Literature DB >> 21201923

5-Phenyl-2-(4-pyrid-yl)pyrimidine.

Marie-Pierre C Santoni, Siu Hong Yu, Garry S Hanan, Anna Proust, Bernold Hasenknopf.   

Abstract

The title compound, C(15)H(11)N(3), crystallizes with two independent mol-ecules in the asymmetric unit. The dihedral angles between the phenyl and pyridine rings in each mol-ecule are 53.48 (5) and 50.80 (5)°. In the crystal structure, weak inter-molecular C-H⋯N hydrogen bonds connect mol-ecules into one-dimensional chains. In addition, the crystal structure is stabilized by weak C-H⋯π(arene) inter-actions.

Entities:  

Year:  2008        PMID: 21201923      PMCID: PMC2960877          DOI: 10.1107/S160053680800398X

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


Related literature

For related literature, see: Fang et al. (2002 ▶, 2007 ▶); Medlycott & Hanan (2005 ▶, 2006 ▶); Spek (2003 ▶).

Experimental

Crystal data

C15H11N3 M = 233.27 Triclinic, a = 9.2813 (5) Å b = 9.3609 (5) Å c = 13.9001 (7) Å α = 71.462 (2)° β = 86.957 (2)° γ = 75.788 (3)° V = 1109.54 (10) Å3 Z = 4 Cu Kα radiation μ = 0.68 mm−1 T = 100 (2) K 0.40 × 0.38 × 0.08 mm

Data collection

Bruker SMART 6000 diffractometer Absorption correction: multi-scan (SADABS; Sheldrick, 1996 ▶) T min = 0.734, T max = 0.947 15167 measured reflections 3967 independent reflections 3226 reflections with I > 2σ(I) R int = 0.046

