The two title semicarbazones, namely 2,3-dihydro-1H-indole-2,3-dione 3-semicarbazone, C9H8N4O2, (I), and 1-methyl-2,3-dihydro-1H-indole-2,3-dione 3-semicarbazone, C10H10N4O2, (II), show the same configuration, viz. Z around the imine C=N bond and E around the C(O)-NH2 bond, stabilized by two intramolecular hydrogen bonds. The presence of a methyl group on the isatin N atom determines the difference in the packing; in (I), the molecules are linked into chains which lie in the crystallographic (102) plane and run perpendicular to the b axis, while in (II), the molecules are arranged to form helices running parallel to a crystallographic screw axis in the a direction.
Supporting information
CCDC references: 244066; 244068
The title compounds were obtained from isatin or 1-methylisatin and neutral semicarbazide (1:1 molar ratio) in an ethanol–water solution, following a similar procedure to that previously reported by Tomchin et al. (1973). The solids obtained by cooling were filtered, washed with ethanol 98% and dried under a vacuum. For isatin 3-semicarbazone H2L1·H2O: yellow powder, solid, m.p. 564 K. Analysis found: C 48.8, H 4.4, N 25.0%; calculated for for C9H8N4O2·H2O: C 48.7, H 4.5, N 25.2%. The yield was 54%. The solid was dissolved in ethyl acetate and after several days at room temperature the solution afforded crystals of (I) that were extremely small but suitable for X-ray diffraction studies and that did not contain the water molecule observed for the powder. For 1-methylisatin 3-semicarbazone HL2: yellow solid, m.p. 522 K 249° C. Analysis found: C 54.9, H 4.7, N 25.0%; calculated for C10H10N4O2: C 55.0, H 4.6, N 25.7%. Yield 57%. After several days at room temperature the solution afforded crystals of (II) that were suitable for X-ray diffraction studies.
In (I), all H atoms were located in a difference map, except aromatic atoms H4 and H7, which were calculated with standard geometries. In (II) all H atoms were visible in difference maps and subsequently allowed for as riding atoms with C—H 0.93 to 0.96 Å and N—H 0.86 Å with Uiso(H) = 1.2Ueq(C,N), or 1.5Ueq(C) for the methyl groups. In the absence of significant anomalous scattering i (II), the Flack parameter (Flack, 1983) was indeterminate (Flack & Bernardinelli, 2000), and the Friedel-equivalent reflections were merged prior to the final refinements.
Data collection: local program (Belletti et al., 1988) for (I); SMART (Bruker, 1997) for (II). Cell refinement: local program (Belletti et al., 1988) for (I); SMART for (II). Data reduction: local program (Belletti et al., 1988) for (I); SAINT (Bruker, 1997) for (II). For both compounds, program(s) used to solve structure: SIR97 (Altomare et al., 1999); program(s) used to refine structure: SHELXL97 (Sheldrick, 1997); molecular graphics: ORTEPIII (Burnett & Johnson, 1996) and PLATON (Spek, 2003); software used to prepare material for publication: SHELXL97.
