Literature DB >> 22219883

6-(3,5-Dimethyl-benz-yl)-5-ethyl-1-[(2-phen-oxy-eth-oxy)meth-yl]-1,2,3,4-tetra-hydro-pyrimidine-2,4-dione.

Nasser R El-Brollosy, Ali A El-Emam, Omar A Al-Deeb, Seik Weng Ng.   

Abstract

The six-membered ring of the uracil part of the title compound, C(24)H(28)N(2)O(4), is nearly planar (r.m.s. deviation = 0.013 Å); the aromatic ring of the 3,5-dimethyl-benzyl substitutent is aligned at 85.4 (1)° with respect to this mean plane. The phenyl ring of the substituent at the 1-position takes up two orientations in a 1:1 ratio. In the crystal, two mol-ecules are liked by a pair of N-H⋯O hydrogen bonds, generating a centrosymmetric hydrogen-bonded dimer.

Entities:  

Year:  2011        PMID: 22219883      PMCID: PMC3247578          DOI: 10.1107/S1600536811039821

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


Related literature

For the background to our studies on anti­viral HIV chemicals, see: El-Brollosy et al. (2007 ▶, 2008 ▶, 2009 ▶).

Experimental

Crystal data

C24H28N2O4 M = 408.48 Monoclinic, a = 16.1116 (6) Å b = 4.8211 (2) Å c = 27.5125 (10) Å β = 92.574 (3)° V = 2134.90 (14) Å3 Z = 4 Cu Kα radiation μ = 0.70 mm−1 T = 100 K 0.20 × 0.10 × 0.05 mm

Data collection

Agilent SuperNova Dual diffractometer with an Atlas detector Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2010 ▶) T min = 0.873, T max = 0.966 6587 measured reflections 4115 independent reflections 2940 reflections with I > 2σ(I) R int = 0.036

