Literature DB >> 23424559

rac-5-Bromo-N-benzyl-isatincreatinine ethanol monosolvate.

Narsimha Reddy Penthala1, Peter A Crooks.   

Abstract

IN THE TITLE COMPOUND [SYSTEMATIC NAME: rac-1-benzyl-5-bromo-3-hy-droxy-3-(2-imino-3-methyl-5-oxoimidazolidin-4-yl)-2,3-dihydro-1H-indol-2-one ethanol monosolvate], C(19)H(17)BrN(4)O(3)·C(2)H(5)OH, which crystallized as a racemate (RR and SS), the isatin ring is almost planar, with an r.m.s. deviations from the mean plane of 0.0276 (14) Å. The phenyl ring of the benzyl group makes a dihedral angle with the mean plane of the isatin ring of 87.40 (5)° and the dihedral angle between the imidazole and isatin rings is 58.56 (7)°. In the crystal, mol-ecules are linked into two-dimensional pleated-sheet networks in the ac plane formed by O-H⋯O, N-H⋯O and O-H⋯N hydrogen bonds; within these sheets there are R(4) (4)(10) rings that involve three mol-ecules of the title compound and a single ethanol solvent mol-ecule. In addition, there are π-π inter-actions between inversion-related benzyl groups, with an inter-planar spacing of 3.444 (3) Å.

Entities:  

Year:  2013        PMID: 23424559      PMCID: PMC3569813          DOI: 10.1107/S160053681300038X

Source DB:  PubMed          Journal:  Acta Crystallogr Sect E Struct Rep Online        ISSN: 1600-5368


Related literature

Background information on the biological importance of isatins has been given by Pandeya et al. (2005 ▶), and by Vine et al. (2007 ▶). For similar structures, see: Tang et al. (2009 ▶); Penthala et al. (2009a ▶,b ▶).

Experimental

Crystal data

C19H17BrN4O3·C2H6O M = 475.34 Monoclinic, a = 7.8384 (16) Å b = 24.553 (5) Å c = 10.936 (2) Å β = 99.54 (3)° V = 2075.6 (7) Å3 Z = 4 Mo Kα radiation μ = 2.02 mm−1 T = 90 K 0.20 × 0.15 × 0.10 mm

Data collection

Nonius KappaCCD diffractometer Absorption correction: multi-scan [SCALEPACK (Otwinowski & Minor, 1997 ▶) and XABS2 (Parkin et al., 1995 ▶)] T min = 0.689, T max = 0.824 41507 measured reflections 4752 independent reflections 4147 reflections with I > 2σ(I) R int = 0.038

