Structural and theoretical studies of four novel 5,6-dehydronorcantharidine (DNCA)/norcantharidine (NCA) derivatives, namely (3aR,4S,7R,7aS)-2-phenyl-3a,4,7,7a-tetrahydro-4,7-epoxy-1H-isoindole-1,3(2H)-dione, C14H11NO3 (DNCA-A), (3aR,4S,7R,7aS)-2-(4-nitrophenyl)-3a,4,7,7a-tetrahydro-4,7-epoxy-1H-isoindole-1,3(2H)-dione, C14H10N2O5 (DNCA-NA), (3aR,4S,7R,7aS)-2-(4-nitrophenyl)-3a,4,5,6,7,7a-hexahydro-1H-4,7-epoxyisoindole-1,3(2H)-dione, C14H12N2O5 (NCA-NA), and (3aR,4S,7R,7aS)-2-(2-hydroxyethyl)-3a,4,5,6,7,7a-hexahydro-1H-4,7-epoxyisoindole-1,3(2H)-dione, C10H13NO4 (NCA-AE), are reported. The supramolecular interactions and single-crystal structural characteristics of these molecules, together with the crystal structures of four other similar molecules, i.e. NCA-A (the 4-phenyl derivative of NCA-NA), DNCA-AE (the 5,6-unsaturated derivative of NCA-AE), DNCA and NCA, were analysed. Surprisingly, DNCA-A and NCA-A, as well as DNCA–NA and NCA-NA, proved to be isomorphic, while DNCA-AE and NCA-AE, as well as DNCA and NCA, have very different crystal structures. These are very rare isostructural examples between unsaturated and saturated oxanorbornene/oxanorbornane derivatives. To further explore how noncovalent interactions (NCIs) affect the degree of isomorphism in this particular series of rigid molecules where there is a fairly limited conformational degree of freedom, all four pairs of crystal structures were analyzed in parallel. The differentiation in NCIs which entails the packing mode of similar molecules is supported by energy calculations based on real or exchanged crystal structures. Our results show that minor structural differences may result in very different supramolecular interactions, and so lead to altered packing modes in the crystalline solids. Even if isostructurality sometimes occurs, the possibility of various molecular packing types cannot be ruled out. On the other hand, isomorphism may just be the result of kinetic possibilities instead of relative thermodynamic stabilities. Though crystal structure prediction is formidable, the comparison method based on existing crystal structures and quantum calculations can be used to predict the probability of isomorphism. This understanding will help us to design new norbornene derivatives with specified structures.
Supporting information
CCDC references: 1969302; 1969301; 1969300; 1969299
For all structures, data collection: SMART (Bruker, 2000); cell refinement: SMART (Bruker, 2000); data reduction: SAINT (Bruker, 2000); program(s) used to solve structure: SHELXT (Sheldrick, 2015a); program(s) used to refine structure: SHELXL2016 (Sheldrick, 2015b); molecular graphics: SHELXTL (Bruker, 2000), PLATON (Spek, 2009), WinGX2014 (Farrugia, 2012), DIAMOND (Brandenburg & Putz, 1999) and Mercury (Macrae et al., 2008); software used to prepare material for publication: SHELXL2016 (Sheldrick, 2015b).
\
(3a
R,4
S,7
R,7a
S)-2-Phenyl-3a,4,7,7a-\
tetrahydro-4,7-epoxy-1
H-isoindole-1,3(2
H)-dione (DNCA-A)
top
Crystal data top
C14H11NO3 | F(000) = 504 |
Mr = 241.24 | Dx = 1.428 Mg m−3 |
Monoclinic, P21/c | Mo Kα radiation, λ = 0.71073 Å |
a = 9.419 (4) Å | Cell parameters from 380 reflections |
b = 8.322 (3) Å | θ = 2.5–26.0° |
c = 14.342 (6) Å | µ = 0.10 mm−1 |
β = 93.612 (6)° | T = 298 K |
V = 1121.9 (8) Å3 | Block, colorless |
Z = 4 | 0.37 × 0.31 × 0.20 mm |
Data collection top
Bruker SMART CCD area detector diffractometer | 2498 independent reflections |
Radiation source: fine-focus sealed tube | 1620 reflections with I > 2σ(I) |
Detector resolution: 10.13 pixels mm-1 | Rint = 0.056 |
phi and ω scans | θmax = 27.5°, θmin = 2.2° |
Absorption correction: multi-scan (SADABS; Bruker, 2000) | h = −11→12 |
Tmin = 0.976, Tmax = 0.991 | k = −10→10 |
6354 measured reflections | l = −17→18 |
Refinement top
Refinement on F2 | 0 restraints |
Least-squares matrix: full | Hydrogen site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.052 | All H-atom parameters refined |
wR(F2) = 0.119 | w = 1/[σ2(Fo2) + (0.0598P)2] where P = (Fo2 + 2Fc2)/3 |
S = 0.92 | (Δ/σ)max < 0.001 |
2498 reflections | Δρmax = 0.22 e Å−3 |
207 parameters | Δρmin = −0.37 e Å−3 |
Special details top
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. |
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top | x | y | z | Uiso*/Ueq | |
C1 | 1.2306 (2) | 0.1220 (2) | 0.88484 (14) | 0.0432 (5) | |
C2 | 1.14269 (19) | 0.2622 (2) | 0.83934 (12) | 0.0364 (4) | |