Refinement

R[F 2 > 2σ(F 2)] = 0.048 wR(F 2) = 0.130 S = 1.03 4115 reflections 272 parameters 1 restraint H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.20 e Å−3 Δρmin = −0.33 e Å−3 Data collection: CrysAlis PRO (Agilent, 2010 ▶); cell refinement: CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: X-SEED (Barbour, 2001 ▶); software used to prepare material for publication: publCIF (Westrip, 2010 ▶). Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536811039821/xu5341sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811039821/xu5341Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811039821/xu5341Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C24H28N2O4F(000) = 872
Mr = 408.48Dx = 1.271 Mg m3
Monoclinic, P21/nCu Kα radiation, λ = 1.54184 Å
Hall symbol: -P 2ynCell parameters from 1976 reflections
a = 16.1116 (6) Åθ = 2.7–74.3°
b = 4.8211 (2) ŵ = 0.70 mm1
c = 27.5125 (10) ÅT = 100 K
β = 92.574 (3)°Prism, colorless
V = 2134.90 (14) Å30.20 × 0.10 × 0.05 mm
Z = 4
Agilent SuperNova Dual diffractometer with an Atlas detector4115 independent reflections
Radiation source: SuperNova (Cu) X-ray Source2940 reflections with I > 2σ(I)
MirrorRint = 0.036
Detector resolution: 10.4041 pixels mm-1θmax = 74.4°, θmin = 3.1°
ω scansh = −17→19
Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2010)k = −5→5
Tmin = 0.873, Tmax = 0.966l = −19→34
6587 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)] = 0.048Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.130H atoms treated by a mixture of independent and constrained refinement
S = 1.03w = 1/[σ2(Fo2) + (0.0602P)2] where P = (Fo2 + 2Fc2)/3
4115 reflections(Δ/σ)max = 0.001
272 parametersΔρmax = 0.20 e Å3
1 restraintΔρmin = −0.33 e Å3
xyzUiso*/UeqOcc. (<1)
N10.41200 (10)0.7342 (4)0.49973 (5)0.0225 (4)
H10.4438 (15)0.827 (5)0.4779 (8)0.048 (7)*
N20.38205 (9)0.6427 (3)0.58001 (5)0.0188 (3)
O10.34103 (8)0.5312 (3)0.43648 (4)0.0288 (3)
O20.48232 (8)0.9577 (3)0.56125 (4)0.0268 (3)
O30.44380 (7)0.4797 (3)0.65593 (4)0.0248 (3)
O40.56832 (8)0.5868 (3)0.72760 (5)0.0324 (4)
C10.35269 (11)0.5509 (4)0.48060 (6)0.0207 (4)
C20.30735 (11)0.3942 (4)0.51623 (6)0.0200 (4)
C30.24618 (11)0.1866 (5)0.49479 (7)0.0265 (5)
H3A0.23720.04000.51920.032*
H3B0.27060.09760.46630.032*
C40.16242 (13)0.3118 (6)0.47889 (8)0.0397 (6)
H4A0.12830.17100.46180.060*
H4B0.17110.46880.45710.060*
H4C0.13410.37620.50760.060*
C50.32268 (11)0.4450 (4)0.56414 (6)0.0187 (4)
C60.42908 (11)0.7878 (4)0.54791 (6)0.0204 (4)
C70.27874 (11)0.2963 (4)0.60376 (6)0.0208 (4)
H7A0.32090.23590.62880.025*
H7B0.25250.12710.58960.025*
C80.21249 (11)0.4626 (4)0.62863 (6)0.0201 (4)
C90.16152 (11)0.6537 (4)0.60390 (6)0.0210 (4)
H90.16990.69030.57050.025*
C100.09878 (11)0.7921 (4)0.62691 (7)0.0244 (4)
C110.08768 (12)0.7369 (4)0.67617 (7)0.0267 (5)
H110.04550.83250.69250.032*
C120.13705 (11)0.5453 (4)0.70170 (6)0.0244 (4)
C130.19980 (11)0.4113 (4)0.67758 (6)0.0229 (4)
H130.23460.28250.69490.028*
C140.04326 (12)0.9954 (5)0.59964 (8)0.0326 (5)