Refinement

R[F 2 > 2σ(F 2)] = 0.044 wR(F 2) = 0.139 S = 1.00 3967 reflections 325 parameters H-atom parameters constrained Δρmax = 0.27 e Å−3 Δρmin = −0.30 e Å−3 Data collection: SMART (Bruker, 2003 ▶); cell refinement: SAINT (Bruker, 1999 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: SHELXTL (Sheldrick, 2008 ▶); software used to prepare material for publication: UdMX (local program). Crystal structure: contains datablocks I, global. DOI: 10.1107/S160053680800398X/lh2593sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S160053680800398X/lh2593Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C15H11N3Z = 4
Mr = 233.27F(000) = 488
Triclinic, P1Dx = 1.396 Mg m3
Hall symbol: -P 1Cu Kα radiation, λ = 1.54178 Å
a = 9.2813 (5) ÅCell parameters from 5655 reflections
b = 9.3609 (5) Åθ = 3.4–68.9°
c = 13.9001 (7) ŵ = 0.68 mm1
α = 71.462 (2)°T = 100 K
β = 86.957 (2)°Block, colourless
γ = 75.788 (3)°0.40 × 0.38 × 0.08 mm
V = 1109.54 (10) Å3
Bruker SMART 6000 diffractometer3967 independent reflections
Radiation source: Rotating anode3226 reflections with I > 2σ(I)
Montel 200 opticsRint = 0.046
Detector resolution: 5.5 pixels mm-1θmax = 68.9°, θmin = 3.4°
ω scansh = −11→11
Absorption correction: multi-scan (SADABS; Sheldrick, 1996)k = −11→11
Tmin = 0.734, Tmax = 0.947l = −16→16
15167 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)] = 0.044Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.139H-atom parameters constrained
S = 1.00w = 1/[σ2(Fo2) + (0.0925P)2 + 0.1892P] where P = (Fo2 + 2Fc2)/3
3967 reflections(Δ/σ)max = 0.001
325 parametersΔρmax = 0.27 e Å3
0 restraintsΔρmin = −0.30 e Å3
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
N1−0.09769 (12)0.44347 (13)1.42209 (9)0.0235 (3)
N2−0.12326 (12)0.79515 (13)1.05916 (8)0.0215 (3)
N30.10382 (12)0.60327 (13)1.06789 (9)0.0230 (3)
C280.60351 (14)1.04795 (15)0.59991 (10)0.0230 (3)
H280.62351.09800.53130.028*
C240.59612 (14)0.67217 (15)0.96148 (10)0.0211 (3)
H240.66970.61960.92620.025*
C220.40977 (14)0.89133 (15)0.96659 (10)0.0210 (3)
H220.35190.99350.93490.025*
C1−0.20867 (14)0.54005 (15)1.35782 (10)0.0222 (3)
H1−0.30610.55811.38350.027*
C2−0.18962 (14)0.61497 (15)1.25624 (10)0.0206 (3)
H2−0.27170.68411.21440.025*
C3−0.04783 (14)0.58719 (14)1.21624 (10)0.0188 (3)
C40.06828 (14)0.48702 (15)1.28198 (10)0.0204 (3)
H40.16640.46471.25800.025*
C50.03846 (14)0.42042 (15)1.38280 (10)0.0218 (3)
H50.11930.35431.42700.026*
C6−0.02146 (13)0.66572 (15)1.10832 (10)0.0190 (3)
C7−0.09684 (14)0.86669 (15)0.96277 (10)0.0207 (3)
H7−0.16710.95850.92650.025*