Refinement

R[F 2 > 2σ(F 2)] = 0.029 wR(F 2) = 0.074 S = 1.05 4752 reflections 282 parameters 3 restraints H atoms treated by a mixture of independent and constrained refinement Δρmax = 1.19 e Å−3 Δρmin = −0.45 e Å−3 Data collection: COLLECT (Nonius, 1998 ▶); cell refinement: SCALEPACK (Otwinowski & Minor, 1997 ▶); data reduction: DENZO-SMN (Otwinowski & Minor, 1997 ▶); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: XP in SHELXTL (Sheldrick, 2008 ▶); software used to prepare material for publication: SHELXL97 and local procedures. Click here for additional data file. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S160053681300038X/hg5279sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S160053681300038X/hg5279Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S160053681300038X/hg5279Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C19H17BrN4O3·C2H6OF(000) = 976
Mr = 475.34Dx = 1.521 Mg m3
Monoclinic, P21/nMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ynCell parameters from 51652 reflections
a = 7.8384 (16) Åθ = 1.0–27.5°
b = 24.553 (5) ŵ = 2.02 mm1
c = 10.936 (2) ÅT = 90 K
β = 99.54 (3)°Block, colourless
V = 2075.6 (7) Å30.20 × 0.15 × 0.10 mm
Z = 4
Nonius KappaCCD diffractometer4752 independent reflections
Radiation source: fine-focus sealed tube4147 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.038
Detector resolution: 9.1 pixels mm-1θmax = 27.5°, θmin = 1.7°
ω scans at fixed χ = 55°h = −10→10
Absorption correction: multi-scan [SCALEPACK (Otwinowski & Minor, 1997) and XABS2 (Parkin et al., 1995)]k = −31→31
Tmin = 0.689, Tmax = 0.824l = −14→14
41507 measured reflections
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.029Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.074H atoms treated by a mixture of independent and constrained refinement
S = 1.05w = 1/[σ2(Fo2) + (0.0318P)2 + 2.2794P] where P = (Fo2 + 2Fc2)/3
4752 reflections(Δ/σ)max = 0.002
282 parametersΔρmax = 1.19 e Å3
3 restraintsΔρmin = −0.45 e Å3
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-value wR and goodness of fit S are based on F2. Conventional R-values R are based on F, with F set to zero for negative F2. The threshold expression of F2 > 2σ(F2) is used only for calculating R-factors(gt) etc. and is not relevant to the choice of reflections for refinement. R-values based on F2 are statistically about twice as large as those based on F, and R-values based on ALL data will be even larger.
xyzUiso*/Ueq
Br10.49690 (3)0.374439 (8)0.816959 (17)0.02004 (7)
O10.41024 (17)0.35297 (6)0.10785 (12)0.0171 (3)
C10.4044 (2)0.36264 (7)0.21623 (17)0.0130 (3)
N20.35261 (19)0.41049 (6)0.26345 (14)0.0131 (3)
C30.3743 (2)0.40838 (7)0.39354 (17)0.0127 (3)
C40.3378 (2)0.44865 (8)0.47375 (18)0.0152 (4)
H40.28960.48250.44350.018*