C3 | 1.06189 (19) | 0.3229 (2) | 0.92097 (12) | 0.0373 (5) | |
C4 | 1.1133 (2) | 0.2008 (2) | 0.99827 (13) | 0.0432 (5) | |
C5 | 1.2662 (2) | 0.2435 (3) | 1.02428 (15) | 0.0509 (5) | |
C6 | 1.3382 (2) | 0.1953 (3) | 0.95473 (15) | 0.0495 (5) | |
C7 | 1.03048 (19) | 0.1956 (2) | 0.77127 (12) | 0.0380 (4) | |
C8 | 0.90755 (19) | 0.3013 (2) | 0.89211 (12) | 0.0369 (4) | |
C9 | 0.76820 (18) | 0.1594 (2) | 0.76295 (12) | 0.0348 (4) | |
C10 | 0.7349 (2) | 0.1809 (2) | 0.66837 (13) | 0.0404 (5) | |
C11 | 0.6142 (2) | 0.1096 (3) | 0.62805 (15) | 0.0490 (5) | |
C12 | 0.5270 (2) | 0.0191 (3) | 0.68042 (16) | 0.0532 (6) | |
C13 | 0.5606 (2) | −0.0009 (3) | 0.77439 (17) | 0.0524 (6) | |
C14 | 0.6814 (2) | 0.0693 (2) | 0.81635 (15) | 0.0431 (5) | |
N1 | 0.89732 (15) | 0.22295 (18) | 0.80558 (9) | 0.0359 (4) | |
O1 | 1.12796 (14) | 0.05692 (15) | 0.94413 (9) | 0.0466 (4) | |
O2 | 1.04890 (14) | 0.12507 (19) | 0.69955 (9) | 0.0559 (4) | |
O3 | 0.80753 (14) | 0.34008 (17) | 0.93462 (9) | 0.0527 (4) | |
H1 | 1.2612 (19) | 0.040 (2) | 0.8401 (12) | 0.045 (5)* | |
H2 | 1.1997 (18) | 0.341 (2) | 0.8103 (11) | 0.032 (5)* | |
H3 | 1.0782 (18) | 0.430 (2) | 0.9383 (12) | 0.042 (5)* | |
H4 | 1.0499 (19) | 0.187 (2) | 1.0489 (13) | 0.045 (5)* | |
H5 | 1.293 (2) | 0.305 (3) | 1.0770 (16) | 0.076 (8)* | |
H6 | 1.440 (2) | 0.210 (3) | 0.9424 (14) | 0.063 (6)* | |
H10 | 0.7988 (19) | 0.244 (2) | 0.6321 (12) | 0.043 (5)* | |
H11 | 0.594 (2) | 0.118 (3) | 0.5633 (15) | 0.057 (6)* | |
H12 | 0.443 (3) | −0.036 (3) | 0.6498 (15) | 0.071 (7)* | |
H13 | 0.497 (2) | −0.065 (3) | 0.8105 (13) | 0.056 (6)* | |
H14 | 0.706 (2) | 0.057 (2) | 0.8824 (14) | 0.055 (6)* | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
C1 | 0.0384 (11) | 0.0388 (11) | 0.0525 (12) | −0.0012 (9) | 0.0045 (9) | −0.0031 (10) |
C2 | 0.0380 (10) | 0.0349 (10) | 0.0365 (10) | −0.0066 (8) | 0.0032 (8) | 0.0002 (8) |
C3 | 0.0435 (11) | 0.0301 (11) | 0.0380 (10) | −0.0022 (8) | −0.0004 (8) | −0.0064 (8) |
C4 | 0.0465 (12) | 0.0472 (12) | 0.0358 (10) | −0.0047 (9) | 0.0018 (9) | 0.0008 (9) |
C5 | 0.0542 (13) | 0.0528 (14) | 0.0439 (12) | −0.0076 (11) | −0.0116 (10) | 0.0040 (11) |
C6 | 0.0402 (12) | 0.0519 (13) | 0.0551 (13) | −0.0041 (10) | −0.0058 (10) | 0.0081 (10) |
C7 | 0.0407 (11) | 0.0401 (11) | 0.0336 (10) | −0.0031 (8) | 0.0053 (8) | −0.0024 (8) |
C8 | 0.0436 (11) | 0.0341 (10) | 0.0328 (9) | 0.0050 (8) | 0.0018 (8) | −0.0041 (8) |
C9 | 0.0340 (10) | 0.0313 (10) | 0.0387 (10) | 0.0037 (8) | 0.0003 (8) | −0.0048 (8) |
C10 | 0.0449 (11) | 0.0366 (11) | 0.0392 (11) | 0.0052 (9) | −0.0006 (9) | 0.0012 (8) |
C11 | 0.0469 (12) | 0.0507 (13) | 0.0470 (13) | 0.0110 (10) | −0.0163 (10) | −0.0055 (10) |
C12 | 0.0350 (11) | 0.0502 (13) | 0.0726 (15) | 0.0064 (10) | −0.0111 (11) | −0.0112 (12) |
C13 | 0.0397 (12) | 0.0456 (12) | 0.0727 (15) | −0.0011 (9) | 0.0089 (11) | 0.0015 (12) |
C14 | 0.0417 (11) | 0.0454 (12) | 0.0422 (12) | 0.0016 (9) | 0.0032 (9) | 0.0001 (9) |
N1 | 0.0364 (8) | 0.0391 (9) | 0.0322 (8) | −0.0008 (7) | 0.0023 (6) | −0.0066 (7) |
O1 | 0.0474 (8) | 0.0348 (8) | 0.0575 (8) | −0.0069 (6) | 0.0030 (6) | 0.0060 (6) |
O2 | 0.0486 (9) | 0.0772 (11) | 0.0426 (8) | −0.0045 (7) | 0.0074 (6) | −0.0219 (8) |
O3 | 0.0488 (9) | 0.0623 (10) | 0.0477 (8) | 0.0086 (7) | 0.0075 (7) | −0.0161 (7) |
Geometric parameters (Å, º) top
C1—O1 | 1.433 (2) | C7—O2 | 1.206 (2) |
C1—C6 | 1.509 (3) | C7—N1 | 1.394 (2) |
C1—C2 | 1.551 (3) | C8—O3 | 1.198 (2) |
C1—H1 | 0.990 (19) | C8—N1 | 1.400 (2) |
C2—C7 | 1.499 (3) | C9—C14 | 1.377 (3) |
C2—C3 | 1.522 (2) | C9—C10 | 1.384 (3) |
C2—H2 | 0.960 (18) | C9—N1 | 1.428 (2) |
C3—C8 | 1.497 (3) | C10—C11 | 1.377 (3) |
C3—C4 | 1.558 (3) | C10—H10 | 0.972 (19) |
C3—H3 | 0.93 (2) | C11—C12 | 1.372 (3) |
C4—O1 | 1.438 (2) | C11—H11 | 0.94 (2) |
C4—C5 | 1.507 (3) | C12—C13 | 1.375 (3) |
C4—H4 | 0.976 (17) | C12—H12 | 0.99 (2) |
C5—C6 | 1.304 (3) | C13—C14 | 1.383 (3) |
C5—H5 | 0.93 (2) | C13—H13 | 0.97 (2) |
C6—H6 | 0.99 (2) | C14—H14 | 0.97 (2) |
| | | |
O1—C1—C6 | 102.04 (16) | C1—C6—H6 | 123.0 (12) |
O1—C1—C2 | 99.89 (14) | O2—C7—N1 | 124.13 (17) |
C6—C1—C2 | 107.10 (17) | O2—C7—C2 | 127.00 (17) |
O1—C1—H1 | 111.1 (10) | N1—C7—C2 | 108.83 (15) |
C6—C1—H1 | 119.8 (11) | O3—C8—N1 | 124.35 (17) |
C2—C1—H1 | 114.5 (10) | O3—C8—C3 | 127.44 (17) |
C7—C2—C3 | 104.91 (15) | N1—C8—C3 | 108.20 (15) |
C7—C2—C1 | 109.36 (16) | C14—C9—C10 | 120.64 (18) |
C3—C2—C1 | 101.85 (15) | C14—C9—N1 | 118.88 (17) |
C7—C2—H2 | 111.2 (10) | C10—C9—N1 | 120.38 (16) |
