Literature DB >> 22220069

Ethyl 2-(4-bromophenyl)-1-[3-(1H-imidazol-1-yl)prop-yl]-1H-benzimidazole-5-carboxyl-ate monohydrate.

Yeong Keng Yoon, Mohamed Ashraf Ali, Tan Soo Choon, Madhukar Hemamalini, Hoong-Kun Fun.   

Abstract

In the title compound, C(22)H(21)BrN(4)O(2)·H(2)O, the two pyrazole rings are essentially planar [maximum deviations 0.002 (1) and 0.002 (1) Å], and form a dihedral angle of 73.46 (9)°. The dihedral angle between the benzene rings is 29.33 (7)°. In the crystal, mol-ecules are connected via C-H⋯O and O-H⋯N hydrogen bonds, forming layers in the ab plane.

Entities:  

Year:  2011        PMID: 22220069      PMCID: PMC3247451          DOI: 10.1107/S160053681104342X

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


Related literature

For applications of benzimidazole derivatives, see: Garuti et al. (2000 ▶); Rao et al. (2002 ▶); Thakurdesai et al. (2007 ▶); Yoon et al. (2011 ▶). For the stability of the temperature controller used in the data collection, see: Cosier & Glazer (1986 ▶).

Experimental

Crystal data

C22H21BrN4O2·H2O M = 471.35 Monoclinic, a = 9.1854 (1) Å b = 16.7389 (2) Å c = 13.7379 (2) Å β = 98.283 (1)° V = 2090.22 (5) Å3 Z = 4 Mo Kα radiation μ = 2.00 mm−1 T = 100 K 0.47 × 0.42 × 0.41 mm

Data collection

Bruker SMART APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.452, T max = 0.494 28847 measured reflections 7482 independent reflections 5514 reflections with I > 2σ(I) R int = 0.032

