Magdalena Truger1, Otello M Roscioni2, Christian Röthel3, Dominik Kriegner4, Clemens Simbrunner5, Rizwan Ahmed6, Eric D Głowacki7, Josef Simbrunner8, Ingo Salzmann9, Anna Maria Coclite1, Andrew O F Jones1, Roland Resel1. 1. Institute of Solid State Physics, NAWI Graz, Graz University of Technology , Petersgasse 16, 8010 Graz, Austria. 2. School of Chemistry, University of Southampton, Southampton SO17 1BJ, United Kingdom; Dipartimento di Chimica Industriale "Toso Montanari", Università di Bologna, viale Risorgimento 4, 40136 Bologna, Italy. 3. Institute of Solid State Physics, NAWI Graz, Graz University of Technology, Petersgasse 16, 8010 Graz, Austria; Institute of Pharmaceutical Sciences, Department of Pharmaceutical Technology, University of Graz, Universitätsplatz 1, 8010 Graz, Austria. 4. Department of Condensed Matter Physics, Charles University Prague , Ke Karlovu 5, Prague 12116 2, Czech Republic. 5. Institute of Solid State Physics, University of Bremen, Otto-Hahn-Allee 1, 28359 Bremen, Germany; Institute of Semiconductor and Solid State Physics, Johannes Kepler University Linz, Altenbergerstraße 69, 4040 Linz, Austria. 6. Institute of Semiconductor and Solid State Physics, Johannes Kepler University Linz, Altenbergerstraße 69, 4040 Linz, Austria; National Center for Physics, Quaid-e-Azam University Campus, Islamabad, Pakistan. 7. Physical Chemistry, Johannes Kepler University Linz , Altenbergerstraße 69, 4040 Linz, Austria. 8. Institute of Solid State Physics, NAWI Graz, Graz University of Technology, Petersgasse 16, 8010 Graz, Austria; Division of Neuroradiology, Medical University of Graz, Auenbruggerplatz 9, 8036 Graz, Austria. 9. Department of Physics, Humboldt Universität zu Berlin , Brook-Taylor Straße 6, 12489 Berlin, Germany.
Abstract
The appearance of surface-induced phases of molecular crystals is a frequently observed phenomenon in organic electronics. However, despite their fundamental importance, the origin of such phases is not yet fully resolved. The organic molecule 6,6'-dibromoindigo (Tyrian purple) forms two polymorphs within thin films. At growth temperatures of 150 °C, the well-known bulk structure forms, while at a substrate temperature of 50 °C, a surface-induced phase is observed instead. In the present work, the crystal structure of the surface-induced polymorph is solved by a combined experimental and theoretical approach using grazing incidence X-ray diffraction and molecular dynamics simulations. A comparison of both phases reveals that π-π stacking and hydrogen bonds are common motifs for the intermolecular packing. In-situ temperature studies reveal a phase transition from the surface-induced phase to the bulk phase at a temperature of 210 °C; the irreversibility of the transition indicates that the surface-induced phase is metastable. The crystallization behavior is investigated ex-situ starting from the sub-monolayer regime up to a nominal thickness of 9 nm using two different silicon oxide surfaces; island formation is observed together with a slight variation of the crystal structure. This work shows that surface-induced phases not only appear for compounds with weak, isotropic van der Waals bonds, but also for molecules exhibiting strong and highly directional hydrogen bonds.
The appearance of surface-induced phases of molecular crystals is a frequently observed phenomenon in organic electronics. However, despite their fundamental importance, the origin of such phases is not yet fully resolved. The organic molecule 6,6'-dibromoindigo (Tyrian purple) forms two polymorphs within thin films. At growth temperatures of 150 °C, the well-known bulk structure forms, while at a substrate temperature of 50 °C, a surface-induced phase is observed instead. In the present work, the crystal structure of the surface-induced polymorph is solved by a combined experimental and theoretical approach using grazing incidence X-ray diffraction and molecular dynamics simulations. A comparison of both phases reveals that π-π stacking and hydrogen bonds are common motifs for the intermolecular packing. In-situ temperature studies reveal a phase transition from the surface-induced phase to the bulk phase at a temperature of 210 °C; the irreversibility of the transition indicates that the surface-induced phase is metastable. The crystallization behavior is investigated ex-situ starting from the sub-monolayer regime up to a nominal thickness of 9 nm using two different silicon oxide surfaces; island formation is observed together with a slight variation of the crystal structure. This work shows that surface-induced phases not only appear for compounds with weak, isotropic van der Waals bonds, but also for molecules exhibiting strong and highly directional hydrogen bonds.
