Literature DB >> 22719700

3-O-Methyl-1-isomangostin.

Nawong Boonnak, Suchada Chantrapromma, Hoong-Kun Fun.   

Abstract

IN THE TITLE XANTHONE DERIVATIVE [SYSTEMATIC NAME: 9-hy-droxy-5,10-dimeth-oxy-2,2-dimethyl-11-(3-methyl-but-2-en-1-yl)-2,3,4,12-tetra-hydro-1,7-dioxatetra-phen-12-one], C(25)H(28)O(6), the xanthone ring system is roughly planar, with an r.m.s. deviation of 0.1038 (1) Å. The chromane ring is in a half-chair conformation and the 3-methyl-but-2-enyl substituent is axially attached with an (+)-anti-clinal conformation. Two weak intra-molecular C-H⋯O inter-actions generate two S(6) ring motifs. In the crystal, mol-ecules are linked into ribbons along the c axis by O-H⋯O and weak C-H⋯O hydrogen bonds. A π-π inter-action, with a centroid-centroid distance of 3.5413 (8) Å, is also observed.

Entities:  

Year:  2012        PMID: 22719700      PMCID: PMC3379502          DOI: 10.1107/S1600536812023409

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


Related literature

For background to xanthones and their biological activity, see: Bennett & Lee (1989 ▶); Boonnak et al. (2010 ▶); Gopalakrishnan et al. (1997 ▶); Ho et al. (2002 ▶); Mahabusarakam et al. (1987 ▶); Obolskiy et al. (2009 ▶); Phongpaichit et al. (1994 ▶); Shankaranarayan et al. (1979 ▶); Yoshikawa et al. (1994 ▶). For related structures, see: Chantrapromma et al. (2005 ▶). For details of hydrogen-bond motifs, see: Bernstein et al. (1995 ▶). For ring conformations, see: Cremer & Pople (1975 ▶). For bond-length data, see: Allen et al. (1987 ▶). For the stability of the temperature controller used in the data collection, see Cosier & Glazer (1986 ▶).

Experimental

Crystal data

C25H28O6 M = 424.47 Monoclinic, a = 10.8635 (9) Å b = 16.6117 (13) Å c = 13.4146 (8) Å β = 118.843 (5)° V = 2120.5 (3) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 100 K 0.33 × 0.23 × 0.17 mm

Data collection

Bruker APEX DUO CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2009 ▶) T min = 0.970, T max = 0.984 21681 measured reflections 5630 independent reflections 4344 reflections with I > 2σ(I) R int = 0.031

