Literature DB >> 21754865

Methyl 1-(7-acetamido-5,8-dimeth-oxy-quinolin-2-yl)-4-methyl-β-carboline-3-carboxyl-ate.

Felix Nissen1, Dieter Schollmeyer, Heiner Detert.   

Abstract

The title compound, C(27)H(24)N(4)O(5), is an inter-mediate in the synthesis of lavendamycin via a ruthenium-catalysed [2 + 2 + 2] cyclo-addition. An intra-molecular hydrogen-bond bridge from the carboline to the quinoline stabilizes a highly planar geometry [maximum deviation = 0.065 (6) Å] for the two rigid units. This hydrogen-bond-stabilized coplanarity has a very close analogy in the structure of the anti-tumor anti-biotic streptonigrin in the solid state and in solution. Inter-molecular hydrogen-bond bridges of amides groups along the a axis and π-π stacking inter-actions [centroid-centroid distance = 3.665 (9) Å] connect mol-ecules arranged in a parallel manner.

Entities:  

Year:  2011        PMID: 21754865      PMCID: PMC3120419          DOI: 10.1107/S1600536811018794

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


Related literature

For metal-catalysed transformations of tethered alkynyl-ynamides to carbolines and other heteroannulated indoles, see: Nissen et al. (2011 ▶); Dassonneville et al. (2010 ▶, 2011 ▶). For the synthesis of the natural product lavendamycin (systematic name 1-(7-amino-5,8-dioxoquinolin-2-yl)-4-methyl-9H-pyrido[3,4-b]indole-3-carb­oxy­lic acid) via [2 + 2 + 2] cyclo­addition, see: Nissen & Detert (2011 ▶). For the isololation of lavendamycin from streptomyces lavendulae, see: Doyle et al. (1981 ▶). For the anti-tumor activity of lavendamycin, see: Fang et al. (2003 ▶). For the preparation of lavandamycin, see: Behforouz et al. (1996 ▶) Godard et al. (1993 ▶). For related structures, see: Chiu & Lipscomb (1975 ▶); Harding et al. (1993 ▶).

Experimental

Crystal data

C27H24N4O5 M = 484.50 Triclinic, a = 4.646 (10) Å b = 13.81 (3) Å c = 18.768 (19) Å α = 102.06 (9)° β = 95.23 (10)° γ = 96.85 (11)° V = 1161 (4) Å3 Z = 2 Cu Kα radiation μ = 0.80 mm−1 T = 193 K 0.58 × 0.06 × 0.03 mm

Data collection

Enraf–Nonius CAD-4 diffractometer 4993 measured reflections 4412 independent reflections 2069 reflections with I > 2σ(I) R int = 0.054 3 standard reflections every 60 min intensity decay: 2%

