B. Kołodziej et al. / Journal of Molecular Structure 691 (2004) 133–139
135
3
˚
˚
This distance for the neutral H-bonds is equal ca. 2.556 A,
˚
whereas for the ionic H-bonds is 2.562 A. Also, the neutral
a ¼ 608; b ¼ 608; g ¼ 1208; volume (A ) ¼ 9286(3), Z ¼
3
1
8; density calc. (Mg/m ) ¼ 1.255, absorption coefficient
2
1
3
(
mm ) ¼ 0.087, Fð000Þ ¼ 3720; crystal size (mm ) ¼
H-bonds are more linear with the hydrogen angle equal to
ca. 1548 compared to ca. 1458 for the other case. Small
differences in hydrogen· · ·acceptor (H· · ·A) distances are
due to the errors associated with H atom parameters.
The differences in H-bonds—as the ones described above—
are hardly seen on qualitative differential maps of electron
density calculated in the planes of hydrogen bonds as it is
shown in Fig. 2.
0
.15 £ 0.30 £ 0.25, theta range for data collection
(
8) ¼ 3.28–22.008, index ranges; 215 # h # 15; 215 #
k # 15; 252 # l # 52; reflections collected ¼ 35,641,
independent reflections ¼ 2534 ðRðintÞ ¼ 0:0395Þ; refine-
2
ment method ¼ full-matrix least-squares on F ; data/
restraints/parameters ¼ 2534/0/356, goodness-of-fit on
2
F ¼ 1:153; final R indices ðI . 2sðIÞÞ; R1 ¼ 0:054;
wR2 ¼ 0:142; R indices (all data); R1 ¼ 0:069; wR2 ¼
These differences in the quality of H-bonds formed is
then transmitted into the more distant fragments of the
moieties. The most spectacular differences in the values of
structural parameters for the both moieties are shown in
Fig. 3.
0
:155; extinction coefficient ¼ 0.0023(15), largest diff. peak
˚
2
3
and hole (eA ) ¼ 0.18 and 20.14.
Crystallographic data (excluding structural factors) for
the structure reported in this paper have been deposited with
the Cambridge Crystallographic Data Center and allocated
the deposition number: CCDC 176825. Copies of the data
can be obtained free of charge on application to CCDC,
When the geometry of NMSB is compared to the
geometry of IMSB, the largest differences in bond lengths
˚
equivalent in the both moieties are for: CO (20.027 A),
˚ ˚ ˚
1
2 Union Road, Cambridge CB2 1EW, UK (Fax: Int code
CaldO (0.021 A), C5C6 (0.025 A), C4C3 (20.010 A) and
˚
þ 44(1223)336-033; E-mail: deposit@ccdc.cam.ac.uk).
CyN (0.010 A). These differences—some of them topo-
logically quite far from the hydrogen bonding site—result
from the redistribution of electron density in the system
imposed by the change of proton position in the H-
bonding. Of course, when the proton is at the nitrogen
3
. Results and discussion
atom the C O bond becomes shorter and it acquires partly
ar
X-ray data. NMSB £ IMSB crystallises in a general
ꢀ
double character. This means that increasing amount of
electron density in the C O bond must be accompanied
position in the rhombohedral R3 space group with two
symmetry unrelated moieties (two different third parts of the
tripodal tris(3-formyl-5-methyl-2-salicylidenamino-ethyl)-
amine—see Fig. 1) in the independent part of the unit
cell. This structure can also be refined in the pseudotriclinic
ar
by a decrease in other bonds (mainly the nearest
neighbouring one, C5C6, and also quite distant CaldO—
see Fig. 3). Another consequences of different H-bonds
are differences in the valence angles—in particular the
ipso angles of the oxygen atoms (ca. 117.9(3)8 for the
ionic and ca. 118.7(3)8 for neutral H-bonding). The key
angles at the Schiff nitrogen atoms differ for the both
bonds by ca. 38. For the other angles, the differences are
rather small and non-significant.
ꢀ
P1 space group, also with two different moieties in the
1
independent part of the unit cell. The labelling of atoms in
the asymmetric unit without redundant hydrogen atoms
(
but including hydrogens participating in the H-bonds) is
shown in Fig. 1. The compound consists from two tripodal
moieties each containing three equivalent side arms in the
independent part of the unit cell. The arms of the moieties
are arranged in such a manner that a three-fold axis passes
through the bridging N atom. These bridged N-atoms are
pyramidal and their lone pairs are pointing towards the
cavity formed by the three Schiff arms of the compound.
The both moieties look like being related by a centre of
symmetry, but, in fact, they are not symmetry related. The
only reason why they are not symmetry related is a
significant difference in H-bonds formed in these two
independent moieties. In one of the moieties (IMSB)
hydrogen atoms in the Schiff fragments are localised at
the nitrogens (see Fig. 1 and Table 1), whereas in the other
one (NMSB) they are localised at the oxygen atoms. As one
can see from Table 1, these two limiting cases of H-bonding
differ significantly. Firstly, the neutral H-bond seems to be
slightly stronger than the ionic one because it is character-
ised by shorter donor· · ·acceptor distance (N· · ·O).
It is interesting why these two moieties differ that
dramatically as far as the properties of hydrogen bonding
are concerned. To analyse this problem, one can take a look
at 3D arrangement of molecules in the crystal lattice. The
packing of the NMSB £ IMSB molecules in the crystal
lattice is shown in Fig. 4. We want to stress that the aromatic
fragments of the neighbouring moieties are arranged in such
a way as to allow p· · ·p interactions between them (with the
˚
shortest C · · ·C as short as 3.354 A). These interactions of
ar
ar
the aromatic fragments of both moieties can be a driving
force for changes in hydrogen bonding. Structural differ-
ences between neutral and ionic moieties clearly show quite
a strong coupling of electron density of the aromatic
fragments and the nearest H-bonding. This means that
changes in concentration of electron density should easily
be transmitted from one point to another one. By
differentiation of H-bonds in the both moieties, the aromatic
fragments are becoming slightly differently charged which
adds an additional small electrostatic component to Ph· · ·Ph
interactions.
1
Authors would like to thank the PT Referee for pinpointing the higher
symmetry solution.