Literature DB >> 22259586

Ethyl 2-(4-hy-droxy-3-meth-oxy-phen-yl)-1-[3-(2-oxopyrrolidin-1-yl)prop-yl]-1H-benzimidazole-5-carboxyl-ate monohydrate.

Yeong Keng Yoon, Mohamed Ashraf Ali, Tan Soo Choon, Safra Izuani Jama Asik, Ibrahim Abdul Razak.   

Abstract

In the title compound, C(24)H(27)N(3)O(5)·H(2)O, the essentially planar benzimidazole ring system [maximum deviation = 0.020 (1) Å] forms dihedral angles of 54.10 (11) and 67.79 (6)°, respectively, with the mean plane of pyrrolidin-2-one ring and the benzene ring. The pyrrolidin-2-one ring adopts an envelope conformation with one of the methylene C atoms at the flap. An intra-molecular C-H⋯π inter-action is observed. In the crystal, O-H⋯O and O-H⋯N hydrogen bonds link the two components into a double-tape structure along the a axis. The crystal packing is further stabilized by weak π-π stacking [centroid-centroid distance = 3.6632 (9) Å] and C-H⋯O inter-actions.

Entities:  

Year:  2011        PMID: 22259586      PMCID: PMC3254439          DOI: 10.1107/S1600536811052391

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


Related literature

For the biological activity of benzimidazole derivatives, see: Rao et al. (2002 ▶); Thakurdesai et al. (2007 ▶); Dubey & Sanyal (2010 ▶). For related structures, see: Yoon et al. (2011 ▶). For the ring conformation, see: Cremer & Pople (1975) ▶.

Experimental

Crystal data

C24H27N3O5·H2O M = 455.50 Triclinic, a = 9.7460 (8) Å b = 10.0436 (8) Å c = 12.6072 (10) Å α = 85.737 (1)° β = 89.684 (2)° γ = 70.238 (1)° V = 1157.91 (16) Å3 Z = 2 Mo Kα radiation μ = 0.10 mm−1 T = 296 K 0.43 × 0.32 × 0.16 mm

Data collection

Bruker APEXII DUO CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.960, T max = 0.985 18195 measured reflections 6686 independent reflections 4485 reflections with I > 2σ(I) R int = 0.029

