Literature DB >> 26870565

Crystal structure of 4,4'-[(1,3,5,7-tetra-oxo-1,3,3a,4,4a,5,7,7a,8,8a-deca-hydro-4,8-etheno-pyrrolo-[3,4-f]iso-indole-2,6-di-yl)bis-(methyl-ene)]bis-(pyridin-1-ium) dinitrate.

Zhimin Liu1.   

Abstract

In the title salt, C24H22N4O4 (2+)·2NO3 (-), the cation is U-shaped with the two iso-indole dione rings inclined to one another by 60.41 (13)°, while the two outer pyridine rings are inclined to one another by 2.77 (12)°. The dihedral angles between the pyridine ring and the adjacent iso-indole dione ring are 71.82 (12) and 86.44 (13)°. In the crystal, each nitrate anion is linked to a protonated pyridine ring by N-H⋯O hydrogen bonds. These units are linked by a series of C-H⋯O hydrogen bonds, forming a three-dimensional structure.

Entities:  

Keywords:  N—H⋯O hydrogen bonds; crystal structure; iso­indole; nitrate(V) salt; pyridinium; pyrrolo; salt

Year:  2015        PMID: 26870565      PMCID: PMC4719937          DOI: 10.1107/S2056989015022227

Source DB:  PubMed          Journal:  Acta Crystallogr E Crystallogr Commun


Related literature

For the crystal structures of compounds with similar ligands, see: Yu et al. (2012 ▸); Li et al. (2011 ▸, 2012a ▸,b ▸). For the synthetic method used to prepare 2,6-bis­(pyridin-4-ylmeth­yl)-3a,4,4a,7a,8,8a-hexa­hydro-4,8-etheno­pyrrolo­[3,4-f]iso­indole-1,3,5,7(2H,6H)-tetra­one, see: Liu et al. (2007 ▸).

Experimental

Crystal data

C24H22N4O4 2+·2NO3 − M = 554.48 Monoclinic, a = 13.0706 (6) Å b = 14.3587 (5) Å c = 12.9893 (5) Å β = 104.861 (4)° V = 2356.25 (16) Å3 Z = 4 Mo Kα radiation μ = 0.12 mm−1 T = 153 K 0.30 × 0.25 × 0.20 mm

Data collection

Bruker MWPC diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2004 ▸) T min = 0.963, T max = 0.976 13323 measured reflections 4555 independent reflections 2623 reflections with I > 2σ(I) R int = 0.031

Refinement

R[F 2 > 2σ(F 2)] = 0.043 wR(F 2) = 0.146 S = 1.00 4555 reflections 361 parameters 8 restraints H-atom parameters constrained Δρmax = 0.23 e Å−3 Δρmin = −0.28 e Å−3

