Duplex strand formation using alternating copolymers

Article abstract of DOI:10.1039/b502929e

The regular arrangement of complementary diaminopyridine-thymine (DAP-THY) on alternating copolymers permits cooperative binding events and the effective formation of well-controlled micrometre-scale aggregates. The Royal Society of Chemistry 2005.

Full text of DOI:10.1039/b502929e

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Duplex strand formation using alternating copolymers{
a
b
a
a
a
Hiroshi Nakade, M. Firat Ilker,{ Brian J. Jordan, Oktay Uzun, Nicholas L. LaPointe,
E. Bryan Coughlin and Vincent M. Rotello*
b
a
Received (in Columbia, MO, USA) 25th February 2005, Accepted 10th May 2005
First published as an Advance Article on the web 27th May 2005
DOI: 10.1039/b502929e
The regular arrangement of complementary diaminopyridine-
thymine (DAP-THY) on alternating copolymers permits
cooperative binding events and the effective formation of
well-controlled micrometre-scale aggregates.
to stoichiometry, (b) binding affinity between complementary
functionalized alternating copolymers (Fig. 1).
Alternating copolymerizations of 1–3 with cyclooctene were
carried out in degassed dichloromethane at room temperature
n
using ROMP catalyst 4 (Scheme 1). Molecular weights (M ) of
The ability to organize synthetic macromolecules via non-covalent
DAP and THY copolymers were 7400 and 7300 respectively.
Alternating unit fractions of the resultant copolymers were
interactions provides fundamental materials for encapsulation and
1
2
3
1
estimated by H NMR spectroscopy. As reported previously, a
delivery media, micro-reactors and biosensors. These materials
utilize weak non-covalent interactions similar to those found in
biological macromolecules such as proteins, DNA, and RNA, to
combination of catalyst 4 and endo-oxanorbornenes along with
cyclooctene provided copolymers with high alternating unit
11
percentages (92–98%). The regularly placed nonpolar cyclooc-
4
direct and modulate their three-dimensional topology.
Biomacromolecules feature the integration of non-covalent inter-
actions and systematic organization, producing specificity with a
cooperative interface and dictating their structure and function.
For instance, carbohydrate-binding protein lectins typically show
low affinities for simple mono and oligosaccharides whereas lectins
cooperate with multiple binding epitopes comprising glycolipids
tene spacers between polar functionalized oxanorbornene deriva-
tives provide improved solubility to the resulting copolymer in
organic solvents. As a control for the recognition dependence of
5
and glycoproteins on the cell surface with high affinity. Polymeric
nucleic acids, DNA and RNA, are alternating copolymers of
phosphate and nucleoside, producing information storage and
6
replication capability endowed by the nature of the duplex. Thus,
the combination of non-covalent interactions and their orderly
organization into molecular duplexes is a key to appending further
4c,7
function in the design aspect of bio-inspired macromolecules.
Recently, we have demonstrated the formation of giant vesicular
aggregates (recognition induced polymersomes, RIPs), by utilizing
the combination of complementary diaminopyridine (DAP) and
8
thymine (THY) functionalized polymers. In these studies,
Scheme 1 Synthesis of alternating copolymers 1–3 with cyclooctene.
recognition groups are located randomly on the polymer chain.
To investigate the effect of registration on self-assembly, alternat-
ing copolymers were designed: these copolymers possess specific
recognition units in each monomeric unit. To create these
copolymers, the DAP and THY functionalized monomers (1–3)
were synthesized and employed for ring opening metathesis
copolymerization (ROMP) (Scheme 1). Recent reports have used
ring opening metathesis polymerization (ROMP) to synthesize
9
polymers with recognition units. The solubility of the resultant
polymers, however, has precluded control of polymerization and
quantitative characterization of the multivalent binding capabilities
1
0
such as stoichiometry and binding affinity. Herein, we report the
design and synthesis of alternating copolymers to show: (a) the
formation of duplex supramolecular–copolymer complex relative
{ Electronic Supplementary Information (ESI) available: Monomers and
1
copolymers synthesis, H NMR spectra and GPC profiles. See http://
www.rsc.org/suppdata/cc/b5/b502929e/
{
Current address: Department of Chemistry, University of Wisconsin,
Madison, WI, USA.
rotello@chem.umass.edu
Fig. 1 Illustrative scheme of spherical aggregates using non-covalent
*
specific interaction.
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Chem. Commun., 2005, 3271–3273 | 3271

