Sébastien
Pillet
a,
Mohamed
Souhassou
a,
Yves
Pontillon
b,
Andrea
Caneschi
c,
Dante
Gatteschi
c and
Claude
Lecomte
*a
aLaboratoire de Cristallographie et Modélisation des Matériaux Minéraux et Biologiques (CNRS UPRESA 7036), Faculté des Sciences, Uniersité Henri Poincaré, Nancy I, BP 239, 54506, Vandoeu
re-lès-Nancy, France. E-mail: lecomte@lcm3b.u-nancy.fr
bInstitut Laue-Langein, 6 rue Jules Horowitz, BP 156, 38042, Grenoble cedex 9, France
cDipartimento di Chimica, Uniersità degli Studi di Firenze, Via Maragliano 77, 50144, Florence, Italy
First published on 20th December 2000
The [X − (X + N)] electron density distribution in a 3D ferromagnetic purely organic free radical, p-(methylthio)phenyl nitronyl nitroxide, is reported and analysed in terms of magnetic interactions. From the atomic charges obtained by multipolar refinement against the X-ray data, a charge transfer by intermolecular hydrogen bonds between the O–N–C–N–O fragment of the nitronyl ring and the methylthio group is pointed out. Rotation of the oxygen lone pairs is also observed in the direction corresponding to short intermolecular N–O···O–N contacts. The topological analysis of the electron density allows us to characterise the bonding scheme in this radical and clearly demonstrates an electron delocalisation from the two oxygen to the sulfur atom through the phenyl ring. The atomic vibrations are investigated and their influence on the intermolecular interactions is discussed.
Nitroxide free radicals,13 whose magnetic properties are associated with a delocalised unpaired electron (NO•, S = 1/2), are more and more studied in the field of molecular magnetism.14–16 They are not only investigated as purely organic radicals but also as efficient ligands in organometallic molecular compounds.17–20 Among them, nitronyl nitroxide free radicals are probably the most popular. They exhibit a large variety of magnetic behaviour: paramagnetism down to very low temperature,21 ferromagnetism, antiferromagnetism.22–29 The crystal packing seems to be a major influence on these features since it rules the occurrence and length of intermolecular contacts that are strongly involved in the magnetic interactions. With the use of the first and second McConnel mechanisms,30,31 one can sometimes determine whether the intermolecular interactions32–34 (hydrogen bonds or short N–O···O–N contacts) or a charge transfer35 involving frontier orbitals are responsible for the magnetic behaviour and dimensionality of such organic radicals. As no systematic trends in the crystal packing36,37 have yet been found to predict ferro or antiferromagnetic ordering, an effort is still needed to understand the intermolecular interactions.
This paper is devoted to the analysis of the experimental electron density in a nitronyl nitroxide compound, obtained by multipolar refinement against low temperature X-ray measurements. The purpose of this work is to show that meaningful chemical information can be gathered about magnetic interactions in organic free radicals through high resolution X-ray diffraction. This study is based on 2-(4-thiomethyl)phenyl-4,4,5,5-tetramethylimidazoline-1-oxyl-3-oxide [Nit(SMe)Ph, Fig. 1], which orders ferromagnetically at Tc = 0.2 K.39,40 After a brief description of the experimental data collection, we present the methodological background of the structural and multipolar refinements performed. An introduction to the topological analysis of the electron density is also given. In the second part of this paper, we discuss the results obtained from the analysis of the electron density, its deformation density, its topological properties and the molecular and atomic thermal displacements. A direct comparison with the results obtained from polarized neutron diffraction41,42 is also carried out throughout this paper.
![]() | ||
Fig. 1 (a) Chemical structure (H atoms omitted for the sake of clarity) and (b) ORTEP38 view of Nit(SMe)Ph radical. Thermal ellipsoids are plotted at the 50% probability level. |
CCDC reference number 440/230.
Crystal structure was refined using MOLLY48 against neutron diffraction data and lead to the final agreement indices R = 3.66%, Rw = 2.92%, GOF = 2.01 for 1783 reflections and 171 parameters. Hydrogen positions and anisotropic displacement parameters obtained from this measurement are given in the supplementary material.