H14A0.05500.99090.56500.049*
H14B0.05351.18260.61250.049*
H14C−0.01500.94530.60370.049*
C150.12262 (13)0.4790 (5)0.75430 (7)0.0335 (5)
H15A0.10710.64870.77130.050*
H15B0.17360.40290.76980.050*
H15C0.07780.34240.75600.050*
C160.39924 (11)0.6934 (4)0.63250 (6)0.0212 (4)
H16A0.43110.86820.63650.025*
H16B0.34580.71800.64840.025*
C170.53086 (11)0.4743 (5)0.64639 (7)0.0297 (5)
H17A0.54930.66160.63680.036*
H17B0.54060.34530.61920.036*
C180.57914 (12)0.3821 (5)0.69086 (7)0.0317 (5)
H18A0.55870.19980.70180.038*
H18B0.63870.36380.68400.038*
C190.6138 (7)0.580 (2)0.7701 (2)0.0314 (7)0.50
C200.6750 (6)0.3880 (17)0.7837 (2)0.0428 (16)0.50
H200.68650.23730.76280.051*0.50
C210.7193 (4)0.4169 (15)0.8279 (2)0.0473 (14)0.50
H210.76110.28600.83730.057*0.50
C220.7025 (4)0.6374 (15)0.85853 (18)0.0386 (18)0.50
H220.73280.65720.88880.046*0.50
C230.6413 (6)0.8290 (14)0.8449 (2)0.0400 (17)0.50
H230.62980.97970.86580.048*0.50
C240.5969 (7)0.800 (2)0.8007 (2)0.0365 (14)0.50
H240.55510.93090.79140.044*0.50
C19'0.6218 (7)0.570 (2)0.7688 (2)0.0314 (7)0.50
C20'0.6910 (6)0.3974 (18)0.7719 (2)0.0428 (16)0.50
H20'0.70330.28110.74530.051*0.50
C21'0.7423 (4)0.3952 (17)0.8139 (2)0.0473 (14)0.50
H21'0.78960.27740.81600.057*0.50
C22'0.7244 (4)0.5654 (18)0.85281 (19)0.0386 (18)0.50
H22'0.75940.56390.88150.046*0.50
C23'0.6552 (5)0.7379 (15)0.84974 (19)0.0400 (17)0.50
H23'0.64290.85420.87640.048*0.50
C24'0.6039 (6)0.740 (2)0.8077 (2)0.0365 (14)0.50
H24'0.55660.85790.80560.044*0.50
U11U22U33U12U13U23
N10.0214 (8)0.0306 (10)0.0160 (7)−0.0053 (7)0.0047 (6)0.0009 (7)
N20.0188 (7)0.0235 (9)0.0142 (7)−0.0030 (7)0.0028 (6)−0.0016 (7)
O10.0305 (7)0.0412 (9)0.0151 (6)−0.0050 (7)0.0035 (5)−0.0015 (6)
O20.0257 (7)0.0348 (8)0.0202 (6)−0.0111 (6)0.0040 (5)0.0003 (6)
O30.0187 (6)0.0374 (8)0.0182 (6)0.0007 (6)0.0013 (5)0.0028 (6)
O40.0285 (7)0.0444 (9)0.0235 (7)0.0064 (7)−0.0068 (6)−0.0081 (7)
C10.0197 (9)0.0259 (11)0.0166 (9)0.0023 (8)0.0032 (7)0.0006 (8)
C20.0184 (9)0.0216 (10)0.0200 (9)−0.0009 (7)0.0019 (7)−0.0011 (8)
C30.0287 (11)0.0323 (12)0.0186 (9)−0.0090 (9)0.0009 (8)−0.0010 (9)
C40.0278 (11)0.0587 (17)0.0320 (11)−0.0065 (11)−0.0045 (9)−0.0122 (12)
C50.0167 (8)0.0205 (10)0.0191 (8)0.0016 (7)0.0028 (7)0.0000 (8)
C60.0178 (9)0.0252 (10)0.0183 (9)0.0000 (8)0.0035 (7)0.0013 (8)
C70.0201 (9)0.0234 (10)0.0191 (9)−0.0024 (8)0.0031 (7)−0.0005 (8)
C80.0176 (8)0.0233 (10)0.0196 (9)−0.0055 (7)0.0038 (7)−0.0007 (8)
C90.0194 (9)0.0253 (10)0.0185 (9)−0.0047 (8)0.0021 (7)0.0011 (8)
C100.0206 (9)0.0243 (11)0.0281 (10)−0.0030 (8)−0.0001 (8)−0.0005 (9)
C110.0211 (9)0.0309 (12)0.0286 (10)−0.0014 (8)0.0069 (8)−0.0041 (9)
C120.0213 (9)0.0336 (12)0.0186 (9)−0.0064 (9)0.0038 (7)−0.0019 (9)
C130.0211 (9)0.0286 (11)0.0191 (9)−0.0024 (8)0.0010 (7)0.0042 (8)
C140.0253 (10)0.0321 (12)0.0405 (12)0.0011 (9)0.0010 (9)0.0029 (11)
C150.0292 (10)0.0508 (15)0.0210 (10)−0.0065 (10)0.0078 (8)−0.0011 (10)
C160.0200 (9)0.0281 (11)0.0156 (8)−0.0024 (8)0.0022 (7)−0.0029 (8)