Refinement

R[F 2 > 2σ(F 2)] = 0.046 wR(F 2) = 0.134 S = 1.05 5630 reflections 286 parameters H-atom parameters constrained Δρmax = 0.42 e Å−3 Δρmin = −0.22 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/S1600536812023409/rz2760sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812023409/rz2760Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536812023409/rz2760Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C25H28O6F(000) = 904
Mr = 424.47Dx = 1.330 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 5630 reflections
a = 10.8635 (9) Åθ = 2.1–29.0°
b = 16.6117 (13) ŵ = 0.09 mm1
c = 13.4146 (8) ÅT = 100 K
β = 118.843 (5)°Block, yellow
V = 2120.5 (3) Å30.33 × 0.23 × 0.17 mm
Z = 4
Bruker APEX DUO CCD area-detector diffractometer5630 independent reflections
Radiation source: sealed tube4344 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.031
φ and ω scansθmax = 29.0°, θmin = 2.1°
Absorption correction: multi-scan (SADABS; Bruker, 2009)h = −14→14
Tmin = 0.970, Tmax = 0.984k = −22→16
21681 measured reflectionsl = −18→18
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.046Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.134H-atom parameters constrained
S = 1.05w = 1/[σ2(Fo2) + (0.0637P)2 + 0.7665P] where P = (Fo2 + 2Fc2)/3
5630 reflections(Δ/σ)max = 0.001
286 parametersΔρmax = 0.42 e Å3
0 restraintsΔρmin = −0.22 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 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
O10.47611 (10)0.79136 (6)1.00159 (8)0.0224 (2)
O20.72643 (12)0.86788 (7)0.87266 (9)0.0303 (2)
O30.56536 (10)0.99916 (6)0.79679 (8)0.0246 (2)
O40.17200 (10)1.01564 (6)0.85893 (9)0.0254 (2)
O50.79450 (11)0.58712 (6)1.21935 (9)0.0269 (2)
H1O50.75230.59131.26230.040*
O60.99052 (11)0.64398 (6)1.16684 (9)0.0271 (2)
C10.48227 (14)0.96827 (8)0.83776 (11)0.0208 (3)
C20.36202 (14)1.00707 (8)0.82405 (11)0.0215 (3)
C30.28457 (14)0.97195 (8)0.87218 (11)0.0214 (3)
C40.32266 (14)0.89900 (8)0.92935 (11)0.0218 (3)
H4A0.26710.87470.95820.026*
C50.44460 (14)0.86281 (8)0.94284 (11)0.0199 (3)
C60.60528 (14)0.75690 (8)1.03800 (11)0.0202 (3)
C70.63295 (15)0.69158 (8)1.11039 (12)0.0219 (3)
H7A0.56580.67421.13190.026*
C80.76041 (15)0.65239 (8)1.15050 (11)0.0224 (3)
C90.86042 (14)0.68063 (8)1.11974 (12)0.0228 (3)
C100.83498 (15)0.74805 (8)1.05092 (12)0.0227 (3)
C110.70074 (14)0.78588 (8)1.00440 (11)0.0209 (3)
C120.65700 (15)0.85193 (8)0.92089 (11)0.0215 (3)
C130.52913 (14)0.89451 (8)0.90017 (11)0.0199 (3)
C140.50491 (16)1.06108 (9)0.70826 (12)0.0262 (3)
C150.42974 (16)1.12362 (9)0.74250 (13)0.0275 (3)
H15A0.49881.15040.81350.033*
H15B0.38811.16510.68230.033*
C160.31443 (15)1.08605 (8)0.76085 (12)0.0249 (3)
H16A0.28841.12370.80480.030*
H16B0.23011.07680.68620.030*
