) and (II), the compounds crystallize in space group P21/c. Views of the asymmetric units of (I) and (II), with atom labelling, are presented in Figs. 1 and 2, respectively. The urea linkage plays an active role in the solid-state conformation and governs the overall shape of the sorafenib molecule, which is in an extended conformation in both structures. Atom N3 of the pyridine ring is protonated to form the pyridinum cation in (II); the sum of the angles at this atom is 356.4 (1)°. There are significant variations in the bond lengths and angles displayed by the pyridine carboxamide group of (I) compared with those of (II), as a consequence of the protonation in the latter (Table 1). The intra-ring angle at atom N3 is about 6° larger in (II) than in (I), while the intra-ring angles at atoms C16 and C17 decrease by about 4 and 5°, respectively. The pyridine ring bonds, except C15—C14, and the bonds involving atom C19 are significantly shorter in (II) than in the free base, (I). Other differences in the bond angles at atoms C17 and C19 (Table 1) suggest there may be some repulsion between atoms H4N and H18 in (II), while this interaction is not present in (I), as well as a stronger interaction involving N3—H···O1 in (II) compared with N4—H···N3 in (I).
The pyridine carboxamide group exhibits a syn conformation of the N atoms in (I), while an almost anti orientation is present in (II). These orientations are likely to be favoured because they facilitate the formation of an intramolecular hydrogen bond, N4—H···N3 in (I) and N3—H···O1 in (II), whereas the reverse conformation in each structure would obviate any intramolecular hydrogen bonds.
Fig. 3 shows an overlay of the sorafenib molecules of (I) and (II) with sorafenib ligands extracted from the crystal structures of complexes of sorafenib bound to the human P38 MAP kinase [Simard et al. (2009), Protein Data Bank (PDB; Berman et al., 2000) entry 3GCS; Namboodiri et al. (2010), PDB entry 3HEG] and B-RAF kinase [Wan et al. (2004), PDB entry 1UWH]. The conformational flexibility provided by the urea and ether linkages in the sorafenib molecule allows the terminal groups in the free and enzyme-bound molecules to adopt different orientations (Table 2). It is interesting to note that, in the enzyme-bound sorafenib molecules, the binding mode requires the pyridine carboxamide group to adopt a syn orientation. It can be seen that the lipophilic trifluorophenyl ring in the enzyme-bound sorafenib molecules always has roughly the same conformation, whereas quite different orientations are found in (I) and (II). As observed by Wan et al. (2004), the conformation in the enyme-bound molecule may be necessary to provide favourable hydrophobic interactions at the active site. On the other hand, the conformation of the pyridine carboxamide group seems to be quite variable, which suggests that different hydrogen-bonding interactions in the bound and unbound forms may influence the conformation of the hydrophilic end of the molecule.
The least-squares plane of the trifluorophenyl ring is more inclined to the pyridyl plane in (II) [69.5 (1)°] than (I) [40.1 (1)°], perhaps to accommodate the tosylate anion by allowing both the urea N atoms to be involved in hydrogen bonds with the anion. The phenyl ring in the tosylate anion makes almost equal dihedral angles of 51.7 (1) and 59.0 (1)° with the planes of the trifluorophenyl and pyridyl rings, respectively.
The crystal packing in (I) and (II) is influenced by the N—H···O hydrogen bonds (Tables 3 and 4). Both atoms N1 and N2 of the urea group in (I) form hydrogen bonds with atom O1 of the carboxamide group of a neighbouring molecule to form zigzag chains of molceules which run along the b axis (Fig. 4). It is interesting to see that, in (II), each tosylate anion, as acceptor, links three sorafenib molecules by participating in all the N—H···O hydrogen bonds (Fig. 5). Combination with the interaction involving protonated atom N3 [N3—H···O5(-x + 2, y + 1/2, -z + 3/2)] of the pyridine ring facilitates the formation of an R43(29) ring pattern [Etter, 1990; Etter et al., 1990; Bernstein et al., 1995]. These rings are fused to form continuous chains along the b axis. The trifluorophenyl rings protrude on the outside of these chains and interdigitate with those from adjacent chains, thereby forming columns populated by halogen atoms.
In conclusion, this structural analysis highlights the variations in the solid-state conformations of the drug and its hydrogen-bonding interactions in different environments.