(I) 1
H-indole-2,3-dione 3-semicarbazone
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Crystal data top
C9H8N4O2 | F(000) = 424 |
Mr = 204.19 | Dx = 1.483 Mg m−3 |
Monoclinic, P21/c | Melting point: 291 K |
Hall symbol: -P 2ybc | Cu Kα radiation, λ = 1.54178 Å |
a = 5.554 (1) Å | Cell parameters from 20 reflections |
b = 18.754 (3) Å | θ = 20–30° |
c = 8.974 (2) Å | µ = 0.93 mm−1 |
β = 101.84 (3)° | T = 298 K |
V = 914.8 (3) Å3 | Prism, pale yellow |
Z = 4 | 0.3 × 0.2 × 0.2 mm |
Data collection top
Siemens AED diffractometer | Rint = 0.032 |
Radiation source: fine-focus sealed tube | θmax = 62.5°, θmin = 2.2° |
Graphite monochromator | h = −6→5 |
θ–2θ scans | k = 0→21 |
1438 measured reflections | l = 0→10 |
1354 independent reflections | 1 standard reflections every 100 reflections |
907 reflections with I > 2σ(I) | intensity decay: 1% |
Refinement top
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full with fixed elements per cycle | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.034 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.092 | H-atom parameters not refined |
S = 0.93 | w = 1/[σ2(Fo2) + (0.0504P)2] where P = (Fo2 + 2Fc2)/3 |
1354 reflections | (Δ/σ)max = 0.013 |
136 parameters | Δρmax = 0.17 e Å−3 |
0 restraints | Δρmin = −0.15 e Å−3 |
Crystal data top
C9H8N4O2 | V = 914.8 (3) Å3 |
Mr = 204.19 | Z = 4 |
Monoclinic, P21/c | Cu Kα radiation |
a = 5.554 (1) Å | µ = 0.93 mm−1 |
b = 18.754 (3) Å | T = 298 K |
c = 8.974 (2) Å | 0.3 × 0.2 × 0.2 mm |
β = 101.84 (3)° | |
Data collection top
Siemens AED diffractometer | Rint = 0.032 |
1438 measured reflections | 1 standard reflections every 100 reflections |
1354 independent reflections | intensity decay: 1% |
907 reflections with I > 2σ(I) | |
Refinement top
R[F2 > 2σ(F2)] = 0.034 | 0 restraints |
wR(F2) = 0.092 | H-atom parameters not refined |
S = 0.93 | Δρmax = 0.17 e Å−3 |
1354 reflections | Δρmin = −0.15 e Å−3 |
136 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. |
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 | |
H1 | 0.3141 | 0.2126 | 0.6025 | 0.089* | |
H2 | 0.4634 | 0.1467 | 0.5359 | 0.050* | |
H3 | 0.7810 | 0.2502 | 0.3417 | 0.074* | |
H4 | 0.7642 | −0.0136 | 0.3698 | 0.050* | |
H5 | 0.9503 | −0.1173 | 0.2932 | 0.065* | |
H6 | 1.2606 | −0.1078 | 0.1552 | 0.065* | |
H7 | 1.3827 | 0.0068 | 0.0898 | 0.050* | |
H8 | 1.3034 | 0.1560 | 0.0924 | 0.092* | |
O1 | 0.5024 (3) | 0.30826 (7) | 0.48589 (18) | 0.0571 (5) | |
O2 | 1.0307 (3) | 0.24314 (7) | 0.21098 (17) | 0.0516 (4) | |
N1 | 0.4202 (4) | 0.19444 (9) | 0.5468 (2) | 0.0540 (5) | |
N2 | 0.6855 (3) | 0.21900 (8) | 0.3862 (2) | 0.0455 (5) | |