Refinement

R[F 2 > 2σ(F 2)] = 0.037 wR(F 2) = 0.085 S = 1.03 7482 reflections 280 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.63 e Å−3 Δρmin = −0.34 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/S160053681104342X/tk5002sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S160053681104342X/tk5002Isup2.hkl Supplementary material file. DOI: 10.1107/S160053681104342X/tk5002Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C22H21BrN4O2·H2OF(000) = 968
Mr = 471.35Dx = 1.498 Mg m3
Monoclinic, P21/nMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ynCell parameters from 9939 reflections
a = 9.1854 (1) Åθ = 2.5–31.3°
b = 16.7389 (2) ŵ = 2.00 mm1
c = 13.7379 (2) ÅT = 100 K
β = 98.283 (1)°Block, yellow
V = 2090.22 (5) Å30.47 × 0.42 × 0.41 mm
Z = 4
Bruker SMART APEXII CCD area-detector diffractometer7482 independent reflections
Radiation source: fine-focus sealed tube5514 reflections with I > 2σ(I)
graphiteRint = 0.032
φ and ω scansθmax = 32.4°, θmin = 1.9°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −13→13
Tmin = 0.452, Tmax = 0.494k = −25→17
28847 measured reflectionsl = −20→19
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.037Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.085H atoms treated by a mixture of independent and constrained refinement
S = 1.03w = 1/[σ2(Fo2) + (0.0386P)2 + 0.518P] where P = (Fo2 + 2Fc2)/3
7482 reflections(Δ/σ)max = 0.001
280 parametersΔρmax = 0.63 e Å3
0 restraintsΔρmin = −0.34 e Å3
Experimental. The crystal was placed in the cold stream of an Oxford Cryosystems Cobra open-flow nitrogen cryostat (Cosier & Glazer, 1986) operating at 100.0 (1) K.
Geometry. All s.u.'s (except the s.u. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell s.u.'s are taken into account individually in the estimation of s.u.'s in distances, angles and torsion angles; correlations between s.u.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell s.u.'s is used for estimating s.u.'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 > 2σ(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
Br10.123446 (18)0.050021 (9)0.931417 (13)0.02720 (6)
O10.40323 (12)0.80153 (6)0.87745 (9)0.0247 (2)
O20.17930 (13)0.76409 (7)0.90802 (9)0.0260 (2)
N10.23105 (14)0.45313 (7)0.89922 (10)0.0199 (3)
N20.46106 (14)0.42561 (7)0.87069 (9)0.0174 (2)
N30.71289 (14)0.23427 (8)0.76584 (10)0.0216 (3)
N40.61875 (16)0.11193 (8)0.75103 (11)0.0265 (3)
C10.18138 (17)0.29413 (9)0.95735 (11)0.0207 (3)
H1A0.14110.33630.99130.025*
C20.13384 (17)0.21676 (9)0.96832 (12)0.0209 (3)
H2A0.06220.20561.00990.025*
C30.19242 (17)0.15558 (9)0.91768 (11)0.0197 (3)
C40.29838 (17)0.17037 (9)0.85769 (12)0.0212 (3)
H4A0.33850.12790.82420.025*
C50.34509 (17)0.24861 (9)0.84737 (11)0.0201 (3)
H5A0.41700.25950.80590.024*
C60.28788 (16)0.31134 (8)0.89703 (11)0.0174 (3)
C70.32652 (16)0.39632 (9)0.88789 (11)0.0181 (3)
C80.44933 (16)0.50829 (8)0.87200 (11)0.0175 (3)
C90.54989 (17)0.56882 (9)0.86054 (12)0.0207 (3)
H9A0.64730.55740.84900.025*
C100.50014 (17)0.64649 (9)0.86687 (11)0.0204 (3)
H10A0.56480.68950.85890.025*
C110.35573 (17)0.66335 (8)0.88480 (11)0.0188 (3)
C120.25683 (17)0.60237 (9)0.89609 (11)0.0201 (3)
H12A0.15950.61370.90780.024*
C130.30541 (16)0.52409 (9)0.88960 (11)0.0186 (3)
C140.30222 (17)0.74678 (9)0.89169 (11)0.0209 (3)
C150.35706 (19)0.88442 (9)0.88439 (14)0.0271 (4)
H15A0.32010.89360.94770.033*
H15B0.27710.89700.83020.033*
C160.4876 (2)0.93640 (10)0.87762 (16)0.0345 (4)
H16A0.46090.99240.88590.052*
H16B0.51960.92930.81310.052*
H16C0.56790.92150.92940.052*
