Literature DB >> 21578851

N-{4-[4-(4-Fluoro-phen-yl)-1-(2-methoxy-ethyl)-2-methyl-sulfanyl-1H-imidazol-5-yl]-2-pyrid-yl}-2-methyl-3-phenyl-propionamide.

Katharina Ziegler, Dieter Schollmeyer, Stefan Laufer.   

Abstract

In the crystal structure of the title compound, C(28)H(29)FN(4)O(2)S, the imidazole ring makes dihedral angles of 11.85 (7), 73.33 (7) and 22.83 (8)° with the 4-fluoro-phenyl, pyridine and phenyl rings, respectively. The 4-fluoro-phenyl ring makes dihedral angles of 77.91 (7) and 26.93 (8)° with the pyridine and phenyl rings, respectively. The phenyl and pyridine rings are nearly perpendicular, making a dihedral angle of 86.47 (9)°. The crystal packing shows an inter-molecular N-H⋯O hydrogen-bonding inter-action between the N-H and carbonyl groups of the amide functions.

Entities:  

Year:  2009        PMID: 21578851      PMCID: PMC2972069          DOI: 10.1107/S1600536809048661

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


Related literature

For related compounds and their biological activity, see: Laufer et al. (2004 ▶). For the biological activity of the title compound, see: Ziegler et al. (2009 ▶).

Experimental

Crystal data

C28H29FN4O2S M = 504.61 Monoclinic, a = 10.6254 (5) Å b = 28.542 (1) Å c = 9.8380 (4) Å β = 117.953 (1)° V = 2635.5 (2) Å3 Z = 4 Mo Kα radiation μ = 0.16 mm−1 T = 173 K 0.50 × 0.50 × 0.20 mm

Data collection

Bruker SMART with APEXII CCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2006 ▶) T min = 0.685, T max = 0.746 21744 measured reflections 6183 independent reflections 6019 reflections with I > 2σ(I) R int = 0.020