The X-ray crystal structure was first refined using NRCVAX.49 Then, the MOLLY multipolar model was applied as defined by:
![]() | (1) |
where the first two terms ρcore(r) and ρval(r) are the spherically averaged core and valence electron densities of the free atom. The last term is the expansion of the valence density on the ylmp spherical harmonic functions in real form. Pval is the valence population, Plmp are the multipole populations and κ, κ′ are contraction-expansion parameters. A κ value greater than unity means a contraction of the valence shell of the considered atom whereas a value lower than unity corresponds to an expansion. During refinement, the electro-neutrality of the cell was kept as a constraint. Radial functions Rl(r) were chosen as Slater type [eqn. (2)]
![]() | (2) |
with the initial nl and ζl parameters being, respectively: 4-4-4-6-8 and 4.87 for the S atom (lmax = 4), 2-2-3-4 and 3.00 for O atoms, 2-2-2-3 and 3.00 for N atoms, 2-2-2-3 and 3.14 for phenyl C atoms, 2-2-2-3 and 2.84 for other C atoms (lmax = 3), 0-1-1 and 2.00 for H atoms (lmax = 2). Radial exponents for the sulfur atom were optimised and a more complete discussion concerning their importance in the refinement can be found elsewhere.1,50
Core and valence scattering factors were calculated from Clementi wave functions51 for the isolated atom and corrections for the anomalous dispersion were made.52 More information on multipolar models and refinements can be found in references.53,54
In the refinement of the electron density, two approaches concerning the hydrogen atom parameters can be followed. Either H atom positions and thermal parameters are refined against X-ray data only [(X-X) refinement], or these parameters are obtained from neutron diffraction data [X − (X + N)]. With X-ray data only, the refined positions of the hydrogen atoms correspond to the centre of the electron density distribution, which is shifted towards the atom linked to H, therefore shortening the bond. Consequently, this may introduce biases in the electron density modelling and the [X − (X + N)] model was used in this work.
To analyse the electron density fitted by the multipolar model, one can inspect three different density maps. The first type is the experimental deformation density defined by:
![]() | (3) |
where
Fobs, Fsph are the structure factors observed and calculated
at using the spherical atom model, Φmult, Φsph are the structure
factor phases calculated from the multipolar and spherical
model, respectively, k is the scale factor and V is the unit cell
volume.
The
static deformation density at is defined as the difference
between the modelled static total electron density and
the spherical averaged independent atoms. This deformation
density is expressed as a sum of pseudo-atomic contributions:
![]() | (4) |
where the sum is over all the Nat atoms of the molecule and the pseudo atomic deformation density deformation is given by:
![]() | (5) |
Finally, the residual density is the difference between modelled and observed electron densities, allowing one to judge the quality of the refinement, and is defined as:
![]() | (6) |
F obs and Fcalc are respectively the structure factors observed and calculated using the multipolar model, Φcalc is the phase calculated from the multipolar model. In this paper, these different densities were calculated and plotted in the phenyl and nitronyl ring planes as well as in three-dimensional representation.
![]() | ||
Fig. 2 (a) Gradient trajectories and (b) Laplacian (in e Å−5) of the electron density in the phenyl ring plane (−∇2ρ). In (b) solid lines represent negative isovalues of the Laplacian of the electron density. Dashed lines are the zero contour and positive isovalues. |
![]() | ||
Fig. 3 High order residual density (e Å−3) in the C5–S–C14 plane (a) harmonic model, (b) anharmonic [Smin = 0.7 Å−1, I>σ(I)] and (c, d) residual density [I>σ(I), all data] in the phenyl ring (c) and nitronyl plane (d). |
![]() | (7) |
![]() | (8) |
where
Uij, Cijk and Dijkl are the least-squares refined coefficients (18 of these 25 coefficients had values greater than one esd).
This anharmonic model led to a cleaner residual density [Fig.
3(b)] around the sulfur atom and consequently slightly improved
the agreement factors (R decreased from 3.44% to 3.40%
and Rw from 5.84 to 5.82%). Therefore, this anharmonic model
was used in all subsequent refinements. From the S atom mean position (x0) and thermal parameters, one can define
a probability density function (pdf) describing in real space
the atomic motion from the mean position in a harmonic or anharmonic potential. The pdf is the inverse Fourier transform of the atomic temperature factor T(
) and has an anisotropic Gaussian form in the usual case of a harmonic potential.