N3 | 0.7266 (3) | 0.14809 (8) | 0.37596 (19) | 0.0431 (5) | |
N4 | 1.1815 (3) | 0.13399 (8) | 0.1535 (2) | 0.0465 (5) | |
C1 | 0.5303 (4) | 0.24379 (11) | 0.4767 (2) | 0.0440 (5) | |
C2 | 0.8857 (4) | 0.12954 (10) | 0.2964 (2) | 0.0392 (5) | |
C3 | 0.9602 (4) | 0.05687 (10) | 0.2719 (2) | 0.0402 (5) | |
C4 | 0.8875 (5) | −0.00943 (11) | 0.3137 (3) | 0.0522 (6) | |
C5 | 1.0005 (5) | −0.06931 (11) | 0.2705 (3) | 0.0602 (7) | |
C6 | 1.1839 (5) | −0.06316 (11) | 0.1876 (3) | 0.0597 (7) | |
C7 | 1.2581 (4) | 0.00260 (12) | 0.1448 (3) | 0.0550 (6) | |
C8 | 1.1426 (4) | 0.06185 (10) | 0.1863 (2) | 0.0436 (5) | |
C9 | 1.0355 (4) | 0.17762 (10) | 0.2165 (2) | 0.0411 (5) | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
O1 | 0.0673 (11) | 0.0379 (9) | 0.0789 (12) | 0.0021 (7) | 0.0445 (9) | −0.0033 (8) |
O2 | 0.0578 (10) | 0.0352 (8) | 0.0694 (11) | −0.0025 (7) | 0.0307 (8) | 0.0010 (7) |
N1 | 0.0657 (13) | 0.0401 (10) | 0.0683 (13) | −0.0008 (9) | 0.0421 (11) | −0.0014 (9) |
N2 | 0.0527 (11) | 0.0352 (9) | 0.0578 (12) | 0.0010 (8) | 0.0329 (10) | −0.0018 (8) |
N3 | 0.0466 (11) | 0.0368 (10) | 0.0503 (11) | 0.0022 (8) | 0.0202 (9) | −0.0009 (8) |
N4 | 0.0494 (11) | 0.0390 (10) | 0.0590 (12) | −0.0006 (8) | 0.0295 (10) | 0.0005 (9) |
C1 | 0.0457 (12) | 0.0399 (13) | 0.0518 (14) | 0.0012 (10) | 0.0230 (11) | −0.0023 (10) |
C2 | 0.0389 (12) | 0.0378 (11) | 0.0448 (12) | −0.0024 (9) | 0.0177 (10) | −0.0002 (10) |
C3 | 0.0417 (12) | 0.0352 (10) | 0.0462 (12) | −0.0007 (10) | 0.0152 (10) | −0.0004 (10) |
C4 | 0.0596 (15) | 0.0424 (13) | 0.0595 (15) | −0.0030 (11) | 0.0237 (12) | 0.0035 (11) |
C5 | 0.0778 (19) | 0.0351 (12) | 0.0708 (17) | 0.0010 (11) | 0.0223 (15) | 0.0006 (11) |
C6 | 0.0736 (17) | 0.0393 (13) | 0.0683 (17) | 0.0136 (12) | 0.0198 (15) | −0.0060 (12) |
C7 | 0.0561 (15) | 0.0513 (14) | 0.0640 (16) | 0.0108 (11) | 0.0271 (13) | −0.0040 (12) |
C8 | 0.0445 (13) | 0.0411 (12) | 0.0482 (13) | 0.0014 (10) | 0.0163 (11) | −0.0025 (10) |
C9 | 0.0405 (12) | 0.0378 (12) | 0.0488 (13) | −0.0023 (9) | 0.0181 (11) | −0.0009 (10) |
Geometric parameters (Å, º) top
O1—C1 | 1.224 (2) | C2—C3 | 1.454 (3) |
O2—C9 | 1.230 (2) | C2—C9 | 1.505 (3) |
N1—C1 | 1.336 (3) | C3—C4 | 1.383 (3) |
N1—H1 | 0.9135 | C3—C8 | 1.395 (3) |
N1—H2 | 0.9378 | C4—C5 | 1.380 (3) |
N2—N3 | 1.356 (2) | C4—H4 | 0.933 |
N2—C1 | 1.380 (3) | C5—C6 | 1.384 (4) |
N2—H3 | 0.9327 | C5—H5 | 0.976 |
N3—C2 | 1.293 (3) | C6—C7 | 1.380 (3) |
N4—C9 | 1.355 (3) | C6—H6 | 1.009 |
N4—C8 | 1.411 (2) | C7—C8 | 1.372 (3) |
N4—H8 | 1.0396 | C7—H7 | 0.932 |
| | | |
C1—N1—H1 | 114.10 | C5—C4—C3 | 118.7 (2) |
C1—N1—H2 | 117.46 | C5—C4—H4 | 120.7 |
H1—N1—H2 | 128.4 | C3—C4—H4 | 120.6 |