C170.63073 (18)1.09726 (10)0.70456 (15)0.0350 (4)
H17A0.69481.12070.77890.052*
H17B0.59891.13930.64610.052*
H17C0.67981.05510.68630.052*
C180.40695 (18)1.01862 (10)0.59661 (13)0.0319 (3)
H18A0.45950.97740.58060.048*
H18B0.36891.05800.53460.048*
H18C0.32960.99330.60300.048*
C190.09221 (16)0.98457 (9)0.91024 (14)0.0287 (3)
H19A0.01361.02090.89390.043*
H19B0.15290.98050.99280.043*
H19C0.05570.93110.87900.043*
C200.98891 (17)0.57034 (9)1.11071 (13)0.0294 (3)
H20A1.08440.54851.14430.044*
H20B0.95380.58071.02950.044*
H20C0.92740.53141.11990.044*
C210.95680 (15)0.78156 (9)1.03784 (13)0.0269 (3)
H21A0.94280.84021.02360.032*
H21B1.04490.77381.11040.032*
C220.97349 (17)0.74360 (9)0.94364 (14)0.0291 (3)
H22A0.89420.74450.86970.035*
C231.09098 (19)0.70835 (9)0.95472 (17)0.0364 (4)
C241.22440 (18)0.69855 (11)1.06549 (19)0.0455 (5)
H24A1.20820.71481.12840.068*
H24B1.29810.73241.06510.068*
H24C1.25400.64211.07520.068*
C251.0935 (2)0.67564 (13)0.8511 (2)0.0533 (5)
H25A1.00080.68270.78430.080*
H25B1.11720.61830.86200.080*
H25C1.16410.70470.83950.080*
U11U22U33U12U13U23
O10.0212 (5)0.0229 (5)0.0282 (5)0.0027 (4)0.0158 (4)0.0046 (4)
O20.0344 (6)0.0341 (6)0.0357 (6)0.0082 (4)0.0275 (5)0.0088 (4)
O30.0271 (5)0.0253 (5)0.0274 (5)0.0018 (4)0.0179 (4)0.0058 (4)
O40.0235 (5)0.0275 (5)0.0287 (5)0.0051 (4)0.0154 (4)0.0024 (4)
O50.0339 (6)0.0277 (5)0.0280 (5)0.0090 (4)0.0219 (5)0.0073 (4)
O60.0252 (5)0.0314 (5)0.0277 (5)0.0079 (4)0.0152 (4)0.0027 (4)
C10.0233 (7)0.0225 (6)0.0189 (6)−0.0020 (5)0.0120 (5)−0.0008 (5)
C20.0233 (7)0.0220 (6)0.0194 (6)0.0001 (5)0.0105 (5)−0.0007 (5)
C30.0198 (6)0.0252 (6)0.0194 (6)0.0011 (5)0.0098 (5)−0.0024 (5)
C40.0209 (7)0.0257 (6)0.0230 (6)−0.0002 (5)0.0138 (6)0.0011 (5)
C50.0220 (6)0.0203 (6)0.0192 (6)0.0000 (5)0.0114 (5)0.0005 (5)
C60.0197 (6)0.0230 (6)0.0208 (6)0.0010 (5)0.0121 (5)−0.0016 (5)
C70.0248 (7)0.0236 (6)0.0235 (6)0.0012 (5)0.0165 (6)0.0003 (5)
C80.0273 (7)0.0234 (6)0.0198 (6)0.0034 (5)0.0139 (6)0.0003 (5)
C90.0220 (7)0.0270 (7)0.0224 (6)0.0040 (5)0.0132 (6)−0.0007 (5)
C100.0243 (7)0.0256 (6)0.0232 (6)0.0008 (5)0.0156 (6)−0.0016 (5)
C110.0225 (7)0.0230 (6)0.0218 (6)0.0016 (5)0.0143 (5)−0.0002 (5)
C120.0241 (7)0.0230 (6)0.0217 (6)0.0002 (5)0.0144 (6)−0.0010 (5)
C130.0215 (6)0.0220 (6)0.0189 (6)−0.0003 (5)0.0119 (5)−0.0006 (5)
C140.0329 (8)0.0239 (6)0.0272 (7)0.0023 (6)0.0189 (6)0.0062 (5)
C150.0338 (8)0.0227 (6)0.0309 (7)0.0005 (6)0.0193 (7)0.0027 (5)
C160.0275 (7)0.0225 (6)0.0263 (7)0.0023 (5)0.0143 (6)0.0021 (5)
C170.0399 (9)0.0293 (8)0.0465 (9)0.0022 (6)0.0294 (8)0.0102 (7)
C180.0431 (9)0.0314 (7)0.0257 (7)0.0027 (7)0.0203 (7)0.0034 (6)
C190.0239 (7)0.0328 (7)0.0347 (8)0.0028 (6)0.0184 (7)−0.0002 (6)
C200.0323 (8)0.0290 (7)0.0301 (7)0.0092 (6)0.0176 (7)0.0043 (6)
C210.0256 (7)0.0284 (7)0.0322 (7)0.0002 (6)0.0182 (6)0.0013 (6)