Data collection: FRAMBO (Bruker, 2004 ▸); cell refinement: FRAMBO and SAINT (Bruker, 2004 ▸); data reduction: SAINT (Bruker, 2004 ▸); 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: SHELXTL. Crystal structure: contains datablock(s) I, New_Global_Publ_Block. DOI: 10.1107/S2056989015022227/su5240sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S2056989015022227/su5240Isup2.hkl Click here for additional data file. Supporting information file. DOI: 10.1107/S2056989015022227/su5240Isup3.cml Click here for additional data file. . DOI: 10.1107/S2056989015022227/su5240fig1.tif The mol­ecular structure of the title salt, with atom labelling. Displacement ellipsoids are drawn at the 30% probability level. Click here for additional data file. c . DOI: 10.1107/S2056989015022227/su5240fig2.tif Crystal packing of the title salt, viewed along the c axis. hydrogen bonds are shown as dashed lines (see Table 1). CCDC reference: 1434635 Additional supporting information: crystallographic information; 3D view; checkCIF report
C24H22N4O42+·2NO3F(000) = 1152
Mr = 554.48Dx = 1.563 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 4348 reflections
a = 13.0706 (6) Åθ = 2.8–29.7°
b = 14.3587 (5) ŵ = 0.12 mm1
c = 12.9893 (5) ÅT = 153 K
β = 104.861 (4)°Block, yellow
V = 2356.25 (16) Å30.30 × 0.25 × 0.20 mm
Z = 4
Bruker MWPC diffractometer4555 independent reflections
Radiation source: fine-focus sealed tube2623 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.031
Detector resolution: 16.08 pixels mm-1θmax = 26.0°, θmin = 2.8°
phi and ω scansh = −16→12
Absorption correction: multi-scan (SADABS; Bruker, 2004)k = −17→17
Tmin = 0.963, Tmax = 0.976l = −15→16
13323 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)] = 0.043Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.146H-atom parameters constrained
S = 1.00w = 1/[σ2(Fo2) + (0.0861P)2] where P = (Fo2 + 2Fc2)/3
4555 reflections(Δ/σ)max < 0.001
361 parametersΔρmax = 0.23 e Å3
8 restraintsΔρmin = −0.28 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
O10.50387 (14)0.20676 (12)0.21910 (13)0.0393 (5)
O30.28425 (13)0.55976 (12)0.17390 (13)0.0359 (4)
O40.11752 (14)0.46314 (12)0.42145 (14)0.0405 (5)
N60.70026 (17)0.29400 (14)0.54704 (17)0.0345 (5)
O20.38605 (14)0.12774 (12)0.50720 (13)0.0383 (4)
N30.18131 (15)0.52033 (12)0.28596 (15)0.0274 (5)
N4−0.16669 (16)0.40594 (14)0.05847 (16)0.0330 (5)
H4A−0.21960.37250.02560.040*
O100.75841 (16)0.28012 (13)0.63718 (15)0.0479 (5)
C70.47472 (18)0.21943 (16)0.29881 (19)0.0288 (5)
N20.44842 (15)0.14774 (12)0.36012 (15)0.0273 (5)
O90.68040 (16)0.22794 (12)0.48063 (15)0.0507 (5)
C20−0.00046 (18)0.51242 (16)0.16821 (19)0.0281 (5)
C140.37646 (18)0.37073 (15)0.26654 (17)0.0256 (5)
H14A0.40470.38760.20610.031*
C150.35286 (18)0.45870 (16)0.32628 (17)0.0265 (5)
H15A0.41820.49320.35730.032*
O80.66218 (15)0.37204 (12)0.52061 (15)0.0505 (5)
C30.36003 (19)0.00449 (16)0.27263 (18)0.0292 (6)
C23−0.0807 (2)0.36424 (18)0.1159 (2)0.0365 (6)
H23A−0.07730.29960.11850.044*
C100.41200 (19)0.17942 (17)0.44436 (18)0.0282 (5)
