Literature DB >> 22590113

Bis[μ-1-hexyl-3-(2,3,5,6,8,9,11,12-octa-hydro-1,4,7,10,13-benzopenta-oxacyclo-penta-decin-15-yl)urea]bis-(azido-sodium) chloro-form disolvate.

Arnaud Gilles1, Mihail Barboiu, Yves-Marie Legrand, Arie van Lee.   

Abstract

In the title compound, [Na(2)(n class="Chemical">N(3))(2)(C(21)H(34)N(2)O(6))(2)]·2CHCl(3), the sodium cation is hepta-coordinated by five O atoms of the crown ether unit of the 1-hexyl-3-(2,3,5,6,8,9,11,12-octa-hydro-1,4,7,10,13-benzopenta-oxacyclo-penta-decin-15-yl)urea (L) ligand, the O atom of the urea group of the second, symmetry-related L ligand, and one N atom of the azide anion. The experimentally determined distance 2.472 (2) Å between the terminal azide N atom and the sodium cation is substanti-ally longer than that predicted from density functional theory (DFT) calculations (2.263 Å). The crown ethers complexing the sodium cation are related by an inversion centre and form dimers. The urea groups of the two L ligands are connected in a head-to-tail fashion by classical N-H⋯N hydrogen-bonding inter-actions and form a ribbon-like structure parallel to the b axis. Parallel ribbons are weakly linked through C-H⋯N, C-H⋯O and C-H⋯π inter-actions.

Entities:  

Year:  2012        PMID: 22590113      PMCID: PMC3344347          DOI: 10.1107/S1600536812015590

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


Related literature

For the synthesis and characterization of other alkali metal azide-crown ether complexes, see: Brown et al. (2006 ▶, 2008 ▶). For single-crystal structure determinations of other compounds with 4-hexyl­n class="Chemical">urea-benzo-15-crown-5, see: Cazacu et al. (2006 ▶, 2009 ▶).

Experimental

Crystal data

[Na2(N3)2(C21H34N2O6)2]·2CHCl3 M = 1189.78 Triclinic, a = 7.8168 (3) Å b = 9.9342 (3) Å c = 18.5202 (7) Å α = 82.320 (3)° β = 83.459 (3)° γ = 87.784 (3)° V = 1415.58 (9) Å3 Z = 1 Mo Kα radiation μ = 0.38 mm−1 T = 175 K 0.45 × 0.20 × 0.03 mm

Data collection

Agilent Xcalibur Sapphire-3 CCD Gemini diffractometer Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2010 ▶) T min = 0.895, T max = 1.000 11317 measured reflections 6470 independent reflections 5176 reflections with I > 2σ(I) R int = 0.018