C3—C2—H2 | 115.2 (10) | C11—C10—C9 | 119.0 (2) |
C1—C2—H2 | 113.6 (10) | C11—C10—H10 | 122.0 (10) |
C8—C3—C2 | 105.75 (15) | C9—C10—H10 | 119.0 (11) |
C8—C3—C4 | 111.81 (15) | C12—C11—C10 | 120.9 (2) |
C2—C3—C4 | 100.55 (15) | C12—C11—H11 | 119.1 (13) |
C8—C3—H3 | 109.2 (11) | C10—C11—H11 | 119.9 (13) |
C2—C3—H3 | 116.0 (11) | C11—C12—C13 | 119.6 (2) |
C4—C3—H3 | 113.1 (11) | C11—C12—H12 | 119.9 (12) |
O1—C4—C5 | 101.97 (16) | C13—C12—H12 | 120.4 (12) |
O1—C4—C3 | 101.23 (14) | C12—C13—C14 | 120.5 (2) |
C5—C4—C3 | 105.75 (16) | C12—C13—H13 | 118.4 (12) |
O1—C4—H4 | 112.7 (11) | C14—C13—H13 | 121.1 (12) |
C5—C4—H4 | 117.7 (11) | C9—C14—C13 | 119.3 (2) |
C3—C4—H4 | 115.5 (11) | C9—C14—H14 | 119.3 (12) |
C6—C5—C4 | 105.83 (19) | C13—C14—H14 | 121.4 (12) |
C6—C5—H5 | 131.1 (14) | C7—N1—C8 | 112.06 (15) |
C4—C5—H5 | 122.6 (14) | C7—N1—C9 | 123.31 (14) |
C5—C6—C1 | 105.82 (19) | C8—N1—C9 | 124.15 (14) |
C5—C6—H6 | 130.9 (12) | C1—O1—C4 | 95.56 (14) |
\
(3a
R,4
S,7
R,7a
S)-2-(4-Nitrophenyl)-3a,4,7,7a-\
tetrahydro-4,7-epoxy-1
H-isoindole-1,3(2
H)-dione (DNCA-NA)
top
Crystal data top
C14H10N2O5 | F(000) = 296 |
Mr = 286.24 | Dx = 1.481 Mg m−3 |
Monoclinic, P21 | Mo Kα radiation, λ = 0.71073 Å |
a = 5.285 (3) Å | Cell parameters from 380 reflections |
b = 18.418 (9) Å | θ = 2.5–26.0° |
c = 6.699 (3) Å | µ = 0.12 mm−1 |
β = 100.105 (7)° | T = 298 K |
V = 642.0 (6) Å3 | Block, colorless |
Z = 2 | 0.33 × 0.28 × 0.18 mm |
Data collection top
Bruker SMART CCD area detector diffractometer | 2191 independent reflections |
Radiation source: fine-focus sealed tube | 1541 reflections with I > 2σ(I) |
Detector resolution: 10.13 pixels mm-1 | Rint = 0.051 |
phi and ω scans | θmax = 27.5°, θmin = 2.2° |
Absorption correction: multi-scan (SADABS; Bruker, 2000) | h = −6→5 |
Tmin = 0.976, Tmax = 0.991 | k = −19→23 |
3815 measured reflections | l = −8→8 |
Refinement top
Refinement on F2 | Hydrogen site location: mixed |
Least-squares matrix: full | Only H-atom displacement parameters refined |
R[F2 > 2σ(F2)] = 0.067 | w = 1/[σ2(Fo2) + (0.102P)2] where P = (Fo2 + 2Fc2)/3 |
wR(F2) = 0.168 | (Δ/σ)max < 0.001 |
S = 0.97 | Δρmax = 0.32 e Å−3 |
2191 reflections | Δρmin = −0.36 e Å−3 |
224 parameters | Absolute structure: Flack x determined using 381 quotients [(I+)-(I-)]/[(I+)+(I-)]
(Parsons et al., 2013) |
1 restraint | Absolute structure parameter: 0.4 (10) |
Special details top
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. |
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top | x | y | z | Uiso*/Ueq | |
C1 | 0.3179 (11) | 0.3910 (3) | 0.0715 (10) | 0.0508 (14) | |
C2 | 0.5903 (10) | 0.4140 (3) | 0.0360 (8) | 0.0409 (12) | |
C3 | 0.5217 (9) | 0.4617 (3) | −0.1547 (7) | 0.0408 (11) | |
C4 | 0.2286 (10) | 0.4538 (3) | −0.2019 (8) | 0.0479 (12) | |
C5 | 0.1666 (11) | 0.3760 (3) | −0.2614 (10) | 0.0643 (17) | |
H5 | 0.102698 | 0.358733 | −0.390942 | 0.08 (2)* | |
C6 | 0.2202 (11) | 0.3377 (3) | −0.0959 (9) | 0.0568 (16) | |
H6 | 0.202080 | 0.287734 | −0.083342 | 0.059 (17)* | |
C7 | 0.7219 (9) | 0.4641 (3) | 0.1978 (8) | 0.0467 (12) | |
C8 | 0.6040 (9) | 0.5366 (3) | −0.0860 (7) | 0.0416 (11) | |
C9 | 0.8574 (9) | 0.5930 (3) | 0.2274 (7) | 0.0422 (12) | |
C10 | 0.7976 (11) | 0.6095 (3) | 0.4159 (8) | 0.0517 (14) | |
C11 | 0.9424 (13) | 0.6614 (3) | 0.5333 (10) | 0.0584 (16) | |
C12 | 1.1333 (12) | 0.6955 (3) | 0.4603 (10) | 0.0571 (15) | |
C13 | 1.1917 (12) | 0.6809 (3) | 0.2715 (11) | 0.0584 (15) | |
C14 | 1.0504 (11) | 0.6282 (3) | 0.1545 (9) | 0.0514 (13) | |
N1 | 0.7245 (8) | 0.5338 (2) | 0.1175 (6) | 0.0412 (9) | |
N2 | 1.2952 (15) | 0.7485 (3) | 0.5922 (13) | 0.087 (2) | |
O1 | 0.1724 (7) | 0.4551 (2) | 0.0023 (6) | 0.0528 (10) | |
O2 | 0.8097 (9) | 0.4487 (3) | 0.3704 (6) | 0.0730 (14) | |
O3 | 0.5735 (9) | 0.5923 (2) | −0.1820 (5) | 0.0628 (11) | |
O4 | 1.2474 (15) | 0.7575 (3) | 0.7650 (11) | 0.119 (3) | |
O5 | 1.4660 (14) | 0.7777 (4) | 0.5304 (12) | 0.120 (2) | |
H1 | 0.292 (11) | 0.382 (3) | 0.208 (10) | 0.053 (16)* | |
H2 | 0.684 (10) | 0.374 (3) | 0.030 (8) | 0.043 (15)* | |
H3 | 0.600 (9) | 0.450 (3) | −0.266 (7) | 0.027 (10)* | |
H4 | 0.149 (10) | 0.496 (3) | −0.284 (7) | 0.039 (13)* | |
H10 | 0.663 (12) | 0.585 (4) | 0.462 (9) | 0.055 (16)* | |
H11 | 0.886 (12) | 0.670 (3) | 0.644 (10) | 0.054 (17)* | |
H13 | 1.323 (13) | 0.701 (4) | 0.226 (9) | 0.061 (18)* | |
H14 | 1.108 (12) | 0.620 (3) | 0.029 (9) | 0.057 (17)* | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