The anharmonic pdf was calculated and analysed for sulfur atom and compared to the harmonic one as discussed
later.
Once the x, y, z, Uij parameters are known, the valence populations (Pval) and contraction-expansion (κ) parameters were refined using the Pval-κ model.58 The κ parameters for chemically equivalent C atoms were constrained: one κ for the sp2 C atoms and one for the sp3. This led to model II. Finally, a full multipolar model (model III) without any intensity sigma cutoff was performed (Nref = 8801). In all refinements, the Plmp parameters of both nitrogens were imposed to be equal. Since a preliminary refinement only allowed us to distinguish between methyl or phenyl hydrogen atoms (all Plmp parameters were equal within σ), two types of hydrogen atoms were defined: phenyl (sp2) or methyl (sp3) ones. This allowed the number of parameters to be decreased. Atomic positions and adps at the end of refinement III are given in the electronic supplementary material whereas selected 114 K interatomic distances and angles are given in Table 3.
a Transformations: (i)½ + x, ½ − y, z; (ii) x, y, 1 − z. b From ref. 39: T = 298 K, a = 9.437(2), b = 19.827(2), c = 8.516(2) Å, β = 113.33(1)°. c From ref. 42: T = 10 K, a = 9.236(26), b = 19.393(13), c = 8.603(8) Å, β = 114.94(1)°. | |||
---|---|---|---|
S–C5 | 1.7571(3) | C3–H1 | 1.087(4) |
S–C14 | 1.8038(5) | C4–H2 | 1.103(6) |
N1–O1 | 1.2812(4) | C6–H3 | 1.096(4) |
N2–O2 | 1.2772(4) | C7–H4 | 1.071(5) |
N1–C8 | 1.4994(4) | C10–H5 | 1.095(4) |
N2–C9 | 1.5022(4) | C10–H6 | 1.094(6) |
C8–C9 | 1.5566(5) | C10–H7 | 1.088(5) |
C8–C12 | 1.5198(5) | C11–H8 | 1.104(6) |
C8–C10 | 1.5254(6) | C11–H9 | 1.094(6) |
C9–C13 | 1.5147(5) | C11–H10 | 1.082(4) |
C9–C11 | 1.5305(6) | C12–H11 | 1.088(5) |
C2–C1 | 1.4571(4) | C12–H12 | 1.077(5) |
C2–C3 | 1.4038(5) | C12–H13 | 1.090(6) |
C3–C4 | 1.3929(5) | C13–H14 | 1.082(6) |
C4–C5 | 1.3996(5) | C13–H15 | 1.088(5) |
C5–C6 | 1.4063(6) | C13–H16 | 1.086(6) |
C6–C7 | 1.3873(5) | C14–H17 | 1.094(4) |
C7–C2 | 1.4055(5) | C14–H18 | 1.093(4) |
C1–N1 | 1.3558(4) | C14–H19 | 1.091(5) |
C1–N2 | 1.3522(5) | ||
O1···C4i | 3.6656(5) | O2···H17ii | 2.678(4) |
O1···H1 | 2.323(4) | O2···C14ii | 3.7218(5) |
O1···H18i | 2.506(4) | O2···H4 | 2.372(4) |
O1···C14i | 3.5732(6) | O2···O2i | 4.8229(1) |
O2···N2i | 4.3827(5) | ||
O2···H7i | 2.336(5) | ||
O2···C10i | 3.3331(5) | ||
X-Rayb | |||
O1···C4i | 3.725(5) | O2···C14ii | 3.595(5) |
O1···C14i | 3.896(5) | O2···O2i | 4.944(5) |
O2···N2i | 4.443(5) | ||
O2···C10i | 3.508(6) | ||
Neutronc | |||
O1···C4i | 3.647(6) | O2···C14ii | 3.728(4) |
O1···C14i | 3.540(4) | O2···O2i | 4.76(1) |
O2···N2i | 4.34(1) | ||
O2···C10i | 3.289(5) | ||
C5–S–C14 | 103.30(2) | C2–C3–C4 | 120.79(3) |
O2–N2–C9 | 121.10(3) | C7–C6–C5 | 120.76(3) |
O2–N2–C1 | 126.63(1) | C3–C4–C5 | 120.00(4) |
O1–N1–C8 | 121.30(3) | N2–C9–C8 | 100.88(3) |
O1–N1–C1 | 126.72(3) | N2–C9–C13 | 109.34(3) |
C9–N2–C1 | 112.17(3) | C8–C9–C13 | 115.41(3) |
C8–N1–C1 | 111.61(3) | C8–C9–C11 | 113.34(3) |
C3–C2–C7 | 119.02(3) | C13–C9–C11 | 110.08(4) |
C3–C2–C1 | 119.79(3) | C2–C7–C6 | 120.07(2) |
C7–C2–C1 | 121.00(3) | S–C5–C6 | 116.74(3) |
N1–C8–C9 | 101.25(2) | S–C5–C4 | 124.05(3) |
N1–C8–C12 | 109.94(2) | N2–C1–N1 | 108.81(3) |
N1–C8–C10 | 106.00(3) | C6–C5–C4 | 119.20(3) |
C9–C8–C12 | 114.95(3) | N2–C1–C2 | 125.01(3) |