Refinement

R[F 2 > 2σ(F 2)] = 0.055 wR(F 2) = 0.185 S = 1.07 6686 reflections 312 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.30 e Å−3 Δρmin = −0.26 e Å−3 Data collection: APEX2 (Bruker, 2009 ▶); cell refinement: SAINT (Bruker, 2009 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXTL (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXTL; molecular graphics: SHELXTL; software used to prepare material for publication: SHELXTL and PLATON (Spek, 2009 ▶). Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536811052391/is5022sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811052391/is5022Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811052391/is5022Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C24H27N3O5·H2OZ = 2
Mr = 455.50F(000) = 484
Triclinic, P1Dx = 1.306 Mg m3
Hall symbol: -P 1Mo Kα radiation, λ = 0.71073 Å
a = 9.7460 (8) ÅCell parameters from 4470 reflections
b = 10.0436 (8) Åθ = 2.5–29.5°
c = 12.6072 (10) ŵ = 0.10 mm1
α = 85.737 (1)°T = 296 K
β = 89.684 (2)°Block, brown
γ = 70.238 (1)°0.43 × 0.32 × 0.16 mm
V = 1157.91 (16) Å3
Bruker APEXII DUO CCD area-detector diffractometer6686 independent reflections
Radiation source: fine-focus sealed tube4485 reflections with I > 2σ(I)
graphiteRint = 0.029
φ and ω scansθmax = 30.1°, θmin = 1.6°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −13→13
Tmin = 0.960, Tmax = 0.985k = −14→14
18195 measured reflectionsl = −17→17
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.055Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.185H atoms treated by a mixture of independent and constrained refinement
S = 1.07w = 1/[σ2(Fo2) + (0.0974P)2 + 0.1068P] where P = (Fo2 + 2Fc2)/3
6686 reflections(Δ/σ)max < 0.001
312 parametersΔρmax = 0.30 e Å3
0 restraintsΔρmin = −0.26 e Å3
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds 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 > 2sigma(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.
xyzUiso*/Ueq
O1−0.17090 (17)0.13373 (19)0.18216 (12)0.0762 (4)
O2−0.35072 (14)0.11827 (17)0.28604 (13)0.0702 (4)
O30.1298 (3)0.2186 (2)1.00505 (19)0.1183 (8)
O40.64165 (13)0.40228 (14)0.73582 (10)0.0538 (3)
O50.64019 (13)0.14280 (12)0.76404 (10)0.0552 (3)
N10.17611 (13)0.25473 (14)0.43596 (10)0.0416 (3)
N20.09463 (13)0.23337 (13)0.60105 (10)0.0401 (3)
N30.12756 (16)0.41105 (17)0.89776 (11)0.0529 (4)
C10.04959 (15)0.21973 (15)0.43129 (12)0.0379 (3)
C2−0.02368 (16)0.19669 (16)0.34357 (13)0.0412 (3)
H2A0.01000.20350.27490.049*
C3−0.14954 (15)0.16306 (15)0.36302 (13)0.0421 (3)
C4−0.20115 (16)0.15385 (17)0.46613 (14)0.0456 (4)
H4A−0.28630.13250.47590.055*
C5−0.12959 (16)0.17542 (17)0.55325 (13)0.0443 (3)
H5A−0.16360.16860.62180.053*
C6−0.00288 (15)0.20810 (15)0.53349 (12)0.0378 (3)
C70.19826 (15)0.26220 (15)0.53799 (12)0.0386 (3)
C80.31855 (15)0.29914 (16)0.58469 (12)0.0391 (3)
C90.42362 (16)0.19835 (15)0.65042 (12)0.0419 (3)
H9A0.42060.10680.66160.050*
C100.53227 (15)0.23334 (15)0.69912 (12)0.0397 (3)