C1 | 0.053 (3) | 0.050 (3) | 0.048 (3) | −0.005 (2) | 0.007 (3) | 0.004 (2) |
C2 | 0.043 (3) | 0.034 (3) | 0.042 (3) | 0.003 (2) | −0.003 (2) | 0.004 (2) |
C3 | 0.044 (3) | 0.047 (3) | 0.032 (2) | 0.004 (2) | 0.009 (2) | 0.001 (2) |
C4 | 0.048 (3) | 0.050 (3) | 0.041 (3) | 0.004 (2) | −0.004 (2) | 0.003 (3) |
C5 | 0.057 (3) | 0.061 (4) | 0.065 (4) | −0.005 (3) | −0.018 (3) | −0.011 (3) |
C6 | 0.050 (3) | 0.049 (3) | 0.065 (4) | −0.008 (2) | −0.009 (3) | 0.001 (3) |
C7 | 0.045 (3) | 0.051 (3) | 0.041 (3) | 0.005 (2) | −0.004 (2) | 0.006 (2) |
C8 | 0.041 (3) | 0.055 (3) | 0.030 (2) | 0.002 (2) | 0.0085 (19) | 0.005 (2) |
C9 | 0.045 (3) | 0.042 (3) | 0.037 (3) | 0.005 (2) | 0.001 (2) | 0.003 (2) |
C10 | 0.059 (3) | 0.055 (4) | 0.041 (3) | 0.001 (3) | 0.009 (3) | 0.004 (3) |
C11 | 0.077 (4) | 0.056 (4) | 0.041 (3) | 0.007 (3) | 0.007 (3) | −0.009 (3) |
C12 | 0.063 (4) | 0.041 (3) | 0.061 (4) | 0.005 (2) | −0.007 (3) | −0.008 (3) |
C13 | 0.059 (4) | 0.042 (3) | 0.074 (4) | −0.006 (3) | 0.010 (3) | 0.001 (3) |
C14 | 0.058 (3) | 0.051 (3) | 0.047 (3) | 0.000 (3) | 0.013 (3) | 0.001 (3) |
N1 | 0.046 (2) | 0.044 (2) | 0.0327 (19) | 0.0019 (18) | 0.0031 (17) | 0.0003 (19) |
N2 | 0.084 (4) | 0.054 (4) | 0.114 (6) | −0.001 (3) | −0.008 (4) | −0.020 (4) |
O1 | 0.046 (2) | 0.058 (2) | 0.056 (2) | 0.0049 (17) | 0.0126 (17) | 0.0003 (19) |
O2 | 0.101 (3) | 0.059 (3) | 0.046 (2) | −0.010 (2) | −0.024 (2) | 0.0123 (19) |
O3 | 0.086 (3) | 0.057 (2) | 0.042 (2) | −0.008 (2) | 0.0018 (19) | 0.0139 (19) |
O4 | 0.176 (7) | 0.084 (4) | 0.089 (4) | −0.024 (4) | 0.001 (4) | −0.042 (4) |
O5 | 0.109 (5) | 0.097 (4) | 0.149 (6) | −0.040 (4) | 0.014 (4) | −0.058 (4) |
Geometric parameters (Å, º) top
C1—O1 | 1.441 (7) | C7—N1 | 1.393 (7) |
C1—C6 | 1.512 (8) | C8—O3 | 1.205 (6) |
C1—C2 | 1.558 (8) | C8—N1 | 1.401 (6) |
C1—H1 | 0.96 (6) | C9—C14 | 1.369 (8) |
C2—C7 | 1.499 (7) | C9—C10 | 1.388 (7) |
C2—C3 | 1.540 (7) | C9—N1 | 1.430 (6) |
C2—H2 | 0.89 (6) | C10—C11 | 1.380 (9) |
C3—C8 | 1.495 (8) | C10—H10 | 0.94 (7) |
C3—C4 | 1.532 (7) | C11—C12 | 1.351 (10) |
C3—H3 | 0.94 (5) | C11—H11 | 0.86 (7) |
C4—O1 | 1.450 (7) | C12—C13 | 1.380 (9) |
C4—C5 | 1.508 (9) | C12—N2 | 1.484 (8) |
C4—H4 | 1.00 (5) | C13—C14 | 1.381 (9) |
C5—C6 | 1.303 (9) | C13—H13 | 0.89 (7) |
C5—H5 | 0.9300 | C14—H14 | 0.95 (6) |
C6—H6 | 0.9300 | N2—O5 | 1.186 (9) |
C7—O2 | 1.202 (6) | N2—O4 | 1.238 (10) |
| | | |
O1—C1—C6 | 101.6 (4) | O2—C7—C2 | 127.1 (5) |
O1—C1—C2 | 100.6 (4) | N1—C7—C2 | 108.8 (4) |
C6—C1—C2 | 105.5 (5) | O3—C8—N1 | 123.1 (5) |
O1—C1—H1 | 107 (4) | O3—C8—C3 | 128.0 (4) |
C6—C1—H1 | 120 (3) | N1—C8—C3 | 108.9 (4) |
C2—C1—H1 | 119 (3) | C14—C9—C10 | 121.6 (5) |
C7—C2—C3 | 105.1 (4) | C14—C9—N1 | 120.5 (5) |
C7—C2—C1 | 112.4 (5) | C10—C9—N1 | 117.8 (5) |
C3—C2—C1 | 101.1 (4) | C11—C10—C9 | 118.5 (6) |
C7—C2—H2 | 110 (3) | C11—C10—H10 | 121 (4) |
C3—C2—H2 | 119 (3) | C9—C10—H10 | 120 (4) |
C1—C2—H2 | 109 (3) | C12—C11—C10 | 119.4 (6) |
C8—C3—C4 | 112.4 (4) | C12—C11—H11 | 128 (4) |
C8—C3—C2 | 104.9 (4) | C10—C11—H11 | 112 (4) |
C4—C3—C2 | 101.5 (4) | C11—C12—C13 | 122.8 (6) |
C8—C3—H3 | 108 (3) | C11—C12—N2 | 118.7 (6) |
C4—C3—H3 | 113 (3) | C13—C12—N2 | 118.4 (7) |
C2—C3—H3 | 117 (3) | C12—C13—C14 | 118.2 (6) |
O1—C4—C5 | 101.2 (5) | C12—C13—H13 | 123 (4) |
O1—C4—C3 | 99.8 (4) | C14—C13—H13 | 118 (4) |
C5—C4—C3 | 108.0 (5) | C9—C14—C13 | 119.5 (6) |
O1—C4—H4 | 112 (3) | C9—C14—H14 | 127 (4) |
C5—C4—H4 | 123 (3) | C13—C14—H14 | 113 (4) |
C3—C4—H4 | 111 (3) | C7—N1—C8 | 112.1 (4) |
C6—C5—C4 | 106.6 (5) | C7—N1—C9 | 122.8 (4) |
C6—C5—H5 | 126.7 | C8—N1—C9 | 124.8 (4) |
C4—C5—H5 | 126.7 | O5—N2—O4 | 123.9 (7) |
C5—C6—C1 | 105.9 (5) | O5—N2—C12 | 119.0 (8) |
C5—C6—H6 | 127.0 | O4—N2—C12 | 117.0 (8) |
C1—C6—H6 | 127.0 | C1—O1—C4 | 96.0 (4) |
O2—C7—N1 | 124.1 (5) | | |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
C2—H2···O4i | 0.89 (6) | 2.55 (6) | 3.228 (8) | 134 (4) |
C10—H10···O3ii | 0.94 (7) | 2.51 (6) | 3.143 (8) | 124 (5) |
Symmetry codes: (i) −x+2, y−1/2, −z+1; (ii) x, y, z+1. |
(3a
R,4
S,7
R,7a
S)-2-(4-nitrophenyl)-3a,4,5,6,7,7a-hexahydro-1
H-4,7-epoxyisoindole-1,3(2
H)-dione (NCA-NA)
top
Crystal data top
C14H12N2O5 | F(000) = 300 |
Mr = 288.26 | Dx = 1.467 Mg m−3 |
Monoclinic, P21 | Cu Kα radiation, λ = 1.54184 Å |
a = 5.3661 (4) Å | Cell parameters from 380 reflections |
b = 18.6171 (16) Å | θ = 2.5–26.0° |
c = 6.6116 (5) Å | µ = 0.96 mm−1 |
β = 98.918 (7)° | T = 293 K |
V = 652.52 (9) Å3 | Plate, light yellow |
Z = 2 | 0.33 × 0.30 × 0.12 mm |
Data collection top