C9–C8–C10 | 114.06(2) | N1–C1–C2 | 125.97(3) |
C12–C8–C10 | 109.88(3) | N2–C9–C11 | 107.04(3) |
O1···H1–C3 | 115.5(4) | O2···H4–C7 | 109.3(3) |
O1···H18i–C14i | 165.1(4) | O2···H17i–C14i | 159.3(3) |
O2···H7i–C10i | 151.6(4) |
![]() | (9) |
where
ΔF(
) is the difference between observed and calculated structure
factor.
As written above, an anharmonic model was used to accurately describe sulfur atomic motions. The probability density function in the anharmonic model [Fig. 4(b)], calculated using PROMETHEUS,59 is very close to that derived from the harmonic model [Fig. 4(a)], indicating that anharmonicity on the sulfur atom is only a small correction to its thermal motion. Fig. 4(c) shows the difference between the anharmonic and the harmonic pdfs as a relief map in the C5–S–C14 plane. The main feature is a double positive peak surrounding a negative hole in the S–C14 direction, at about 0.25 Å from the sulfur atom. This means that the sulfur atom motion is slightly more elongated in this direction than as described by the harmonic model.
![]() | ||
Fig. 4 Probability density functions of the sulfur atom in the C5–S–C14 plane: (a) harmonic and (b) anharmonic model. (c) Difference between the function in (b) and (a) on a × 40 scale. |
The thermal displacement tensors of the Nit(SMe)Ph radical were also analysed using the TLS60 formalism (see below). In a first step, the molecule was considered as a rigid unit called the rigid-body model61 whose displacement is described by matrix Umol [eqn. (10)]:
![]() | (10) |
where the T, L and S matrices represent: the translation matrix, T = 〈uuT〉, the libration matrix: L = 〈υυT〉 and the correlation (cross) matrix: S = 〈uυT〉. u is the translational displacement of the molecule from its equilibrium position and υ its angular displacement. The coefficients of the T, L and S matrices were refined using the program EKRT62 by least-squares fit against the observed atomic displacement parameters (adp) previously obtained from refinement of model III. At this stage, the agreement indices of the fit were: Rw = 9.4% , GOF = 19.7 (Rw and GOF defined in Table 5 caption). As these figures of merit are high, this free radical Nit(SMe)Ph cannot be considered as a rigid unit; whereas the Us of all phenyl C atoms are low and almost isotropic (Fig. 1), the thermal vibration is much higher and more anisotropic for all other atoms. Chemical sensitive internal motions were added in the thermal model and TLS refinement: among them, three motions describing the vibration of the four methyl groups linked to the nitronyl ring (C10, C11, C12, C13), three others describing the vibration of the methylthio fragment and two internal vibrations for the oxygen atoms (Fig. 5). The agreement indices decreased to Rw = 5.3% and GOF = 11.6. Table 5 summarises the T, L and S parameters and the amplitudes of the refined internal vibrations with respect to the inertial axis of the molecule. The main characteristics, which can be related to the magnetic interactions, are an external libration [3.3(2)°] of the molecule along the Z principal axis (nearly parallel to the C1–C2 direction), a libration of the C5–S–C14 angle [5.5(8)°], and a bending of the C1–N2–O2 [3.0(2)°] and C1–N1–O1 [3.5(1)°] angles. Furthermore, as shown by the Hirshfeld rigid-bond test63 (Table 6), large differences (ΔZ) occur for all bonds involving a methyl group; S–C14, C8–C12, C9–C13 and C9–C11, which may suggest a possible static disorder that was impossible to resolve at this experimental resolution.64