C50.3745 (2)0.43786 (8)0.60104 (17)0.0160 (4)
H50.35030.46460.65870.019*
C60.4460 (2)0.38823 (8)0.64338 (16)0.0140 (4)
C70.4822 (2)0.34757 (7)0.56274 (16)0.0129 (3)
H70.53110.31380.59310.015*
C80.4445 (2)0.35808 (7)0.43654 (17)0.0121 (3)
O90.64140 (16)0.31074 (6)0.31688 (12)0.0163 (3)
H90.70240.31180.38770.024*
C90.4680 (2)0.32370 (7)0.32616 (16)0.0124 (3)
C100.3592 (2)0.27084 (7)0.31485 (16)0.0123 (3)
H100.36960.25110.23640.015*
O110.07782 (17)0.31156 (5)0.24552 (12)0.0169 (3)
C110.1692 (2)0.28271 (7)0.32180 (16)0.0127 (3)
N120.12428 (19)0.25919 (6)0.42372 (14)0.0137 (3)
N130.2659 (2)0.20205 (7)0.57992 (15)0.0166 (3)
H13A0.356 (3)0.1946 (9)0.625 (2)0.020*
H13B0.175 (3)0.2005 (10)0.608 (2)0.020*
C130.2659 (2)0.23119 (7)0.47904 (16)0.0128 (3)
N140.40463 (19)0.23525 (6)0.42122 (14)0.0121 (3)
C140.5592 (2)0.20123 (8)0.44579 (18)0.0177 (4)
H14A0.64530.21870.50880.026*
H14B0.60730.19670.36920.026*
H14C0.52880.16550.47580.026*
C150.3028 (2)0.45903 (8)0.18962 (17)0.0156 (4)
H15A0.33280.45360.10600.019*
H15B0.37180.49020.22820.019*
C160.1127 (2)0.47366 (8)0.17564 (16)0.0146 (4)
C17−0.0132 (3)0.43353 (8)0.17080 (19)0.0197 (4)
H170.02030.39650.18340.024*
C18−0.1880 (3)0.44717 (8)0.14763 (19)0.0204 (4)
H18−0.27330.41950.14380.024*
C19−0.2373 (3)0.50119 (8)0.13010 (18)0.0187 (4)
H19−0.35640.51060.11330.022*
C20−0.1119 (3)0.54152 (8)0.13722 (19)0.0198 (4)
H20−0.14540.57860.12660.024*
C210.0624 (3)0.52780 (8)0.15986 (18)0.0181 (4)
H210.14760.55560.16460.022*
O1S−0.13483 (17)0.30418 (6)0.53172 (13)0.0191 (3)
H1S−0.06000.28850.49750.029*
C1S−0.0616 (3)0.35257 (9)0.5930 (2)0.0249 (4)
H1S10.06410.34700.61990.030*
H1S2−0.11430.35880.66800.030*
C2S−0.0892 (3)0.40229 (9)0.5114 (2)0.0300 (5)
H2S1−0.03660.39650.43720.045*
H2S2−0.03550.43390.55700.045*
H2S3−0.21350.40880.48690.045*
U11U22U33U12U13U23
Br10.02698 (11)0.02127 (11)0.01143 (10)0.00486 (8)0.00183 (7)−0.00050 (7)
O10.0183 (7)0.0219 (7)0.0113 (6)−0.0017 (6)0.0030 (5)0.0000 (5)
C10.0084 (8)0.0169 (9)0.0139 (9)−0.0023 (6)0.0026 (6)0.0011 (7)
N20.0139 (7)0.0146 (7)0.0108 (7)−0.0001 (6)0.0016 (6)0.0019 (6)
C30.0094 (8)0.0160 (9)0.0125 (8)−0.0025 (7)0.0010 (6)0.0011 (7)
C40.0140 (8)0.0131 (8)0.0180 (9)0.0005 (7)0.0014 (7)0.0005 (7)
C50.0157 (9)0.0167 (9)0.0157 (9)−0.0001 (7)0.0029 (7)−0.0033 (7)
C60.0130 (8)0.0191 (9)0.0094 (8)−0.0015 (7)0.0005 (7)−0.0006 (7)
C70.0105 (8)0.0151 (9)0.0129 (8)0.0000 (7)0.0016 (7)0.0012 (7)
C80.0081 (8)0.0144 (8)0.0140 (9)−0.0019 (6)0.0028 (6)−0.0006 (7)
O90.0104 (6)0.0260 (7)0.0129 (6)0.0032 (5)0.0033 (5)−0.0005 (5)
C90.0103 (8)0.0157 (9)0.0113 (8)0.0014 (7)0.0019 (6)0.0010 (7)
C100.0129 (8)0.0137 (8)0.0102 (8)0.0018 (7)0.0016 (6)0.0004 (7)
O110.0148 (6)0.0168 (7)0.0174 (7)−0.0004 (5)−0.0025 (5)0.0033 (5)
C110.0111 (8)0.0121 (8)0.0138 (9)−0.0012 (6)−0.0006 (7)−0.0023 (7)
N120.0112 (7)0.0151 (7)0.0144 (7)0.0011 (6)0.0013 (6)0.0023 (6)