C80.02937 (13)0.81303 (14)0.91253 (10)0.0191 (3)
C90.12654 (14)0.67759 (15)0.97125 (10)0.0224 (3)
H90.21380.63590.94070.027*
C100.05403 (13)0.89220 (15)0.80502 (10)0.0192 (3)
C110.00409 (13)1.05394 (15)0.76275 (10)0.0203 (3)
H11−0.04291.11390.80450.024*
C120.02259 (14)1.12719 (15)0.66058 (10)0.0217 (3)
H12−0.01111.23680.63300.026*
C130.09030 (14)1.04032 (16)0.59868 (10)0.0223 (3)
H130.10211.09030.52870.027*
C140.14063 (14)0.88000 (15)0.63960 (10)0.0227 (3)
H140.18720.82060.59740.027*
C150.12309 (13)0.80658 (15)0.74159 (10)0.0202 (3)
H150.15820.69710.76890.024*
C290.71673 (14)0.94102 (15)0.66453 (10)0.0221 (3)
H290.81440.91780.64000.027*
C300.68821 (13)0.86809 (15)0.76430 (10)0.0197 (3)
H300.76640.79440.80770.024*
C250.54460 (14)0.90173 (15)0.80227 (10)0.0186 (3)
C260.43120 (14)1.00916 (15)0.73613 (10)0.0203 (3)
H260.33321.03260.76010.024*
C270.46033 (15)1.08163 (15)0.63604 (10)0.0230 (3)
H270.38251.15450.59190.028*
C230.51637 (13)0.82266 (15)0.90904 (10)0.0184 (3)
N60.57446 (11)0.59835 (13)1.05838 (8)0.0210 (3)
C210.46901 (13)0.67626 (15)1.10567 (10)0.0187 (3)
N50.38525 (12)0.82082 (12)1.06340 (8)0.0211 (3)
C180.44441 (13)0.59364 (15)1.21314 (10)0.0186 (3)
C190.49348 (13)0.43229 (15)1.25172 (10)0.0203 (3)
H190.54410.37451.20970.024*
C200.46761 (14)0.35763 (15)1.35169 (10)0.0215 (3)
H200.49980.24761.37600.026*
N40.39970 (12)0.43088 (13)1.41673 (8)0.0238 (3)
C160.35492 (14)0.58659 (16)1.37925 (10)0.0231 (3)
H160.30790.64151.42380.028*
C170.37312 (13)0.67179 (16)1.27954 (10)0.0207 (3)
H170.33770.78161.25680.025*
U11U22U33U12U13U23
N10.0246 (6)0.0248 (6)0.0228 (6)−0.0064 (5)−0.0001 (5)−0.0092 (5)
N20.0197 (5)0.0236 (6)0.0209 (6)−0.0007 (5)−0.0027 (4)−0.0095 (5)
N30.0199 (5)0.0226 (6)0.0238 (6)−0.0003 (5)0.0001 (5)−0.0071 (5)
C280.0266 (7)0.0257 (7)0.0181 (7)−0.0088 (6)0.0001 (5)−0.0070 (6)
C240.0192 (6)0.0235 (7)0.0211 (7)−0.0017 (5)−0.0004 (5)−0.0104 (6)
C220.0198 (6)0.0187 (6)0.0229 (7)−0.0011 (5)−0.0013 (5)−0.0068 (5)
C10.0192 (6)0.0252 (7)0.0250 (7)−0.0050 (5)0.0014 (5)−0.0119 (6)
C20.0174 (6)0.0218 (7)0.0243 (7)−0.0032 (5)−0.0030 (5)−0.0102 (6)
C30.0191 (6)0.0176 (6)0.0215 (7)−0.0033 (5)−0.0019 (5)−0.0090 (5)
C40.0173 (6)0.0208 (6)0.0254 (7)−0.0033 (5)−0.0016 (5)−0.0108 (6)
C50.0205 (6)0.0209 (6)0.0234 (7)−0.0029 (5)−0.0046 (5)−0.0070 (6)
C60.0165 (6)0.0191 (6)0.0225 (7)−0.0019 (5)−0.0035 (5)−0.0094 (6)
C70.0199 (6)0.0213 (7)0.0197 (7)−0.0001 (5)−0.0047 (5)−0.0078 (5)
C80.0182 (6)0.0194 (7)0.0212 (7)−0.0025 (5)−0.0035 (5)−0.0094 (6)
C90.0180 (6)0.0250 (7)0.0225 (7)−0.0012 (5)0.0010 (5)−0.0080 (6)
C100.0135 (6)0.0229 (7)0.0225 (7)−0.0037 (5)−0.0025 (5)−0.0090 (6)