C90.40865 (18)0.28479 (15)0.44104 (18)0.0264 (5)
H9A0.45140.31090.50800.032*
C40.2756 (2)0.05567 (19)0.21382 (19)0.0345 (6)
H4B0.27800.12040.21610.041*
C60.46021 (19)0.04991 (15)0.3381 (2)0.0307 (6)
H6A0.48350.01690.40520.037*
H6B0.51510.04350.30050.037*
C110.2933 (2)0.32076 (15)0.41775 (19)0.0297 (6)
H11A0.25860.30000.47230.036*
C180.29907 (18)0.42838 (14)0.41363 (17)0.0246 (5)
H18A0.33790.45310.48300.030*
C20.3535 (2)−0.09187 (16)0.2683 (2)0.0348 (6)
H2A0.4078−0.12810.30920.042*
C130.27571 (19)0.31613 (15)0.23084 (19)0.0295 (6)
H13A0.24490.30260.15960.035*
C170.1902 (2)0.47097 (15)0.37992 (19)0.0305 (6)
C21−0.09112 (18)0.55362 (17)0.10493 (19)0.0326 (6)
H21A−0.09600.61810.09970.039*
C80.45595 (18)0.31102 (16)0.34811 (18)0.0262 (5)
H8A0.52280.34460.37440.031*
N10.18676 (18)−0.08144 (16)0.14709 (18)0.0438 (6)
H1A0.1327−0.10850.10620.053*
C160.27339 (19)0.51993 (16)0.2524 (2)0.0295 (5)
C120.23399 (18)0.28860 (15)0.30875 (19)0.0305 (6)
H12A0.17310.25240.29680.037*
C240.0034 (2)0.41598 (17)0.1715 (2)0.0393 (7)
H24A0.06360.38620.21190.047*
C50.1890 (2)0.01172 (19)0.1526 (2)0.0392 (6)
H5A0.13150.04630.11460.047*
C190.08681 (19)0.57240 (16)0.2337 (2)0.0316 (6)
H19A0.10560.61910.18790.038*
H19B0.06060.60460.28750.038*
C22−0.1736 (2)0.49923 (17)0.0501 (2)0.0365 (6)
H22A−0.23410.52680.00740.044*
C10.2658 (2)−0.1332 (2)0.2030 (2)0.0454 (7)
H1B0.2618−0.19770.19790.055*
N50.01934 (18)0.21064 (14)0.97829 (19)0.0381 (5)
O7−0.03711 (16)0.15681 (13)1.01790 (16)0.0491 (5)
O6−0.01019 (17)0.23019 (13)0.88230 (16)0.0542 (6)
O50.10141 (15)0.24289 (15)1.03608 (17)0.0569 (6)
U11U22U33U12U13U23
O10.0449 (11)0.0410 (10)0.0353 (10)0.0081 (9)0.0161 (9)0.0021 (8)
O30.0375 (10)0.0340 (9)0.0353 (10)0.0000 (8)0.0075 (8)0.0069 (8)
O40.0428 (11)0.0357 (10)0.0486 (11)0.0037 (9)0.0220 (9)−0.0010 (9)
N60.0299 (12)0.0288 (11)0.0384 (13)−0.0005 (10)−0.0030 (10)−0.0065 (10)
O20.0471 (11)0.0318 (9)0.0365 (10)0.0004 (9)0.0115 (9)0.0056 (8)
N30.0234 (11)0.0213 (10)0.0335 (11)−0.0013 (8)0.0002 (8)0.0004 (9)
N40.0269 (11)0.0307 (11)0.0383 (12)−0.0027 (9)0.0028 (10)−0.0045 (10)
O100.0567 (13)0.0399 (11)0.0374 (11)0.0075 (10)−0.0058 (10)−0.0023 (9)
C70.0241 (13)0.0294 (13)0.0296 (13)0.0005 (11)0.0009 (11)0.0015 (11)
N20.0266 (11)0.0220 (10)0.0308 (11)−0.0004 (8)0.0025 (9)−0.0005 (8)
O90.0549 (13)0.0311 (10)0.0512 (12)0.0098 (9)−0.0139 (10)−0.0130 (9)
C200.0240 (13)0.0282 (13)0.0323 (13)0.0001 (10)0.0073 (10)−0.0018 (11)
C140.0291 (13)0.0238 (11)0.0235 (12)−0.0006 (10)0.0059 (10)−0.0016 (10)
C150.0224 (12)0.0247 (11)0.0279 (12)−0.0040 (9)−0.0014 (9)0.0011 (10)
O80.0499 (12)0.0259 (10)0.0589 (13)0.0104 (9)−0.0169 (10)−0.0041 (9)
C30.0328 (14)0.0267 (12)0.0293 (13)−0.0033 (11)0.0101 (11)−0.0057 (11)
C230.0309 (15)0.0273 (13)0.0459 (16)0.0012 (11)−0.0001 (12)−0.0039 (12)
C100.0266 (13)0.0311 (13)0.0245 (13)0.0029 (11)0.0022 (11)0.0040 (11)
C90.0302 (14)0.0238 (12)0.0242 (12)−0.0007 (10)0.0051 (10)−0.0001 (10)
C40.0341 (15)0.0364 (14)0.0313 (14)−0.0014 (12)0.0051 (12)−0.0025 (11)
C60.0338 (15)0.0209 (12)0.0356 (14)0.0036 (11)0.0055 (11)−0.0013 (11)