Refinement

R[F 2 > 2σ(F 2)] = 0.083 wR(F 2) = 0.248 S = 0.99 4412 reflections 330 parameters H-atom parameters constrained Δρmax = 0.26 e Å−3 Δρmin = −0.34 e Å−3 Data collection: CAD-4 Software (Enraf–Nonius, 1989 ▶); cell refinement: CAD-4 Software; data reduction: CORINC (Dräger & Gattow, 1971 ▶); 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/S1600536811018794/bt5551sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536811018794/bt5551Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811018794/bt5551Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C27H24N4O5Z = 2
Mr = 484.50F(000) = 508
Triclinic, P1Dx = 1.386 Mg m3
Hall symbol: -P 1Cu Kα radiation, λ = 1.54178 Å
a = 4.646 (10) ÅCell parameters from 25 reflections
b = 13.81 (3) Åθ = 10–25°
c = 18.768 (19) ŵ = 0.80 mm1
α = 102.06 (9)°T = 193 K
β = 95.23 (10)°10, yellow
γ = 96.85 (11)°0.58 × 0.06 × 0.03 mm
V = 1161 (4) Å3
Enraf–Nonius CAD-4 diffractometerRint = 0.054
Radiation source: rotating anodeθmax = 70.0°, θmin = 2.4°
graphiteh = −5→0
ω/2θ scansk = −16→16
4993 measured reflectionsl = −22→22
4412 independent reflections3 standard reflections every 60 min
2069 reflections with I > 2σ(I) intensity decay: 2%
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.083H-atom parameters constrained
wR(F2) = 0.248w = 1/[σ2(Fo2) + (0.1159P)2] where P = (Fo2 + 2Fc2)/3
S = 0.99(Δ/σ)max < 0.001
4412 reflectionsΔρmax = 0.26 e Å3
330 parametersΔρmin = −0.34 e Å3
0 restraintsExtinction correction: SHELXL97 (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 0.0010 (5)
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
O10.9484 (9)0.6415 (3)0.3958 (2)0.0631 (12)
O21.1937 (9)0.5349 (3)0.43953 (19)0.0530 (11)
O30.5569 (7)−0.0529 (2)0.16500 (18)0.0381 (8)
N40.7247 (8)−0.2335 (3)0.1735 (2)0.0314 (9)
H40.5329−0.24040.16600.038*
O51.1210 (8)−0.3053 (3)0.1464 (2)0.0691 (14)
O61.4309 (8)−0.0606 (3)0.38367 (19)0.0469 (10)
N10.9463 (9)0.3816 (3)0.3424 (2)0.0363 (10)
N20.4724 (9)0.2191 (3)0.1858 (2)0.0367 (10)
H20.49940.15610.18060.044*
N30.8225 (9)0.1206 (3)0.2585 (2)0.0349 (10)
C10.9992 (12)0.5579 (4)0.3929 (3)0.0392 (12)
C21.3460 (13)0.6178 (4)0.4953 (3)0.0506 (15)
H2A1.46800.66260.47250.076*
H2B1.46950.59260.53050.076*
H2C1.20390.65450.52100.076*
C30.8488 (11)0.4675 (3)0.3360 (3)0.0362 (12)
C40.8328 (11)0.2958 (3)0.2955 (3)0.0361 (12)