During the last few years, the use of
hydrogen-bonded pigments
has attracted significant interest in organic electronics, due to
their promising charge transport mobilities.[1−3] Apart from being
biodegradable and nontoxic, an important characteristic of this material
class is the typically high environmental stability[4,5] and
their ability to form hydrogen bonds, which are strong intermolecular
interactions compared to van der Waals interactions. In addition,
hydrogen bonds are directional interactions. As a consequence, the
molecular arrangement within the crystalline structure deviates significantly
from the known molecular packing motifs of aromatic hydrocarbons.[6] For example, the common organic pigment quinacridone
is known to form (at least) three significantly different types of
crystal structures, which are characterized by different hydrogen-bonded
networks.[7] However, for hydrogen-bonded
pigments, the occurrence of surface-induced phases (specific polymorphs
within thin films mediated by the presence of a substrate surface
during the crystallization) is not reported. Such surface-induced
phases are frequently observed for rod-like conjugated molecules,
where a strong influence to application relevant physical properties
is observed.[8]In the field of organic
electronics, the structural characteristics
of aromatic molecules such as pentacene in thin films have been intensively
investigated as organic electronic devices are typically based on
such architectures.[9−12] Likewise, scientific interest has recently increased for thin films
of hydrogen-bonded pigments. The film formation and crystallization
at surfaces was studied for indigo[13,14] and quinacridone,
where, in addition, the electronic structure was investigated.[15−20] For these systems, stronger intermolecular interactions due to hydrogen
bond formation and the presence of stronger bonds toward the substrate
result in lower diffusion rates and smaller crystallites.[14] Nevertheless, the preferred molecular orientation
can be influenced by substrate surface engineering.[2]In this work, the structural properties of thin films
of 6,6′-dibromoindigo,
commonly known as Tyrian purple, are studied. The crystal bulk cell
is well-known,[21,22] and in addition, a new crystalline
phase of Tyrian purple within thin films has been reported,[23] but not yet characterized. Its crystallographic
properties are investigated as a function of temperature and film
thickness, from the sub-monolayer regime up to thick (multilayer)
films. Our study confirms the existence of this yet uncharacterized
polymorph of Tyrian purple and provides a crystal structure solution;
its thermodynamic stability is also explored.
Experimental
Section
Tyrian purple powder was synthesized following the
previously reported
procedure[24] and purified by temperature
gradient sublimation. A first set of thin films was deposited by hot
wall epitaxy (HWE) using a base reactor pressure of 1 × 10–6 mbar.[25] Pristine, polyethylene-coated
glass,[26] as well as thermally oxidized
silicon wafers with an oxide thickness of 150 nm served as substrates
and were preheated to the desired growth temperature for 30 min, in
order to ensure a stable substrate temperature during the deposition
process. The material was deposited for 60 min using a source/wall
temperature of 240 °C/260 °C.A second set of samples
was prepared by physical vapor deposition
(PVD), in order to have better control over the film thickness, especially
in the monolayer regime. Tyrian purple powder was purchased from ENDOTHERM
Ltd. and used without any further purification. A steel Knudsen cell
and a base pressure of 3 × 10–5 mbar were used.
Plasma-etched and chemically cleaned silicon substrates (150 nm thermal
oxide) were used. The chemical cleaning procedure involved sonication
in acetone for 10 min and subsequent rinsing with isopropanol. The
plasma cleaned substrates were prepared using a Femto plasma cleaner
by Diener electronic after the chemical cleaning procedure. The oxygen
plasma was ignited for 42 s. The plasma etching changes the surface
energy of the substrate from 61 mN/m after the chemical cleaning to
73 mN/m after plasma etching, where the difference could be assigned
solely to changes in the polar part of the surface energy. Films were
deposited with a deposition rate of 0.18 nm/min with final nominal
thicknesses between 0.6 and 9 nm, as determined with a quartz crystal
microbalance; the substrates were kept at room temperature.Atomic force microscopy (AFM) studies were performed using a Digital
Instruments Dimension 3100 in tapping mode. The images were acquired
at a scan speed of 5 μm/s using SiC tips exhibiting a cone angle
of 40°. Nominal values for the resonance frequency and the tip
radius were 325 kHz and 10 nm, respectively.Specular X-ray
scattering studies were performed with a PANalytical
Empyrean system using Kα radiation from a sealed
Cu-tube. At the primary side, a multilayer X-ray mirror was used to
generate a monochromatic (λ = 1.54 Å) and parallel beam
with a height of 100 μm; at the secondary side, a 100 μm
receiving slit and a 0.02 rad Soller slit were used in combination
with a PANalytical PIXcel 3D detector acting as a point detector.