C110.0367 (15)0.0221 (11)0.0314 (14)0.0030 (11)0.0108 (11)0.0025 (10)
C180.0288 (13)0.0192 (11)0.0220 (12)−0.0012 (10)−0.0005 (10)−0.0017 (9)
C20.0405 (16)0.0255 (13)0.0420 (15)−0.0034 (12)0.0171 (13)−0.0030 (12)
C130.0311 (14)0.0234 (12)0.0295 (13)0.0035 (10)−0.0004 (11)−0.0051 (10)
C170.0372 (15)0.0212 (12)0.0322 (13)−0.0012 (11)0.0074 (11)−0.0024 (10)
C210.0309 (15)0.0276 (13)0.0366 (14)−0.0014 (11)0.0038 (12)−0.0008 (11)
C80.0249 (13)0.0258 (12)0.0261 (12)−0.0008 (10)0.0034 (10)0.0027 (10)
N10.0359 (13)0.0504 (15)0.0446 (14)−0.0157 (11)0.0093 (11)−0.0168 (11)
C160.0328 (14)0.0235 (12)0.0317 (14)−0.0019 (11)0.0073 (11)−0.0012 (11)
C120.0221 (13)0.0216 (12)0.0451 (15)0.0014 (10)0.0037 (11)−0.0016 (11)
C240.0296 (15)0.0277 (14)0.0526 (17)0.0059 (11)−0.0038 (12)−0.0004 (12)
C50.0379 (16)0.0446 (16)0.0337 (15)−0.0001 (13)0.0068 (12)−0.0047 (12)
C190.0317 (14)0.0198 (12)0.0406 (14)0.0018 (10)0.0042 (11)0.0007 (10)
C220.0303 (15)0.0339 (14)0.0400 (15)0.0069 (12)−0.0005 (12)0.0008 (12)
C10.0553 (19)0.0345 (15)0.0539 (18)−0.0135 (14)0.0276 (15)−0.0112 (13)
N50.0361 (13)0.0255 (11)0.0519 (15)−0.0037 (10)0.0099 (11)−0.0078 (11)
O70.0555 (13)0.0414 (11)0.0542 (12)−0.0158 (10)0.0212 (10)−0.0075 (9)
O60.0622 (14)0.0435 (12)0.0481 (13)−0.0046 (10)−0.0016 (11)0.0059 (10)
O50.0337 (12)0.0590 (13)0.0703 (14)−0.0121 (10)−0.0004 (10)−0.0196 (11)
O1—C71.205 (3)C9—C81.537 (3)
O3—C161.209 (3)C9—C111.549 (3)
O4—C171.212 (3)C9—H9A0.9800
N6—O101.238 (3)C4—C51.360 (3)
N6—O81.238 (3)C4—H4B0.9300
N6—O91.263 (2)C6—H6A0.9700
O2—C101.214 (3)C6—H6B0.9700
N3—C161.381 (3)C11—C121.502 (3)
N3—C171.390 (3)C11—C181.549 (3)
N3—C191.454 (3)C11—H11A0.9800
N4—C231.322 (3)C18—C171.507 (3)
N4—C221.345 (3)C18—H18A0.9800
N4—H4A0.8600C2—C11.373 (4)
C7—N21.397 (3)C2—H2A0.9300
C7—C81.510 (3)C13—C121.327 (3)
N2—C101.378 (3)C13—H13A0.9300
N2—C61.450 (3)C21—C221.373 (3)
C20—C241.386 (3)C21—H21A0.9300
C20—C211.389 (3)C8—H8A0.9800
C20—C191.506 (3)N1—C11.328 (4)
C14—C131.500 (3)N1—C51.339 (3)
C14—C81.540 (3)N1—H1A0.8600
C14—C151.554 (3)C12—H12A0.9300
C14—H14A0.9800C24—H24A0.9300
C15—C161.504 (3)C5—H5A0.9300
C15—C181.543 (3)C19—H19A0.9700
C15—H15A0.9800C19—H19B0.9700
C3—C41.382 (3)C22—H22A0.9300
C3—C21.387 (3)C1—H1B0.9300
C3—C61.514 (3)N5—O51.231 (3)
C23—C241.369 (3)N5—O61.239 (3)
C23—H23A0.9300N5—O71.265 (3)
C10—C91.514 (3)
O10—N6—O8120.9 (2)C12—C11—H11A111.4
O10—N6—O9119.6 (2)C9—C11—H11A111.4
O8—N6—O9119.5 (2)C18—C11—H11A111.4
C16—N3—C17113.1 (2)C17—C18—C15104.26 (18)
C16—N3—C19124.03 (19)C17—C18—C11111.34 (19)
C17—N3—C19122.77 (19)C15—C18—C11110.03 (18)
C23—N4—C22121.7 (2)C17—C18—H18A110.4
C23—N4—H4A119.1C15—C18—H18A110.4
C22—N4—H4A119.1C11—C18—H18A110.4
O1—C7—N2123.8 (2)C1—C2—C3119.3 (3)
O1—C7—C8128.1 (2)C1—C2—H2A120.4
N2—C7—C8108.02 (18)C3—C2—H2A120.4
C10—N2—C7113.26 (19)C12—C13—C14114.8 (2)
C10—N2—C6123.56 (19)C12—C13—H13A122.6
C7—N2—C6123.17 (19)C14—C13—H13A122.6
C24—C20—C21117.6 (2)O4—C17—N3122.7 (2)
C24—C20—C19122.5 (2)O4—C17—C18128.5 (2)
C21—C20—C19119.9 (2)N3—C17—C18108.77 (19)