N3—N2—C1 | 120.29 (16) | C4—C5—C6 | 120.7 (2) |
N3—N2—H3 | 117.89 | C4—C5—H5 | 121.7 |
C1—N2—H3 | 121.27 | C6—C5—H5 | 117.5 |
C2—N3—N2 | 116.44 (17) | C7—C6—C5 | 121.3 (2) |
C9—N4—C8 | 111.21 (17) | C7—C6—H6 | 119.6 |
C9—N4—H8 | 119.41 | C5—C6—H6 | 119.1 |
C8—N4—H8 | 129.37 | C8—C7—C6 | 117.7 (2) |
O1—C1—N1 | 125.19 (19) | C8—C7—H7 | 120.9 |
O1—C1—N2 | 118.37 (18) | C6—C7—H7 | 121.3 |
N1—C1—N2 | 116.44 (17) | C7—C8—C3 | 121.9 (2) |
N3—C2—C3 | 125.72 (19) | C7—C8—N4 | 128.3 (2) |
N3—C2—C9 | 127.54 (19) | C3—C8—N4 | 109.80 (18) |
C3—C2—C9 | 106.70 (17) | O2—C9—N4 | 126.61 (19) |
C4—C3—C8 | 119.7 (2) | O2—C9—C2 | 127.49 (19) |
C4—C3—C2 | 133.9 (2) | N4—C9—C2 | 105.89 (17) |
C8—C3—C2 | 106.38 (18) | | |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1···O2i | 0.91 | 2.18 | 3.087 (3) | 173 |
N1—H2···N3 | 0.94 | 2.25 | 2.659 (3) | 106 |
N2—H3···O2 | 0.93 | 2.00 | 2.755 (2) | 137 |
N4—H8···O1ii | 1.04 | 1.74 | 2.777 (2) | 178 |
C6—H6···O1iii | 1.01 | 2.55 | 3.520 (3) | 161 |
Symmetry codes: (i) x−1, −y+1/2, z+1/2; (ii) x+1, −y+1/2, z−1/2; (iii) −x+2, y−1/2, −z+1/2. |
(II) 1-methylindole-2,3-dione 3-semicarbazone
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Crystal data top
C10H10N4O2 | Dx = 1.434 Mg m−3 |
Mr = 218.22 | Melting point: 249 K |
Orthorhombic, P212121 | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: P 2ac 2ab | Cell parameters from 3118 reflections |
a = 3.984 (2) Å | θ = 2.1–25.0° |
b = 20.930 (6) Å | µ = 0.11 mm−1 |
c = 12.122 (2) Å | T = 298 K |
V = 1010.8 (6) Å3 | Prism, yellow |
Z = 4 | 0.4 × 0.3 × 0.2 mm |
F(000) = 456 | |
Data collection top
Bruker SMART 1000 diffractometer | 910 independent reflections |
Radiation source: fine-focus sealed tube | 782 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.038 |
Detector resolution: 8.192 pixels mm-1 | θmax = 23.3°, θmin = 1.9° |
ω scans | h = −4→4 |
Absorption correction: multi-scan (SADABS; Bruker, 1999) | k = −23→23 |
Tmin = 0.939, Tmax = 0.980 | l = −13→13 |
9231 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)] = 0.028 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.077 | H-atom parameters constrained |
S = 1.02 | w = 1/[σ2(Fo2) + (0.0557P)2] where P = (Fo2 + 2Fc2)/3 |
910 reflections | (Δ/σ)max < 0.001 |
146 parameters | Δρmax = 0.10 e Å−3 |
0 restraints | Δρmin = −0.12 e Å−3 |
Crystal data top
C10H10N4O2 | V = 1010.8 (6) Å3 |
Mr = 218.22 | Z = 4 |
Orthorhombic, P212121 | Mo Kα radiation |
a = 3.984 (2) Å | µ = 0.11 mm−1 |
b = 20.930 (6) Å | T = 298 K |
c = 12.122 (2) Å | 0.4 × 0.3 × 0.2 mm |
Data collection top
Bruker SMART 1000 diffractometer | 910 independent reflections |