C50.6143 (11)0.2973 (3)0.2397 (3)0.0341 (11)
C60.2800 (11)0.2556 (4)0.1412 (3)0.0352 (11)
C70.2906 (11)0.3594 (4)0.1682 (3)0.0355 (11)
C80.5118 (11)0.3860 (3)0.2323 (3)0.0344 (11)
C90.6334 (11)0.4754 (3)0.2817 (3)0.0368 (12)
C100.5268 (13)0.5721 (4)0.2747 (3)0.0508 (15)
H10A0.46420.60390.32140.076*
H10B0.36160.55850.23590.076*
H10C0.68500.61690.26230.076*
C110.1095 (11)0.4101 (4)0.1309 (3)0.0416 (13)
H110.11050.48000.14760.050*
C12−0.0723 (12)0.3573 (4)0.0691 (3)0.0490 (14)
H12−0.19930.39140.04390.059*
C13−0.0731 (12)0.2558 (4)0.0431 (3)0.0477 (14)
H13−0.19690.2220−0.00020.057*
C140.0991 (12)0.2038 (4)0.0782 (3)0.0432 (13)
H140.09650.13400.06050.052*
C150.9462 (11)0.2043 (3)0.3056 (3)0.0367 (12)
C160.9155 (11)0.0334 (3)0.2670 (3)0.0320 (11)
C170.7812 (10)−0.0564 (3)0.2176 (3)0.0330 (11)
C180.6517 (15)−0.0421 (5)0.0971 (3)0.0645 (19)
H18A0.79020.01950.10470.097*
H18B0.4831−0.03880.06270.097*
H18C0.7473−0.09960.07690.097*
C190.8703 (10)−0.1450 (3)0.2232 (3)0.0323 (11)
C200.8550 (10)−0.3067 (4)0.1373 (3)0.0374 (12)
C210.6628 (11)−0.3906 (4)0.0857 (3)0.0447 (14)
H21A0.7272−0.39840.03680.067*
H21B0.4610−0.37620.08330.067*
H21C0.6731−0.45250.10290.067*
C221.0881 (11)−0.1513 (4)0.2785 (3)0.0373 (12)
H221.1437−0.21430.28200.045*
C231.2197 (10)−0.0657 (4)0.3273 (3)0.0338 (11)
C241.5056 (13)−0.1523 (4)0.3972 (3)0.0514 (15)
H24A1.3311−0.19300.40640.077*
H24B1.6528−0.13870.44030.077*
H24C1.5846−0.18850.35440.077*
C251.1358 (11)0.0293 (3)0.3224 (3)0.0345 (11)
C261.2625 (12)0.1205 (4)0.3705 (3)0.0413 (13)
H261.41500.12140.40800.050*
C271.1656 (11)0.2061 (4)0.3626 (3)0.0392 (12)
H271.24530.26760.39550.047*
U11U22U33U12U13U23
O10.068 (3)0.032 (2)0.077 (3)0.006 (2)−0.016 (2)−0.004 (2)
O20.073 (3)0.037 (2)0.042 (2)−0.003 (2)−0.006 (2)0.0036 (17)
O30.038 (2)0.0337 (18)0.0398 (19)0.0018 (16)−0.0003 (17)0.0052 (15)
N40.022 (2)0.0242 (19)0.044 (2)0.0010 (16)0.0027 (18)0.0013 (17)
O50.0185 (19)0.067 (3)0.097 (3)0.0068 (18)−0.001 (2)−0.033 (2)
O60.047 (2)0.039 (2)0.050 (2)0.0009 (17)−0.0097 (18)0.0100 (17)
N10.039 (2)0.028 (2)0.040 (2)−0.0042 (18)0.009 (2)0.0057 (18)
N20.036 (2)0.031 (2)0.038 (2)−0.0019 (18)0.002 (2)0.0024 (18)
N30.038 (2)0.027 (2)0.034 (2)−0.0025 (18)0.0078 (19)−0.0016 (17)
C10.042 (3)0.029 (3)0.044 (3)−0.002 (2)0.012 (3)0.003 (2)
C20.069 (4)0.033 (3)0.041 (3)−0.006 (3)0.000 (3)0.000 (2)
C30.047 (3)0.024 (2)0.038 (3)0.001 (2)0.016 (2)0.007 (2)