C13—C14—C8107.79 (18)C22—C21—C20120.1 (2)
C13—C14—C15107.95 (18)C22—C21—H21A119.9
C8—C14—C15107.11 (17)C20—C21—H21A119.9
C13—C14—H14A111.3C7—C8—C9105.16 (18)
C8—C14—H14A111.3C7—C8—C14110.32 (19)
C15—C14—H14A111.3C9—C8—C14109.90 (18)
C16—C15—C18105.29 (18)C7—C8—H8A110.4
C16—C15—C14110.47 (18)C9—C8—H8A110.4
C18—C15—C14108.91 (17)C14—C8—H8A110.4
C16—C15—H15A110.7C1—N1—C5121.7 (2)
C18—C15—H15A110.7C1—N1—H1A119.1
C14—C15—H15A110.7C5—N1—H1A119.1
C4—C3—C2118.4 (2)O3—C16—N3124.4 (2)
C4—C3—C6122.3 (2)O3—C16—C15127.1 (2)
C2—C3—C6119.2 (2)N3—C16—C15108.45 (19)
N4—C23—C24120.2 (2)C13—C12—C11114.4 (2)
N4—C23—H23A119.9C13—C12—H12A122.8
C24—C23—H23A119.9C11—C12—H12A122.8
O2—C10—N2123.0 (2)C23—C24—C20120.5 (2)
O2—C10—C9128.2 (2)C23—C24—H24A119.7
N2—C10—C9108.71 (19)C20—C24—H24A119.7
C10—C9—C8104.63 (18)N1—C5—C4119.9 (3)
C10—C9—C11111.01 (19)N1—C5—H5A120.1
C8—C9—C11109.41 (18)C4—C5—H5A120.1
C10—C9—H9A110.5N3—C19—C20113.52 (19)
C8—C9—H9A110.5N3—C19—H19A108.9
C11—C9—H9A110.5C20—C19—H19A108.9
C5—C4—C3120.2 (2)N3—C19—H19B108.9
C5—C4—H4B119.9C20—C19—H19B108.9
C3—C4—H4B119.9H19A—C19—H19B107.7
N2—C6—C3114.1 (2)N4—C22—C21119.8 (2)
N2—C6—H6A108.7N4—C22—H22A120.1
C3—C6—H6A108.7C21—C22—H22A120.1
N2—C6—H6B108.7N1—C1—C2120.4 (3)
C3—C6—H6B108.7N1—C1—H1B119.8
H6A—C6—H6B107.6C2—C1—H1B119.8
C12—C11—C9108.83 (18)O5—N5—O6121.7 (2)
C12—C11—C18106.99 (19)O5—N5—O7119.3 (2)
C9—C11—C18106.61 (19)O6—N5—O7118.9 (2)
D—H···AD—HH···AD···AD—H···A
N1—H1A···O6i0.862.403.096 (3)138
N1—H1A···O7i0.861.902.728 (3)161
N4—H4A···O9ii0.861.932.771 (3)164
C6—H6B···O3iii0.972.573.386 (3)142
C8—H8A···O80.982.303.155 (3)145
C11—H11A···O5iv0.982.483.386 (3)153
C13—H13A···O5v0.932.303.121 (3)147
C14—H14A···O2iv0.982.543.403 (3)147
C19—H19A···O6vi0.972.553.246 (3)129
C21—H21A···O6vi0.932.563.362 (3)145
C22—H22A···O2vii0.932.433.257 (3)149
C23—H23A···O7v0.932.563.345 (3)143
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
N1—H1A⋯O6i 0.862.403.096 (3)138
N1—H1A⋯O7i 0.861.902.728 (3)161
N4—H4A⋯O9ii 0.861.932.771 (3)164
C6—H6B⋯O3iii 0.972.573.386 (3)142
C8—H8A⋯O80.982.303.155 (3)145
C11—H11A⋯O5iv 0.982.483.386 (3)153
C13—H13A⋯O5v 0.932.303.121 (3)147
C14—H14A⋯O2iv 0.982.543.403 (3)147
C19—H19A⋯O6vi 0.972.553.246 (3)129
C21—H21A⋯O6vi 0.932.563.362 (3)145
C22—H22A⋯O2vii 0.932.433.257 (3)149
C23—H23A⋯O7v 0.932.563.345 (3)143

Symmetry codes: (i) ; (ii) ; (iii) ; (iv) ; (v) ; (vi) ; (vii) .

  3 in total

1.  Assembly of trigonal and tetragonal prismatic cages from octahedral metal ions and a flexible molecular clip.

Authors:  Zhi-Min Liu; Yu Liu; Sheng-Run Zheng; Zhi-Quan Yu; Mei Pan; Cheng-Yong Su
Journal:  Inorg Chem       Date:  2007-01-26       Impact factor: 5.165

2.  A short history of SHELX.

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

3.  Construction of 0D to 3D cadmium complexes from different pyridyl diimide ligands.

Authors:  Guo-Bi Li; Jian-Rong He; Mei Pan; Hai-Ying Deng; Jun-Min Liu; Cheng-Yong Su
Journal:  Dalton Trans       Date:  2012-02-29       Impact factor: 4.390

  3 in total

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