![]() | ||
Fig. 5 View and labelling of the internal vibrations. θi are in-plane bendings and τi are torsional librations. |
X–Y bond | Z(X)a/Å2 | Z(Y)a/Å2 | ΔZb/Å2 |
---|---|---|---|
a Z(X) and Z(Y) are the components of the thermal ellipsoids of atoms X and Y along the bond direction. b ΔZ is the difference between Z(X) and Z(Y). | |||
S–C5 | 0.027133 | 0.022469 | −0.004664 |
S–C14 | 0.043186 | 0.054820 | 0.011634 |
C2–C1 | 0.019710 | 0.019741 | 0.000031 |
Phenyl ring | |||
C2–C3 | 0.025299 | 0.029255 | 0.003956 |
C3–C4 | 0.025831 | 0.028706 | 0.002874 |
C4–C5 | 0.011310 | 0.013742 | 0.002432 |
C5–C6 | 0.031976 | 0.030373 | −0.001603 |
C6–C7 | 0.023733 | 0.024688 | 0.000955 |
C7–C2 | 0.010073 | 0.010148 | 0.000076 |
Nitronyl ring | |||
N1–O1 | 0.019881 | 0.023051 | 0.003170 |
N2–O2 | 0.015322 | 0.014239 | −0.001083 |
N1–C8 | 0.018261 | 0.017716 | −0.000545 |
N2–C9 | 0.021174 | 0.019823 | −0.001351 |
C8–C9 | 0.021997 | 0.021441 | −0.000557 |
C8–C12 | 0.020768 | 0.029925 | 0.009157 |
C8–C10 | 0.015159 | 0.015542 | 0.000383 |
C9–C13 | 0.013496 | 0.015565 | 0.002069 |
C9–C11 | 0.024836 | 0.035210 | 0.010373 |
![]() | ||
Fig. 6 View of the crystal packing and intermolecular contacts of Nit(SMe)Ph. Only the H atoms involved in the contacts are represented (i.e., H7i, H17ii and H18i). Molecule B (a) is related to molecule A by the glide plane (1/2 + x, 1/2 − y, z) and molecule C (b) by the cell translation (x, y, 1 − z). |
As discussed before, the rigid-body model was insufficient to satisfactorily describe the observed thermal motion of the Nit(SMe)Ph radical (Fig. 1), and internal vibrations had to be added to the model. Among them, some may influence the magnetic interactions. The angles θ3 and θ1 (Fig. 5), which are respectively a rotation of the C14 methyl group around the C5–S bond and a bending of the S–C14 bond, can influence the strength of the intermolecular interactions C14ii–H17ii ···O2 and C14i–H18i···O1 by their vibrational amplitudes. Therefore, at very low temperature, such interactions should be stronger, thus facilitating the magnetic interactions through these pathways. The θ2 and θ3 angles represent a bending of the two N–O bonds in the phenyl ring plane. As shown on Fig. 1, the two oxygen atoms are vibrating strongly in the a direction, which is the direction of the intermolecular contacts between two symmetry related N–O groups [4.3827(5) Å between O2 and N2i; Fig. 6]. This phenomenon persists to very low temperatures and was also observed at 10 K.42 Furthermore, the external libration of the whole molecule is more important around the inertial Z axis (3°). This is consistent with the fact that the oxygen atoms, which are the most distant from this axis, are vibrating strongly in the a direction. This libration changes the distance between the two N2–O2 groups of the two adjacent molecules related by the symmetry operation 1/2 + x, 1/2 − y, z. This is striking considering the several intramolecular and intermolecular interactions in which the oxygen atoms are involved, which should immobilise them.