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the fabrication process, N-methyl THY functionalized monomer 3
incapable of forming the specific hydrogen bonding was also
copolymerized with cyclooctene.
To examine the formation of the supramolecular–copolymer
complex, complementary alternating copolymers (1 and 2) were
3
mixed in CHCl and THF. Combination of copolymers 1 and 2 in
21
CHCl (1 mg ml ) led to a turbid solution. However, copolymers
3
2
1
1
and 3 incorporating N-methylthymine (1 mg ml ) did not result
in turbidity. This apparent distinction demonstrates that the
presence of specific three-point hydrogen bonds induces the
formation of complex. The effect of recognition unit regularity
was clearly exhibited in hydrogen competitive solvents such as
THF. Turbidity was significantly observed upon the mixing of 1
21
and 2 even in THF (1 mg ml ). To investigate the formation of
macroscopic aggregates quantitatively, optical density at 700 nm
was used to determine the turbidity of the mixture with varied
1
Fig. 3 Job plots obtained in H NMR ($) and optical density (&) in
CDCl (total conc. 5 1 mM) and CHCl (total conc. 5 2 mM)
fractions of THY group (Fig. 2). In CHCl and THF, both cases
3
3
3
respectively.
showed increased tendency upon titration, which maximized y1
equivalent of THY added.
To determine the stoichiometry of the supramolecular–copoly-
1
mer complex, Job plots were obtained using H NMR and optical
1
2
density (Fig. 3). A symmetric plot with a maximum at molar
1
ratio ca. 0.5 was obtained via H NMR, indicating the duplex
formation of supramolecular–polymer complexes relative to the
stoichiometry. Further evidence for the macroscopic formation of
supramolecular–copolymer complex was obtained from the Job
plot in optical density at 700 nm. Likewise the plot also showed a
maximum at molar ratio 0.5, but with a dissymmetric profile. This
can be explained by relatively strong two-point hydrogen bonding
THY–THY triggering the formation of a macroscopic non-duplex
13
complex with an excess of THY copolymer.
Quantitative data for binding affinity of duplex complex was
1
obtained via H NMR titration. The association constants (K ) for
a
alternating copolymer and monomer systems were characterized
1
by 400 MHz H NMR at 20 uC. Addition of DAP guest (10 mM)
to THY host in CDCl (1 mM) results in substantial down-field
1
Fig. 4 H NMR titration of 2 with 1: alternating copolymers ($) and
monomers (&). The chemical shift of the NH group of THY was
monitored.
3
14
shifts of the THY imide peak (Fig. 4). Association constants
were estimated by fitting a curve for the 1 : 1 binding isotherm with
21
the least-squares method. K s of 24 000 and 820 M
a
were
obtained for alternating copolymer and monomer systems
respectively, providing evidence for cooperative binding events
on polymeric scaffolds. Slow exchange was observed during the
early stage of the titration for polymeric system, likely indicating
15
significantly tight binding events of the duplex.
Observation of the enhanced and tight binding events for
copolymeric scaffolds clearly suggests the importance of systematic
positioning of recognition units in the formation of supramole-
cular–copolymer duplex. As expected in a copolymeric system,
once a pair of complementary recognition units forms to acquire
the specific hydrogen bonding, ‘zipper’ like binding events are
organized for further interactions inherent to alternating placement
of the recognition units. Significant energetic differences were
observed for this ‘zipper’ effect, namely cooperativity: estimated
free energy difference between copolymeric and monomer systems
1
21
(
DDG) based on H NMR titration is 2.0 kcal mol .
Macroscopic morphology and structures of the duplexes were
established by differential interference contrast (DIC) and laser
scanning confocal microscopy (LSCM). All duplexes assemble into
spherical structures. An average diameter of freshly prepared
Fig. 2 Formation of supramolecular–polymer complex in CHCl
and THF (&) as determined by the turbidity measured at 700 nm.
3
($)
3
272 | Chem. Commun., 2005, 3271–3273
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We thank Dr Raymond J. Thibault for his helpful advice and
discussion. This research was supported by NSF [CHE-0213354
(V.M.R)] and MRSEC (DMR 0213695).
a
b
a
a
Hiroshi Nakade, M. Firat Ilker,{ Brian J. Jordan, Oktay Uzun,
Nicholas L. LaPointe, E. Bryan Coughlin and Vincent M. Rotello*
a
b
a
a
Department of Chemistry, University of Massachusetts, Amherst, MA,
USA
Department of Polymer Science and Engineering, University of
b
Massachusetts, Amherst, MA, USA. E-mail: rotello@chem.umass.edu;
Tel: +1 413-545-2058
Notes and references
1
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Fig. 5 Representative LCSM image of supramolecular–copolymer
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complex formed by alternating copolymers 1 and 2 in CHCl (1 mg ml ).
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supramolecular copolymer assemblies in CHCl (1 mg ml ) was
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morphology of observed spherical structure, fluorescent tagged
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that the spherical assemblies have filled morphology (Fig. 5).
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indicative of high yield of aggregate formation.
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In summary, we have demonstrated the formation of supra-
molecular–copolymer complex using complementary functiona-
lized alternating copolymers. The 1 : 1 stoichiometry in Job plots
reveals the formation of duplex strand. Cooperative effects were
observed upon the combination of the complementary functiona-
lized alternating copolymers, resulting in ‘zipper’ like binding.
This quantitative understanding has improved the versatility of
recognition unit functionalized copolymers that can contribute
to the creation of highly specific and controllable, templates
and building blocks in nanoscale material science. The effect of
backbone flexibility on the binding affinity subsequent to
reducing double bonds to single bonds and solution annealing
experiment is currently being investigated and will be reported in
due course.
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16 See Electronic Supplementary Information (ESI).
This journal is ß The Royal Society of Chemistry 2005
Chem. Commun., 2005, 3271–3273 | 3273