Refinement

R[F 2 > 2σ(F 2)] = 0.039 wR(F 2) = 0.114 S = 0.91 6470 reflections 340 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.58 e Å−3 Δρmin = −0.75 e Å−3 Data collection: CrysAlis PRO (Agilent, 2010 ▶); cell refinement: CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SUPERFLIP (Palatinus & Chapuis, 2007 ▶); program(s) used to refine structure: CRYSTALS (Betteridge et al., 2003 ▶); molecular graphics: OLEX2 (Dolomanov et al., 2009 ▶); software used to prepare material for publication: CRYSTALS. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536812015590/rk2333sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812015590/rk2333Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
[Na2(N3)2(C21H34N2O6)2]·2CHCl3Z = 1
Mr = 1189.78F(000) = 624
Triclinic, P1Dx = 1.396 Mg m3
Hall symbol: -P 1Mo Kα radiation, λ = 0.71073 Å
a = 7.8168 (3) ÅCell parameters from 3569 reflections
b = 9.9342 (3) Åθ = 2.1–29.0°
c = 18.5202 (7) ŵ = 0.38 mm1
α = 82.320 (3)°T = 175 K
β = 83.459 (3)°Needle, colourless
γ = 87.784 (3)°0.45 × 0.20 × 0.03 mm
V = 1415.58 (9) Å3
Agilent Xcalibur Sapphire-3 CCD Gemini diffractometer6470 independent reflections
Radiation source: Enhance (Mo) X-ray Source5176 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.018
Detector resolution: 16.0143 pixels mm-1θmax = 29.1°, θmin = 2.1°
ω scansh = −10→6
Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2010)k = −12→13
Tmin = 0.895, Tmax = 1.000l = −21→24
11317 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)] = 0.039Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.114H atoms treated by a mixture of independent and constrained refinement
S = 0.91 Modified Sheldrick method w = 1/[σ2(F2) + (0.07P)2 + 0.69P], where P = (max(Fo2,0) + 2Fc2)/3
6470 reflections(Δ/σ)max < 0.001
340 parametersΔρmax = 0.58 e Å3
0 restraintsΔρmin = −0.75 e Å3
xyzUiso*/Ueq
Cl10.29314 (7)0.12610 (6)0.36316 (4)0.0548
C20.4561 (2)0.23861 (19)0.37104 (11)0.0356
Cl30.36653 (10)0.38944 (6)0.39926 (4)0.0680
Cl40.59472 (7)0.16173 (6)0.43316 (3)0.0512
H210.52000.25810.32350.0434*
Na50.68726 (8)0.47918 (6)0.16960 (4)0.0242
O60.48814 (15)0.33622 (11)−0.18581 (7)0.0285
C70.5384 (2)0.21761 (16)−0.18696 (10)0.0242
N80.5406 (2)0.15234 (17)−0.24686 (9)0.0374
C90.4602 (3)0.20770 (19)−0.31162 (11)0.0355
C100.2949 (2)0.13728 (18)−0.31851 (10)0.0313
C110.2103 (2)0.19461 (19)−0.38655 (10)0.0333
C120.0434 (3)0.1250 (2)−0.39224 (12)0.0389
C13−0.0472 (3)0.1801 (2)−0.45926 (12)0.0418
C14−0.1142 (3)0.3249 (2)−0.45882 (13)0.0478
H143−0.17990.3539−0.49900.0713*
H142−0.02210.3863−0.46140.0704*
H141−0.18820.3325−0.41370.0719*
H1320.03310.1764−0.50280.0512*
H131−0.14630.1226−0.46240.0506*
H122−0.03520.1330−0.34820.0473*
H1210.07060.0298−0.39330.0470*
H1120.29020.1861−0.43060.0398*
H1110.18880.2919−0.38520.0400*
H1020.21420.1441−0.27550.0370*
H1010.31820.0418−0.32000.0371*
H920.54330.1998−0.35470.0427*