C110.0171 (6)0.0225 (7)0.0230 (7)−0.0028 (5)−0.0029 (5)−0.0106 (6)
C120.0194 (6)0.0208 (6)0.0247 (7)−0.0041 (5)−0.0049 (5)−0.0064 (6)
C130.0211 (6)0.0283 (7)0.0191 (7)−0.0085 (6)−0.0010 (5)−0.0075 (6)
C140.0187 (6)0.0285 (7)0.0257 (7)−0.0066 (5)0.0013 (5)−0.0145 (6)
C150.0160 (6)0.0193 (6)0.0256 (7)−0.0026 (5)−0.0017 (5)−0.0085 (6)
C290.0200 (6)0.0279 (7)0.0228 (7)−0.0077 (6)0.0017 (5)−0.0128 (6)
C300.0167 (6)0.0221 (7)0.0206 (7)−0.0016 (5)−0.0044 (5)−0.0089 (5)
C250.0182 (6)0.0188 (6)0.0213 (7)−0.0040 (5)−0.0016 (5)−0.0096 (5)
C260.0166 (6)0.0211 (6)0.0242 (7)−0.0030 (5)−0.0008 (5)−0.0093 (6)
C270.0224 (7)0.0215 (7)0.0239 (7)−0.0032 (5)−0.0061 (5)−0.0059 (6)
C230.0143 (6)0.0211 (7)0.0211 (7)−0.0030 (5)−0.0025 (5)−0.0092 (6)
N60.0197 (5)0.0231 (6)0.0197 (6)−0.0008 (5)−0.0017 (4)−0.0090 (5)
C210.0154 (6)0.0209 (7)0.0214 (7)−0.0029 (5)−0.0031 (5)−0.0094 (6)
N50.0195 (5)0.0203 (6)0.0214 (6)−0.0014 (5)0.0000 (4)−0.0063 (5)
C180.0135 (6)0.0232 (7)0.0202 (7)−0.0038 (5)−0.0024 (5)−0.0081 (6)
C190.0170 (6)0.0229 (7)0.0230 (7)−0.0031 (5)−0.0034 (5)−0.0104 (6)
C200.0181 (6)0.0217 (7)0.0231 (7)−0.0030 (5)−0.0051 (5)−0.0054 (6)
N40.0208 (6)0.0288 (6)0.0214 (6)−0.0051 (5)−0.0024 (5)−0.0076 (5)
C160.0203 (6)0.0288 (7)0.0223 (7)−0.0043 (6)−0.0002 (5)−0.0119 (6)
C170.0173 (6)0.0228 (7)0.0229 (7)−0.0026 (5)−0.0022 (5)−0.0097 (6)
N1—C11.3429 (18)C11—C121.3890 (18)
N1—C51.3451 (17)C11—H110.95
N2—C71.3338 (17)C12—C131.3904 (18)
N2—C61.3445 (17)C12—H120.95
N3—C91.3344 (17)C13—C141.3911 (19)
N3—C61.3474 (16)C13—H130.95
C28—C291.3874 (19)C14—C151.3854 (18)
C28—C271.3935 (19)C14—H140.95
C28—H280.95C15—H150.95
C24—N61.3341 (17)C29—C301.3810 (18)
C24—C231.3987 (19)C29—H290.95
C24—H240.95C30—C251.4068 (18)
C22—N51.3321 (17)C30—H300.95
C22—C231.4010 (18)C25—C261.3998 (19)
C22—H220.95C25—C231.4746 (18)
C1—C21.3861 (18)C26—C271.3853 (18)
C1—H10.95C26—H260.95
C2—C31.3982 (18)C27—H270.95
C2—H20.95N6—C211.3446 (16)
C3—C41.3924 (19)C21—N51.3442 (17)
C3—C61.4829 (18)C21—C181.4825 (18)
C4—C51.3847 (18)C18—C191.3962 (19)
C4—H40.95C18—C171.3970 (18)
C5—H50.95C19—C201.3808 (18)
C7—C81.3998 (18)C19—H190.95
C7—H70.95C20—N41.3440 (17)
C8—C91.3949 (19)C20—H200.95
C8—C101.4757 (18)N4—C161.3458 (18)
C9—H90.95C16—C171.3871 (19)
C10—C151.4027 (18)C16—H160.95
C10—C111.4039 (19)C17—H170.95
C1—N1—C5116.27 (12)C12—C13—C14119.78 (13)
C7—N2—C6116.84 (11)C12—C13—H13120.1
C9—N3—C6116.34 (11)C14—C13—H13120.1
C29—C28—C27119.71 (12)C15—C14—C13120.31 (12)
C29—C28—H28120.1C15—C14—H14119.8
C27—C28—H28120.1C13—C14—H14119.8
N6—C24—C23123.58 (11)C14—C15—C10120.70 (12)