Bruker SMART CCD area detector diffractometer | 1717 independent reflections |
Radiation source: fine-focus sealed tube | 1549 reflections with I > 2σ(I) |
Detector resolution: 10.12 pixels mm-1 | Rint = 0.022 |
phi and ω scans | θmax = 71.4°, θmin = 4.8° |
Absorption correction: multi-scan (SADABS; Bruker, 2000) | h = −6→5 |
Tmin = 0.070, Tmax = 0.080 | k = −22→22 |
2121 measured reflections | l = −7→8 |
Refinement top
Refinement on F2 | All H-atom parameters refined |
Least-squares matrix: full | w = 1/[σ2(Fo2) + (0.0546P)2 + 0.0162P] where P = (Fo2 + 2Fc2)/3 |
R[F2 > 2σ(F2)] = 0.040 | (Δ/σ)max < 0.001 |
wR(F2) = 0.109 | Δρmax = 0.18 e Å−3 |
S = 1.06 | Δρmin = −0.16 e Å−3 |
1717 reflections | Extinction correction: SHELXL2016 (Sheldrick, 2015b), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4 |
239 parameters | Extinction coefficient: 0.0126 (19) |
1 restraint | Absolute structure: Flack x determined using 354 quotients [(I+)-(I-)]/[(I+)+(I-)]
(Parsons et al., 2013) |
Hydrogen site location: difference Fourier map | Absolute structure parameter: 0.5 (3) |
Special details top
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. |
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top | x | y | z | Uiso*/Ueq | |
C1 | 0.2048 (7) | −0.0320 (2) | 0.3085 (6) | 0.0522 (9) | |
C2 | 0.4905 (6) | −0.0221 (2) | 0.3598 (5) | 0.0462 (8) | |
C3 | 0.5522 (6) | −0.0685 (2) | 0.5521 (6) | 0.0463 (8) | |
C4 | 0.2911 (7) | −0.0940 (2) | 0.5848 (6) | 0.0511 (9) | |
C5 | 0.2009 (9) | −0.1524 (3) | 0.4287 (7) | 0.0614 (11) | |
C6 | 0.1478 (10) | −0.1092 (3) | 0.2305 (7) | 0.0623 (11) | |
C7 | 0.5688 (6) | 0.0531 (2) | 0.4279 (5) | 0.0450 (8) | |
C8 | 0.6741 (7) | −0.0186 (2) | 0.7166 (6) | 0.0506 (9) | |
C9 | 0.8205 (7) | 0.1075 (2) | 0.7397 (5) | 0.0462 (8) | |
C10 | 1.0152 (7) | 0.1396 (2) | 0.6584 (6) | 0.0537 (9) | |
C11 | 1.1593 (8) | 0.1921 (2) | 0.7694 (8) | 0.0600 (11) | |
C12 | 1.1059 (8) | 0.2092 (2) | 0.9628 (7) | 0.0569 (10) | |
C13 | 0.9130 (8) | 0.1787 (2) | 1.0427 (7) | 0.0572 (10) | |
C14 | 0.7661 (8) | 0.1270 (2) | 0.9291 (6) | 0.0527 (9) | |
N1 | 0.6843 (5) | 0.05002 (18) | 0.6321 (4) | 0.0439 (6) | |
N2 | 1.2669 (9) | 0.2618 (2) | 1.0877 (9) | 0.0792 (13) | |
O1 | 0.1353 (4) | −0.03368 (16) | 0.5106 (4) | 0.0554 (7) | |
O2 | 0.5347 (6) | 0.10763 (18) | 0.3318 (4) | 0.0652 (8) | |
O3 | 0.7507 (7) | −0.0326 (2) | 0.8918 (4) | 0.0778 (10) | |
O4 | 1.4352 (8) | 0.2897 (2) | 1.0136 (9) | 0.1062 (15) | |
O5 | 1.2275 (10) | 0.2727 (3) | 1.2621 (8) | 0.1155 (18) | |
H1 | 0.116 (8) | 0.007 (3) | 0.230 (7) | 0.054 (11)* | |
H2 | 0.580 (7) | −0.033 (2) | 0.258 (6) | 0.047 (10)* | |
H3 | 0.647 (8) | −0.107 (2) | 0.537 (6) | 0.052 (11)* | |
H4 | 0.280 (8) | −0.103 (3) | 0.724 (7) | 0.062 (13)* | |
H5A | 0.042 (10) | −0.175 (3) | 0.460 (8) | 0.077 (15)* | |
H5B | 0.320 (9) | −0.184 (3) | 0.429 (7) | 0.064 (13)* | |
H6A | −0.008 (13) | −0.112 (3) | 0.170 (9) | 0.10 (2)* | |
H6B | 0.269 (10) | −0.123 (3) | 0.136 (9) | 0.082 (16)* | |
H10 | 1.061 (7) | 0.128 (2) | 0.526 (6) | 0.046 (10)* | |
H11 | 1.282 (10) | 0.214 (3) | 0.713 (8) | 0.077 (16)* | |
H13 | 0.895 (9) | 0.192 (3) | 1.177 (8) | 0.064 (14)* | |
H14 | 0.641 (8) | 0.102 (2) | 0.992 (6) | 0.047 (10)* | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
C1 | 0.0469 (17) | 0.053 (2) | 0.0524 (19) | 0.0052 (17) | −0.0061 (15) | −0.0012 (18) |
C2 | 0.0426 (16) | 0.060 (2) | 0.0371 (16) | 0.0046 (16) | 0.0090 (13) | −0.0020 (16) |
C3 | 0.0420 (16) | 0.048 (2) | 0.0478 (19) | 0.0066 (15) | 0.0035 (14) | 0.0036 (16) |
C4 | 0.0517 (19) | 0.052 (2) | 0.049 (2) | −0.0032 (17) | 0.0056 (16) | 0.0003 (17) |
C5 | 0.054 (2) | 0.055 (2) | 0.073 (3) | −0.004 (2) | 0.002 (2) | −0.005 (2) |
C6 | 0.060 (2) | 0.061 (2) | 0.061 (2) | 0.003 (2) | −0.010 (2) | −0.010 (2) |
C7 | 0.0419 (16) | 0.056 (2) | 0.0389 (15) | −0.0007 (17) | 0.0106 (13) | 0.0040 (17) |
C8 | 0.0452 (17) | 0.053 (2) | 0.0504 (19) | 0.0027 (17) | −0.0016 (14) | 0.0090 (18) |
C9 | 0.0477 (18) | 0.0430 (18) | 0.0468 (17) | 0.0039 (15) | 0.0035 (15) | 0.0066 (16) |
C10 | 0.0510 (19) | 0.053 (2) | 0.059 (2) | 0.0016 (18) | 0.0128 (17) | 0.0036 (19) |
C11 | 0.0492 (19) | 0.046 (2) | 0.085 (3) | −0.0008 (18) | 0.011 (2) | 0.005 (2) |
C12 | 0.054 (2) | 0.043 (2) | 0.068 (3) | 0.0050 (17) | −0.0058 (19) | −0.0033 (18) |
C13 | 0.060 (2) | 0.055 (2) | 0.054 (2) | 0.0036 (19) | 0.0016 (18) | −0.0042 (19) |
C14 | 0.054 (2) | 0.056 (2) | 0.0483 (19) | −0.0023 (18) | 0.0076 (16) | 0.0044 (18) |