C110.53539 (16)0.37285 (16)0.68324 (12)0.0399 (3)
C120.43197 (17)0.47134 (16)0.61670 (13)0.0436 (3)
H12A0.43460.56300.60510.052*
C130.32404 (17)0.43507 (16)0.56685 (13)0.0437 (3)
H13A0.25570.50190.52160.052*
C14−0.23434 (18)0.13642 (17)0.27471 (15)0.0492 (4)
C15−0.2499 (4)0.1148 (4)0.0897 (2)0.1125 (11)
H15A−0.24170.01590.08930.135*
H15B−0.35240.17070.09420.135*
C16−0.1953 (5)0.1561 (5)−0.0036 (3)0.1330 (14)
H16A−0.24530.1380−0.06330.199*
H16B−0.09300.1034−0.00680.199*
H16C−0.20950.2556−0.00550.199*
C170.07375 (17)0.25520 (17)0.71444 (12)0.0440 (3)
H17A0.16790.22340.75100.053*
H17B0.01740.19900.74470.053*
C18−0.00473 (18)0.41025 (18)0.73095 (13)0.0489 (4)
H18A−0.10240.43880.70030.059*
H18B0.04620.46690.69360.059*
C19−0.01470 (19)0.4404 (2)0.84774 (15)0.0574 (4)
H19A−0.07250.53930.85370.069*
H19B−0.06440.38280.88530.069*
C200.2172 (3)0.4956 (3)0.86944 (19)0.0786 (7)
H20A0.16550.59510.87830.094*
H20B0.24850.48510.79640.094*
C210.3479 (3)0.4349 (4)0.9482 (2)0.0957 (9)
H21A0.43900.41910.91130.115*
H21B0.34200.49961.00280.115*
C220.3385 (3)0.2990 (3)0.9957 (2)0.0910 (8)
H22A0.35410.29091.07210.109*
H22B0.41120.21940.96590.109*
C230.1884 (3)0.3012 (2)0.96930 (17)0.0675 (5)
C240.6452 (2)−0.0001 (2)0.7783 (2)0.0696 (6)
H24A0.7301−0.05500.82040.104*
H24B0.6497−0.03810.71020.104*
H24C0.5593−0.00410.81410.104*
O1W0.63716 (17)0.67068 (15)0.71300 (12)0.0565 (3)
H2W10.556 (3)0.736 (3)0.7004 (18)0.073 (7)*
H1W10.703 (3)0.695 (2)0.6663 (19)0.076 (7)*
H1O40.630 (3)0.493 (3)0.7238 (18)0.075 (7)*
U11U22U33U12U13U23
O10.0729 (9)0.1176 (13)0.0612 (9)−0.0609 (9)−0.0102 (7)−0.0141 (8)
O20.0485 (7)0.0835 (10)0.0904 (10)−0.0369 (7)−0.0121 (7)−0.0103 (8)
O30.1466 (19)0.0967 (14)0.1279 (17)−0.0717 (14)−0.0518 (14)0.0407 (12)
O40.0477 (6)0.0476 (7)0.0739 (8)−0.0271 (5)−0.0160 (6)−0.0001 (6)
O50.0519 (6)0.0420 (6)0.0730 (8)−0.0197 (5)−0.0242 (6)0.0066 (5)
N10.0363 (6)0.0502 (7)0.0435 (7)−0.0221 (5)−0.0036 (5)−0.0006 (5)
N20.0382 (6)0.0431 (7)0.0430 (7)−0.0192 (5)−0.0022 (5)−0.0026 (5)
N30.0548 (8)0.0617 (9)0.0458 (8)−0.0234 (7)−0.0013 (6)−0.0086 (6)
C10.0316 (6)0.0379 (7)0.0462 (8)−0.0151 (6)−0.0041 (5)0.0001 (6)
C20.0367 (7)0.0432 (8)0.0460 (8)−0.0171 (6)−0.0052 (6)−0.0011 (6)
C30.0338 (7)0.0362 (7)0.0577 (9)−0.0139 (6)−0.0086 (6)−0.0017 (6)
C40.0337 (7)0.0423 (8)0.0641 (10)−0.0177 (6)−0.0005 (7)−0.0005 (7)
C50.0383 (7)0.0458 (8)0.0514 (9)−0.0186 (6)0.0033 (6)−0.0004 (6)
C60.0337 (6)0.0348 (7)0.0457 (8)−0.0131 (5)−0.0038 (5)0.0002 (5)
C70.0346 (7)0.0388 (7)0.0443 (8)−0.0155 (6)−0.0037 (6)−0.0003 (6)
C80.0364 (7)0.0419 (7)0.0423 (8)−0.0180 (6)−0.0025 (6)−0.0020 (6)
C90.0419 (7)0.0351 (7)0.0528 (9)−0.0189 (6)−0.0077 (6)−0.0008 (6)
C100.0365 (7)0.0366 (7)0.0473 (8)−0.0145 (6)−0.0073 (6)0.0006 (6)
C110.0360 (7)0.0406 (7)0.0478 (8)−0.0191 (6)0.0000 (6)−0.0047 (6)
C120.0432 (8)0.0378 (7)0.0545 (9)−0.0208 (6)−0.0018 (6)0.0015 (6)
C130.0417 (7)0.0418 (8)0.0491 (8)−0.0176 (6)−0.0066 (6)0.0039 (6)
C140.0426 (8)0.0444 (8)0.0645 (11)−0.0203 (7)−0.0120 (7)−0.0002 (7)