C40.040 (3)0.032 (3)0.033 (3)−0.004 (2)0.013 (2)0.001 (2)
C50.033 (3)0.027 (2)0.039 (3)−0.002 (2)0.010 (2)0.003 (2)
C60.031 (3)0.037 (3)0.037 (3)0.004 (2)0.008 (2)0.005 (2)
C70.030 (3)0.039 (3)0.035 (3)0.001 (2)0.011 (2)0.002 (2)
C80.034 (3)0.036 (3)0.034 (3)0.001 (2)0.015 (2)0.008 (2)
C90.042 (3)0.028 (2)0.038 (3)0.000 (2)0.012 (2)0.002 (2)
C100.058 (4)0.038 (3)0.050 (3)0.004 (3)−0.007 (3)0.004 (3)
C110.041 (3)0.035 (3)0.052 (3)0.010 (2)0.010 (3)0.011 (3)
C120.041 (3)0.052 (3)0.053 (3)0.004 (3)0.004 (3)0.012 (3)
C130.039 (3)0.050 (3)0.048 (3)−0.002 (3)−0.002 (3)0.004 (3)
C140.045 (3)0.035 (3)0.047 (3)0.001 (2)0.007 (3)0.005 (2)
C150.040 (3)0.031 (3)0.036 (3)−0.002 (2)0.006 (2)0.002 (2)
C160.033 (3)0.028 (2)0.034 (3)0.001 (2)0.005 (2)0.006 (2)
C170.029 (3)0.033 (3)0.034 (3)0.002 (2)0.000 (2)0.005 (2)
C180.075 (5)0.071 (4)0.040 (3)−0.016 (4)−0.004 (3)0.016 (3)
C190.028 (3)0.025 (2)0.039 (3)−0.003 (2)0.001 (2)0.002 (2)
C200.020 (2)0.040 (3)0.046 (3)0.004 (2)−0.003 (2)−0.001 (2)
C210.032 (3)0.039 (3)0.054 (3)0.002 (2)0.002 (3)−0.009 (3)
C220.038 (3)0.032 (3)0.041 (3)0.003 (2)0.005 (2)0.008 (2)
C230.026 (2)0.038 (3)0.037 (3)0.001 (2)0.003 (2)0.011 (2)
C240.047 (3)0.049 (3)0.057 (4)0.003 (3)−0.008 (3)0.020 (3)
C250.032 (3)0.034 (3)0.033 (3)−0.006 (2)0.002 (2)0.003 (2)
C260.040 (3)0.038 (3)0.038 (3)−0.007 (2)−0.004 (2)0.004 (2)
C270.043 (3)0.031 (3)0.037 (3)−0.003 (2)0.002 (2)0.001 (2)
O1—C11.198 (6)C16—C171.420 (7)
O2—C11.313 (6)C17—C191.359 (7)
O2—C21.442 (6)C19—C221.406 (7)
O3—C171.380 (6)C20—C211.485 (7)
O3—C181.417 (7)C22—C231.373 (7)
N4—C201.336 (6)C23—C251.431 (7)
N4—C191.425 (6)C25—C261.414 (7)
O5—C201.229 (6)C26—C271.346 (7)
O6—C231.360 (6)N2—H20.8800
O6—C241.419 (6)N4—H40.8800
N1—C41.337 (6)C2—H2A0.9800
N1—C31.342 (6)C2—H2B0.9800
N2—C51.370 (6)C2—H2C0.9800
N2—C61.380 (6)C10—H10A0.9800
N3—C151.330 (6)C10—H10B0.9800
N3—C161.362 (6)C10—H10C0.9800
C1—C31.512 (7)C11—H110.9500
C3—C91.392 (7)C12—H120.9500
C4—C51.396 (7)C13—H130.9500
C4—C151.467 (7)C14—H140.9500
C5—C81.395 (7)C18—H18A0.9800
C6—C141.392 (7)C18—H18B0.9800
C6—C71.410 (7)C18—H18C0.9800
C7—C111.388 (7)C21—H21A0.9800
C7—C81.462 (7)C21—H21B0.9800
C8—C91.400 (7)C21—H21C0.9800
C9—C101.505 (7)C22—H220.9500
C11—C121.383 (7)C24—H24A0.9800
C12—C131.383 (8)C24—H24B0.9800
C13—C141.352 (7)C24—H24C0.9800
C15—C271.402 (7)C26—H260.9500
C16—C251.406 (7)C27—H270.9500