N1 | 0.0441 (14) | 0.0470 (15) | 0.0395 (13) | −0.0007 (14) | 0.0028 (11) | 0.0053 (14) |
N2 | 0.066 (2) | 0.048 (2) | 0.118 (4) | 0.0001 (19) | −0.003 (2) | −0.014 (2) |
O1 | 0.0432 (12) | 0.0569 (15) | 0.0671 (16) | 0.0020 (12) | 0.0113 (11) | −0.0072 (14) |
O2 | 0.084 (2) | 0.0622 (17) | 0.0470 (14) | −0.0069 (16) | 0.0018 (13) | 0.0164 (14) |
O3 | 0.107 (2) | 0.0626 (19) | 0.0518 (15) | −0.011 (2) | −0.0247 (15) | 0.0169 (14) |
O4 | 0.077 (2) | 0.073 (2) | 0.167 (4) | −0.024 (2) | 0.012 (3) | −0.036 (3) |
O5 | 0.131 (4) | 0.101 (3) | 0.110 (3) | −0.026 (3) | 0.003 (3) | −0.056 (3) |
Geometric parameters (Å, º) top
C1—O1 | 1.442 (5) | C7—O2 | 1.197 (5) |
C1—C2 | 1.529 (5) | C7—N1 | 1.397 (4) |
C1—C6 | 1.540 (6) | C8—O3 | 1.197 (4) |
C1—H1 | 0.98 (5) | C8—N1 | 1.399 (5) |
C2—C7 | 1.510 (6) | C9—C14 | 1.378 (5) |
C2—C3 | 1.530 (5) | C9—C10 | 1.383 (5) |
C2—H2 | 0.91 (4) | C9—N1 | 1.422 (5) |
C3—C8 | 1.501 (5) | C10—C11 | 1.385 (6) |
C3—C4 | 1.526 (5) | C10—H10 | 0.97 (4) |
C3—H3 | 0.90 (5) | C11—C12 | 1.390 (7) |
C4—O1 | 1.440 (5) | C11—H11 | 0.90 (6) |
C4—C5 | 1.525 (6) | C12—C13 | 1.358 (6) |
C4—H4 | 0.94 (5) | C12—N2 | 1.471 (6) |
C5—C6 | 1.527 (7) | C13—C14 | 1.389 (6) |
C5—H5A | 1.00 (5) | C13—H13 | 0.94 (5) |
C5—H5B | 0.87 (5) | C14—H14 | 0.97 (4) |
C6—H6A | 0.87 (7) | N2—O4 | 1.209 (7) |
C6—H6B | 1.00 (6) | N2—O5 | 1.221 (7) |
| | | |
O1—C1—C2 | 101.1 (3) | C1—C6—H6B | 110 (3) |
O1—C1—C6 | 102.9 (4) | H6A—C6—H6B | 112 (5) |
C2—C1—C6 | 109.1 (4) | O2—C7—N1 | 123.8 (4) |
O1—C1—H1 | 109 (3) | O2—C7—C2 | 128.0 (3) |
C2—C1—H1 | 115 (3) | N1—C7—C2 | 108.2 (3) |
C6—C1—H1 | 118 (3) | O3—C8—N1 | 123.9 (4) |
C7—C2—C1 | 113.6 (3) | O3—C8—C3 | 127.7 (4) |
C7—C2—C3 | 105.1 (3) | N1—C8—C3 | 108.4 (3) |
C1—C2—C3 | 101.3 (3) | C14—C9—C10 | 121.2 (4) |
C7—C2—H2 | 106 (3) | C14—C9—N1 | 119.2 (3) |
C1—C2—H2 | 116 (2) | C10—C9—N1 | 119.4 (3) |
C3—C2—H2 | 115 (3) | C9—C10—C11 | 119.5 (4) |
C8—C3—C4 | 113.4 (3) | C9—C10—H10 | 125 (2) |
C8—C3—C2 | 105.5 (3) | C11—C10—H10 | 116 (2) |
C4—C3—C2 | 102.0 (3) | C10—C11—C12 | 118.2 (4) |
C8—C3—H3 | 113 (3) | C10—C11—H11 | 119 (4) |
C4—C3—H3 | 108 (3) | C12—C11—H11 | 123 (4) |
C2—C3—H3 | 114 (3) | C13—C12—C11 | 122.7 (4) |
O1—C4—C5 | 102.6 (3) | C13—C12—N2 | 118.4 (4) |
O1—C4—C3 | 101.9 (3) | C11—C12—N2 | 118.8 (4) |
C5—C4—C3 | 109.1 (3) | C12—C13—C14 | 118.8 (4) |
O1—C4—H4 | 110 (3) | C12—C13—H13 | 117 (3) |
C5—C4—H4 | 118 (3) | C14—C13—H13 | 124 (3) |
C3—C4—H4 | 113 (3) | C9—C14—C13 | 119.5 (4) |
C4—C5—C6 | 101.7 (4) | C9—C14—H14 | 121 (3) |
C4—C5—H5A | 111 (3) | C13—C14—H14 | 119 (2) |
C6—C5—H5A | 110 (3) | C7—N1—C8 | 112.6 (3) |
C4—C5—H5B | 109 (3) | C7—N1—C9 | 124.7 (3) |
C6—C5—H5B | 114 (3) | C8—N1—C9 | 122.4 (3) |
H5A—C5—H5B | 111 (4) | O4—N2—O5 | 124.1 (5) |
C5—C6—C1 | 101.7 (3) | O4—N2—C12 | 118.0 (5) |
C5—C6—H6A | 113 (4) | O5—N2—C12 | 117.9 (5) |
C1—C6—H6A | 110 (4) | C4—O1—C1 | 96.5 (3) |
C5—C6—H6B | 110 (3) | | |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
C6—H6A···O3i | 0.87 (7) | 2.55 (7) | 3.179 (6) | 130 (5) |
C6—H6B···O4ii | 1.00 (6) | 2.57 (6) | 3.504 (7) | 154 (5) |
C14—H14···O2iii | 0.97 (4) | 2.40 (4) | 3.128 (5) | 131 (3) |
C13—H13···O5 | 0.94 (5) | 2.33 (5) | 2.693 (6) | 102 (3) |
Symmetry codes: (i) x−1, y, z−1; (ii) −x+2, y−1/2, −z+1; (iii) x, y, z+1. |
(3a
R,4
S,7
R,7a
S)-2-(2-Hydroxyethyl)-3a,4,5,6,7,7a-hexahydro-1
H-4,7-epoxyisoindole-1,3(2
H)-dione (NCA-AE)
top
Crystal data top
C10H13NO4 | Dx = 1.394 Mg m−3 |
Mr = 211.21 | Cu Kα radiation, λ = 1.54184 Å |
Orthorhombic, Pmn21 | Cell parameters from 380 reflections |
a = 10.0350 (17) Å | θ = 2.5–26.0° |
b = 5.5937 (13) Å | µ = 0.91 mm−1 |
c = 8.9634 (17) Å | T = 293 K |
V = 503.14 (17) Å3 | Plate, colorless |
Z = 2 | 0.38 × 0.35 × 0.12 mm |
F(000) = 224 | |
Data collection top
Bruker SMART CCD area detector diffractometer | 731 independent reflections |
Radiation source: fine-focus sealed tube | 594 reflections with I > 2σ(I) |
Detector resolution: 10.12 pixels mm-1 | Rint = 0.027 |
phi and ω scans | θmax = 71.7°, θmin = 6.6° |
Absorption correction: multi-scan (SADABS; Bruker, 2000) | h = −12→8 |
Tmin = 0.719, Tmax = 0.885 | k = −6→6 |
1569 measured reflections | l = −10→11 |
Refinement top
Refinement on F2 | Only H-atom displacement parameters refined |
Least-squares matrix: full | w = 1/[σ2(Fo2) + (0.0317P)2 + 0.0793P] where P = (Fo2 + 2Fc2)/3 |
R[F2 > 2σ(F2)] = 0.045 | (Δ/σ)max < 0.001 |
wR(F2) = 0.099 | Δρmax = 0.14 e Å−3 |
S = 1.07 | Δρmin = −0.12 e Å−3 |