C150.124 (2)0.192 (3)0.0685 (16)−0.112 (3)−0.0155 (15)−0.0232 (18)
C160.184 (4)0.162 (3)0.088 (2)−0.108 (3)−0.050 (2)0.003 (2)
C170.0454 (8)0.0480 (8)0.0404 (8)−0.0189 (7)−0.0021 (6)−0.0004 (6)
C180.0408 (8)0.0543 (9)0.0485 (9)−0.0118 (7)−0.0045 (6)−0.0056 (7)
C190.0480 (9)0.0665 (11)0.0564 (10)−0.0157 (8)0.0059 (8)−0.0154 (8)
C200.0812 (14)0.1101 (19)0.0640 (12)−0.0598 (14)−0.0060 (11)0.0033 (12)
C210.0717 (15)0.157 (3)0.0758 (15)−0.0603 (18)−0.0095 (12)−0.0113 (16)
C220.0764 (15)0.103 (2)0.0856 (17)−0.0190 (15)−0.0253 (13)−0.0107 (14)
C230.0776 (13)0.0626 (12)0.0628 (12)−0.0239 (11)−0.0135 (10)−0.0052 (9)
C240.0683 (12)0.0404 (9)0.0982 (16)−0.0193 (9)−0.0323 (11)0.0140 (9)
O1W0.0552 (7)0.0477 (7)0.0723 (9)−0.0254 (6)0.0088 (6)−0.0028 (6)
O1—C141.315 (2)C11—C121.382 (2)
O1—C151.460 (2)C12—C131.391 (2)
O2—C141.214 (2)C12—H12A0.9300
O3—C231.216 (3)C13—H13A0.9300
O4—C111.3575 (17)C15—C161.382 (5)
O4—H1O40.88 (3)C15—H15A0.9700
O5—C101.3621 (18)C15—H15B0.9700
O5—C241.418 (2)C16—H16A0.9600
N1—C71.317 (2)C16—H16B0.9600
N1—C11.3944 (17)C16—H16C0.9600
N2—C71.3750 (19)C17—C181.515 (2)
N2—C61.3774 (18)C17—H17A0.9700
N2—C171.465 (2)C17—H17B0.9700
N3—C231.341 (3)C18—C191.521 (2)
N3—C201.437 (3)C18—H18A0.9700
N3—C191.453 (2)C18—H18B0.9700
C1—C21.395 (2)C19—H19A0.9700
C1—C61.395 (2)C19—H19B0.9700
C2—C31.394 (2)C20—C211.542 (3)
C2—H2A0.9300C20—H20A0.9700
C3—C41.399 (2)C20—H20B0.9700
C3—C141.483 (2)C21—C221.481 (4)
C4—C51.373 (2)C21—H21A0.9700
C4—H4A0.9300C21—H21B0.9700
C5—C61.398 (2)C22—C231.494 (3)
C5—H5A0.9300C22—H22A0.9700
C7—C81.4808 (19)C22—H22B0.9700
C8—C131.386 (2)C24—H24A0.9600
C8—C91.394 (2)C24—H24B0.9600
C9—C101.3830 (19)C24—H24C0.9600
C9—H9A0.9300O1W—H2W10.85 (3)
C10—C111.411 (2)O1W—H1W10.95 (3)
C14—O1—C15117.16 (17)C16—C15—H15B109.4
C11—O4—H1O4109.2 (16)O1—C15—H15B109.4
C10—O5—C24117.13 (13)H15A—C15—H15B108.0
C7—N1—C1104.76 (12)C15—C16—H16A109.5
C7—N2—C6106.56 (12)C15—C16—H16B109.5
C7—N2—C17126.45 (12)H16A—C16—H16B109.5
C6—N2—C17125.80 (13)C15—C16—H16C109.5
C23—N3—C20114.78 (18)H16A—C16—H16C109.5
C23—N3—C19123.57 (18)H16B—C16—H16C109.5
C20—N3—C19121.59 (17)N2—C17—C18110.95 (13)
N1—C1—C2129.84 (14)N2—C17—H17A109.4
N1—C1—C6109.94 (12)C18—C17—H17A109.4
C2—C1—C6120.21 (13)N2—C17—H17B109.4
C3—C2—C1117.26 (15)C18—C17—H17B109.4
C3—C2—H2A121.4H17A—C17—H17B108.0
C1—C2—H2A121.4C17—C18—C19112.78 (15)
C2—C3—C4121.49 (14)C17—C18—H18A109.0
C2—C3—C14121.05 (15)C19—C18—H18A109.0
C4—C3—C14117.46 (14)C17—C18—H18B109.0
C5—C4—C3121.84 (14)C19—C18—H18B109.0
C5—C4—H4A119.1H18A—C18—H18B107.8
C3—C4—H4A119.1N3—C19—C18112.58 (14)
C4—C5—C6116.48 (15)N3—C19—H19A109.1
C4—C5—H5A121.8C18—C19—H19A109.1
C6—C5—H5A121.8N3—C19—H19B109.1
N2—C6—C1105.75 (12)C18—C19—H19B109.1
N2—C6—C5131.54 (14)H19A—C19—H19B107.8
C1—C6—C5122.71 (13)N3—C20—C21103.2 (2)
N1—C7—N2112.96 (12)N3—C20—H20A111.1
N1—C7—C8125.86 (13)C21—C20—H20A111.1
N2—C7—C8121.17 (13)N3—C20—H20B111.1
C13—C8—C9119.76 (13)C21—C20—H20B111.1
C13—C8—C7120.35 (13)H20A—C20—H20B109.1
C9—C8—C7119.84 (13)C22—C21—C20105.7 (2)
C10—C9—C8120.56 (13)C22—C21—H21A110.6