Absorption correction: multi-scan (SADABS; Bruker, 1999) | 782 reflections with I > 2σ(I) |
Tmin = 0.939, Tmax = 0.980 | Rint = 0.038 |
9231 measured reflections | θmax = 23.3° |
Refinement top
R[F2 > 2σ(F2)] = 0.028 | 0 restraints |
wR(F2) = 0.077 | H-atom parameters constrained |
S = 1.02 | Δρmax = 0.10 e Å−3 |
910 reflections | Δρmin = −0.12 e Å−3 |
146 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. |
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 | 0.7991 (6) | 0.16810 (8) | 0.98208 (13) | 0.0716 (6) | |
O2 | 1.1174 (5) | 0.03955 (8) | 0.71768 (13) | 0.0646 (6) | |
N1 | 0.5444 (6) | 0.23666 (11) | 0.86358 (17) | 0.0652 (7) | |
H1 | 0.4848 | 0.2629 | 0.9146 | 0.078* | |
H2 | 0.4941 | 0.2445 | 0.7959 | 0.078* | |
N2 | 0.8028 (7) | 0.14554 (10) | 0.80117 (14) | 0.0589 (6) | |
H3 | 0.9091 | 0.1105 | 0.8133 | 0.071* | |
N3 | 0.7246 (6) | 0.16223 (9) | 0.69678 (14) | 0.0488 (5) | |
N4 | 1.0444 (5) | 0.03808 (9) | 0.52878 (15) | 0.0486 (5) | |
C1 | 0.7134 (7) | 0.18433 (11) | 0.8892 (2) | 0.0550 (7) | |
C2 | 0.8210 (6) | 0.12407 (10) | 0.61916 (18) | 0.0435 (6) | |
C3 | 0.7599 (6) | 0.13253 (10) | 0.50235 (17) | 0.0422 (6) | |
C4 | 0.6054 (7) | 0.17950 (11) | 0.44031 (19) | 0.0484 (6) | |
H4 | 0.5100 | 0.2150 | 0.4741 | 0.058* | |
C5 | 0.5958 (7) | 0.17263 (13) | 0.3271 (2) | 0.0569 (7) | |
H5 | 0.4943 | 0.2040 | 0.2842 | 0.068* | |
C6 | 0.7346 (7) | 0.11983 (12) | 0.2768 (2) | 0.0602 (7) | |
H6 | 0.7241 | 0.1163 | 0.2004 | 0.072* | |
C7 | 0.8886 (7) | 0.07211 (12) | 0.33672 (18) | 0.0545 (7) | |
H7 | 0.9812 | 0.0365 | 0.3023 | 0.065* | |
C8 | 0.8998 (6) | 0.07924 (10) | 0.44936 (18) | 0.0427 (6) | |
C9 | 1.0115 (7) | 0.06289 (11) | 0.63179 (19) | 0.0481 (6) | |
C10 | 1.2050 (8) | −0.02279 (10) | 0.5055 (2) | 0.0622 (8) | |
H10A | 1.3533 | −0.0181 | 0.4436 | 0.093* | |
H10B | 1.0369 | −0.0542 | 0.4887 | 0.093* | |
H10C | 1.3311 | −0.0363 | 0.5688 | 0.093* | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
O1 | 0.1081 (17) | 0.0666 (11) | 0.0401 (10) | −0.0106 (13) | −0.0094 (10) | −0.0006 (8) |
O2 | 0.0830 (14) | 0.0571 (10) | 0.0537 (10) | 0.0084 (11) | −0.0110 (10) | 0.0082 (8) |
N1 | 0.0911 (19) | 0.0614 (13) | 0.0432 (12) | 0.0067 (14) | 0.0079 (12) | −0.0058 (10) |
N2 | 0.0807 (17) | 0.0510 (11) | 0.0450 (12) | 0.0046 (13) | −0.0035 (12) | −0.0043 (9) |
N3 | 0.0595 (13) | 0.0498 (11) | 0.0370 (11) | −0.0035 (11) | −0.0023 (10) | −0.0037 (9) |
N4 | 0.0529 (13) | 0.0404 (10) | 0.0526 (11) | 0.0022 (11) | 0.0012 (11) | −0.0051 (9) |
C1 | 0.0713 (19) | 0.0505 (14) | 0.0432 (15) | −0.0132 (15) | 0.0050 (16) | −0.0035 (12) |
C2 | 0.0478 (15) | 0.0404 (12) | 0.0423 (13) | −0.0051 (12) | 0.0022 (12) | −0.0019 (10) |