The X-ray diffraction (XRD) as well as the X-ray reflectivity (XRR)
data are plotted as a function of the scattering vector q via q = 4π/λ sin θ;
λ being the wavelength and θ half of the scattering angle
2θ. The X-ray reflectivity data were fitted using the software Stochfit(27) to determine an electron
density profile across the thin film. The error of the peak position
is determined from the experimental shifts of the critical angles
to Δq = ±
0.002 Å–1. The size of the crystallites was
determined by the Scherrer equation using the full width at half-maximum
of the Bragg peaks. In-situ temperature studies were performed by
means of a DHS900 heating stage (Anton Paar Ltd.). The experiments
were performed under inert conditions using a dynamic flow of helium.
Typical measurement times were 15 min per temperature step. Between
the measurements, the samples were heated to the next temperature
with a heating rate of 50 °C/min.Grazing incidence X-ray
diffraction (GIXD) was performed at the
beamline ID10 (ESRF Grenoble, France) using a pseudo z-axis geometry.[28,29] A wavelength of 0.564 Å
was used with a beam size of 20 μm × 20 μm. The incidence
angle was chosen between 0.075° and 0.09°, which is slightly
below the critical angle of the substrate, in order to minimize the
signal from the substrate and to enhance the diffracted intensity
due to the evanescent wave. The diffracted signal was recorded by
a PILATUS 1 M detector mounted on a goniometer. The typical illumination
time was 30 s. The diffraction pattern was transformed into reciprocal
space using the software library xrayutilities.[30] The calculation of the peak positions and structure
factors was performed using the custom-made software PyGID.[29]The molecular packing within
the experimentally determined unit
cell has been calculated by theoretical modeling, where a combination
of molecular dynamics (MD) and density functional theory (DFT) was
applied. MD simulations were carried out using the LAMMPS code[31] in combination with the CHARMM General Force
Field v. 2b7.[32] In a first step, several
hundred trial structures were created by placing one molecule randomly
into a slightly expanded unit cell. During the subsequent MD run,
the system was allowed to relax while the unit-cell was shrunk continuously
to its experimental size. The most promising structures were further
refined using DFT geometry optimizations as implemented in the CASTEP
program.[33] Ultrasoft pseudopotentials were
used in combination with a plane wave cutoff energy of 280 eV. A Monkhorst–Pack
grid[34] with a density of 0.05 Å–1 was used for choosing the k-points.
Results
Figure depicts
AFM micrographs of Tyrian purple thin films grown on polyethylene
surfaces, which were prepared at substrate temperatures of 50, 100,
and 150 °C. The formation of elongated islands together with
elevated hillocks is observed. The latter exhibit heights of up to
400 nm, whereas the elongated islands have a maximum height of 80
nm. The lateral size of the islands increases with growth temperature:
at low temperatures the length of the islands is below 1 μm,
the size of the islands then increases to several micrometers in length
while remaining less than 1 μm in width for a growth temperature
of 100 °C; at 150 °C the overall size of the islands is
further increased. Interestingly, ridge like structures with a typical
height of several nanometers are found within the islands. Partly,
the heights of the ridges are irregular (cf. Figure D) and in some cases terrace-like structures
with step heights of 1.2 nm (about the length of a single molecule),
but also of about 4 nm are found (cf. Figure E).
Figure 1
Atomic force microscopy (AFM) of Tyrian purple
films grown on polyethylene
substrates at substrate temperatures of 50 °C (A), 100 °C
(B), and 150 °C (C) together with the corresponding line profiles
(D, E) taken along the white lines in B and C.
Atomic force microscopy (AFM) of Tyrian purple
films grown on polyethylene
substrates at substrate temperatures of 50 °C (A), 100 °C
(B), and 150 °C (C) together with the corresponding line profiles
(D, E) taken along the white lines in B and C.Specular X-ray diffraction was performed on these three films
grown
at different temperatures; the results are depicted in Figure . In the case of the films
prepared at 150 °C, Bragg peaks from two different interplanar
distances and their higher-order reflections are observed. One peak
series (labeled as 00L in Figure ) is observed up to sixth order, with the first order
peak corresponding to an interplanar distance of 12.1 Å. This
value is in good agreement with the interplanar distance of the 001
peak (d001 = 12.2 Å) taken from the
known bulk crystal structure with a unit cell of a = 11.611(12) Å, b = 4.842(2) Å, c = 12.609(16) Å, and β = 104.42(6)°;[22] the observed intensities of the 00L peak series agree well with the respective calculated intensities
for the known bulk phase. Therefore, we conclude that the known bulk
structure of Tyrian purple is present within the sample with a preferred
orientation of the crystallites; i.e., their (001) planes are parallel
to the substrate surface (001 fiber texture). The preferred orientation
reveals that the molecules are standing at the substrate surface,
however, with a tilt angle of ∼40° with respect to the
surface normal (the van der Waals length of the molecule is 17.8 Å).