C170.59623 (16)0.38267 (9)0.85909 (11)0.0186 (3)
H17A0.59340.32900.88910.022*
H17B0.68140.41180.89480.022*
C180.61756 (17)0.37351 (9)0.75149 (12)0.0209 (3)
H18A0.52620.35230.71320.025*
H18B0.63760.42650.72420.025*
C190.74492 (18)0.31714 (9)0.74141 (13)0.0241 (3)
H19A0.76690.31930.67300.029*
H19B0.83350.33540.78540.029*
C200.62362 (17)0.18286 (9)0.70936 (12)0.0223 (3)
H20A0.57060.19620.64690.027*
C210.7101 (2)0.11857 (11)0.83933 (14)0.0318 (4)
H21A0.72970.07690.88640.038*
C220.76797 (19)0.19311 (11)0.84941 (13)0.0310 (4)
H22A0.83380.21300.90370.037*
O1W0.41413 (16)0.03202 (9)0.36883 (13)0.0409 (4)
H2W10.406 (4)−0.015 (2)0.334 (2)0.092 (10)*
H1W10.496 (3)0.0391 (14)0.3976 (19)0.052 (8)*
U11U22U33U12U13U23
Br10.02447 (9)0.01647 (7)0.04180 (11)−0.00321 (6)0.00871 (7)0.00484 (6)
O10.0236 (6)0.0141 (5)0.0369 (7)−0.0002 (4)0.0064 (5)0.0000 (4)
O20.0224 (6)0.0207 (5)0.0355 (7)0.0011 (4)0.0059 (5)−0.0032 (5)
N10.0168 (6)0.0168 (6)0.0267 (7)−0.0011 (5)0.0054 (5)0.0010 (5)
N20.0152 (6)0.0147 (5)0.0232 (6)−0.0008 (4)0.0056 (5)0.0004 (5)
N30.0179 (6)0.0207 (6)0.0270 (7)0.0007 (5)0.0065 (5)−0.0022 (5)
N40.0254 (7)0.0227 (7)0.0324 (8)0.0012 (5)0.0077 (6)0.0011 (6)
C10.0190 (7)0.0200 (7)0.0239 (8)−0.0014 (6)0.0056 (6)−0.0009 (6)
C20.0179 (7)0.0215 (7)0.0239 (8)−0.0016 (6)0.0054 (6)0.0029 (6)
C30.0187 (7)0.0157 (6)0.0245 (8)−0.0022 (5)0.0025 (6)0.0041 (6)
C40.0213 (8)0.0178 (7)0.0250 (8)0.0001 (6)0.0051 (6)0.0002 (6)
C50.0190 (7)0.0193 (7)0.0232 (8)−0.0012 (5)0.0070 (6)0.0010 (6)
C60.0158 (7)0.0170 (6)0.0197 (7)−0.0021 (5)0.0032 (5)0.0013 (5)
C70.0178 (7)0.0172 (6)0.0198 (7)−0.0014 (5)0.0039 (5)0.0003 (5)
C80.0180 (7)0.0149 (6)0.0199 (7)−0.0001 (5)0.0039 (5)−0.0004 (5)
C90.0176 (7)0.0197 (7)0.0255 (8)−0.0019 (5)0.0056 (6)0.0000 (6)
C100.0205 (7)0.0174 (6)0.0237 (8)−0.0035 (6)0.0042 (6)0.0011 (6)
C110.0199 (7)0.0164 (6)0.0199 (7)−0.0001 (5)0.0023 (6)−0.0006 (5)
C120.0169 (7)0.0196 (7)0.0238 (8)0.0003 (5)0.0031 (6)0.0003 (6)
C130.0166 (7)0.0172 (6)0.0221 (7)−0.0019 (5)0.0035 (6)0.0008 (5)
C140.0214 (8)0.0186 (7)0.0221 (8)−0.0010 (6)0.0007 (6)−0.0014 (6)
C150.0292 (9)0.0142 (7)0.0384 (10)0.0025 (6)0.0062 (7)−0.0004 (6)
C160.0313 (10)0.0184 (8)0.0557 (12)−0.0001 (6)0.0127 (9)−0.0008 (7)
C170.0162 (7)0.0175 (6)0.0229 (7)0.0004 (5)0.0055 (6)0.0002 (5)
C180.0208 (7)0.0183 (7)0.0250 (8)−0.0012 (6)0.0079 (6)−0.0007 (6)
C190.0208 (8)0.0213 (7)0.0325 (9)−0.0039 (6)0.0113 (6)−0.0039 (6)
C200.0211 (8)0.0215 (7)0.0250 (8)−0.0002 (6)0.0063 (6)−0.0018 (6)
C210.0301 (9)0.0293 (9)0.0351 (10)0.0053 (7)0.0013 (8)0.0065 (7)
C220.0259 (9)0.0338 (9)0.0313 (9)0.0032 (7)−0.0027 (7)0.0001 (7)
O1W0.0218 (7)0.0354 (8)0.0648 (10)0.0047 (6)0.0035 (7)−0.0090 (7)
Br1—C31.8957 (14)C9—H9A0.9500
O1—C141.3384 (19)C10—C111.412 (2)
O1—C151.4579 (18)C10—H10A0.9500
O2—C141.2174 (19)C11—C121.390 (2)
N1—C71.3179 (19)C11—C141.488 (2)
N1—C131.3860 (18)C12—C131.391 (2)
N2—C71.3811 (19)C12—H12A0.9500
N2—C81.3884 (18)C15—C161.495 (2)
N2—C171.4630 (19)C15—H15A0.9900
N3—C201.353 (2)C15—H15B0.9900
N3—C221.372 (2)C16—H16A0.9800
N3—C191.4668 (19)C16—H16B0.9800
N4—C201.322 (2)C16—H16C0.9800
N4—C211.376 (2)C17—C181.527 (2)
C1—C21.382 (2)C17—H17A0.9900
C1—C61.400 (2)C17—H17B0.9900
C1—H1A0.9500C18—C191.525 (2)
C2—C31.389 (2)C18—H18A0.9900
C2—H2A0.9500C18—H18B0.9900
C3—C41.385 (2)C19—H19A0.9900
C4—C51.392 (2)C19—H19B0.9900
C4—H4A0.9500C20—H20A0.9500
C5—C61.396 (2)C21—C221.355 (3)
C5—H5A0.9500C21—H21A0.9500
C6—C71.476 (2)C22—H22A0.9500
C8—C91.395 (2)O1W—H2W10.92 (3)
C8—C131.403 (2)O1W—H1W10.80 (3)
C9—C101.385 (2)