![]() | ||
Fig. 7 Experimental deformation density (in e Å−3) in (a) the phenyl ring and (b) nitronyl ring plane [I>σ(I), all resolution range]. |
![]() | ||
Fig. 8 Three-dimensional representation of the static deformation density (in e Å−3) in (a) the phenyl ring plane, (b) nitronyl ring plane and (c) C5–S–C14 plane. The sections of the static deformation density in the phenyl and nitronyl rings are projected at the bottom of each frame. In (a) and (b), the isocontour is plotted at the 0.2 e Å−3 level. In (c), isocontours are plotted at the 0.1 e Å−3 level. The section of the static deformation density is in the plane bisecting the C5–S–C14 angle. |
The atomic valence populations, Pval, calculated from the Pval-κ refinement using positions and atomic displacement parameters obtained from model III, give chemically meaningful information about the interactions in Nit(SMe)Ph (Table 7). Whereas the methylthio group is highly negative [−0.60(3) e], each N–O fragment is less negative [−0.16(1) e] than expected for such electronegative atoms.67,68 The bridging C1 and C14 atoms are more negative [Pval = 4.29(2) and 4.27(2) e, respectively] than all the other carbon atoms; the mean valence population is 4.03(2) e for the phenyl carbons and 3.91(2) e for the methyl (C10, C11, C12 and C13) carbons. Methyl fragments of the nitronyl ring are positive, the net fragment charge ranging from +0.27(4) e to +0.40(4) e. The contraction-expansion κ parameters obtained at the end of refinement are lower than unity for all atoms, which means a global expansion of the valence electron density of the radical towards its neighbours.
Atom | P val | κ | Atom | P val | κ |
---|---|---|---|---|---|
S | 6.54(3) | 0.956(1) | C7 | 4.10(2) | 0.986(1) |
O1 | 6.07(1) | 0.968(1) | C8 | 4.09(2) | 0.967(1) |
O2 | 6.05(1) | 0.968(1) | C9 | 4.05(2) | 0.967(1) |
N1 | 5.09(1) | 0.983(1) | C10 | 3.97(2) | 0.967(1) |
N2 | 5.11(1) | 0.983(1) | C11 | 3.92(2) | 0.967(1) |
C1 | 4.29(2) | 0.967(1) | C12 | 3.82(2) | 0.967(1) |
C2 | 3.91(2) | 0.986(1) | C13 | 3.95(2) | 0.967(1) |
C3 | 4.24(2) | 0.986(1) | C14 | 4.27(2) | 0.967(1) |
C4 | 4.01(2) | 0.986(1) | H(methyl) | 0.927(3) | 0.979(2) |
C5 | 3.95(2) | 0.986(1) | H(phenyl) | 0.934(3) | 0.979(2) |
C6 | 3.95(2) | 0.986(1) |
Once the deformation density is described, a more quantitative discussion may be performed through the topological analysis. Table 8 sums up the critical point (CP) and topological properties for all bonds in Nit(SMe)Ph. The values obtained for C–C phenyl bonds (ρ = 2.06 e Å−3, ∇2ρ = −18.0 e Å−5, ε = 0.22) are in close agreement with those reported for the six-membered ring of the indole group in the peptide Ac–tr66 (ρ = 2.05 e Å−3, ∇2ρ = −16.0 e Å−5, ε = 0.19). Furthermore, the electron density and the Laplacian are lower than those obtained for the phenyl ring in N-acetyl-α,β-dehydrophenylalanine-N-methylamide69 (ρ = 2.21 e Å−3, ∇2ρ = −20.3 e Å−5, ε = 0.23); this results from the delocalization effects in Nit(SMe)Ph, which decrease the electron density in the phenyl bond and increase it in the other bonds involved in the delocalization (S–C5, C1–C2). The electron density in the S–C bonds at the CP is smaller than that observed in C–C bonds. The topological properties of the short S–C5 bond CP differ from those of the long S–C14 bond: the electron density, the negative Laplacian and the ellipticity are higher (1.31 e Å−3, −7.11 e Å−5 and 0.18 compared to 1.23 e Å−3, −5.42 e Å−5 and 0.11, respectively). These differences are due to the partial π character of the short bond. Whereas S–C5 features are consistent with the S–C bonds observed in the BTDMTTF-TCNQ complex1 (d = 1.739 Å, ρ = 1.32 e Å−3, ∇2ρ = −2.75 e Å−5), the topological features in S–C14 present the same properties as the corresponding S–C single bonds in L-cystine.50 The C1–C2 bond topological properties are closer to those of the phenyl C–C bonds than to those of a pure single C–C bond (C8–C9): short distance [1.4571(4) Å], high electron density (1.80 e Å−3) and high negative Laplacian (−13.21 e Å−5) at CP. The same conclusions can be drawn for the two short C–N bonds (C1–N1 and C1–N2) compared to the two single C–N bonds (C9–N2 and C8–N1). Therefore, the four bonds S–C5, C1–C2, C1–N1 and C1–N2 share a common characteristic: a mixed π-σ character that is due to the delocalisation from the two O to S atoms, thus increasing the S negative net charge. The two N–O bond features are slightly different [ρ = 2.63 and 2.74 e Å−3, ∇2ρ = 7.84 and 2.00 e Å−5, ε = 0.14 and 0.11 for N1–O1 and N2–O2, respectively), but we have to note that the N–O electron density is not as accurate as for the other atoms of the molecule, due to the high thermal displacement parameters of the oxygen atoms. The Laplacian at the N–O CP is surprisingly positive, which is characteristic of closed shell interactions, although high electron density is observed in the bond (2.69 e Å−3 on average for the two N–O bonds).