Note that epitaxial growth of Tyrian purple on polyethylene single
crystals results in a different orientation with the (010) plane of
Tyrian purple parallel to (110) of polyethylene.[35]
Figure 2
Specular X-ray diffraction results for Tyrian purple films grown
on polyethylene at different substrate temperatures (see the corresponding
morphologies in Figure ). The 00L indices denote Bragg peaks of the bulk
phase. The arrows indicate the 00L peak series of
the surface-induced phase (SIP).
Specular X-ray diffraction results for Tyrian purple films grown
on polyethylene at different substrate temperatures (see the corresponding
morphologies in Figure ). The 00L indices denote Bragg peaks of the bulk
phase. The arrows indicate the 00L peak series of
the surface-induced phase (SIP).The first peak in the other series of peaks corresponds to
an interplanar
distance of 15.2 Å, where higher-order reflections are also observed
(labeled as surface induced phase (SIP) in Figure ; arrows indicate the peak positions) and
cannot be explained by any known polymorph. This peak series is also
indexed by 00L, since the observed interplanar distance
of the Bragg peaks is comparable to the bulk structure. The distance
of 15.2 Å suggests that the molecules are similarly oriented
in this unknown polymorph, however, with a smaller tilt angle to the
surface normal of about 25°. Similar features of polymorphism
are found in thin films of other rod-like conjugated molecules where
the polymorph with the smaller tilt angle is found to be a SIP.[36−38] In the following discussion we will use the term SIP for the unknown
phase and give further evidence justifying the presence of a surface-induced
phase in Tyrian purple films.The films prepared at a lower
substrate temperature of 100 °C
show both crystallographic phases, however, with strongly reduced
intensity of the bulk crystal structure relative to the SIP. In contrast,
at a substrate temperature of 50 °C only Bragg peaks assigned
to the surface-induced polymorph are present. As an aside we note
that this temperature dependent polymorphism of Tyrian purple is also
observed in thin films prepared on thermally oxidized silicon as well
as on glass surfaces (not shown).In-situ temperature studies
were performed to investigate the thermodynamic
stability of crystalline Tyrian purple. In Figure , such a temperature study of a film grown
on a polyethylene surface at a substrate temperature of 100 °C
is shown. Starting from room temperature, the dominant diffraction
peak arises due to the SIP, and only weak traces of the bulk phase
are present. With increasing temperature, a slight reduction of the
SIP peak intensity is observed. At a temperature of 210 °C, a
sudden change in the diffraction pattern takes place: the 001 bulk
phase peak increases considerably in intensity, which is accompanied
by a sudden drop in intensity of the 001 SIP peak. This phase transition
is also accompanied by a drastic change of the peak width. Subsequent
cooling to room temperature did not result in a reversible behavior
of the phase transition, and the bulk phase remains the only one present.
The irreversible nature of the phase transition reveals that the temperature
dependent phase behavior of Tyrian purple is not enantiotropic. Additionally,
the irreversibility of the phase transition shows that the SIP is
a metastable phase.
Figure 3
Temperature dependent specular X-ray diffraction measurements
on
a Tyrian purple film grown on polyethylene at a substrate temperature
of 100 °C. The measurements are performed for a full temperature
cycle at discrete temperature steps by first heating up from room
temperature to 210 °C and subsequent cooling down to room temperature
(from top to bottom).
Temperature dependent specular X-ray diffraction measurements
on
a Tyrian purple film grown on polyethylene at a substrate temperature
of 100 °C. The measurements are performed for a full temperature
cycle at discrete temperature steps by first heating up from room
temperature to 210 °C and subsequent cooling down to room temperature
(from top to bottom).Heating samples beyond 210 °C reveals a rather constant
peak
intensity of the bulk phase up to a temperature of 250 °C; at
higher temperatures the Bragg peak of the bulk phase disappears. Cooling
back to room temperature is not accompanied by the reappearance of
any Bragg peaks as the molecular material has sublimated from the
substrate surface.The next step of the experimental investigations
was performed
on Tyrian purple films prepared at room temperature by PVD. Figure shows X-ray reflectivity
(XRR) measurements of samples prepared with different thicknesses.