Refinement

R[F 2 > 2σ(F 2)] = 0.029 wR(F 2) = 0.078 S = 1.03 6183 reflections 328 parameters 2 restraints H-atom parameters constrained Δρmax = 0.27 e Å−3 Δρmin = −0.17 e Å−3 Absolute structure: Flack (1983 ▶), 3058 Friedel pairs Flack parameter: 0.13 (4) Data collection: APEX2 (Bruker, 2006 ▶); cell refinement: SAINT (Bruker, 2006 ▶); data reduction: SAINT; program(s) used to solve structure: SIR97 (Altomare et al., 1999 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: PLATON (Spek, 2009 ▶); software used to prepare material for publication: PLATON. Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536809048661/im2161sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809048661/im2161Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C28H29FN4O2SF(000) = 1064
Mr = 504.61Dx = 1.272 Mg m3
Monoclinic, CcMo Kα radiation, λ = 0.71073 Å
Hall symbol: C -2ycCell parameters from 9849 reflections
a = 10.6254 (5) Åθ = 2.3–27.8°
b = 28.542 (1) ŵ = 0.16 mm1
c = 9.8380 (4) ÅT = 173 K
β = 117.953 (1)°Plate, colourless
V = 2635.5 (2) Å30.50 × 0.50 × 0.20 mm
Z = 4
Bruker SMART CCD diffractometer6183 independent reflections
Radiation source: sealed Tube6019 reflections with I > 2σ(I)
graphiteRint = 0.020
CCD scanθmax = 27.8°, θmin = 1.4°
Absorption correction: multi-scan (SADABS; Bruker, 2006)h = −13→13
Tmin = 0.685, Tmax = 0.746k = −36→36
21744 measured reflectionsl = −12→12
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.029H-atom parameters constrained
wR(F2) = 0.078w = 1/[σ2(Fo2) + (0.0517P)2 + 0.6111P] where P = (Fo2 + 2Fc2)/3
S = 1.03(Δ/σ)max = 0.003
6183 reflectionsΔρmax = 0.27 e Å3
328 parametersΔρmin = −0.17 e Å3
2 restraintsAbsolute structure: Flack (1983), 3058 Friedel pairs
Primary atom site location: structure-invariant direct methodsFlack parameter: 0.13 (4)
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.
xyzUiso*/Ueq
C10.24375 (13)0.39688 (4)0.21997 (14)0.0222 (2)
H10.22600.41400.12980.027*
C20.28100 (12)0.34968 (4)0.23423 (13)0.0205 (2)
C30.30589 (15)0.32580 (5)0.36839 (15)0.0281 (3)
H30.33160.29360.38160.034*
C40.29180 (17)0.35060 (5)0.48168 (16)0.0331 (3)
H40.30790.33430.57260.040*
N50.25706 (13)0.39587 (4)0.47118 (13)0.0295 (2)
C60.23312 (13)0.41848 (4)0.34154 (14)0.0225 (2)
N70.19830 (12)0.46584 (4)0.34381 (12)0.0262 (2)
H70.18800.47580.41660.031*
C80.17895 (15)0.49964 (4)0.23856 (15)0.0268 (3)
O90.18466 (13)0.49193 (3)0.11861 (11)0.0367 (2)
C100.15915 (17)0.54895 (5)0.28535 (17)0.0317 (3)
H100.12830.54650.36670.038*
C110.30411 (19)0.57371 (6)0.35365 (19)0.0403 (3)
H11A0.29440.60560.38460.060*
H11B0.33750.57510.27630.060*
H11C0.37300.55630.44370.060*
C120.04625 (17)0.57601 (5)0.14924 (18)0.0349 (3)
H12A0.05240.60950.17800.042*
H12B0.06820.57370.06210.042*
C13−0.10448 (17)0.55944 (5)0.09573 (18)0.0344 (3)
C14−0.1682 (2)0.52638 (6)−0.0202 (2)0.0451 (4)
H14−0.11430.5122−0.06350.054*
C15−0.3093 (2)0.51393 (7)−0.0734 (3)0.0575 (5)
H15−0.35170.4915−0.15370.069*
C16−0.3892 (2)0.53379 (7)−0.0109 (3)0.0623 (6)
H16−0.48630.5253−0.04840.075*
C17−0.3265 (2)0.56607 (7)0.1068 (3)0.0559 (5)
H17−0.38060.57980.15060.067*