C10—C9—H9A119.7C20—C21—H21A110.6
C8—C9—H9A119.7C22—C21—H21B110.6
O5—C10—C9125.15 (13)C20—C21—H21B110.6
O5—C10—C11115.23 (12)H21A—C21—H21B108.7
C9—C10—C11119.62 (13)C21—C22—C23106.0 (2)
O4—C11—C12123.67 (13)C21—C22—H22A110.5
O4—C11—C10117.02 (13)C23—C22—H22A110.5
C12—C11—C10119.31 (13)C21—C22—H22B110.5
C11—C12—C13120.81 (13)C23—C22—H22B110.5
C11—C12—H12A119.6H22A—C22—H22B108.7
C13—C12—H12A119.6O3—C23—N3125.0 (2)
C8—C13—C12119.90 (14)O3—C23—C22126.9 (2)
C8—C13—H13A120.1N3—C23—C22108.1 (2)
C12—C13—H13A120.1O5—C24—H24A109.5
O2—C14—O1122.90 (16)O5—C24—H24B109.5
O2—C14—C3123.72 (18)H24A—C24—H24B109.5
O1—C14—C3113.38 (14)O5—C24—H24C109.5
C16—C15—O1111.0 (2)H24A—C24—H24C109.5
C16—C15—H15A109.4H24B—C24—H24C109.5
O1—C15—H15A109.4H2W1—O1W—H1W1105 (2)
C7—N1—C1—C2−179.26 (15)C8—C9—C10—C110.9 (2)
C7—N1—C1—C60.55 (16)O5—C10—C11—O4−1.7 (2)
N1—C1—C2—C3−179.84 (15)C9—C10—C11—O4177.88 (14)
C6—C1—C2—C30.4 (2)O5—C10—C11—C12178.61 (14)
C1—C2—C3—C40.5 (2)C9—C10—C11—C12−1.8 (2)
C1—C2—C3—C14−179.84 (13)O4—C11—C12—C13−178.67 (15)
C2—C3—C4—C5−0.9 (2)C10—C11—C12—C131.0 (2)
C14—C3—C4—C5179.39 (14)C9—C8—C13—C12−1.7 (2)
C3—C4—C5—C60.4 (2)C7—C8—C13—C12175.77 (14)
C7—N2—C6—C11.43 (15)C11—C12—C13—C80.7 (2)
C17—N2—C6—C1169.57 (13)C15—O1—C14—O23.1 (3)
C7—N2—C6—C5−179.21 (16)C15—O1—C14—C3−177.2 (2)
C17—N2—C6—C5−11.1 (3)C2—C3—C14—O2−173.74 (17)
N1—C1—C6—N2−1.25 (16)C4—C3—C14—O25.9 (2)
C2—C1—C6—N2178.58 (13)C2—C3—C14—O16.5 (2)
N1—C1—C6—C5179.31 (14)C4—C3—C14—O1−173.82 (15)
C2—C1—C6—C5−0.9 (2)C14—O1—C15—C16161.8 (3)
C4—C5—C6—N2−178.83 (15)C7—N2—C17—C1877.86 (19)
C4—C5—C6—C10.4 (2)C6—N2—C17—C18−87.97 (18)
C1—N1—C7—N20.40 (17)N2—C17—C18—C19−173.95 (13)
C1—N1—C7—C8−178.76 (14)C23—N3—C19—C18−108.7 (2)
C6—N2—C7—N1−1.19 (17)C20—N3—C19—C1868.2 (2)
C17—N2—C7—N1−169.23 (14)C17—C18—C19—N363.3 (2)
C6—N2—C7—C8178.01 (13)C23—N3—C20—C21−7.6 (3)
C17—N2—C7—C810.0 (2)C19—N3—C20—C21175.20 (18)
N1—C7—C8—C1367.7 (2)N3—C20—C21—C2213.8 (3)
N2—C7—C8—C13−111.44 (17)C20—C21—C22—C23−15.0 (3)
N1—C7—C8—C9−114.92 (18)C20—N3—C23—O3178.6 (3)
N2—C7—C8—C965.99 (19)C19—N3—C23—O3−4.3 (3)
C13—C8—C9—C100.8 (2)C20—N3—C23—C22−1.7 (3)
C7—C8—C9—C10−176.60 (14)C19—N3—C23—C22175.38 (18)
C24—O5—C10—C93.3 (3)C21—C22—C23—O3−169.5 (3)
C24—O5—C10—C11−177.18 (17)C21—C22—C23—N310.8 (3)
C8—C9—C10—O5−179.58 (15)
Cg4 is the centroid of the C8–C13 benzene ring.
D—H···AD—HH···AD···AD—H···A
O1W—H2W1···O2i0.85 (3)2.06 (3)2.879 (2)164 (2)
O1W—H1W1···N1ii0.95 (3)1.90 (3)2.8416 (19)176 (2)
O4—H1O4···O1W0.88 (3)1.80 (3)2.675 (2)169 (3)
C16—H16A···O5iii0.962.443.380 (3)166.
C20—H20B···Cg40.972.863.750 (3)153
Table 1

Hydrogen-bond geometry (Å, °)

Cg4 is the centroid of the C8–C13 benzene ring.

D—H⋯AD—HH⋯ADAD—H⋯A
O1W—H2W1⋯O2i0.85 (3)2.06 (3)2.879 (2)164 (2)
O1W—H1W1⋯N1ii0.95 (3)1.90 (3)2.8416 (19)176 (2)
O4—H1O4⋯O1W0.88 (3)1.80 (3)2.675 (2)169 (3)
C16—H16A⋯O5iii0.962.443.380 (3)166
C20—H20BCg40.972.863.750 (3)153

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

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