H910.43720.3008−0.30780.0431*
N150.59760 (19)0.13769 (14)−0.12871 (8)0.0269
C160.64335 (19)0.17637 (15)−0.06340 (9)0.0214
C170.6957 (2)0.07199 (15)−0.01212 (10)0.0249
C180.7524 (2)0.10018 (15)0.05227 (9)0.0258
C190.7575 (2)0.23293 (15)0.06711 (9)0.0218
O200.82203 (15)0.27206 (11)0.12686 (6)0.0260
C210.8591 (3)0.16670 (17)0.18375 (10)0.0334
C220.9369 (3)0.23127 (19)0.24011 (11)0.0349
O230.81354 (16)0.32292 (13)0.27110 (7)0.0309
C240.8829 (3)0.3975 (2)0.32158 (10)0.0346
C251.0045 (2)0.50500 (19)0.28352 (10)0.0335
O260.91448 (15)0.58835 (12)0.23138 (7)0.0299
C271.0246 (2)0.68301 (18)0.18535 (10)0.0306
C280.9298 (2)0.74580 (16)0.12253 (10)0.0268
O290.89393 (14)0.64030 (11)0.08208 (6)0.0247
C300.8041 (2)0.68851 (15)0.02080 (9)0.0224
C310.7725 (2)0.57005 (15)−0.01825 (9)0.0220
O320.69444 (14)0.46654 (10)0.03651 (6)0.0217
C330.69806 (19)0.33699 (14)0.01680 (9)0.0193
C340.64267 (19)0.31041 (15)−0.04782 (9)0.0209
H3410.60640.3812−0.08010.0243*
H3110.87890.5349−0.04180.0259*
H3120.69310.5978−0.05620.0255*
H3020.69270.73080.03800.0260*
H3010.87540.7532−0.01290.0261*
H2820.99760.81530.09100.0316*
H2810.82130.78960.14140.0311*
H2721.13040.63440.16710.0363*
H2711.05650.75400.21370.0370*
H2521.10980.46760.25850.0386*
H2511.04130.55670.31990.0395*
H2420.94000.33650.35740.0420*
H2410.78390.44240.34650.0405*
H2220.97310.16000.27750.0429*
H2211.03660.27860.21780.0406*
H2120.75210.12020.20380.0389*
H2110.94140.10310.16380.0403*
H1810.78640.02710.08600.0310*
H1710.6928−0.0178−0.02170.0294*
N350.4334 (2)0.33243 (16)0.19341 (10)0.0391
N360.38153 (18)0.22991 (14)0.18164 (8)0.0282
N370.3246 (3)0.12827 (17)0.17006 (11)0.0481
H810.575 (3)0.072 (3)−0.2411 (14)0.0500*
H1510.620 (3)0.054 (3)−0.1333 (14)0.0500*
U11U22U33U12U13U23
Cl10.0435 (3)0.0650 (4)0.0582 (4)−0.0145 (3)−0.0086 (3)−0.0103 (3)
C20.0341 (10)0.0398 (10)0.0324 (10)0.0002 (7)−0.0050 (8)−0.0023 (8)
Cl30.0774 (5)0.0451 (3)0.0827 (5)0.0180 (3)−0.0132 (4)−0.0146 (3)
Cl40.0505 (3)0.0560 (3)0.0489 (3)0.0066 (2)−0.0208 (2)−0.0026 (2)
Na50.0251 (3)0.0210 (3)0.0265 (3)0.0023 (2)−0.0035 (3)−0.0037 (2)
O60.0289 (6)0.0231 (6)0.0352 (7)0.0056 (4)−0.0089 (5)−0.0076 (5)
C70.0184 (7)0.0236 (8)0.0321 (9)−0.0002 (6)−0.0042 (6)−0.0074 (6)
N80.0505 (10)0.0286 (8)0.0380 (9)0.0108 (7)−0.0195 (8)−0.0134 (7)
C90.0438 (11)0.0340 (9)0.0313 (10)−0.0015 (8)−0.0114 (8)−0.0070 (7)
C100.0341 (10)0.0335 (9)0.0264 (9)0.0031 (7)−0.0035 (7)−0.0054 (7)
C110.0371 (10)0.0356 (10)0.0279 (9)0.0000 (7)−0.0082 (8)−0.0036 (7)
C120.0429 (11)0.0351 (10)0.0400 (11)−0.0029 (8)−0.0135 (9)−0.0016 (8)
C130.0465 (12)0.0432 (11)0.0391 (11)−0.0019 (9)−0.0163 (9)−0.0080 (8)
C140.0553 (14)0.0410 (11)0.0503 (13)0.0002 (9)−0.0238 (11)−0.0032 (9)
N150.0322 (8)0.0185 (6)0.0325 (8)0.0029 (5)−0.0095 (6)−0.0083 (5)
C160.0166 (7)0.0198 (7)0.0281 (9)0.0000 (5)−0.0013 (6)−0.0052 (6)
C170.0255 (8)0.0154 (7)0.0342 (9)−0.0003 (6)−0.0029 (7)−0.0045 (6)
C180.0290 (9)0.0175 (7)0.0297 (9)0.0023 (6)−0.0040 (7)0.0015 (6)