C3 | 0.0410 (14) | 0.0405 (11) | 0.0451 (13) | −0.0053 (12) | 0.0000 (12) | −0.0019 (9) |
C4 | 0.0453 (14) | 0.0458 (13) | 0.0540 (15) | −0.0004 (12) | −0.0003 (13) | −0.0006 (11) |
C5 | 0.0554 (17) | 0.0622 (16) | 0.0530 (15) | −0.0035 (15) | −0.0089 (14) | 0.0101 (12) |
C6 | 0.0649 (18) | 0.0719 (17) | 0.0437 (14) | −0.0091 (17) | −0.0025 (15) | −0.0022 (13) |
C7 | 0.0583 (17) | 0.0559 (14) | 0.0492 (14) | −0.0049 (16) | 0.0046 (13) | −0.0108 (12) |
C8 | 0.0404 (14) | 0.0412 (12) | 0.0465 (13) | −0.0049 (12) | 0.0020 (12) | −0.0015 (10) |
C9 | 0.0501 (15) | 0.0440 (13) | 0.0500 (14) | −0.0050 (12) | −0.0015 (13) | 0.0030 (11) |
C10 | 0.0656 (19) | 0.0429 (14) | 0.0781 (18) | 0.0068 (16) | 0.0051 (17) | −0.0040 (12) |
Geometric parameters (Å, º) top
O1—C1 | 1.225 (3) | C3—C4 | 1.382 (3) |
O2—C9 | 1.225 (3) | C3—C8 | 1.403 (3) |
N1—C1 | 1.323 (3) | C4—C5 | 1.381 (3) |
N1—H1 | 0.86 | C4—H4 | 0.93 |
N1—H2 | 0.86 | C5—C6 | 1.378 (4) |
N2—N3 | 1.349 (3) | C5—H5 | 0.93 |
N2—C1 | 1.387 (3) | C6—C7 | 1.379 (4) |
N2—H3 | 0.86 | C6—H6 | 0.93 |
N3—C2 | 1.293 (3) | C7—C8 | 1.374 (3) |
N4—C9 | 1.359 (3) | C7—H7 | 0.93 |
N4—C8 | 1.414 (3) | C10—H10A | 0.96 |
N4—C10 | 1.453 (3) | C10—H10B | 0.96 |
C2—C3 | 1.448 (3) | C10—H10C | 0.96 |
C2—C9 | 1.496 (3) | | |
| | | |
C1—N1—H1 | 120.0 | C6—C5—C4 | 120.8 (2) |
C1—N1—H2 | 120.0 | C6—C5—H5 | 119.6 |
H1—N1—H2 | 120.0 | C4—C5—H5 | 119.6 |
N3—N2—C1 | 120.7 (2) | C5—C6—C7 | 121.8 (2) |
N3—N2—H3 | 119.7 | C5—C6—H6 | 119.1 |
C1—N2—H3 | 119.7 | C7—C6—H6 | 119.1 |
C2—N3—N2 | 117.0 (2) | C8—C7—C6 | 117.3 (2) |
C9—N4—C8 | 110.70 (18) | C8—C7—H7 | 121.3 |
C9—N4—C10 | 123.8 (2) | C6—C7—H7 | 121.3 |
C8—N4—C10 | 125.53 (19) | C7—C8—C3 | 121.9 (2) |
O1—C1—N1 | 126.0 (2) | C7—C8—N4 | 128.6 (2) |
O1—C1—N2 | 118.2 (2) | C3—C8—N4 | 109.54 (19) |
N1—C1—N2 | 115.8 (2) | O2—C9—N4 | 126.5 (2) |
N3—C2—C3 | 125.9 (2) | O2—C9—C2 | 127.1 (2) |
N3—C2—C9 | 127.2 (2) | N4—C9—C2 | 106.37 (19) |
C3—C2—C9 | 106.87 (19) | N4—C10—H10A | 109.5 |
C4—C3—C8 | 119.6 (2) | N4—C10—H10B | 109.5 |
C4—C3—C2 | 134.0 (2) | H10A—C10—H10B | 109.5 |
C8—C3—C2 | 106.49 (19) | N4—C10—H10C | 109.5 |
C5—C4—C3 | 118.6 (2) | H10A—C10—H10C | 109.5 |
C5—C4—H4 | 120.7 | H10B—C10—H10C | 109.5 |
C3—C4—H4 | 120.7 | | |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1···O1i | 0.86 | 2.05 | 2.903 (3) | 171 |
N1—H2···N3 | 0.86 | 2.29 | 2.652 (3) | 105 |
N2—H3···O2 | 0.86 | 2.06 | 2.742 (3) | 136 |
C7—H7···O2ii | 0.93 | 2.48 | 3.379 (4) | 163 |
C10—H10C···O2 | 0.96 | 2.55 | 2.905 (3) | 102 |
Symmetry codes: (i) x−1/2, −y+1/2, −z+2; (ii) −x+5/2, −y, z−1/2. |
Experimental details
| (I) | (II) |
Crystal data |
Chemical formula | C9H8N4O2 | C10H10N4O2 |
Mr | 204.19 | 218.22 |