The nominal film thickness of the films varies from a sub-monolayer
coverage of 0.6 nm to a monolayer coverage of 1.5 nm up to multilayer
coverages of up to 9 nm. The X-ray reflectivity curves show critical
angles between 0.193° (q = 0.027 Å–1) and 0.203° (q = 0.029 Å–1), which is close to the expected critical angle of amorphous silicon
dioxide (αC = 0.216°, q = 0.031 Å–1)[39] and that of crystalline Tyrian purple (αC = 0.204°, q = 0.029 Å–1).[22] In the case of films grown on chemically cleaned surfaces (Figure A), two characteristic
features are observed with increasing film thickness. First, a distinct
minimum is formed at q ≈ 0.04 Å–1 and second, a Bragg peak
at q ≈ 0.45 Å–1 develops. The peak position of the Bragg peak shifts
with the nominal film thickness from 0.456 Å–1 (nominal thickness 0.6 nm) to 0.422 Å–1 (9.0
nm); detailed values are given in Table . Thin films prepared on plasma-etched siliconoxide surfaces show a comparable tendency of peak shift as a function
of nominal film thickness (Figure B). In general, the position of the Bragg peak clearly
confirms that the SIP is present within the thin films. Nevertheless,
the interplanar distance varies between 14.9 and 13.8 Å for crystallites
grown on chemically cleaned silicon oxide and 15.1 Å to 14.7
Å on the plasma-etched silicon oxide surface. This might suggest
that in the very low thickness regime, a slight variation of the molecular
packing occurs. Another possible explanation for this peak shift could
be a coherent superposition of X-ray reflectivity from a molecular
underlayer with X-ray diffraction due to three-dimensional crystallites,
as has already been observed for the initial growth of pentacene in
thin films.[40] The presence of Bragg peaks
for nominally sub-monolayer thick films reveals that island formation
dominates the film growth. Estimated crystallite sizes, calculated
on the basis of the peak width, are given in Table . The formation of a continuous monolayer
across the substrate surface is not observed.
Figure 4
X-ray reflectivity of
Tyrian purple films of different nominal
thicknesses prepared on silicon oxide (A) and on plasma-etched silicon
oxide (B).
Table 1
Peak Positions q, Interplanar Distance d001, and Crystallite Size Λ, of Films
with Different
Nominal Thicknesses Prepared on Two Different Substrates, as Deduced
from the 001 Bragg Peaka
chemically
cleaned SiO2
plasma-etched
SiO2
film thickness [nm]
qz [Å–1]
d001 [Å]
Λ [Å]
qz [Å–1]
d001 [Å]
Λ [Å]
0.6
0.456
13.8
n/a
n/a
n/a
n/a
0.9
0.455
13.8
83
0.417
15.1
n/a
1.5
0.460
13.7
79
0.426
14.8
80
3.0
0.448
14.0
115
0.439
14.3
93
4.5
0.438
14.4
114
0.438
14.4
106
6.0
0.431
14.6
137
0.433
14.5
127
9.0
0.422
14.9
171
0.428
14.7
159
For ultrathin films no reliable
values could be extracted from the measurements.
X-ray reflectivity of
Tyrian purple films of different nominal
thicknesses prepared on silicon oxide (A) and on plasma-etched siliconoxide (B).For ultrathin films no reliable
values could be extracted from the measurements.Fits of the X-ray reflectivity curves
were performed to obtain
total electron density profiles across the thin film. Figure A shows the fitted curves superimposed
on the experimental data, the electron density profiles obtained from
the fits are depicted in Figure B. Oscillations of the electron density are due to
the regular crystalline packing across the layers. A slight reduction
of the electron density is observed at the substrate/organic interface
around z ≈ 1 nm. It seems that the order at
the interface is better developed for the chemically cleaned surface,
since the oscillations are sustained down to the silicon oxide interface.
The continuous reduction of the electron density at z > 7 nm appears due to surface roughness.
Figure 5
(A) Comparison of the
experimental data with the theoretical fit
for films of 9 nm nominal thickness prepared on chemically cleaned
(top) and plasma-etched (bottom) silicon oxide. (B) Electron densities
as a function of the surface normal coordinate z,
as deduced from the fits. d denotes the periodic oscillations of the
electron density across the 001 planes; the chemical structure of
Tyrian purple is shown as an inset. The curves are vertically shifted
for clarity (A, B).
(A) Comparison of the
experimental data with the theoretical fit
for films of 9 nm nominal thickness prepared on chemically cleaned
(top) and plasma-etched (bottom) silicon oxide. (B) Electron densities
as a function of the surface normal coordinate z,
as deduced from the fits. d denotes the periodic oscillations of the
electron density across the 001 planes; the chemical structure of
Tyrian purple is shown as an inset. The curves are vertically shifted
for clarity (A, B).After the detailed investigations
of the out-of-plane order by
X-ray reflectivity and specular X-ray diffraction, the in-plane order
of the films is studied by grazing incidence X-ray diffraction (GIXD).
Characteristic GIXD patterns are given in Figure for films of 9 nm nominal thickness prepared
on chemically cleaned (Figure A) and plasma-etched silicon oxide surfaces (Figure B).
Figure 6
Reciprocal space maps
calculated from grazing incidence diffraction
data of nominally 9 nm thick Tyrian purple films grown on chemically
cleaned (A) and plasma-etched silicon oxide (B). Calculated positions
of the Bragg peaks are given by black points. The areas of the circles
in (B) are proportional to the calculated structure factors of the
solved crystal structure of the surface-induced phase.