C1—O2—C2115.5 (4)C16—C25—C26117.4 (5)
C17—O3—C18113.6 (4)C16—C25—C23119.0 (4)
C20—N4—C19125.5 (4)C26—C25—C23123.6 (5)
C23—O6—C24117.3 (4)C27—C26—C25119.5 (5)
C4—N1—C3120.2 (5)C26—C27—C15119.7 (5)
C5—N2—C6108.6 (4)C6—N2—H2126.00
C15—N3—C16117.6 (4)C5—N2—H2126.00
O1—C1—O2123.1 (5)C19—N4—H4117.00
O1—C1—C3124.4 (5)C20—N4—H4117.00
O2—C1—C3112.5 (4)O2—C2—H2A110.00
N1—C3—C9124.4 (4)O2—C2—H2B109.00
N1—C3—C1113.9 (5)O2—C2—H2C109.00
C9—C3—C1121.7 (4)H2A—C2—H2B109.00
N1—C4—C5118.9 (5)H2A—C2—H2C109.00
N1—C4—C15117.8 (5)H2B—C2—H2C109.00
C5—C4—C15123.2 (4)C9—C10—H10A109.00
N2—C5—C8110.2 (4)C9—C10—H10B109.00
N2—C5—C4128.5 (5)C9—C10—H10C110.00
C8—C5—C4121.4 (4)H10A—C10—H10B109.00
N2—C6—C14128.4 (5)H10A—C10—H10C109.00
N2—C6—C7109.4 (4)H10B—C10—H10C109.00
C14—C6—C7122.2 (5)C7—C11—H11120.00
C11—C7—C6118.2 (5)C12—C11—H11121.00
C11—C7—C8136.1 (5)C11—C12—H12119.00
C6—C7—C8105.7 (4)C13—C12—H12119.00
C5—C8—C9119.0 (5)C12—C13—H13119.00
C5—C8—C7106.1 (4)C14—C13—H13119.00
C9—C8—C7134.8 (5)C6—C14—H14121.00
C3—C9—C8116.0 (5)C13—C14—H14121.00
C3—C9—C10124.0 (4)O3—C18—H18A110.00
C8—C9—C10120.0 (5)O3—C18—H18B109.00
C12—C11—C7119.0 (5)O3—C18—H18C109.00
C11—C12—C13121.4 (5)H18A—C18—H18B109.00
C14—C13—C12121.3 (5)H18A—C18—H18C109.00
C13—C14—C6118.0 (5)H18B—C18—H18C109.00
N3—C15—C27123.1 (5)C20—C21—H21A109.00
N3—C15—C4115.5 (5)C20—C21—H21B109.00
C27—C15—C4121.4 (4)C20—C21—H21C110.00
N3—C16—C25122.7 (4)H21A—C21—H21B109.00
N3—C16—C17117.9 (4)H21A—C21—H21C109.00
C25—C16—C17119.4 (4)H21B—C21—H21C109.00
C19—C17—O3120.5 (4)C19—C22—H22120.00
C19—C17—C16120.0 (4)C23—C22—H22120.00
O3—C17—C16119.5 (4)O6—C24—H24A109.00
C17—C19—C22121.7 (4)O6—C24—H24B109.00
C17—C19—N4118.0 (4)O6—C24—H24C109.00
C22—C19—N4120.2 (4)H24A—C24—H24B109.00
O5—C20—N4121.8 (5)H24A—C24—H24C109.00
O5—C20—C21121.4 (5)H24B—C24—H24C110.00
N4—C20—C21116.8 (4)C25—C26—H26120.00
C23—C22—C19119.5 (5)C27—C26—H26120.00
O6—C23—C22125.9 (5)C15—C27—H27120.00
O6—C23—C25113.7 (4)C26—C27—H27120.00
C22—C23—C25120.5 (5)
C2—O2—C1—O1−0.2 (8)N2—C6—C14—C13179.9 (5)
C2—O2—C1—C3179.9 (4)C7—C6—C14—C13−0.7 (8)
C4—N1—C3—C9−1.0 (7)C16—N3—C15—C270.1 (7)
C4—N1—C3—C1−179.9 (4)C16—N3—C15—C4−178.3 (4)
O1—C1—C3—N1178.5 (5)N1—C4—C15—N3178.7 (4)
O2—C1—C3—N1−1.6 (6)C5—C4—C15—N3−1.4 (7)
O1—C1—C3—C9−0.4 (8)N1—C4—C15—C270.3 (7)
O2—C1—C3—C9179.5 (5)C5—C4—C15—C27−179.8 (5)
C3—N1—C4—C50.6 (7)C15—N3—C16—C25−0.6 (7)