N130.0123 (8)0.0232 (9)0.0146 (8)0.0022 (7)0.0033 (6)0.0049 (6)
C130.0123 (8)0.0130 (8)0.0128 (8)−0.0010 (7)0.0014 (7)−0.0015 (7)
N140.0117 (7)0.0134 (7)0.0116 (7)0.0031 (6)0.0031 (6)0.0025 (6)
C140.0159 (9)0.0185 (9)0.0197 (10)0.0076 (7)0.0063 (7)0.0034 (7)
C150.0160 (9)0.0150 (9)0.0155 (9)−0.0009 (7)0.0019 (7)0.0044 (7)
C160.0168 (9)0.0173 (9)0.0095 (8)0.0000 (7)0.0017 (7)0.0019 (7)
C170.0192 (10)0.0152 (9)0.0243 (10)0.0004 (7)0.0026 (8)0.0040 (8)
C180.0175 (9)0.0189 (10)0.0254 (10)−0.0036 (8)0.0051 (8)0.0021 (8)
C190.0179 (9)0.0234 (10)0.0152 (9)0.0041 (8)0.0044 (7)0.0023 (8)
C200.0232 (10)0.0153 (9)0.0214 (10)0.0034 (8)0.0055 (8)0.0009 (7)
C210.0201 (9)0.0164 (9)0.0182 (9)−0.0028 (8)0.0044 (7)−0.0006 (7)
O1S0.0127 (6)0.0229 (7)0.0217 (7)0.0024 (5)0.0033 (5)−0.0021 (6)
C1S0.0218 (10)0.0275 (11)0.0240 (11)0.0005 (9)−0.0002 (8)−0.0052 (9)
C2S0.0239 (11)0.0286 (12)0.0376 (13)−0.0076 (9)0.0049 (10)0.0006 (10)
Br1—C61.9042 (18)C13—N141.349 (2)
O1—C11.217 (2)N14—C141.460 (2)
C1—N21.372 (2)C14—H14A0.9800
C1—C91.552 (2)C14—H14B0.9800
N2—C31.406 (2)C14—H14C0.9800
N2—C151.456 (2)C15—C161.516 (3)
C3—C41.383 (3)C15—H15A0.9900
C3—C81.401 (3)C15—H15B0.9900
C4—C51.399 (3)C16—C171.389 (3)
C4—H40.9500C16—C211.389 (3)
C5—C61.388 (3)C17—C181.392 (3)
C5—H50.9500C17—H170.9500
C6—C71.392 (3)C18—C191.386 (3)
C7—C81.387 (3)C18—H180.9500
C7—H70.9500C19—C201.388 (3)
C8—C91.509 (2)C19—H190.9500
O9—C91.416 (2)C20—C211.389 (3)
O9—H90.8400C20—H200.9500
C9—C101.546 (2)C21—H210.9500
C10—N141.451 (2)O1S—C1S1.436 (3)
C10—C111.532 (2)O1S—H1S0.8400
C10—H101.0000C1S—C2S1.506 (3)
O11—C111.230 (2)C1S—H1S10.9900
C11—N121.353 (2)C1S—H1S20.9900
N12—C131.359 (2)C2S—H2S10.9800
N13—C131.315 (2)C2S—H2S20.9800
N13—H13A0.81 (2)C2S—H2S30.9800
N13—H13B0.82 (2)
O1—C1—N2126.51 (17)C13—N14—C10108.09 (14)
O1—C1—C9125.11 (17)C13—N14—C14125.49 (15)
N2—C1—C9108.24 (15)C10—N14—C14125.31 (15)
C1—N2—C3110.84 (15)N14—C14—H14A109.5
C1—N2—C15124.14 (16)N14—C14—H14B109.5
C3—N2—C15124.60 (15)H14A—C14—H14B109.5
C4—C3—C8121.89 (17)N14—C14—H14C109.5
C4—C3—N2127.78 (17)H14A—C14—H14C109.5
C8—C3—N2110.31 (16)H14B—C14—H14C109.5
C3—C4—C5117.77 (17)N2—C15—C16114.75 (15)
C3—C4—H4121.1N2—C15—H15A108.6
C5—C4—H4121.1C16—C15—H15A108.6
C6—C5—C4120.19 (17)N2—C15—H15B108.6
C6—C5—H5119.9C16—C15—H15B108.6
C4—C5—H5119.9H15A—C15—H15B107.6
C5—C6—C7122.12 (17)C17—C16—C21119.26 (18)
C5—C6—Br1119.66 (14)C17—C16—C15121.06 (17)
C7—C6—Br1118.22 (14)C21—C16—C15119.56 (17)
C8—C7—C6117.69 (17)C16—C17—C18120.50 (18)
C8—C7—H7121.2C16—C17—H17119.7
C6—C7—H7121.2C18—C17—H17119.7
C7—C8—C3120.34 (17)C19—C18—C17119.93 (18)
C7—C8—C9131.13 (17)C19—C18—H18120.0
C3—C8—C9108.53 (15)C17—C18—H18120.0
C9—O9—H9109.5C18—C19—C20119.74 (18)
O9—C9—C8115.38 (15)C18—C19—H19120.1
O9—C9—C10109.18 (14)C20—C19—H19120.1