C18−0.1852 (2)0.57843 (6)0.1611 (2)0.0424 (4)
H18−0.14240.60010.24370.051*
C190.29361 (12)0.32572 (4)0.10753 (13)0.0203 (2)
N200.42522 (11)0.31378 (4)0.11967 (11)0.0215 (2)
C210.39870 (12)0.29288 (4)−0.01583 (13)0.0215 (2)
N220.26214 (11)0.29049 (4)−0.11212 (12)0.0224 (2)
C230.19440 (13)0.31074 (4)−0.03559 (13)0.0203 (2)
C240.56487 (13)0.32057 (5)0.25437 (14)0.0254 (2)
H24A0.62810.29440.25980.031*
H24B0.55310.31940.34840.031*
C250.63583 (15)0.36626 (5)0.25252 (17)0.0320 (3)
H25A0.56920.39260.23410.038*
H25B0.72100.37130.35320.038*
O260.67588 (14)0.36466 (4)0.13492 (14)0.0423 (3)
C270.7462 (4)0.40628 (8)0.1299 (4)0.0772 (8)
H27A0.83670.40910.22470.116*
H27B0.68590.43340.12040.116*
H27C0.76450.40520.04120.116*
S280.53568 (3)0.271151 (12)−0.04958 (4)0.03048 (8)
C290.43761 (19)0.22789 (7)−0.1920 (2)0.0564 (6)
H29A0.35790.2429−0.27970.085*
H29B0.40080.2042−0.14750.085*
H29C0.50040.2128−0.22670.085*
C300.03784 (13)0.31078 (4)−0.11083 (14)0.0210 (2)
C31−0.03604 (13)0.29825 (4)−0.26672 (14)0.0244 (2)
H310.01580.2916−0.32120.029*
C32−0.18352 (14)0.29538 (5)−0.34257 (15)0.0287 (3)
H32−0.23300.2862−0.44760.034*
C34−0.25631 (14)0.30601 (5)−0.26286 (16)0.0299 (3)
C35−0.18915 (14)0.31932 (5)−0.11006 (16)0.0299 (3)
H35−0.24260.3268−0.05800.036*
C36−0.04094 (14)0.32145 (5)−0.03438 (15)0.0261 (3)
H360.00730.33030.07100.031*
F37−0.40101 (9)0.30368 (4)−0.33851 (11)0.0470 (2)
U11U22U33U12U13U23
C10.0269 (6)0.0217 (5)0.0189 (5)0.0019 (4)0.0115 (4)0.0007 (4)
C20.0211 (5)0.0213 (5)0.0175 (5)−0.0001 (4)0.0075 (4)−0.0016 (4)
C30.0393 (7)0.0210 (6)0.0253 (6)0.0048 (5)0.0163 (5)0.0033 (5)
C40.0508 (8)0.0283 (7)0.0243 (6)0.0066 (6)0.0210 (6)0.0072 (5)
N50.0423 (6)0.0281 (6)0.0232 (5)0.0056 (5)0.0197 (5)0.0013 (4)
C60.0258 (5)0.0211 (6)0.0224 (5)0.0016 (4)0.0129 (4)−0.0002 (4)
N70.0392 (6)0.0230 (5)0.0226 (5)0.0063 (4)0.0196 (5)−0.0012 (4)
C80.0366 (7)0.0211 (6)0.0263 (6)0.0057 (5)0.0177 (5)0.0006 (5)
O90.0664 (7)0.0250 (5)0.0277 (5)0.0096 (4)0.0296 (5)0.0035 (4)
C100.0481 (8)0.0214 (6)0.0323 (7)0.0063 (5)0.0244 (6)−0.0012 (5)
C110.0530 (9)0.0291 (7)0.0381 (8)0.0007 (6)0.0207 (7)−0.0063 (6)
C120.0496 (8)0.0253 (6)0.0385 (7)0.0095 (6)0.0278 (7)0.0060 (6)
C130.0475 (8)0.0233 (6)0.0365 (7)0.0095 (6)0.0230 (6)0.0070 (5)
C140.0605 (10)0.0306 (7)0.0449 (9)0.0085 (7)0.0254 (8)0.0024 (6)
C150.0654 (12)0.0364 (9)0.0530 (10)−0.0024 (8)0.0130 (9)0.0001 (8)
C160.0491 (11)0.0429 (10)0.0877 (16)0.0014 (8)0.0262 (11)0.0206 (10)
C170.0613 (11)0.0424 (10)0.0804 (14)0.0098 (8)0.0469 (11)0.0124 (9)
C180.0545 (10)0.0321 (8)0.0483 (9)0.0076 (7)0.0304 (8)0.0035 (6)
C190.0226 (5)0.0178 (5)0.0206 (5)0.0018 (4)0.0101 (4)0.0013 (4)
N200.0221 (5)0.0215 (5)0.0203 (5)0.0007 (4)0.0093 (4)−0.0010 (4)
C210.0233 (6)0.0210 (5)0.0219 (5)−0.0022 (4)0.0121 (5)−0.0024 (4)
N220.0244 (5)0.0223 (5)0.0217 (5)0.0000 (4)0.0118 (4)−0.0013 (4)
C230.0256 (6)0.0163 (5)0.0194 (5)0.0005 (4)0.0109 (5)0.0002 (4)
C240.0222 (5)0.0295 (6)0.0202 (5)0.0001 (4)0.0062 (4)−0.0018 (4)
C250.0317 (7)0.0298 (7)0.0331 (7)−0.0058 (5)0.0140 (6)−0.0099 (5)
O260.0589 (7)0.0308 (5)0.0498 (6)−0.0129 (5)0.0359 (6)−0.0098 (5)
C270.129 (2)0.0429 (10)0.1070 (19)−0.0351 (13)0.0947 (19)−0.0215 (12)