731 reflections | Extinction correction: SHELXL2016 (Sheldrick, 2015b), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4 |
113 parameters | Extinction coefficient: 0.0122 (19) |
4 restraints | Absolute structure: Flack x determined using 120 quotients [(I+)-(I-)]/[(I+)+(I-)]
(Parsons et al., 2013) |
Hydrogen site location: mixed | Absolute structure parameter: 0.6 (6) |
Special details top
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. |
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top | x | y | z | Uiso*/Ueq | Occ. (<1) |
C1 | 0.0762 (5) | 0.5419 (9) | 0.3893 (5) | 0.0636 (13) | |
C2 | 0.1072 (4) | 0.5946 (8) | 0.5513 (5) | 0.0544 (12) | |
C3 | 0.0763 (3) | 0.8593 (7) | 0.5839 (4) | 0.0454 (10) | |
C4 | 0.1143 (4) | 0.9308 (7) | 0.7394 (5) | 0.0498 (10) | |
C5 | 0.000000 | 1.0237 (13) | 0.9811 (8) | 0.067 (2) | |
C6 | −0.028 (3) | 1.289 (2) | 1.0039 (12) | 0.080 (10) | 0.5 |
N1 | 0.000000 | 0.9642 (8) | 0.8213 (5) | 0.0478 (12) | |
O1 | 0.000000 | 0.4758 (7) | 0.6294 (5) | 0.0588 (12) | |
O2 | 0.2271 (3) | 0.9512 (6) | 0.7872 (5) | 0.0842 (13) | |
O3 | 0.0717 (9) | 1.4328 (12) | 0.9424 (10) | 0.076 (2) | 0.5 |
H7 | 0.096057 | 1.384427 | 0.860506 | 0.29 (16)* | 0.5 |
H1A | 0.113 (5) | 0.393 (10) | 0.360 (6) | 0.081 (16)* | |
H1B | 0.121 (4) | 0.655 (8) | 0.316 (6) | 0.070 (13)* | |
H2 | 0.198 (5) | 0.538 (8) | 0.591 (6) | 0.084 (16)* | |
H3 | 0.121 (4) | 0.960 (7) | 0.520 (6) | 0.055 (12)* | |
H5 | 0.086 (5) | 0.951 (11) | 1.037 (8) | 0.12 (2)* | |
H6A | −0.014 (11) | 1.307 (13) | 1.110 (3) | 0.08 (3)* | 0.5 |
H6B | −0.123 (4) | 1.29 (2) | 0.986 (12) | 0.08 (4)* | 0.5 |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
C1 | 0.083 (3) | 0.057 (3) | 0.050 (3) | 0.005 (2) | 0.011 (3) | −0.016 (3) |
C2 | 0.058 (3) | 0.054 (2) | 0.051 (3) | 0.011 (2) | 0.001 (2) | −0.005 (2) |
C3 | 0.0441 (19) | 0.046 (2) | 0.046 (2) | −0.0034 (16) | 0.0037 (19) | −0.003 (2) |
C4 | 0.051 (2) | 0.046 (2) | 0.052 (2) | 0.0005 (16) | −0.007 (2) | −0.0077 (19) |
C5 | 0.092 (5) | 0.067 (5) | 0.042 (4) | 0.000 | 0.000 | −0.006 (3) |
C6 | 0.11 (3) | 0.095 (7) | 0.041 (4) | −0.015 (10) | 0.008 (7) | −0.031 (5) |
N1 | 0.059 (3) | 0.044 (3) | 0.040 (3) | 0.000 | 0.000 | −0.006 (2) |
O1 | 0.085 (3) | 0.044 (2) | 0.047 (2) | 0.000 | 0.000 | 0.001 (2) |
O2 | 0.0531 (19) | 0.108 (3) | 0.091 (3) | 0.0125 (15) | −0.0223 (19) | −0.038 (2) |
O3 | 0.097 (5) | 0.060 (4) | 0.070 (5) | −0.009 (4) | −0.008 (4) | 0.003 (4) |
Geometric parameters (Å, º) top
C1—C2 | 1.514 (7) | C5—N1 | 1.470 (8) |
C1—C1i | 1.530 (10) | C5—C6i | 1.523 (15) |
C1—H1A | 0.95 (6) | C5—C6 | 1.523 (15) |
C1—H1B | 1.02 (5) | C5—H5 | 1.08 (5) |
C2—O1 | 1.445 (5) | C6—C6i | 0.57 (6) |
C2—C3 | 1.540 (5) | C6—O3i | 1.069 (16) |
C2—H2 | 1.03 (5) | C6—O3 | 1.40 (2) |
C3—C4 | 1.500 (6) | C6—H6A | 0.966 (13) |
C3—C3i | 1.532 (7) | C6—H6B | 0.962 (13) |
C3—H3 | 0.92 (5) | O3—O3i | 1.439 (18) |
C4—O2 | 1.215 (5) | O3—H7 | 0.8200 |
C4—N1 | 1.374 (5) | | |
| | | |
C2—C1—C1i | 101.8 (3) | C6—C5—H5 | 117 (4) |
C2—C1—H1A | 111 (3) | C6i—C6—O3i | 114.0 (14) |
C1i—C1—H1A | 113 (3) | C6i—C6—O3 | 44.2 (10) |
C2—C1—H1B | 114 (3) | O3i—C6—O3 | 69.8 (12) |
C1i—C1—H1B | 116 (3) | C6i—C6—C5 | 79.2 (10) |
H1A—C1—H1B | 101 (4) | O3i—C6—C5 | 137.8 (11) |
O1—C2—C1 | 102.8 (4) | O3—C6—C5 | 111.9 (16) |
O1—C2—C3 | 101.6 (3) | C6i—C6—H6A | 81 (7) |
C1—C2—C3 | 109.1 (4) | O3i—C6—H6A | 119 (5) |
O1—C2—H2 | 110 (3) | O3—C6—H6A | 103 (6) |
C1—C2—H2 | 117 (3) | C5—C6—H6A | 102 (5) |
C3—C2—H2 | 114 (3) | C6i—C6—H6B | 170 (7) |
C4—C3—C3i | 104.7 (2) | O3i—C6—H6B | 60 (7) |
C4—C3—C2 | 112.4 (3) | O3—C6—H6B | 129 (8) |
C3i—C3—C2 | 101.6 (2) | C5—C6—H6B | 100 (7) |
C4—C3—H3 | 107 (3) | H6A—C6—H6B | 108 (3) |
C3i—C3—H3 | 119 (3) | C4—N1—C4i | 113.1 (5) |
C2—C3—H3 | 112 (3) | C4—N1—C5 | 123.4 (2) |
O2—C4—N1 | 125.2 (4) | C4i—N1—C5 | 123.4 (2) |
O2—C4—C3 | 126.1 (4) | C2—O1—C2i | 96.2 (5) |
N1—C4—C3 | 108.7 (3) | C6i—O3—C6 | 22 (2) |
N1—C5—C6i | 110.6 (7) | C6i—O3—O3i | 66.0 (14) |
N1—C5—C6 | 110.6 (7) | C6—O3—O3i | 44.2 (10) |
C6i—C5—C6 | 22 (2) | C6i—O3—H7 | 109.5 |
N1—C5—H5 | 111 (4) | C6—O3—H7 | 112.1 |
C6i—C5—H5 | 99 (4) | O3i—O3—H7 | 107.3 |
Symmetry code: (i) −x, y, z. |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
O3—H7···O1ii | 0.82 | 2.34 | 2.906 (10) | 127 |
C1—H1A···O2iii | 0.95 (6) | 2.59 (6) | 3.513 (6) | 165 (4) |
O3—H7···N1 | 0.82 | 2.56 | 2.927 (8) | 108 |
Symmetry codes: (ii) x, y+1, z; (iii) −x+1/2, −y+1, z−1/2. |