C190.0211 (7)0.0207 (7)0.0230 (8)0.0011 (5)−0.0013 (6)−0.0018 (6)
O200.0355 (6)0.0193 (5)0.0235 (6)0.0033 (4)−0.0085 (5)−0.0009 (4)
C210.0457 (11)0.0228 (8)0.0319 (10)0.0072 (7)−0.0139 (8)0.0017 (7)
C220.0406 (10)0.0310 (9)0.0346 (10)0.0115 (7)−0.0151 (8)−0.0040 (7)
O230.0302 (6)0.0373 (7)0.0258 (6)0.0011 (5)−0.0063 (5)−0.0045 (5)
C240.0383 (10)0.0424 (10)0.0245 (9)0.0026 (8)−0.0078 (7)−0.0063 (7)
C250.0298 (9)0.0417 (10)0.0319 (10)0.0023 (7)−0.0114 (7)−0.0091 (8)
O260.0224 (6)0.0370 (7)0.0298 (7)−0.0016 (5)−0.0035 (5)−0.0024 (5)
C270.0218 (8)0.0374 (9)0.0337 (10)−0.0064 (7)−0.0013 (7)−0.0087 (7)
C280.0229 (8)0.0242 (8)0.0346 (10)−0.0043 (6)−0.0005 (7)−0.0092 (7)
O290.0251 (6)0.0207 (5)0.0300 (6)0.0021 (4)−0.0068 (5)−0.0069 (4)
C300.0213 (8)0.0167 (7)0.0287 (9)0.0009 (5)−0.0020 (6)−0.0017 (6)
C310.0258 (8)0.0173 (7)0.0218 (8)0.0005 (5)−0.0017 (6)0.0003 (6)
O320.0287 (6)0.0140 (5)0.0221 (6)0.0003 (4)−0.0011 (4)−0.0023 (4)
C330.0178 (7)0.0154 (7)0.0240 (8)0.0013 (5)0.0005 (6)−0.0030 (5)
C340.0174 (7)0.0179 (7)0.0270 (8)0.0022 (5)−0.0023 (6)−0.0025 (6)
N350.0396 (9)0.0360 (9)0.0428 (10)−0.0108 (7)−0.0045 (7)−0.0059 (7)
N360.0255 (7)0.0263 (7)0.0318 (8)0.0053 (5)−0.0007 (6)−0.0041 (6)
N370.0555 (11)0.0273 (8)0.0625 (13)−0.0011 (7)0.0042 (9)−0.0189 (8)
Cl1—C21.758 (2)C17—H1710.934
C2—Cl31.747 (2)C18—C191.385 (2)
C2—Cl41.751 (2)C18—H1810.943
C2—H210.962C19—O201.374 (2)
Na5—O6i2.2786 (12)C19—C331.399 (2)
Na5—O202.4592 (12)O20—C211.4284 (19)
Na5—O232.5380 (14)C21—C221.492 (3)
Na5—O262.5658 (13)C21—H2120.981
Na5—O292.5902 (13)C21—H2110.963
Na5—O322.4790 (13)C22—O231.426 (2)
Na5—N352.4718 (17)C22—H2220.979
O6—C71.2298 (19)C22—H2210.950
C7—N81.356 (2)O23—C241.432 (2)
C7—N151.365 (2)C24—C251.505 (3)
N8—C91.450 (2)C24—H2420.973
N8—H810.83 (2)C24—H2410.979
C9—C101.519 (3)C25—O261.417 (2)
C9—H920.979C25—H2520.983
C9—H910.946C25—H2510.973
C10—C111.522 (2)O26—C271.426 (2)
C10—H1020.966C27—C281.503 (3)
C10—H1010.963C27—H2720.990
C11—C121.521 (3)C27—H2710.989
C11—H1120.980C28—O291.4209 (19)
C11—H1110.978C28—H2820.974
C12—C131.526 (3)C28—H2810.988
C12—H1220.975O29—C301.4216 (19)
C12—H1210.964C30—C311.503 (2)
C13—C141.513 (3)C30—H3020.990
C13—H1320.967C30—H3010.977
C13—H1310.992C31—O321.4446 (18)
C14—H1430.959C31—H3110.969
C14—H1420.954C31—H3120.995
C14—H1410.970O32—C331.3823 (17)
N15—C161.404 (2)C33—C341.379 (2)
N15—H1510.86 (2)C34—H3410.918
C16—C171.392 (2)N35—N361.166 (2)
C16—C341.399 (2)N36—N371.174 (2)
C17—C181.384 (2)
Cl1—C2—Cl3110.46 (11)C18—C17—H171120.1
Cl1—C2—Cl4109.86 (11)C17—C18—C19120.63 (15)
Cl3—C2—Cl4110.45 (11)C17—C18—H181118.6
Cl1—C2—H21107.5C19—C18—H181120.7
Cl3—C2—H21109.4C18—C19—O20125.05 (14)
Cl4—C2—H21109.1C18—C19—C33118.40 (15)
O6i—Na5—O20164.07 (5)O20—C19—C33116.52 (13)
O6i—Na5—O23125.34 (5)Na5—O20—C19114.99 (9)
O20—Na5—O2367.50 (4)Na5—O20—C21114.92 (10)
O6i—Na5—O2688.32 (4)C19—O20—C21116.83 (12)