S280.02474 (14)0.04109 (18)0.03028 (15)−0.00436 (13)0.01678 (12)−0.00972 (14)
C290.0352 (8)0.0700 (12)0.0673 (12)−0.0093 (8)0.0267 (8)−0.0471 (10)
C300.0235 (5)0.0166 (5)0.0212 (5)0.0001 (4)0.0090 (4)0.0017 (4)
C310.0261 (6)0.0222 (6)0.0231 (6)0.0036 (4)0.0100 (5)−0.0009 (4)
C320.0273 (6)0.0277 (6)0.0230 (6)0.0003 (5)0.0051 (5)−0.0017 (5)
C340.0220 (6)0.0307 (6)0.0306 (7)−0.0028 (5)0.0069 (5)0.0023 (5)
C350.0270 (6)0.0364 (7)0.0299 (7)−0.0043 (5)0.0165 (5)−0.0004 (5)
C360.0265 (6)0.0304 (7)0.0208 (5)−0.0042 (5)0.0106 (5)−0.0006 (4)
F370.0225 (4)0.0728 (7)0.0388 (5)−0.0065 (4)0.0086 (4)−0.0028 (5)
C1—C21.3926 (16)C18—H180.9500
C1—C61.3963 (17)C19—C231.3730 (16)
C1—H10.9500C19—N201.3891 (15)
C2—C31.3962 (17)N20—C211.3638 (15)
C2—C191.4818 (16)N20—C241.4670 (15)
C3—C41.3865 (19)C21—N221.3111 (16)
C3—H30.9500C21—S281.7511 (12)
C4—N51.3344 (18)N22—C231.3882 (15)
C4—H40.9500C23—C301.4700 (16)
N5—C61.3429 (16)C24—C251.5106 (19)
C6—N71.4047 (16)C24—H24A0.9900
N7—C81.3584 (17)C24—H24B0.9900
N7—H70.8242C25—O261.4083 (18)
C8—O91.2295 (16)C25—H25A0.9900
C8—C101.5257 (17)C25—H25B0.9900
C10—C121.524 (2)O26—C271.416 (2)
C10—C111.534 (2)C27—H27A0.9800
C10—H101.0000C27—H27B0.9800
C11—H11A0.9800C27—H27C0.9800
C11—H11B0.9800S28—C291.7902 (16)
C11—H11C0.9800C29—H29A0.9800
C12—C131.508 (2)C29—H29B0.9800
C12—H12A0.9900C29—H29C0.9800
C12—H12B0.9900C30—C361.3962 (18)
C13—C141.388 (2)C30—C311.4026 (16)
C13—C181.400 (2)C31—C321.3867 (18)
C14—C151.383 (3)C31—H310.9500
C14—H140.9500C32—C341.369 (2)
C15—C161.382 (3)C32—H320.9500
C15—H150.9500C34—F371.3599 (15)
C16—C171.382 (3)C34—C351.381 (2)
C16—H160.9500C35—C361.3924 (18)
C17—C181.383 (3)C35—H350.9500
C17—H170.9500C36—H360.9500
C2—C1—C6118.29 (11)C23—C19—N20105.65 (10)
C2—C1—H1120.9C23—C19—C2132.66 (11)
C6—C1—H1120.9N20—C19—C2121.69 (10)
C1—C2—C3119.11 (11)C21—N20—C19106.55 (10)
C1—C2—C19119.69 (10)C21—N20—C24126.79 (10)
C3—C2—C19121.20 (11)C19—N20—C24126.61 (10)
C4—C3—C2117.82 (11)N22—C21—N20112.37 (10)
C4—C3—H3121.1N22—C21—S28125.54 (9)
C2—C3—H3121.1N20—C21—S28122.07 (9)
N5—C4—C3124.21 (12)C21—N22—C23105.42 (10)
N5—C4—H4117.9C19—C23—N22109.99 (10)
C3—C4—H4117.9C19—C23—C30131.29 (11)
C4—N5—C6117.46 (11)N22—C23—C30118.63 (10)
N5—C6—C1123.09 (11)N20—C24—C25113.73 (11)
N5—C6—N7112.43 (11)N20—C24—H24A108.8
C1—C6—N7124.48 (11)C25—C24—H24A108.8
C8—N7—C6128.19 (11)N20—C24—H24B108.8
C8—N7—H7112.5C25—C24—H24B108.8
C6—N7—H7119.3H24A—C24—H24B107.7
O9—C8—N7123.12 (11)O26—C25—C24109.06 (11)
O9—C8—C10122.05 (12)O26—C25—H25A109.9
N7—C8—C10114.71 (11)C24—C25—H25A109.9
C12—C10—C8111.44 (12)O26—C25—H25B109.9
C12—C10—C11111.51 (12)C24—C25—H25B109.9
C8—C10—C11107.76 (12)H25A—C25—H25B108.3
C12—C10—H10108.7C25—O26—C27111.64 (14)
C8—C10—H10108.7O26—C27—H27A109.5
C11—C10—H10108.7O26—C27—H27B109.5
C10—C11—H11A109.5H27A—C27—H27B109.5
C10—C11—H11B109.5O26—C27—H27C109.5
H11A—C11—H11B109.5H27A—C27—H27C109.5
C10—C11—H11C109.5H27B—C27—H27C109.5
H11A—C11—H11C109.5C21—S28—C2999.33 (7)
H11B—C11—H11C109.5S28—C29—H29A109.5
C13—C12—C10114.68 (12)S28—C29—H29B109.5
C13—C12—H12A108.6H29A—C29—H29B109.5
C10—C12—H12A108.6S28—C29—H29C109.5