C170.0177 (9)0.0481 (14)0.0235 (10)−0.0014 (9)0.0032 (7)−0.0040 (10)
C180.0258 (10)0.0389 (13)0.0301 (11)0.0067 (9)−0.0033 (8)−0.0086 (10)
C190.0248 (19)0.0451 (15)0.0237 (10)−0.0112 (13)−0.0055 (10)0.0059 (10)
C200.040 (4)0.0552 (19)0.032 (3)−0.001 (2)−0.012 (3)0.009 (2)
C210.039 (4)0.063 (2)0.038 (4)0.002 (3)−0.013 (2)0.009 (3)
C220.030 (3)0.058 (4)0.0265 (18)−0.013 (3)−0.008 (2)0.012 (2)
C230.042 (3)0.059 (5)0.0179 (14)−0.010 (3)−0.0079 (14)0.011 (2)
C240.0328 (18)0.062 (4)0.0146 (19)−0.0076 (19)−0.0034 (13)0.006 (2)
C19'0.0248 (19)0.0451 (15)0.0237 (10)−0.0112 (13)−0.0055 (10)0.0059 (10)
C20'0.040 (4)0.0552 (19)0.032 (3)−0.001 (2)−0.012 (3)0.009 (2)
C21'0.039 (4)0.063 (2)0.038 (4)0.002 (3)−0.013 (2)0.009 (3)
C22'0.030 (3)0.058 (4)0.0265 (18)−0.013 (3)−0.008 (2)0.012 (2)
C23'0.042 (3)0.059 (5)0.0179 (14)−0.010 (3)−0.0079 (14)0.011 (2)
C24'0.0328 (18)0.062 (4)0.0146 (19)−0.0076 (19)−0.0034 (13)0.006 (2)
N1—C61.366 (2)C13—H130.9500
N1—C11.388 (2)C14—H14A0.9800
N1—H10.92 (3)C14—H14B0.9800
N2—C61.380 (2)C14—H14C0.9800
N2—C51.406 (2)C15—H15A0.9800
N2—C161.479 (2)C15—H15B0.9800
O1—C11.224 (2)C15—H15C0.9800
O2—C61.230 (2)C16—H16A0.9900
O3—C161.396 (2)C16—H16B0.9900
O3—C171.439 (2)C17—C181.488 (3)
O4—C191.352 (6)C17—H17A0.9900
O4—C19'1.395 (6)C17—H17B0.9900
O4—C181.429 (2)C18—H18A0.9900
C1—C21.459 (2)C18—H18B0.9900
C2—C51.352 (2)C19—C201.3900
C2—C31.506 (3)C19—C241.3900
C3—C41.525 (3)C20—C211.3900
C3—H3A0.9900C20—H200.9500
C3—H3B0.9900C21—C221.3900
C4—H4A0.9800C21—H210.9500
C4—H4B0.9800C22—C231.3900
C4—H4C0.9800C22—H220.9500
C5—C71.508 (2)C23—C241.3900
C7—C81.522 (2)C23—H230.9500
C7—H7A0.9900C24—H240.9500
C7—H7B0.9900C19'—C20'1.3900
C8—C91.392 (3)C19'—C24'1.3900
C8—C131.393 (2)C20'—C21'1.3900
C9—C101.388 (3)C20'—H20'0.9500
C9—H90.9500C21'—C22'1.3900
C10—C111.401 (3)C21'—H21'0.9500
C10—C141.504 (3)C22'—C23'1.3900
C11—C121.389 (3)C22'—H22'0.9500
C11—H110.9500C23'—C24'1.3900
C12—C131.393 (3)C23'—H23'0.9500
C12—C151.510 (2)C24'—H24'0.9500
C6—N1—C1126.42 (16)H14B—C14—H14C109.5
C6—N1—H1116.5 (15)C12—C15—H15A109.5
C1—N1—H1117.1 (15)C12—C15—H15B109.5
C6—N2—C5122.04 (15)H15A—C15—H15B109.5
C6—N2—C16117.20 (15)C12—C15—H15C109.5
C5—N2—C16120.70 (15)H15A—C15—H15C109.5
C16—O3—C17114.49 (15)H15B—C15—H15C109.5
C19—O4—C18121.0 (4)O3—C16—N2113.50 (15)
C19'—O4—C18116.3 (4)O3—C16—H16A108.9
O1—C1—N1119.88 (17)N2—C16—H16A108.9
O1—C1—C2124.54 (18)O3—C16—H16B108.9
N1—C1—C2115.58 (15)N2—C16—H16B108.9
C5—C2—C1119.08 (17)H16A—C16—H16B107.7
C5—C2—C3126.12 (17)O3—C17—C18109.48 (15)
C1—C2—C3114.80 (16)O3—C17—H17A109.8
C2—C3—C4113.85 (18)C18—C17—H17A109.8
C2—C3—H3A108.8O3—C17—H17B109.8
C4—C3—H3A108.8C18—C17—H17B109.8
C2—C3—H3B108.8H17A—C17—H17B108.2
C4—C3—H3B108.8O4—C18—C17107.43 (17)
H3A—C3—H3B107.7O4—C18—H18A110.2
C3—C4—H4A109.5C17—C18—H18A110.2
C3—C4—H4B109.5O4—C18—H18B110.2
H4A—C4—H4B109.5C17—C18—H18B110.2
C3—C4—H4C109.5H18A—C18—H18B108.5
H4A—C4—H4C109.5O4—C19—C20126.9 (6)
H4B—C4—H4C109.5O4—C19—C24113.0 (6)
C2—C5—N2121.15 (16)C20—C19—C24120.0
C2—C5—C7123.20 (17)C19—C20—C21120.0