O20—Na5—O26106.72 (4)O20—C21—C22107.44 (14)
O23—Na5—O2665.51 (4)O20—C21—H212109.0
O6i—Na5—O2987.68 (4)C22—C21—H212112.3
O20—Na5—O2993.92 (4)O20—C21—H211109.2
O23—Na5—O29117.85 (4)C22—C21—H211109.0
O26—Na5—O2964.89 (4)H212—C21—H211109.9
O6i—Na5—O32102.87 (5)C21—C22—O23109.09 (15)
O20—Na5—O3264.24 (4)C21—C22—H222108.9
O23—Na5—O32131.59 (4)O23—C22—H222111.5
O26—Na5—O32125.91 (4)C21—C22—H221109.3
O29—Na5—O3262.98 (4)O23—C22—H221110.2
O6i—Na5—N3589.71 (5)H222—C22—H221107.7
O20—Na5—N3581.26 (5)C22—O23—Na5109.80 (10)
O23—Na5—N3586.68 (5)C22—O23—C24112.56 (14)
O26—Na5—N35143.72 (6)Na5—O23—C24111.84 (10)
O29—Na5—N35151.19 (6)O23—C24—C25112.33 (15)
O32—Na5—N3589.77 (5)O23—C24—H242110.7
Na5i—O6—C7161.14 (11)C25—C24—H242110.3
O6—C7—N8123.10 (16)O23—C24—H241105.6
O6—C7—N15124.07 (15)C25—C24—H241108.4
N8—C7—N15112.83 (14)H242—C24—H241109.4
C7—N8—C9123.28 (16)C24—C25—O26107.30 (14)
C7—N8—H81114.7 (18)C24—C25—H252113.3
C9—N8—H81121.2 (18)O26—C25—H252109.3
N8—C9—C10112.91 (16)C24—C25—H251108.9
N8—C9—H92108.2O26—C25—H251111.7
C10—C9—H92110.2H252—C25—H251106.4
N8—C9—H91106.4C25—O26—Na5118.39 (10)
C10—C9—H91110.2C25—O26—C27111.97 (13)
H92—C9—H91108.9Na5—O26—C27116.52 (10)
C9—C10—C11113.14 (16)O26—C27—C28108.37 (13)
C9—C10—H102109.7O26—C27—H272109.0
C11—C10—H102109.3C28—C27—H272110.5
C9—C10—H101109.7O26—C27—H271109.7
C11—C10—H101108.4C28—C27—H271110.2
H102—C10—H101106.3H272—C27—H271109.0
C10—C11—C12112.71 (16)C27—C28—O29107.72 (13)
C10—C11—H112109.9C27—C28—H282111.4
C12—C11—H112109.3O29—C28—H282110.2
C10—C11—H111108.1C27—C28—H281109.9
C12—C11—H111110.2O29—C28—H281110.0
H112—C11—H111106.5H282—C28—H281107.6
C11—C12—C13114.65 (17)C28—O29—Na5106.07 (9)
C11—C12—H122109.0C28—O29—C30112.59 (12)
C13—C12—H122108.9Na5—O29—C30106.28 (9)
C11—C12—H121107.3O29—C30—C31108.55 (12)
C13—C12—H121109.3O29—C30—H302109.4
H122—C12—H121107.4C31—C30—H302109.7
C12—C13—C14113.81 (17)O29—C30—H301109.2
C12—C13—H132108.7C31—C30—H301108.5
C14—C13—H132108.2H302—C30—H301111.3
C12—C13—H131109.8C30—C31—O32106.77 (12)
C14—C13—H131107.7C30—C31—H311111.4
H132—C13—H131108.4O32—C31—H311109.9
C13—C14—H143112.0C30—C31—H312110.3
C13—C14—H142111.2O32—C31—H312109.9
H143—C14—H142108.0H311—C31—H312108.6
C13—C14—H141109.7C31—O32—Na5122.13 (9)
H143—C14—H141108.0C31—O32—C33115.81 (11)
H142—C14—H141107.8Na5—O32—C33115.59 (9)
C7—N15—C16128.58 (14)C19—C33—O32116.18 (14)
C7—N15—H151117.3 (17)C19—C33—C34121.49 (13)
C16—N15—H151113.8 (17)O32—C33—C34122.31 (13)
N15—C16—C17116.26 (14)C16—C34—C33119.62 (14)
N15—C16—C34124.69 (15)C16—C34—H341121.0
C17—C16—C34119.04 (15)C33—C34—H341119.3
C16—C17—C18120.72 (14)Na5—N35—N36143.11 (14)
C16—C17—H171119.2N35—N36—N37178.08 (19)
D—H···AD—HH···AD···AD—H···A
C2—H21···O230.962.463.244 (3)138
C2—H21···N350.962.583.320 (3)134
N8—H81···N37ii0.83 (2)2.39 (3)3.156 (3)154 (2)
N15—H151···N37ii0.86 (2)2.03 (2)2.872 (3)166 (2)
C31—H311···O29iii0.972.563.479 (3)159
C28—H281···Cgiii0.992.793.507 (2)131
Table 1