C3—N1—C4—C15−179.5 (4)C15—N3—C16—C17179.1 (5)
C6—N2—C5—C81.5 (5)C18—O3—C17—C19−88.9 (6)
C6—N2—C5—C4−178.0 (5)C18—O3—C17—C1692.3 (6)
N1—C4—C5—N2179.1 (5)N3—C16—C17—C19179.0 (4)
C15—C4—C5—N2−0.8 (8)C25—C16—C17—C19−1.4 (7)
N1—C4—C5—C8−0.4 (7)N3—C16—C17—O3−2.3 (7)
C15—C4—C5—C8179.7 (4)C25—C16—C17—O3177.4 (4)
C5—N2—C6—C14177.4 (5)O3—C17—C19—C22−176.8 (4)
C5—N2—C6—C7−2.0 (5)C16—C17—C19—C222.0 (7)
N2—C6—C7—C11−179.4 (4)O3—C17—C19—N4−0.2 (7)
C14—C6—C7—C111.1 (7)C16—C17—C19—N4178.6 (4)
N2—C6—C7—C81.7 (5)C20—N4—C19—C17135.4 (5)
C14—C6—C7—C8−177.8 (5)C20—N4—C19—C22−47.9 (7)
N2—C5—C8—C9−178.9 (4)C19—N4—C20—O52.7 (8)
C4—C5—C8—C90.6 (7)C19—N4—C20—C21−177.5 (4)
N2—C5—C8—C7−0.4 (5)C17—C19—C22—C23−1.4 (7)
C4—C5—C8—C7179.1 (4)N4—C19—C22—C23−178.0 (5)
C11—C7—C8—C5−179.3 (6)C24—O6—C23—C22−5.6 (7)
C6—C7—C8—C5−0.8 (5)C24—O6—C23—C25173.7 (4)
C11—C7—C8—C9−1.1 (10)C19—C22—C23—O6179.5 (5)
C6—C7—C8—C9177.4 (5)C19—C22—C23—C250.2 (7)
N1—C3—C9—C81.2 (7)N3—C16—C25—C26−0.1 (7)
C1—C3—C9—C8179.9 (5)C17—C16—C25—C26−179.8 (5)
N1—C3—C9—C10−179.7 (5)N3—C16—C25—C23179.9 (4)
C1—C3—C9—C10−0.9 (8)C17—C16—C25—C230.2 (7)
C5—C8—C9—C3−1.0 (7)O6—C23—C25—C16−179.0 (4)
C7—C8—C9—C3−179.0 (5)C22—C23—C25—C160.3 (7)
C5—C8—C9—C10179.9 (5)O6—C23—C25—C261.0 (7)
C7—C8—C9—C101.9 (8)C22—C23—C25—C26−179.7 (5)
C6—C7—C11—C12−0.1 (7)C16—C25—C26—C271.4 (7)
C8—C7—C11—C12178.3 (5)C23—C25—C26—C27−178.7 (5)
C7—C11—C12—C13−1.2 (8)C25—C26—C27—C15−1.8 (8)
C11—C12—C13—C141.6 (9)N3—C15—C27—C261.1 (8)
C12—C13—C14—C6−0.6 (8)C4—C15—C27—C26179.5 (5)
D—H···AD—HH···AD···AD—H···A
N2—H2···N30.882.172.693 (7)118
N4—H4···O5i0.881.982.824 (8)160
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N2—H2⋯N30.882.172.693 (7)118
N4—H4⋯O5i0.881.982.824 (8)160

Symmetry code: (i) .

  8 in total

1.  Molecular and crystal structure of streptonigrin.

Authors:  Y Y Chiu; W N Lipscomb
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Journal:  J Org Chem       Date:  1996-09-20       Impact factor: 4.354

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Authors:  M M Harding; G V Long; C L Brown
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7.  Characterization of the cytotoxic activities of novel analogues of the antitumor agent, lavendamycin.

Authors:  Yanan Fang; Corinne M Linardic; D Ashley Richardson; Wen Cai; Mohammad Behforouz; Robert T Abraham
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