Dihedral angles (°) in five DNCA derivatives topDihedral anglesa | DNCA-A | NCA-A (GOLKAU)b1 | DNCA-NA | NCA-NA | DNCA-AE) (LAQWEHb2 | NCA-AE | DNCA (OXHEPA02)b3 | NCA (QIWJEM)b3 |
A–B | 114.604 (15) | 115.715 (63) | 116.707 (11) | 118.207 (11) | 114.605 (90) | 116.704 (26) | 114.940 (62) | 115.923 (85) |
| [116.740]c | [117.401]c | [116.695]c | [116.422]c | [116.288]c | [117.630]c | [115.985]c | [116.808]c |
B–D | 119.800 (13) | 122.885 (105) | 119.522 (14) | 122.490 (11) | 119.601 (140) | 122.505 (61) | 119.054 (83) | 122.299 (105) |
| [119.847]c | [122.907]c | [119.769]c | [122.781]c | [119.834]c | [123.212]c | [119.634]c | [122.948]c |
C–D | 129.353 (12) | 124.720 (109) | 129.093 (15) | 124.901 (12) | 129.843 (124) | 124.917 (17) | 131.006 (88) | 125.346 (115) |
| [129.555]c | [124.661]c | [129.677]c | [124.760]c | [129.552]c | [124.483]c | [129.878]c | [124.771]c |
B–C | 110.844 (11) | 112.395 (89) | 111.379 (12) | 112.594 (13) | 110.556 (118) | 112.578 (38) | 109.939 (78) | 112.355 (102) |
| [110.598]c | [112.431]c | [110.554]c | [112.065]c | [110.614]c | [112.193]c | [110.477]c | [112.288]c |
A–E | 50.364 (8) | 49.337 (45) | 55.931 (9) | 56.807 (11) | – | – | – | – |
| [83.349]c | [83.275]c | [57.912]c | [44.268]c | – | – | – | – |
Notes: (a) The definition of the five planes can be found in Fig. 2.
(b) CSD refcodes are placed in the brackets and the references are:
(b1) Zhu & Lin (2009), (b2) Tan et al.
(2012) and
(b3) Goh et al. (2008). It should be noted that the
endo
structure of NCA-AE was also
reported (Discekici et al., 2018; FEYVOX), which has a quite
different
molecular and crystal structure than exo-DNCA-AE.
(c) Calculated results [using the B3LYP/6-311+g(d,p)/pcm method] are
placed in the square brackets. |
The intermolecular interaction energies (ΔE) in various molecule
dimersi (kJ mol-1) topMolecule | Molecular pairingsii | Interaction notationiii | Interaction typeiii | ΔE [DFT/B3LYP/6-311++g(3d,3p)] | ΔE [MP2/6-311++g(3d,3p)] |
DNCA-A | A and B | c, e | c: π–π; e: C—H···π | -1.59 | -12.79 |
| B and C | a, b, d | a, b: π–π; d: C—H···π | 1.77 | -34.02 |
| B and D | 2fiv | [H-bond]iv | -10.95 | -11.32 |
NCA-A (GOLKAU) | A and B | c, e | c: π–π; e: C—H···π | -1.67 | -12.85 |
| B and C | a, b, d | a, b: π–π; d: C—H···π | -0.83 | -39.73 |
| B and D | 2f | H-bond | -14.18 | -27.24 |
DNCA-NA | C and D | a | π–π | -2.42 | -19.41 |
| B and D | b | H-bond | -9.16 | -24.26 |
| B and C (or D and E) | c, d, e | π–π | 7.62 | -34.23 |
| A and D | f | H-bond | -10.47 | -16.63 |
NCA-NA | C and D | a | H-bond | -1.55 | -17.41 |
| B and D | b | H-bond | -7.55 | -25.42 |
| B and C (or D and E) | c, d, e | π–π | 8.18 | -33.31 |
| A and D | f | H-bond | -4.14 | -9.30 |
DNCA-AE (LAQWEH) | A and B | d | π–π | 3.50 | -23.76 |
| A and C | a | H-bond | -21.55 | -33.49 |
| A and D | b | H-bond | -2.42 | -7.64 |
| A and E | c | H-bond | -3.63 | -16.99 |
NCA-AE | A and B | a, c | a: H-bond; c: π–π | 3.87 | -21.49 |
| A and C | b | H-bond | -1.11 | -6.97 |
DNCA (OXHEPA02) | A and B | d, e | d: π–π; e: C—O···π | 6.54 | -11.53 (-11.18v) |
| A and C | c | H-bond | -2.25 | -11.73 (-10.83v) |
| B and C | b | H-bond | 6.40 | -1.01 (-2.06iv) |
| C and D | a | H-bond | -11.89 | -23.39 (-23.83v) |
NCA (QIWJEM) | A and B | d | π–π | 1.66 | -23.01 (-26.42vi) |
| B and C | b | H-bond | -7.59 | -19.49 (-15.96vi) |
| B and D | a | H-bond | 1.32 | -10.24 (-8.90vi) |
| C and D | c | H-bond | -0.99 | -9.51 (-8.40vi) |
Notes: (i) The interaction energy ΔE is defined as the difference
between the energy of the dimer AB and the energy of the isolated
molecules [i.e.
ΔE = E(AB) - E(A) - E(B)].
The positive ΔE indicates that the intermolecular interactions in
this system are repulsive while the negative value corresponds to a favourable
binding energy.
(ii) The definition of molecular pairings can be found in corresponding packing
figures, i.e. Figs. 4 and 5.
(iii) The definition of interaction notation and corresponding type is detailed
in the interaction geometry tables for these DNCA/NCA
derivatives, i.e. Tables S2–S19 in the supporting information.
(iv) `[H-bond] [f]' between B and D in DNCA-A are
established according to that
in NCA-A and not really hydrogen bonds, so `f' and `H-bond' are
placed in
square brackets.
(v) The crystal structure and molecule positions are identical to
DNCA (OXHEPA02), but all molecules are changed into NCA (QIWJEM).
(vi) The crystal structure and molecule positions are identical to
NCA (QIWJEM), but all molecules are changed into DNCA (OXHEPA02). |