C14—O1—C15115.33 (12)N1—C13—C8110.14 (13)
C7—N1—C13105.17 (13)C12—C13—C8120.50 (14)
C7—N2—C8106.18 (12)O2—C14—O1123.01 (14)
C7—N2—C17129.68 (12)O2—C14—C11123.97 (14)
C8—N2—C17124.04 (12)O1—C14—C11113.02 (13)
C20—N3—C22106.29 (14)O1—C15—C16107.83 (14)
C20—N3—C19126.52 (14)O1—C15—H15A110.1
C22—N3—C19127.19 (14)C16—C15—H15A110.1
C20—N4—C21104.76 (14)O1—C15—H15B110.1
C2—C1—C6121.07 (15)C16—C15—H15B110.1
C2—C1—H1A119.5H15A—C15—H15B108.5
C6—C1—H1A119.5C15—C16—H16A109.5
C1—C2—C3119.01 (15)C15—C16—H16B109.5
C1—C2—H2A120.5H16A—C16—H16B109.5
C3—C2—H2A120.5C15—C16—H16C109.5
C4—C3—C2121.48 (14)H16A—C16—H16C109.5
C4—C3—Br1119.95 (12)H16B—C16—H16C109.5
C2—C3—Br1118.56 (12)N2—C17—C18112.59 (12)
C3—C4—C5118.83 (14)N2—C17—H17A109.1
C3—C4—H4A120.6C18—C17—H17A109.1
C5—C4—H4A120.6N2—C17—H17B109.1
C4—C5—C6120.99 (14)C18—C17—H17B109.1
C4—C5—H5A119.5H17A—C17—H17B107.8
C6—C5—H5A119.5C19—C18—C17110.93 (13)
C5—C6—C1118.62 (13)C19—C18—H18A109.5
C5—C6—C7124.85 (14)C17—C18—H18A109.5
C1—C6—C7116.47 (13)C19—C18—H18B109.5
N1—C7—N2113.02 (13)C17—C18—H18B109.5
N1—C7—C6120.87 (13)H18A—C18—H18B108.0
N2—C7—C6126.07 (13)N3—C19—C18112.50 (13)
N2—C8—C9131.96 (14)N3—C19—H19A109.1
N2—C8—C13105.48 (12)C18—C19—H19A109.1
C9—C8—C13122.55 (13)N3—C19—H19B109.1
C10—C9—C8116.42 (14)C18—C19—H19B109.1
C10—C9—H9A121.8H19A—C19—H19B107.8
C8—C9—H9A121.8N4—C20—N3112.23 (15)
C9—C10—C11121.69 (14)N4—C20—H20A123.9
C9—C10—H10A119.2N3—C20—H20A123.9
C11—C10—H10A119.2C22—C21—N4110.16 (15)
C12—C11—C10121.21 (14)C22—C21—H21A124.9
C12—C11—C14117.06 (14)N4—C21—H21A124.9
C10—C11—C14121.73 (13)C21—C22—N3106.55 (15)
C11—C12—C13117.63 (14)C21—C22—H22A126.7
C11—C12—H12A121.2N3—C22—H22A126.7
C13—C12—H12A121.2H2W1—O1W—H1W1113 (3)
N1—C13—C12129.35 (14)
C6—C1—C2—C3−0.6 (2)C14—C11—C12—C13179.87 (13)
C1—C2—C3—C40.8 (2)C7—N1—C13—C12−179.26 (15)
C1—C2—C3—Br1−178.80 (11)C7—N1—C13—C80.03 (17)
C2—C3—C4—C5−0.9 (2)C11—C12—C13—N1179.06 (15)
Br1—C3—C4—C5178.77 (11)C11—C12—C13—C8−0.2 (2)
C3—C4—C5—C60.6 (2)N2—C8—C13—N10.23 (16)
C4—C5—C6—C1−0.4 (2)C9—C8—C13—N1−179.16 (14)
C4—C5—C6—C7−177.66 (14)N2—C8—C13—C12179.59 (13)
C2—C1—C6—C50.3 (2)C9—C8—C13—C120.2 (2)
C2—C1—C6—C7177.85 (13)C15—O1—C14—O21.0 (2)
C13—N1—C7—N2−0.29 (17)C15—O1—C14—C11−179.41 (13)
C13—N1—C7—C6177.75 (13)C12—C11—C14—O21.2 (2)
C8—N2—C7—N10.43 (17)C10—C11—C14—O2−179.21 (15)
C17—N2—C7—N1176.78 (14)C12—C11—C14—O1−178.39 (13)
C8—N2—C7—C6−177.48 (14)C10—C11—C14—O11.2 (2)
C17—N2—C7—C6−1.1 (2)C14—O1—C15—C16173.90 (14)
C5—C6—C7—N1150.20 (15)C7—N2—C17—C18100.34 (17)
C1—C6—C7—N1−27.1 (2)C8—N2—C17—C18−83.90 (17)
C5—C6—C7—N2−32.0 (2)N2—C17—C18—C19−170.67 (12)
C1—C6—C7—N2150.63 (15)C20—N3—C19—C1875.0 (2)
C7—N2—C8—C9178.93 (16)C22—N3—C19—C18−105.67 (18)
C17—N2—C8—C92.3 (2)C17—C18—C19—N368.15 (17)
C7—N2—C8—C13−0.38 (15)C21—N4—C20—N30.10 (19)
C17—N2—C8—C13−176.99 (13)C22—N3—C20—N4−0.28 (19)
N2—C8—C9—C10−179.58 (15)C19—N3—C20—N4179.12 (14)
C13—C8—C9—C10−0.4 (2)C20—N4—C21—C220.1 (2)
C8—C9—C10—C110.5 (2)N4—C21—C22—N3−0.3 (2)
C9—C10—C11—C12−0.5 (2)C20—N3—C22—C210.35 (19)
C9—C10—C11—C14179.95 (14)C19—N3—C22—C21−179.05 (15)
C10—C11—C12—C130.3 (2)
D—H···AD—HH···AD···AD—H···A
O1W—H2W1···N4i0.92 (3)1.99 (3)2.910 (2)175 (3)
O1W—H1W1···N1ii0.81 (3)2.16 (3)2.891 (2)151 (2)
C17—H17B···O1Wiii0.992.413.236 (2)141.
C19—H19B···O1Wiii0.992.563.327 (2)135.
C20—H20A···O2iv0.952.583.301 (2)133.
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O1W—H2W1⋯N4i0.92 (3)1.99 (3)2.910 (2)175 (3)
O1W—H1W1⋯N1ii0.81 (3)2.16 (3)2.891 (2)151 (2)
C17—H17B⋯O1Wiii0.992.413.236 (2)141
C19—H19B⋯O1Wiii0.992.563.327 (2)135
C20—H20A⋯O2iv0.952.583.301 (2)133