Reciprocal space maps
calculated from grazing incidence diffraction
data of nominally 9 nm thick Tyrian purple films grown on chemically
cleaned (A) and plasma-etched silicon oxide (B). Calculated positions
of the Bragg peaks are given by black points. The areas of the circles
in (B) are proportional to the calculated structure factors of the
solved crystal structure of the surface-induced phase.Strong Bragg peaks reveal crystallographic in-plane
order within
the thin films. Rods with distinct Bragg peaks along q are found at q values of 1.08, 1.63, and 1.91 Å–1. The indexation of Bragg peaks corresponding to the
surface-induced structure is performed on the basis of assigning the
peaks observed in the specular scan (q = 0) as 00L as described above (i.e., the 001 plane
is parallel to the substrate surface); as a consequence, the crystallographic
axes a and b are parallel to the
substrate surface. In a subsequent step, the Bragg peaks along q = 1.08 Å–1 are assigned to the 0 ± 1L peak series, peaks along q = 1.63 Å–1 to ±10L and peaks along q = 1.91 Å–1 to ±11L. The lattice
constants of a triclinic unit cell can be determined by using three
clearly defined q values
and three q values together
with their corresponding Miller indices. Analytical expressions are
derived to calculate the lattice constants for a triclinic unit cell
with the ab-plane parallel to the substrate surface
(see eqs and 2).whereandBy
solving the first set of eq the unit cell parameters which
lie in-plane, namely a, b, and γ can be determined. q values from three independent
Bragg peak series (here 01L, 10L and 11L) are required. Solving the
second set of eqs leads
to parameters α and β, using the relationsand the lattice
constant c can be calculated
from usingThe most convenient
method to solve eqs and 2 is by calculating the inverse matrices.In the case of the film prepared on the chemically cleaned siliconoxide (Figure A),
the following values were used for the calculation of a, b, and γ: q = 1.08 Å–1, q = 1.63 Å–1, and q = 1.91 Å–1 with Miller indices 01L, −10L, and 11L, respectively. To determine α, β, and c, three peaks with different q values are taken: q = 0.32 Å–1 (−101), q = 0.75 Å–1 (−102),
and q = 1.01 Å–1 (012); the resulting lattice constants are given
in Table . The volume
of the crystallographic unit cell is 328.9 Å3, which
is slightly smaller than the volume of one Tyrian purple molecule
in the bulk crystal structure (340.9 Å3).[22] This shows that the unit cell contains only
one molecule.
Table 2
Calculated Unit Cell Parameters for
the Surface-Induced Phase of Tyrian Purple on Chemically Cleaned and
Plasma-Etched Silicon Oxide
chemically cleaned
SiO2
plasma-etched SiO2
a [Å]
3.86
3.84
b [Å]
5.83
6.00
c [Å]
14.86
14.67
α [deg]
98.2
94.0
β [deg]
94.2
93.0
γ [deg]
87.1
87.0
V [Å3]
328.87
336.31
In the case of the
film prepared on the plasma-etched surface (Figure B), the following
peaks and q values were used to calculate the unit
cell: 011 (q = 1.05
Å–1/q = 0.50 Å–1), −102 (q = 1.64 Å–1/q = 0.78 Å–1), 110 (q = 1.90 Å–1/q =
0.15 Å–1), which results in slightly different
lattice constants and a slightly enlarged volume of the unit cell
compared with the structure found on chemically cleaned substrates
(cf. Table ).On the basis of the experimentally determined crystallographic
unit cell of the surface-induced phase of Tyrian purple on a plasma-etched
silicon oxide surface, molecular dynamics (MD) simulations were performed
to determine the molecular packing and give a complete crystal structure
solution. Initial starting structures were generated by expansion
of the unit cell volume by 30% and the random alignment of a single
molecule. A short MD run of 10 ps was performed at 150 K, during which
the unit cell was shrunk back to its experimental dimensions. The
resulting structures were sorted in groups based on the simulated
powder diffraction pattern and the total energy. The molecule was
allowed to bend during the simulation, but due to the structure of
the chemical bonds within the molecule the best solutions were straight
again. The best structures were used as a starting point for further
MD simulations in which the initial volume of the unit cell was expanded
only by 5% and the alignment of the single Tyrian purple molecule
rocked randomly by 0.3 degrees along Cartesian directions. The structures
with the lowest energies were selected and optimized with density
functional theory. All selected solutions pack in an identical way
as could be expected from basic packing consideration of a single
molecule with the given size of the crystallographic unit cell. The
molecules form stacks with their aromatic planes along the a-axis, hydrogen bonding along the b-axis
and a slight tilt of the long molecular axis relative to the pole
of the ab-plane. The final structure was selected
on the basis of the experimental intensities by calculating structure
factors and comparing them to the experimental peak intensities. Please
note that due to experimental limitations this comparison is not fully
correct since experimental geometry factors, e.g. Lorentz and polarization
factors, sample absorption, area factor, etc., are not taken into
account.[41,42]In the case of the 9 nm film prepared
on plasma-etched siliconoxide, the crystal structure with the best agreement is compared to
the experimental diffraction data in Figure B. Bragg peaks are represented by circles
where the exact position is given by their centers and the structure
factors by their areas. Overall, we find an excellent agreement for
the Bragg peaks along q = 1.05 Å–1 and q = 1.64 Å–1 where the intensity
variation of the peaks matches the calculated structure factors. The
solution of the surface-induced phase of Tyrian purple is provided
as CCDC 1449758.The molecular arrangement in relation to
the crystallographic unit
cell is depicted in Figure A. Tyrian purple forms molecular π-stacks with the aromatic
planes closely packed parallel to each other. Within one stack the
average distance between the aromatic planes of neighboring molecules
is 3.27 Å. Hydrogen bonds connect two stacks along the b-axis, where a single molecule of one stack is connected
laterally to a single molecule in the neighboring stack. In total,
four hydrogen bonds are formed by a single molecule, they all have
an equal distance of 2.80 Å between the nitrogen and oxygen atoms.