C13—C12—H12B108.6H29A—C29—H29C109.5
C10—C12—H12B108.6H29B—C29—H29C109.5
H12A—C12—H12B107.6C36—C30—C31118.36 (11)
C14—C13—C18118.23 (17)C36—C30—C23123.48 (11)
C14—C13—C12121.94 (14)C31—C30—C23118.14 (11)
C18—C13—C12119.81 (14)C32—C31—C30121.03 (12)
C15—C14—C13120.69 (18)C32—C31—H31119.5
C15—C14—H14119.7C30—C31—H31119.5
C13—C14—H14119.7C34—C32—C31118.56 (12)
C16—C15—C14120.62 (19)C34—C32—H32120.7
C16—C15—H15119.7C31—C32—H32120.7
C14—C15—H15119.7F37—C34—C32118.24 (12)
C17—C16—C15119.40 (19)F37—C34—C35118.93 (13)
C17—C16—H16120.3C32—C34—C35122.82 (12)
C15—C16—H16120.3C34—C35—C36118.15 (12)
C16—C17—C18120.22 (19)C34—C35—H35120.9
C16—C17—H17119.9C36—C35—H35120.9
C18—C17—H17119.9C35—C36—C30121.06 (12)
C17—C18—C13120.78 (17)C35—C36—H36119.5
C17—C18—H18119.6C30—C36—H36119.5
C13—C18—H18119.6
C6—C1—C2—C30.14 (18)C2—C19—N20—C21−179.52 (10)
C6—C1—C2—C19−179.83 (11)C23—C19—N20—C24−177.12 (11)
C1—C2—C3—C40.12 (19)C2—C19—N20—C242.80 (18)
C19—C2—C3—C4−179.91 (12)C19—N20—C21—N22−0.15 (14)
C2—C3—C4—N5−0.5 (2)C24—N20—C21—N22177.53 (11)
C3—C4—N5—C60.6 (2)C19—N20—C21—S28−178.85 (9)
C4—N5—C6—C1−0.4 (2)C24—N20—C21—S28−1.17 (18)
C4—N5—C6—N7−179.66 (13)N20—C21—N22—C23−0.33 (14)
C2—C1—C6—N5−0.02 (19)S28—C21—N22—C23178.31 (9)
C2—C1—C6—N7179.20 (11)N20—C19—C23—N22−0.79 (13)
N5—C6—N7—C8174.22 (13)C2—C19—C23—N22179.31 (12)
C1—C6—N7—C8−5.1 (2)N20—C19—C23—C30175.68 (12)
C6—N7—C8—O93.0 (2)C2—C19—C23—C30−4.2 (2)
C6—N7—C8—C10−173.10 (13)C21—N22—C23—C190.70 (13)
O9—C8—C10—C1243.35 (19)C21—N22—C23—C30−176.27 (10)
N7—C8—C10—C12−140.48 (13)C21—N20—C24—C2590.03 (15)
O9—C8—C10—C11−79.29 (17)C19—N20—C24—C25−92.74 (15)
N7—C8—C10—C1196.87 (14)N20—C24—C25—O26−68.96 (15)
C8—C10—C12—C1371.17 (16)C24—C25—O26—C27−178.65 (19)
C11—C10—C12—C13−168.37 (12)N22—C21—S28—C29−23.44 (14)
C10—C12—C13—C14−92.71 (17)N20—C21—S28—C29155.08 (13)
C10—C12—C13—C1888.86 (17)C19—C23—C30—C36−9.4 (2)
C18—C13—C14—C152.4 (2)N22—C23—C30—C36166.83 (11)
C12—C13—C14—C15−176.06 (16)C19—C23—C30—C31172.30 (12)
C13—C14—C15—C16−0.8 (3)N22—C23—C30—C31−11.49 (16)
C14—C15—C16—C17−0.6 (3)C36—C30—C31—C32−1.56 (19)
C15—C16—C17—C180.2 (3)C23—C30—C31—C32176.85 (11)
C16—C17—C18—C131.5 (3)C30—C31—C32—C341.4 (2)
C14—C13—C18—C17−2.8 (2)C31—C32—C34—F37179.18 (13)
C12—C13—C18—C17175.69 (15)C31—C32—C34—C35−0.2 (2)
C1—C2—C19—C23−73.36 (17)F37—C34—C35—C36179.91 (13)
C3—C2—C19—C23106.68 (16)C32—C34—C35—C36−0.7 (2)
C1—C2—C19—N20106.75 (13)C34—C35—C36—C300.5 (2)
C3—C2—C19—N20−73.21 (16)C31—C30—C36—C350.62 (19)
C23—C19—N20—C210.57 (12)C23—C30—C36—C35−177.70 (12)
D—H···AD—HH···AD···AD—H···A
N7—H7···O9i0.822.213.025 (1)173
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
N7—H7⋯O9i 0.822.213.025 (1)173

Symmetry code: (i) .

  3 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.  Tetrasubstituted imidazole inhibitors of cytokine release: probing substituents in the N-1 position.

Authors:  Stefan A Laufer; Werner Zimmermann; Kathrin J Ruff
Journal:  J Med Chem       Date:  2004-12-02       Impact factor: 7.446

3.  Structure validation in chemical crystallography.

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

北京卡尤迪生物科技股份有限公司 © 2022-2023.