N2—C5—C7115.65 (15)C19—C20—H20120.0
O2—C6—N1121.52 (16)C21—C20—H20120.0
O2—C6—N2122.85 (16)C22—C21—C20120.0
N1—C6—N2115.63 (16)C22—C21—H21120.0
C5—C7—C8115.86 (16)C20—C21—H21120.0
C5—C7—H7A108.3C23—C22—C21120.0
C8—C7—H7A108.3C23—C22—H22120.0
C5—C7—H7B108.3C21—C22—H22120.0
C8—C7—H7B108.3C24—C23—C22120.0
H7A—C7—H7B107.4C24—C23—H23120.0
C9—C8—C13118.74 (17)C22—C23—H23120.0
C9—C8—C7122.65 (16)C23—C24—C19120.0
C13—C8—C7118.53 (17)C23—C24—H24120.0
C10—C9—C8121.43 (17)C19—C24—H24120.0
C10—C9—H9119.3C20'—C19'—C24'120.0
C8—C9—H9119.3C20'—C19'—O4123.3 (6)
C9—C10—C11118.53 (18)C24'—C19'—O4116.7 (6)
C9—C10—C14120.98 (17)C19'—C20'—C21'120.0
C11—C10—C14120.49 (18)C19'—C20'—H20'120.0
C12—C11—C10121.36 (18)C21'—C20'—H20'120.0
C12—C11—H11119.3C20'—C21'—C22'120.0
C10—C11—H11119.3C20'—C21'—H21'120.0
C11—C12—C13118.63 (17)C22'—C21'—H21'120.0
C11—C12—C15121.06 (18)C23'—C22'—C21'120.0
C13—C12—C15120.30 (18)C23'—C22'—H22'120.0
C12—C13—C8121.29 (18)C21'—C22'—H22'120.0
C12—C13—H13119.4C22'—C23'—C24'120.0
C8—C13—H13119.4C22'—C23'—H23'120.0
C10—C14—H14A109.5C24'—C23'—H23'120.0
C10—C14—H14B109.5C23'—C24'—C19'120.0
H14A—C14—H14B109.5C23'—C24'—H24'120.0
C10—C14—H14C109.5C19'—C24'—H24'120.0
H14A—C14—H14C109.5
C6—N1—C1—O1176.73 (18)C15—C12—C13—C8177.89 (18)
C6—N1—C1—C2−2.7 (3)C9—C8—C13—C120.6 (3)
O1—C1—C2—C5−176.43 (18)C7—C8—C13—C12−176.36 (17)
N1—C1—C2—C53.0 (3)C17—O3—C16—N275.77 (19)
O1—C1—C2—C33.4 (3)C6—N2—C16—O3−104.31 (19)
N1—C1—C2—C3−177.20 (16)C5—N2—C16—O372.9 (2)
C5—C2—C3—C497.0 (2)C16—O3—C17—C18144.73 (17)
C1—C2—C3—C4−82.8 (2)C19—O4—C18—C17−170.9 (7)
C1—C2—C5—N2−0.8 (3)C19'—O4—C18—C17−167.2 (6)
C3—C2—C5—N2179.36 (17)O3—C17—C18—O4−64.1 (2)
C1—C2—C5—C7179.49 (17)C19'—O4—C19—C20−35 (10)
C3—C2—C5—C7−0.3 (3)C18—O4—C19—C201.0 (12)
C6—N2—C5—C2−2.0 (3)C19'—O4—C19—C24142 (11)
C16—N2—C5—C2−179.04 (17)C18—O4—C19—C24177.9 (3)
C6—N2—C5—C7177.74 (16)O4—C19—C20—C21176.7 (12)
C16—N2—C5—C70.7 (2)C24—C19—C20—C210.0
C1—N1—C6—O2−178.95 (17)C19—C20—C21—C220.0
C1—N1—C6—N20.1 (3)C20—C21—C22—C230.0
C5—N2—C6—O2−178.63 (17)C21—C22—C23—C240.0
C16—N2—C6—O2−1.5 (3)C22—C23—C24—C190.0
C5—N2—C6—N12.3 (3)O4—C19—C24—C23−177.1 (10)
C16—N2—C6—N1179.49 (16)C20—C19—C24—C230.0
C2—C5—C7—C8−104.9 (2)C19—O4—C19'—C20'156 (11)
N2—C5—C7—C875.4 (2)C18—O4—C19'—C20'10.5 (10)
C5—C7—C8—C935.4 (2)C19—O4—C19'—C24'−25 (10)
C5—C7—C8—C13−147.79 (18)C18—O4—C19'—C24'−170.5 (4)
C13—C8—C9—C10−0.2 (3)C24'—C19'—C20'—C21'0.0
C7—C8—C9—C10176.65 (18)O4—C19'—C20'—C21'178.9 (11)
C8—C9—C10—C110.4 (3)C19'—C20'—C21'—C22'0.0
C8—C9—C10—C14−179.14 (17)C20'—C21'—C22'—C23'0.0
C9—C10—C11—C12−1.0 (3)C21'—C22'—C23'—C24'0.0
C14—C10—C11—C12178.52 (18)C22'—C23'—C24'—C19'0.0
C10—C11—C12—C131.4 (3)C20'—C19'—C24'—C23'0.0
C10—C11—C12—C15−177.69 (19)O4—C19'—C24'—C23'−179.0 (10)
C11—C12—C13—C8−1.2 (3)
D—H···AD—HH···AD···AD—H···A
N1—H1···O2i0.92 (3)1.94 (3)2.859 (2)173 (2)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1⋯O2i0.92 (3)1.94 (3)2.859 (2)173 (2)

Symmetry code: (i) .

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