Along the c-axis, the stacks are separated by layers
of bromine atoms with an intermolecular distance of 3.90 Å. Since
the shortest distance between neighboring bromine atoms is larger
than the sum of the van der Waals radii (3.7 Å), it can be concluded
that halogen interactions are not decisive for the molecular packing.[43]
Figure 7
(A) Molecular packing of Tyrian purple
molecules in the surface-induced
crystal phase, as viewed along the b-axis. (B) The
bulk structure of Tyrian purple viewed along the b-axis with the depiction of two consecutively arranged molecular
stacks, the stack behind is displayed with light gray atoms.
(A) Molecular packing of Tyrian purple
molecules in the surface-induced
crystal phase, as viewed along the b-axis. (B) The
bulk structure of Tyrian purple viewed along the b-axis with the depiction of two consecutively arranged molecular
stacks, the stack behind is displayed with light gray atoms.The
present molecular packing is similar to that of the bulk structure
of Tyrian purple, as depicted in Figure B. There, likewise, molecular stacks are
formed with an average distance between the aromatic planes of 3.45
Å. However, molecules in neighboring stacks are tilted in opposite
directions so that a single molecule of one stack is connected to
two molecules of a neighboring stack. Even in that case, one molecule
forms four hydrogen bonds with a hydrogen bond distance of 2.95 Å.
The closest distance between two bromine atoms is 3.53 Å.
Discussion
The crystallization of the molecule Tyrian purple was investigated
in thin films on the weakly interacting surfaces polyethylene and
silicon oxide. The variation of thin film preparation conditions such
as substrate temperature and film thickness, combined with X-ray diffraction
studies, reveals two key results. First, a surface-induced polymorph
with a previously unknown crystal structure is found when the thin
film preparation is performed at a substrate temperature of 50 °C,
while at elevated substrate temperatures of 150 °C the known
bulk phase of Tyrian purple forms (cf. Figure ). Second, we observe a non-negligible dependence
of the crystal structure on the type of silicon oxide surface employed
(cf. Figure and Figure ).The formation
of the new polymorph of Tyrian purple in thin films
is in analogy to other aromatic molecules, where surface-induced phases
are clearly assigned.[8] Rod-like, rigid
molecules like pentacene and its derivatives,[48,49] α-sexithiophene,[50] diindenoperylene,[51] but also rod-like molecules with flexible (alkyl-)
side chains like dioctyl-terthiophene (DOTT) or dioctyloxy-benzothienobenzothiophene
(C8O-BTBT-OC8)[48,49] crystallize
with their long molecular axes approximately perpendicular to the
substrate surface together with an overlap of the aromatic units parallel
to the substrate surface. Moreover, a strong interplay between growth
kinetics and SIP formation has been clearly demonstrated.[50] We observe that the formation of the Tyrian
purple SIP is favored at low temperatures, analogously to pentacene,[51] but in contrast to the SIPs of p-sexiphenyl and α-sexithiophene, which appear at elevated temperatures.[36,52] In-line with our observations, surface-induced phases often show
a metastable character as observed by solvent treatment, thermal annealing,
and aging experiments.[49,53]Our growth studies reveal
that Tyrian purple shows island growth
(Volmer–Weber type), since already at sub-monolayer coverage,
the 001 Bragg peak is observed in specular X-ray diffraction, which
reveals three-dimensional growth. This is in clear contrast to the
film growth of other organic electronic molecules on silicon dioxide
surfaces. There, the formation of an initial closed first monolayer
is often observed where the molecular packing may deviate slightly
from the molecular packing of the subsequently formed three-dimensional
crystallites.[48,54,55]The GIXD patterns of the surface-induced phase prepared on
the
chemically cleaned and the plasma-etched surfaces are slightly shifted
with respect to each other (cf. Figure ). Determination of the crystallographic unit cells
by indexing the reciprocal space maps gives slightly different values
for the lattice constants (cf. Table ). Surprisingly, no differences are observed for the
lattice constant a, some variations are observed
for the lattice constants b and c. Comparing this result to the molecular packing within the surface-induced
polymorph (Figure A) reveals that the π–π stacking of the Tyrian
purple molecules forms along the a-axis and therefore
does not vary. This means that the formation of stacks of parallel-arranged
Tyrian purple molecules is only weakly influenced by different substrates.