Hydrogen-bond geometry (Å, °)

Cg is the centroid of the C16–C19/C33/C34 ring.

D—H⋯AD—HH⋯ADAD—H⋯A
C2—H21⋯O230.962.463.244 (3)138
C2—H21⋯N350.962.583.320 (3)134
N8—H81⋯N37i0.83 (2)2.39 (3)3.156 (3)154 (2)
N15—H151⋯N37i0.86 (2)2.03 (2)2.872 (3)166 (2)
C31—H311⋯O29ii0.972.563.479 (3)159
C28—H281⋯Cgii0.992.793.507 (2)131

Symmetry codes: (i) ; (ii) .

  4 in total

1.  Unexpected structural diversity in alkali metal azide-crown ether complexes: syntheses, X-ray structures, and quantum-chemical calculations.

Authors:  Michael D Brown; John M Dyke; Francesco Ferrante; William Levason; J Steven Ogden; Michael Webster
Journal:  Chemistry       Date:  2006-03-08       Impact factor: 5.236

2.  Dynamic hybrid materials for constitutional self-instructed membranes.

Authors:  Adinela Cazacu; Yves-Marie Legrand; Andreea Pasc; Gihane Nasr; Arie Van der Lee; Eugene Mahon; Mihail Barboiu
Journal:  Proc Natl Acad Sci U S A       Date:  2009-04-29       Impact factor: 11.205

3.  Columnar self-assembled ureido crown ethers: an example of ion-channel organization in lipid bilayers.

Authors:  Adinela Cazacu; Christine Tong; Arie van der Lee; Thomas M Fyles; Mihail Barboiu
Journal:  J Am Chem Soc       Date:  2006-07-26       Impact factor: 15.419

4.  Synthesis, structures and DFT calculations on alkaline-Earth metal azide-crown ether complexes.

Authors:  Michael D Brown; Martin F Davis; John M Dyke; Francesco Ferrante; William Levason; J Steven Ogden; Michael Webster
Journal:  Chemistry       Date:  2008       Impact factor: 5.236

  4 in total

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