X–Y bonda | d(X–Y)/ Å | d(X–CP)/ Å | d(Y–CP)/ Å | ρ(rCP)/ e Å−3 | ρ − ρprob/ e Å−3 | ∇2ρ(rCP)/ e Å−5 | ε |
---|---|---|---|---|---|---|---|
a (i) 1/2 + x, 1/2 − y, z; (ii) x, y, 1 − z. b ρ pro is the promolecule electron density (i.e., the sum of independent spherical atoms). c The critical point is not defined in the promolecule. | |||||||
S–C5 | 1.657 | 0.946 | 0.811 | 1.31 | 0.33 | −7.11 | 0.18 |
S–C14 | 1.802 | 0.948 | 0.854 | 1.23 | 0.30 | −5.42 | 0.11 |
(C–C)phenyl | 1.400 | 0.700 | 0.700 | 2.06 | 0.65 | −18.00 | 0.22 |
C1–C2 | 1.457 | 0.796 | 0.661 | 1.80 | 0.52 | −13.21 | 0.07 |
C1–N1 | 1.357 | 0.533 | 0.824 | 2.22 | 0.55 | −18.31 | 0.24 |
C1–N2 | 1.352 | 0.523 | 0.829 | 2.20 | 0.52 | −18.13 | 0.22 |
N1–O1 | 1.281 | 0.640 | 0.641 | 2.63 | 0.16 | 7.84 | 0.14 |
N2–O2 | 1.277 | 0.638 | 0.639 | 2.74 | 0.25 | 2.00 | 0.11 |
N1–C8 | 1.501 | 0.861 | 0.640 | 1.57 | 0.28 | −7.22 | 0.11 |
N2–C9 | 1.503 | 0.861 | 0.642 | 1.59 | 0.30 | −7.36 | 0.11 |
C8–C9 | 1.556 | 0.785 | 0.771 | 1.58 | 0.49 | −11.09 | 0.13 |
O2···H4 | 2.492 | 1.405 | 1.087 | 0.09 | c | 1.41 | |
O2···H17ii | 2.686 | 1.552 | 1.134 | 0.03 | 0.00 | 0.50 | |
O1···H1 | 2.404 | 1.387 | 1.017 | 0.09 | c | 1.52 | |
O2···H7i | 2.356 | 1.364 | 0.992 | 0.06 | −0.03 | 1.12 | |
O1···H18i | 2.514 | 1.450 | 1.064 | 0.05 | 0.00 | 0.73 |
The two oxygen atoms differ by the intra- and intermolecular contacts in which they are involved (Fig. 6). The two oxygen atoms are linked by intramolecular hydrogen bonds to the closest phenyl hydrogen atom, forming two six-membered rings (C1–C2–C3–H1···O1–N1 and C1–C2–C7–H4···O2–N2). In each bond, the electron density and Laplacian at the CP are high (0.09 and 0.09 e Å−3, 1.52 and 1.41 e Å−5, respectively), indicating strong hydrogen bonds.7 The O2 lone pairs are deformed and partially rotated in the direction of the neighbouring N2i–O2i group [Fig. 9(a)]. Fig. 9(b) shows weaker effects, hardly significant, between O1 and C4. The molecule and its equivalent by a c lattice translation are not fully isolated as shown on Fig. 10(a). A 0.03 e Å−3 isocontour links the two molecules in the O2···H17ii–C14ii direction, the line on which a bond CP was found. This shows the presence of an electron density continuum in the direction between the two molecules. This is also the case for the O1···H18i–C14i and O2···H7i–C10i contacts [Fig. 10(b)]. In both contacts, a significant electron density (0.05 e Å−3) located right on the O···H axis, is characteristic of a hydrogen bond. The electron density at CP is lower in the O2···H17ii intermolecular contact (0.03 e Å−3) than in the two other ones (ρ = 0.05 and 0.06 e Å−3, respectively).