However, since the lattice parameter b varies considerably
and the hydrogen bonds are directed along this axis, this suggests
that the different hydrogen bonding geometries of neighboring molecular
stacks might be responsible for the observed variation in the molecular
packing. Note that the main difference between the bulk and the surface-induced
structure of Tyrian purple is, indeed, the hydrogen bonding geometry
between neighboring stacks. In the surface-induced phase two neighboring
stacks are oriented parallel to one another, while in the bulk phase
one stack is tilted with respect to its neighboring stack (cf. Figure B). Comparably small
variations of the molecular packing have also been reported recently
for TIPS-pentacene, where, additionally, a marked influence on the
performance of organic electronic devices was found.[56]
Conclusion
To summarize, a surface-induced polymorph
of Tyrian purple was
found via physical vapor deposition on weakly interacting surfaces,
namely, silicon oxide and polyethylene. This phase forms at substrate
temperatures below 50 °C, while at a substrate temperature of
100 °C the well-known bulk structure of Tyrian purple forms.
Heating experiments show that the surface-induced phase undergoes
a solid-state phase transition to the bulk phase at 210 °C. The
irreversibility of this transition reveals the metastable character
of the surface-induced phase.The formation of the surface-induced
phase is studied at two different
silicon oxide surfaces: the first is a plasma-etched surface with
a higher polar part of the surface energy than the second, chemically
cleaned, surface. In both cases, a closed monolayer of up-right standing
molecules does not form and instead the formation of three-dimensional
islands is already observed in the nominal sub-monolayer regime. Volmer–Weber
type growth behavior is identified by the appearance of Bragg peaks
at nominal coverages in the sub-monolayer regime. Calculated electron
densities from XRR investigations reveal reduced electron densities
close to the substrate/organic interface and also a highly rough thin
film surface due to the presence of islands. Slight variations of
the Bragg peak positions are observed as a function of the crystallite
size and the substrate type.The crystal structure of the surface-induced
phase is solved for
a thin film with a nominal thickness of 9 nm grown on a plasma-etched
silicon oxide surface. Grazing incidence X-ray diffraction patterns
were successfully indexed, and the lattice constants of a triclinic
unit cell were deduced using analytical expressions. These unit cell
dimensions were used as input for the determination of the molecular
packing by combining molecular dynamics simulations with density functional
theory calculations. It is found that the packing motif of this novel
polymorph is comparable to the bulk phase; Tyrian purple molecules
stack with their aromatic planes parallel to each other while the
molecular stacks are interconnected by hydrogen bonds. The main difference
between the two polymorphs is the nature of the hydrogen bond network
between the neighboring stacks. For the surface-induced phase grown
on two different surfaces, we observed small packing differences which
are also due to slightly varying hydrogen bond geometries, as variations
of the unit cell parameter along the direction of the hydrogen bonds
are experimentally observed.
Authors: Eric Daniel Głowacki; Mihai Irimia-Vladu; Martin Kaltenbrunner; Jacek Gsiorowski; Matthew S White; Uwe Monkowius; Giuseppe Romanazzi; Gian Paolo Suranna; Piero Mastrorilli; Tsuyoshi Sekitani; Siegfried Bauer; Takao Someya; Luisa Torsi; Niyazi Serdar Sariciftci Journal: Adv Mater Date: 2012-12-13 Impact factor: 30.849
Authors: K Vanommeslaeghe; E Hatcher; C Acharya; S Kundu; S Zhong; J Shim; E Darian; O Guvench; P Lopes; I Vorobyov; A D Mackerell Journal: J Comput Chem Date: 2010-03 Impact factor: 3.376
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Authors: Andrew O F Jones; Christian Röthel; Roman Lassnig; O N Bedoya-Martínez; Paul Christian; Ingo Salzmann; Birgit Kunert; Adolf Winkler; Roland Resel Journal: CrystEngComm Date: 2017-03-14 Impact factor: 3.545
Authors: Roland Resel; Andrew O F Jones; Guillaume Schweicher; Roland Fischer; Nicola Demitri; Yves Henri Geerts Journal: IUCrJ Date: 2018-03-29 Impact factor: 5.588