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

  5 in total

1.  A short history of SHELX.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

2.  Synthesis and anti-hIV activity of 1-(2,6-difluorophenyl)-1H,3H-thiazolo[3,4-a]benzimidazole structurally-related 1,2-substituted benzimidazoles.

Authors:  Angela Rao; Alba Chimirri; Erik De Clercq; Anna Maria Monforte; Pietro Monforte; Christophe Pannecouque; Maria Zappalà
Journal:  Farmaco       Date:  2002-10

3.  Synthesis and antiproliferative activity of some benzimidazole-4,7-dione derivatives.

Authors:  L Garuti; M Roberti; M Malagoli; T Rossi; M Castelli
Journal:  Bioorg Med Chem Lett       Date:  2000-10-02       Impact factor: 2.823

4.  Ethyl 1-[3-(1H-imidazol-1-yl)prop-yl]-2-(4-chloro-phen-yl)-1H-benzo[d]imidazole-5-carboxyl-ate dihydrate.

Authors:  Yeong Keng Yoon; Mohamed Ashraf Ali; Ang Chee Wei; Ching Kheng Quah; Hoong-Kun Fun
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-08-27

5.  Structure validation in chemical crystallography.

Authors:  Anthony L Spek
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-01-20
  5 in total
  1 in total

1.  Ethyl 2-[4-(morpholin-4-yl)phen-yl]-1-[3-(2-oxopyrrolidin-1-yl)prop-yl]-1H-1,3-benzimidazole-5-carboxyl-ate monohydrate.

Authors:  Yeong Keng Yoon; Mohamed Ashraf Ali; Tan Soo Choon; Suhana Arshad; Ibrahim Abdul Razak
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-09-22
  1 in total

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