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Fig. 9 Static deformation density (in e Å−3) in the intermolecular contacts (a) O2···N2i and (b) O1···C4i. H atoms are omitted and only the O1 and O2 deformation density is represented for the sake of clarity. Isocontour is plotted at the 0.1 e Å−3 contour. The intermolecular contacts O2···O2i, O2···N2i and O1···C4i are given by dashed lines. |
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Fig. 10 Total electron density (in e Å−3) in (a) the O2···H17ii intermolecular contact and (b) for two molecules along the a axis. The molecules are oriented as in Fig. 6(a,b). In (a) isocontours are plotted at 0.03, 0.3, 3.0 e Å−3. The electron density is sectioned in the O2···H17ii–C14ii plane. In (b) isocontours are plotted at 0.05, 0.5, 5.0 e Å−3. The electron density is sectioned in the O2···N2i···H8i plane. The two arrows indicate the two intermolecular hydrogen bonds O1···H18i and O2···H7i in which electron density accumulation is present. |
The first clear result is that the CP topological features in the S–C5, C1–C2, C1–N1,2 bonds and in the phenyl C–C bonds are very consistent with the delocalisation scheme. They all exhibit a high mixed π-σ character (Table 8), the system being conjugated from the sulfur atom to the two oxygens.
At the end of refinement, the valence populations Pval show that the two N–O fragments carry a very small negative charge [−0.16(1) e]. In contrast, the methylthio fragment is highly negative, supporting the hypothesis of a charge transfer from the N2–O2–C1–N1–O1 group to C14–S. This is in agreement with the suggestion based on polarised neutron data that this is indeed an important ferromagnetic pathway. Furthermore, the presence of bond CPs between O2 and H17ii in the intermolecular contact N2–O2···H17ii–C14ii and between O1 and H18i in N1–O1···H18i–C14i confirms the possible interaction pathway through these two hydrogen bonds, in agreement with the significant spin population observed on C14 by polarised neutron experiments.41,42 Even if the low electron density at these two hydrogen bond CPs is characteristic of weak interactions, the latter can be sufficient at very low temperature (close to Tc) to contribute to the ferromagnetic ordering as already observed in other nitronyl nitroxide compounds.16,70 Therefore, as the two N–O fragments are both involved in the charge transfer with the methylthio group, this may explain the similarities observed in charges and spin populations between the two nitroxide groups. The negative charge on the sulfur atom may be due either to the intramolecular delocalisation (see above) or through these intermolecular interactions.
The O2 lone pairs are rotated in the direction of the N2–O2···O2i–N2i contact [Fig. 9(a)]. The length of this intermolecular contact [4.3827(5) Å] at first glance is rather long to induce molecule such effects, but is nevertheless one of the shortest observed in more than 140 studied nitronyl nitroxide compounds exhibiting magnetic behaviour.37 However, this contact is generally believed to yield an antiferromagnetic pathway. The last contact that we wish to discuss as inducing the propagation of magnetic interactions along the a axis (O2···H7i) is characterised by the presence of a bond CP with high electron density and Laplacian (0.06 e Å−3 and 1.12 e Å−5, respectively). This kind of contact between the nitroxide fragment and a methyl group of the nitronyl ring has already been noted to induce ferromagnetic ordering.33,34 Furthermore, the observed decrease of the distances in the a direction with temperature reinforces the interactions by these pathways. In contrast, the increase of the length in the c direction means that the O2···H17ii hydrogen bond becomes weaker. Even if the magnetic data39,40 show three-dimensional interactions, these features would enhance a much pronounced one-dimensional behaviour.
Footnote |
† Electronic supplementary information (ESI) available: atomic positions and anisotropic displacement parameters refined against the 114 K X-ray and neutron data. See http://www.rsc.org/suppdata/nj/b0/b003674i/ |
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