C8—C9—C10113.26 (14)C19—C20—C21120.23 (18)
O9—C9—C1105.76 (14)C19—C20—H20119.9
C8—C9—C1102.06 (14)C21—C20—H20119.9
C10—C9—C1110.69 (14)C20—C21—C16120.32 (18)
N14—C10—C11100.72 (14)C20—C21—H21119.8
N14—C10—C9112.50 (14)C16—C21—H21119.8
C11—C10—C9111.34 (14)C1S—O1S—H1S109.5
N14—C10—H10110.6O1S—C1S—C2S112.79 (18)
C11—C10—H10110.6O1S—C1S—H1S1109.0
C9—C10—H10110.6C2S—C1S—H1S1109.0
O11—C11—N12127.07 (17)O1S—C1S—H1S2109.0
O11—C11—C10122.53 (16)C2S—C1S—H1S2109.0
N12—C11—C10110.35 (15)H1S1—C1S—H1S2107.8
C11—N12—C13106.12 (15)C1S—C2S—H2S1109.5
C13—N13—H13A121.0 (16)C1S—C2S—H2S2109.5
C13—N13—H13B117.3 (16)H2S1—C2S—H2S2109.5
H13A—N13—H13B118 (2)C1S—C2S—H2S3109.5
N13—C13—N14123.05 (17)H2S1—C2S—H2S3109.5
N13—C13—N12122.36 (16)H2S2—C2S—H2S3109.5
N14—C13—N12114.59 (16)
O1—C1—N2—C3−175.80 (17)C8—C9—C10—N14−61.17 (19)
C9—C1—N2—C30.11 (19)C1—C9—C10—N14−175.10 (14)
O1—C1—N2—C15−2.9 (3)O9—C9—C10—C11−178.91 (14)
C9—C1—N2—C15172.95 (15)C8—C9—C10—C1151.04 (19)
C1—N2—C3—C4179.53 (18)C1—C9—C10—C11−62.89 (18)
C15—N2—C3—C46.7 (3)N14—C10—C11—O11−178.92 (16)
C1—N2—C3—C80.7 (2)C9—C10—C11—O1161.6 (2)
C15—N2—C3—C8−172.11 (16)N14—C10—C11—N123.60 (19)
C8—C3—C4—C50.4 (3)C9—C10—C11—N12−115.88 (16)
N2—C3—C4—C5−178.32 (17)O11—C11—N12—C13179.74 (18)
C3—C4—C5—C60.4 (3)C10—C11—N12—C13−2.93 (19)
C4—C5—C6—C7−0.6 (3)C11—N12—C13—N13−178.18 (17)
C4—C5—C6—Br1179.46 (14)C11—N12—C13—N141.0 (2)
C5—C6—C7—C80.0 (3)N13—C13—N14—C10−179.41 (17)
Br1—C6—C7—C8179.97 (13)N12—C13—N14—C101.4 (2)
C6—C7—C8—C30.7 (3)N13—C13—N14—C1412.2 (3)
C6—C7—C8—C9179.66 (17)N12—C13—N14—C14−167.02 (17)
C4—C3—C8—C7−1.0 (3)C11—C10—N14—C13−2.85 (18)
N2—C3—C8—C7177.94 (15)C9—C10—N14—C13115.79 (16)
C4—C3—C8—C9179.88 (16)C11—C10—N14—C14165.59 (16)
N2—C3—C8—C9−1.21 (19)C9—C10—N14—C14−75.8 (2)
C7—C8—C9—O9−63.7 (3)C1—N2—C15—C16111.7 (2)
C3—C8—C9—O9115.31 (17)C3—N2—C15—C16−76.5 (2)
C7—C8—C9—C1063.1 (2)N2—C15—C16—C17−33.1 (3)
C3—C8—C9—C10−117.84 (16)N2—C15—C16—C21150.87 (17)
C7—C8—C9—C1−177.84 (18)C21—C16—C17—C181.4 (3)
C3—C8—C9—C11.18 (18)C15—C16—C17—C18−174.63 (18)
O1—C1—C9—O954.1 (2)C16—C17—C18—C19−0.5 (3)
N2—C1—C9—O9−121.83 (15)C17—C18—C19—C20−0.8 (3)
O1—C1—C9—C8175.19 (17)C18—C19—C20—C211.0 (3)
N2—C1—C9—C8−0.78 (18)C19—C20—C21—C160.0 (3)
O1—C1—C9—C10−64.0 (2)C17—C16—C21—C20−1.2 (3)
N2—C1—C9—C10120.05 (16)C15—C16—C21—C20174.94 (17)
O9—C9—C10—N1468.89 (18)
D—H···AD—HH···AD···AD—H···A
O9—H9···O1Si0.841.872.694 (2)169
N13—H13A···O11ii0.81 (2)2.00 (2)2.811 (2)171 (2)
N13—H13B···O9iii0.82 (2)2.36 (2)2.933 (2)128 (2)
N13—H13B···O1iii0.82 (2)2.46 (2)3.158 (2)144 (2)
O1S—H1S···N120.841.912.745 (2)174
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
O9—H9⋯O1S i 0.841.872.694 (2)169
N13—H13A⋯O11ii 0.81 (2)2.00 (2)2.811 (2)171 (2)
N13—H13B⋯O9iii 0.82 (2)2.36 (2)2.933 (2)128 (2)
N13—H13B⋯O1iii 0.82 (2)2.46 (2)3.158 (2)144 (2)
O1S—H1S⋯N120.841.912.745 (2)174