N6—C24—H24118.2C14—C15—H15119.6
C23—C24—H24118.2C10—C15—H15119.6
N5—C22—C23123.44 (12)C30—C29—C28120.36 (12)
N5—C22—H22118.3C30—C29—H29119.8
C23—C22—H22118.3C28—C29—H29119.8
N1—C1—C2123.93 (12)C29—C30—C25120.69 (12)
N1—C1—H1118C29—C30—H30119.7
C2—C1—H1118C25—C30—H30119.7
C1—C2—C3119.00 (12)C26—C25—C30118.38 (12)
C1—C2—H2120.5C26—C25—C23121.73 (11)
C3—C2—H2120.5C30—C25—C23119.88 (11)
C4—C3—C2117.68 (12)C27—C26—C25120.69 (12)
C4—C3—C6121.26 (11)C27—C26—H26119.7
C2—C3—C6121.03 (12)C25—C26—H26119.7
C5—C4—C3118.96 (12)C26—C27—C28120.18 (12)
C5—C4—H4120.5C26—C27—H27119.9
C3—C4—H4120.5C28—C27—H27119.9
N1—C5—C4124.14 (12)C24—C23—C22114.48 (12)
N1—C5—H5117.9C24—C23—C25122.19 (11)
C4—C5—H5117.9C22—C23—C25123.33 (12)
N2—C6—N3125.23 (12)C24—N6—C21116.46 (11)
N2—C6—C3117.34 (11)N5—C21—N6125.40 (12)
N3—C6—C3117.42 (11)N5—C21—C18118.22 (11)
N2—C7—C8123.18 (12)N6—C21—C18116.37 (11)
N2—C7—H7118.4C22—N5—C21116.63 (11)
C8—C7—H7118.4C19—C18—C17117.45 (12)
C9—C8—C7114.70 (12)C19—C18—C21120.29 (11)
C9—C8—C10123.20 (11)C17—C18—C21122.26 (12)
C7—C8—C10122.08 (12)C20—C19—C18119.28 (12)
N3—C9—C8123.71 (11)C20—C19—H19120.4
N3—C9—H9118.1C18—C19—H19120.4
C8—C9—H9118.1N4—C20—C19124.09 (12)
C15—C10—C11118.38 (12)N4—C20—H20118
C15—C10—C8120.59 (12)C19—C20—H20118
C11—C10—C8120.99 (11)C20—N4—C16116.18 (12)
C12—C11—C10120.74 (12)N4—C16—C17124.03 (12)
C12—C11—H11119.6N4—C16—H16118
C10—C11—H11119.6C17—C16—H16118
C11—C12—C13120.08 (12)C16—C17—C18118.96 (12)
C11—C12—H12120C16—C17—H17120.5
C13—C12—H12120C18—C17—H17120.5
C5—N1—C1—C2−0.23 (18)C27—C28—C29—C30−0.06 (19)
N1—C1—C2—C31.52 (19)C28—C29—C30—C25−0.50 (18)
C1—C2—C3—C4−1.28 (18)C29—C30—C25—C260.86 (18)
C1—C2—C3—C6−179.38 (11)C29—C30—C25—C23−179.99 (11)
C2—C3—C4—C5−0.09 (18)C30—C25—C26—C27−0.67 (18)
C6—C3—C4—C5178.00 (11)C23—C25—C26—C27−179.80 (11)
C1—N1—C5—C4−1.28 (19)C25—C26—C27—C280.13 (18)
C3—C4—C5—N11.46 (19)C29—C28—C27—C260.25 (19)
C7—N2—C6—N3−0.15 (18)N6—C24—C23—C22−0.22 (18)
C7—N2—C6—C3178.6 (1)N6—C24—C23—C25179.12 (11)
C9—N3—C6—N2−0.02 (19)N5—C22—C23—C240.14 (18)
C9—N3—C6—C3−178.77 (11)N5—C22—C23—C25−179.20 (11)
C4—C3—C6—N2−158.60 (12)C26—C25—C23—C24148.58 (13)
C2—C3—C6—N219.42 (17)C30—C25—C23—C24−30.54 (17)
C4—C3—C6—N320.25 (17)C26—C25—C23—C22−32.13 (18)
C2—C3—C6—N3−161.73 (12)C30—C25—C23—C22148.75 (13)
C6—N2—C7—C80.11 (18)C23—C24—N6—C210.22 (18)
N2—C7—C8—C90.08 (18)C24—N6—C21—N5−0.14 (18)
N2—C7—C8—C10178.41 (11)C24—N6—C21—C18179.6 (1)
C6—N3—C9—C80.23 (19)C23—C22—N5—C21−0.07 (18)
C7—C8—C9—N3−0.26 (19)N6—C21—N5—C220.07 (19)
C10—C8—C9—N3−178.57 (11)C18—C21—N5—C22−179.67 (11)
C9—C8—C10—C1533.47 (18)N5—C21—C18—C19160.88 (12)