Crystal system, space group | Monoclinic, P21/c | Orthorhombic, P212121 |
Temperature (K) | 298 | 298 |
a, b, c (Å) | 5.554 (1), 18.754 (3), 8.974 (2) | 3.984 (2), 20.930 (6), 12.122 (2) |
α, β, γ (°) | 90, 101.84 (3), 90 | 90, 90, 90 |
V (Å3) | 914.8 (3) | 1010.8 (6) |
Z | 4 | 4 |
Radiation type | Cu Kα | Mo Kα |
µ (mm−1) | 0.93 | 0.11 |
Crystal size (mm) | 0.3 × 0.2 × 0.2 | 0.4 × 0.3 × 0.2 |
|
Data collection |
Diffractometer | Siemens AED diffractometer | Bruker SMART 1000 diffractometer |
Absorption correction | – | Multi-scan (SADABS; Bruker, 1999) |
Tmin, Tmax | – | 0.939, 0.980 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 1438, 1354, 907 | 9231, 910, 782 |
Rint | 0.032 | 0.038 |
θmax (°) | 62.5 | 23.3 |
(sin θ/λ)max (Å−1) | 0.575 | 0.556 |
|
Refinement |
R[F2 > 2σ(F2)], wR(F2), S | 0.034, 0.092, 0.93 | 0.028, 0.077, 1.02 |
No. of reflections | 1354 | 910 |
No. of parameters | 136 | 146 |
H-atom treatment | H-atom parameters not refined | H-atom parameters constrained |
Δρmax, Δρmin (e Å−3) | 0.17, −0.15 | 0.10, −0.12 |
Selected bond lengths (Å) for (I) topO1—C1 | 1.224 (2) | C2—C3 | 1.454 (3) |
O2—C9 | 1.230 (2) | C2—C9 | 1.505 (3) |
N1—C1 | 1.336 (3) | C3—C4 | 1.383 (3) |
N2—N3 | 1.356 (2) | C3—C8 | 1.395 (3) |
N2—C1 | 1.380 (3) | C4—C5 | 1.380 (3) |
N3—C2 | 1.293 (3) | C5—C6 | 1.384 (4) |
N4—C9 | 1.355 (3) | C6—C7 | 1.380 (3) |
N4—C8 | 1.411 (2) | C7—C8 | 1.372 (3) |
Hydrogen-bond geometry (Å, º) for (I) top
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1···O2i | 0.91 | 2.18 | 3.087 (3) | 173 |
N1—H2···N3 | 0.94 | 2.25 | 2.659 (3) | 106 |
N2—H3···O2 | 0.93 | 2.00 | 2.755 (2) | 137 |
N4—H8···O1ii | 1.04 | 1.74 | 2.777 (2) | 178 |
Symmetry codes: (i) x−1, −y+1/2, z+1/2; (ii) x+1, −y+1/2, z−1/2. |
Hydrogen-bond geometry (Å, º) for (II) top
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1···O1i | 0.86 | 2.05 | 2.903 (3) | 171 |
N1—H2···N3 | 0.86 | 2.29 | 2.652 (3) | 105 |
N2—H3···O2 | 0.86 | 2.06 | 2.742 (3) | 136 |
C7—H7···O2ii | 0.93 | 2.48 | 3.379 (4) | 163 |
C10—H10C···O2 | 0.96 | 2.55 | 2.905 (3) | 102 |
Symmetry codes: (i) x−1/2, −y+1/2, −z+2; (ii) −x+5/2, −y, z−1/2. |
Isatin derivatives are molecules that possess biological properties (Pandeya et al., 1999, and references therein). During the past few years, we have devoted our research to isatin derivatives and their metal complexes in order to study their biological activity (Rodríguez-Argüelles et al., 1999, 2004; Casas et al., 2000). In this framework, we report here the synthesis and solid state characterization of two semicarbazones, viz. isatin- and 1-methylisatin-3-semicarbazone, (I) and (II), respectively.