C220.0312 (8)0.0305 (7)0.0353 (8)0.0045 (6)0.0237 (7)0.0056 (6)
C230.0428 (9)0.0264 (7)0.0596 (11)0.0074 (6)0.0403 (9)0.0122 (7)
C240.0344 (9)0.0391 (9)0.0749 (14)0.0098 (7)0.0358 (10)0.0170 (9)
C250.0694 (14)0.0468 (11)0.0768 (14)0.0169 (10)0.0616 (13)0.0112 (10)
O1—C61.3689 (16)C14—C181.528 (2)
O1—C51.3737 (15)C15—C161.522 (2)
O2—C121.2363 (16)C15—H15A0.9900
O3—C11.3635 (16)C15—H15B0.9900
O3—C141.4653 (16)C16—H16A0.9900
O4—C31.3579 (16)C16—H16B0.9900
O4—C191.4377 (18)C17—H17A0.9800
O5—C81.3549 (16)C17—H17B0.9800
O5—H1O50.8949C17—H17C0.9800
O6—C91.3805 (17)C18—H18A0.9800
O6—C201.4322 (18)C18—H18B0.9800
C1—C21.3871 (19)C18—H18C0.9800
C1—C131.4318 (18)C19—H19A0.9800
C2—C31.411 (2)C19—H19B0.9800
C2—C161.5114 (19)C19—H19C0.9800
C3—C41.3863 (19)C20—H20A0.9800
C4—C51.3848 (18)C20—H20B0.9800
C4—H4A0.9500C20—H20C0.9800
C5—C131.3982 (18)C21—C221.499 (2)
C6—C71.3890 (19)C21—H21A0.9900
C6—C111.4005 (19)C21—H21B0.9900
C7—C81.3826 (19)C22—C231.346 (2)
C7—H7A0.9500C22—H22A0.9500
C8—C91.415 (2)C23—C241.502 (3)
C9—C101.3917 (19)C23—C251.505 (3)
C10—C111.4258 (19)C24—H24A0.9800
C10—C211.522 (2)C24—H24B0.9800
C11—C121.4734 (19)C24—H24C0.9800
C12—C131.4611 (19)C25—H25A0.9800
C14—C171.516 (2)C25—H25B0.9800
C14—C151.523 (2)C25—H25C0.9800
C6—O1—C5119.66 (11)H15A—C15—H15B107.9
C1—O3—C14117.77 (11)C2—C16—C15111.17 (12)
C3—O4—C19117.28 (11)C2—C16—H16A109.4
C8—O5—H1O5108.7C15—C16—H16A109.4
C9—O6—C20112.70 (11)C2—C16—H16B109.4
O3—C1—C2122.40 (12)C15—C16—H16B109.4
O3—C1—C13116.11 (12)H16A—C16—H16B108.0
C2—C1—C13121.44 (12)C14—C17—H17A109.5
C1—C2—C3118.60 (12)C14—C17—H17B109.5
C1—C2—C16121.55 (13)H17A—C17—H17B109.5
C3—C2—C16119.85 (12)C14—C17—H17C109.5
O4—C3—C4123.32 (12)H17A—C17—H17C109.5
O4—C3—C2114.67 (12)H17B—C17—H17C109.5
C4—C3—C2122.01 (12)C14—C18—H18A109.5
C5—C4—C3117.60 (12)C14—C18—H18B109.5
C5—C4—H4A121.2H18A—C18—H18B109.5
C3—C4—H4A121.2C14—C18—H18C109.5
O1—C5—C4114.08 (12)H18A—C18—H18C109.5
O1—C5—C13121.95 (12)H18B—C18—H18C109.5
C4—C5—C13123.97 (12)O4—C19—H19A109.5
O1—C6—C7114.52 (12)O4—C19—H19B109.5
O1—C6—C11122.16 (12)H19A—C19—H19B109.5
C7—C6—C11123.33 (12)O4—C19—H19C109.5
C8—C7—C6118.57 (13)H19A—C19—H19C109.5
C8—C7—H7A120.7H19B—C19—H19C109.5
C6—C7—H7A120.7O6—C20—H20A109.5
O5—C8—C7122.36 (13)O6—C20—H20B109.5
O5—C8—C9117.91 (12)H20A—C20—H20B109.5
C7—C8—C9119.73 (12)O6—C20—H20C109.5
O6—C9—C10119.36 (13)H20A—C20—H20C109.5
O6—C9—C8118.73 (12)H20B—C20—H20C109.5
C10—C9—C8121.70 (12)C22—C21—C10114.13 (13)
C9—C10—C11118.61 (13)C22—C21—H21A108.7
C9—C10—C21117.73 (12)C10—C21—H21A108.7
C11—C10—C21123.44 (12)C22—C21—H21B108.7
C6—C11—C10117.87 (12)C10—C21—H21B108.7
C6—C11—C12118.90 (12)H21A—C21—H21B107.6
C10—C11—C12123.20 (12)C23—C22—C21125.71 (16)
O2—C12—C13124.11 (12)C23—C22—H22A117.1