C7—C8—C10—C15−144.72 (13)N6—C21—C18—C19−18.89 (17)
C9—C8—C10—C11−148.99 (13)N5—C21—C18—C17−19.43 (18)
C7—C8—C10—C1132.82 (18)N6—C21—C18—C17160.81 (12)
C15—C10—C11—C120.05 (18)C17—C18—C19—C201.14 (18)
C8—C10—C11—C12−177.54 (11)C21—C18—C19—C20−179.15 (10)
C10—C11—C12—C130.43 (18)C18—C19—C20—N4−1.45 (19)
C11—C12—C13—C14−0.57 (19)C19—C20—N4—C160.40 (18)
C12—C13—C14—C150.24 (19)C20—N4—C16—C170.95 (19)
C13—C14—C15—C100.25 (18)N4—C16—C17—C18−1.19 (19)
C11—C10—C15—C14−0.39 (18)C19—C18—C17—C160.08 (18)
C8—C10—C15—C14177.20 (11)C21—C18—C17—C16−179.62 (11)
D—H···AD—HH···AD···AD—H···A
C7—H7···N5i0.952.553.3818 (18)147
C9—H9···N6ii0.952.563.4027 (18)148
C22—H22···N2i0.952.543.3784 (18)147
C24—H24···N3ii0.952.563.4049 (19)149
C1—H1···Cg3iii0.952.913.5925 (15)129.
C4—H4···Cg30.952.723.4163 (15)130.
C12—H12···Cg1i0.952.893.5844 (15)131.
C15—H15···Cg1iv0.952.923.5202 (15)122.
C17—H17···Cg6v0.952.843.5561 (16)133.
C20—H20···Cg6ii0.952.853.5251 (15)129.
C26—H26···Cg50.952.863.5242 (15)128.
C29—H29···Cg5vi0.952.773.4451 (15)129.
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
C7—H7⋯N5i0.952.553.3818 (18)147
C9—H9⋯N6ii0.952.563.4027 (18)148
C22—H22⋯N2i0.952.543.3784 (18)147
C24—H24⋯N3ii0.952.563.4049 (19)149
C1—H1⋯Cg3iii0.952.913.5925 (15)129
C4—H4⋯Cg30.952.723.4163 (15)130
C12—H12⋯Cg1i0.952.893.5844 (15)131
C15—H15⋯Cg1iv0.952.923.5202 (15)122
C17—H17⋯Cg6v0.952.843.5561 (16)133
C20—H20⋯Cg6ii0.952.853.5251 (15)129
C26—H26⋯Cg50.952.863.5242 (15)128
C29—H29⋯Cg5vi0.952.773.4451 (15)129

Symmetry codes: (i) ; (ii) ; (iii) ; (iv) ; (v) ; (vi) . Cg1 is the centroid of the N1/C1-C5 ring, Cg3 is the centroid of the N4/C16–C20 ring, Cg5 is the centroid of the C10–C15 ring and Cg6 is the centroid of the C25–C30 ring.

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Authors:  Elaine A Medlycott; Garry S Hanan
Journal:  Chem Soc Rev       Date:  2005-01-10       Impact factor: 54.564

2.  A short history of SHELX.

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

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Journal:  J Am Chem Soc       Date:  2002-07-10       Impact factor: 15.419

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1.  4,6-Dimethyl-2-p-tolyl-pyrimidine.

Authors:  Chen Xu; Zhi-Qiang Wang; Fei-Fei Cen; Lin Cheng; Bao-Ming Ji
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-10-17

2.  N-(5-Amino-2-methyl-phen-yl)-4-(3-pyri-dyl)-pyrimidin-2-amine.

Authors:  Jerry P Jasinski; Ray J Butcher; Q N M Hakim Al-Arique; H S Yathirajan; B Narayana
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