Symmetry codes: (i) ; (ii) ; (iii) .

  6 in total

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2.  Biological activities of isatin and its derivatives.

Authors:  Surendra Nath Pandeya; Sivakumar Smitha; Mayank Jyoti; Seshaiah Krishnan Sridhar
Journal:  Acta Pharm       Date:  2005-03       Impact factor: 2.230

3.  In vitro cytotoxicity evaluation of some substituted isatin derivatives.

Authors:  Kara L Vine; Julie M Locke; Marie Ranson; Kirsten Benkendorff; Stephen G Pyne; John B Bremner
Journal:  Bioorg Med Chem       Date:  2006-10-20       Impact factor: 3.641

4.  3-Hydr-oxy-3-nitro-methyl-indolin-2-one.

Authors:  Ying Tang; Gang Chen; Jie Zhang; Shijun Chen
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-10-03

5.  3-(2-Amino-1-methyl-4-oxo-4,5-dihydro-1H-imidazol-5-yl)-5-fluoro-3-hydr-oxy-1-methyl-indolin-2-one methanol hemisolvate.

Authors:  Narsimha Reddy Penthala; Thirupathi Reddy Yerram Reddy; Sean Parkin; Peter A Crooks
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-10-31

6.  3-(2-Amino-1-methyl-4-oxo-4,5-dihydro-1H-imidazol-5-yl)-3-hydroxy-indolin-2-one monohydrate.

Authors:  Narsimha Reddy Penthala; Thirupathi Reddy Yerram Reddy; Sean Parkin; Peter A Crooks
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-02-21
  6 in total

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