O2—C12—C11120.20 (12)C21—C22—H22A117.1
C13—C12—C11115.69 (12)C22—C23—C24124.58 (17)
C5—C13—C1116.31 (12)C22—C23—C25119.59 (18)
C5—C13—C12119.45 (12)C24—C23—C25115.83 (15)
C1—C13—C12124.24 (12)C23—C24—H24A109.5
O3—C14—C17104.25 (12)C23—C24—H24B109.5
O3—C14—C15109.29 (11)H24A—C24—H24B109.5
C17—C14—C15111.26 (12)C23—C24—H24C109.5
O3—C14—C18107.36 (11)H24A—C24—H24C109.5
C17—C14—C18111.32 (13)H24B—C24—H24C109.5
C15—C14—C18112.91 (13)C23—C25—H25A109.5
C16—C15—C14111.83 (12)C23—C25—H25B109.5
C16—C15—H15A109.3H25A—C25—H25B109.5
C14—C15—H15A109.3C23—C25—H25C109.5
C16—C15—H15B109.3H25A—C25—H25C109.5
C14—C15—H15B109.3H25B—C25—H25C109.5
C14—O3—C1—C2−18.47 (18)O1—C6—C11—C12−4.4 (2)
C14—O3—C1—C13163.92 (11)C7—C6—C11—C12175.70 (12)
O3—C1—C2—C3−178.12 (12)C9—C10—C11—C65.0 (2)
C13—C1—C2—C3−0.63 (19)C21—C10—C11—C6−169.51 (13)
O3—C1—C2—C160.9 (2)C9—C10—C11—C12−173.19 (13)
C13—C1—C2—C16178.37 (12)C21—C10—C11—C1212.3 (2)
C19—O4—C3—C41.79 (19)C6—C11—C12—O2−165.46 (13)
C19—O4—C3—C2−177.51 (12)C10—C11—C12—O212.8 (2)
C1—C2—C3—O4177.28 (11)C6—C11—C12—C1313.96 (18)
C16—C2—C3—O4−1.74 (18)C10—C11—C12—C13−167.83 (12)
C1—C2—C3—C4−2.0 (2)O1—C5—C13—C1178.29 (12)
C16—C2—C3—C4178.95 (12)C4—C5—C13—C1−1.0 (2)
O4—C3—C4—C5−176.20 (12)O1—C5—C13—C12−1.69 (19)
C2—C3—C4—C53.0 (2)C4—C5—C13—C12179.04 (13)
C6—O1—C5—C4−168.53 (12)O3—C1—C13—C5179.69 (11)
C6—O1—C5—C1312.13 (19)C2—C1—C13—C52.05 (19)
C3—C4—C5—O1179.18 (12)O3—C1—C13—C12−0.32 (19)
C3—C4—C5—C13−1.5 (2)C2—C1—C13—C12−177.96 (13)
C5—O1—C6—C7170.98 (11)O2—C12—C13—C5168.33 (13)
C5—O1—C6—C11−8.95 (19)C11—C12—C13—C5−11.06 (18)
O1—C6—C7—C8179.30 (12)O2—C12—C13—C1−11.6 (2)
C11—C6—C7—C8−0.8 (2)C11—C12—C13—C1168.96 (12)
C6—C7—C8—O5−178.50 (12)C1—O3—C14—C17165.58 (12)
C6—C7—C8—C91.6 (2)C1—O3—C14—C1546.56 (16)
C20—O6—C9—C10−104.50 (15)C1—O3—C14—C18−76.23 (15)
C20—O6—C9—C880.63 (15)O3—C14—C15—C16−58.35 (16)
O5—C8—C9—O6−4.17 (19)C17—C14—C15—C16−172.94 (12)
C7—C8—C9—O6175.69 (12)C18—C14—C15—C1661.06 (16)
O5—C8—C9—C10−178.92 (12)C1—C2—C16—C15−13.47 (18)
C7—C8—C9—C100.9 (2)C3—C2—C16—C15165.52 (12)
O6—C9—C10—C11−179.05 (12)C14—C15—C16—C241.79 (16)
C8—C9—C10—C11−4.3 (2)C9—C10—C21—C2287.47 (16)
O6—C9—C10—C21−4.18 (19)C11—C10—C21—C22−97.93 (16)
C8—C9—C10—C21170.53 (13)C10—C21—C22—C23−124.59 (16)
O1—C6—C11—C10177.31 (12)C21—C22—C23—C242.4 (3)
C7—C6—C11—C10−2.6 (2)C21—C22—C23—C25−177.60 (16)
D—H···AD—HH···AD···AD—H···A
O5—H1O5···O2i0.901.772.6082 (17)155
C15—H15A···O1ii0.992.553.3820 (18)141
C20—H20C···O50.982.573.104 (2)115
C21—H21A···O20.992.292.807 (2)111
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O5—H1O5⋯O2i0.901.772.6082 (17)155
C15—H15A⋯O1ii0.992.553.3820 (18)141
C20—H20C⋯O50.982.573.104 (2)115
C21—H21A⋯O20.992.292.807 (2)111

Symmetry codes: (i) ; (ii) .

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