The configuration of (I) (Fig. 1) is Z with respect to the C2—N3 bond (with the configuration stabilized by an N2—H3···O2 intramolecular hydrogen bond; Table 2), while it is E with respect to the C1—N2 bond (stabilized by an N1—H2···N3 intramolecular hydrogen bond; Table 2). The same configurations have been found in uncomplexed isatin-3-thiosemicarbazone (Casas et al., 2000) and in isatinthiosemicarbazone ethyl or p-tolyl monosubstituted on the amine N atom (Bain et al., 1997; Revenko et al., 1994). The bond distances and angles are listed in Table 1 and are comparable to those reported in the literature for similar compounds (Allen, 2002). In the five-membered ring, the C2—C9 bond [1.505 (3) Å] is shorter than the corresponding bond in free isatin [1.555 (3) Å; Palenik et al., 1990]. This difference confirms the hypothesis that the bond lengthening of unsubstituted isatin is due to repulsion between the lone pair of the O atom in the cis position. The six- and five-membered rings are nearly planar [the dihedral angle between the mean planes of the two rings is 1.20 (6)°], and the dihedral angle between the mean planes of the isatin and semicarbazide groups is 5.42 (5)°. These molecules could take the keto–imine tautomeric form in solution, but in the crystal only the keto form is observed, as confirmed by the C9═O2 distance [1.230 (2) Å]. This form is stabilized by intermolecular hydrogen bondings (i) between amine atom N1 and atom O2 at (x − 1, −y + 1/2, z + 1/2) and (ii) between isatin atom N4 and atom O1 of the semicarbazide moiety at (x + 1, −y + 1/2, z − 1/2) (Table 2). This short hydrogen bond justifies the unusually long distance N4—H (1.04 Å). These two bonds link the molecules in chains lying in the crystallographic (102) plane and running perpendicular to the b axis (Fig. 2). Forces which can probably be interpreted as due to stacking interactions between the six-membered isatin rings of centrosymmetrical molecules (in the range 3.340–3.519 Å) hold the chains together to form a complex network in directions c and a.
Fig. 3 shows an ORTEPIII (Burnett & Johnson, 1996) view of (II). The molecular geometry is similar to that of the non-methylated compound (I). The configuration is Z around the C2—N3 bond, stabilized by an intramolecular N2—H3···O2 bond, and E with respect to the C1—N2 bond as a consequence of the intramolecular N1—H2···N3 bond (Table 3). Again, the C2—C9 bond [1.497 (3) Å] is shorter than that in free isatin. The dihedral angles between the mean planes of the two rings is 1.04 (9)°, and that between the mean planes of the isatin and semicarbazide groups is 1.61 (9)°. The whole molecule is therefore essentially planar. In the crystal packing (Fig. 4), which is different from (I), the presence of hydrogen bonds between atoms N1 and O1 of molecules related by a 21 axis (Table 3) gives rise to a helix running parallel to the crystallographic a axis. Weak interactions C—H···O between an aromatic isatin C atom, a methyl C atom and a carbonyl O atom are also present; details are in Table 3.