Stereoselective self-sorting in the self-assembly of a Phe-Phe extended guanidiniocarbonyl pyrrole carboxylate zwitterion: formation of two diastereomeric dimers with significantly different stabilities

The 'dipeptide extended' guanidiniocarbonyl pyrrole carboxylate zwitterion GCP-Phe-Phe 1 forms stable dimers in DMSO. However, dimerization is highly stereoselective. Only homochiral dimers are formed and the (L,L)·(L,L) dimer (K(dim) > 10(5) M(-1)) is significantly more stable by a factor of 10(3) than the diastereomeric (D,L)·(D,L) dimer (K(dim) = 120 M(-1)).     

A new type of soft vesicle-forming molecule: an amino acid derived guanidiniocarbonyl pyrrole carboxylate zwitterion

The self-assembly of the l-alanine derived zwitterion 3 leads to the formation of soft vesicles in solution even though this surprisingly small molecule does not possess the classical amphiphilic features of other vesicle-forming monomers.     

Anion-dependent dimerization of a guanidiniocarbonyl pyrrole cation in DMSO

With spherical counteranions such as chloride or hexafluorophosphate, the glycine-derived guanidiniocarbonyl pyrrole cation 1 self-assembles into discrete dimers in DMSO, as can be seen by NMR and ESI mass spectral analysis. According to concentration- and temperature-dependent NMR studies, the dimerization is endothermic and therefore entropy driven. Molecular modeling suggests that the dimers are held together by hydrogen bonding in combination with pi-pi interactions. In the presence of picrate anions, dimerization of cation 1 does not occur, probably due to the formation of pi-stacked ion pairs.     

"Knock-out" analogues as a tool to quantify supramolecular processes: a theoretical study of molecular interactions in guanidiniocarbonyl pyrrole carboxylate dimers

It was recently shown experimentally that 5-(guanidiniocarbonyl)-1H-pyrrole-2-carboxylate 1, a self-complementary zwitterion, dimerizes even in water with an unprecedented high association constant of K = 170 M(-1) (J. Am. Chem. Soc. 2003, 125, 452-459). To get an insight into the importance of the various noncovalent binding interactions and of their interplay (electrostatic interactions, hydrogen binding, cooperative effects), we employ density functional theory to study the stability of several "knock-out" analogues in which single hydrogen bonds within these multiple point binding motif are switched off by replacing N-H hydrogen-donor groups with either methylene groups or an oxygen ether bridge. The influence of a highly polar solvent on the dimer stabilities is also examined. These calculations reproduce the experimental data for zwitterion 1. A comparison of 1 with the arginine dimer shows that the energy contents of the monomers also significantly influence the dimer stabilities. The analysis of the various "knock-out" analogues reveals as a main conclusion that simple models either based just on hydrogen-bond counting or on the assumption that the charge interaction by itself is the main and dominant factor fail to explain the stability of such self-assembled dimers. Our computations show that the hydrogen-bond network, the electrostatic attraction, and also their mutual interactions are responsible for the high stability of zwitterion 1.     

Dynamics for reaction of an ion pair in aqueous solution: reactivity of carboxylate anions in bimolecular carbocation-nucleophile addition and unimolecular ion pair collapse

[reaction: see text]. The sum of the rate constants for solvolysis and 18O-scrambling of 4-MeC6H4(13)CH(Me)18OC(O)C6F5 in 50/50 (v/v) trifluoroethanol/water, k(solv) + k(iso) = 1.22 x 10(-5) s(-1), is larger than k(solv) = 1.06 x 10(-5) s(-1) for solvolysis of the unlabeled ester. This shows that the ion pair intermediate undergoes significant internal return. The data give k(-1) = 7 x 10(9) s(-1) for internal return by unimolecular collapse of the ion pair, which is significantly larger than k(Nu) = 5 x 10(8) M(-1) x s(-1) for bimolecular nucleophilic addition of carboxylate anions to 4-MeC6H4CH(Me)+.     

Ion pair driven self-assembly of a flexible bis-zwitterion in polar solution: formation of discrete nanometer-sized cyclic dimers

The self-complementary flexible bis-zwitterion 1 forms discrete nanometer-sized cyclic dimers via ion pair driven self-assembly even in polar solvents. The existence of such dimers was confirmed by DOSY NMR, FAB-MS, and scattering experiments (DLS, SANS) which all indicate the concentration-dependent formation of cyclic dimers with a hydrodynamic radius of rH approximately 2.5 nm in solution.     

Amino acid binding in water by a new guanidiniocarbonyl pyrrole dication: the effect of the experimental conditions on complex stability and stoichiometry

The synthesis and binding properties of a new guanidiniocarbonyl pyrrole dication 2 are reported, which efficiently binds alanine carboxylate with log K_ass = 3.9 in buffered water. Due to the increased charge density in this dication, the binding constant is five times larger than for the parent guanidiniocarbonyl pyrrole monocation 1 (log K = 3.2). However, the experimental conditions for determining the binding constant significantly influence both complex stability and stoichiometry. With increasing amount of substrate added during the titration, the overall complex stability decreases due to the increasing ionic strength of the solution. Furthermore, the formation of 1:2 complexes between 2 and 7 becomes increasingly important. Therefore, for the comparison of binding data it has to be assured that exactly the same experimental conditions are used for their determination.     

Dimerization of a guanidiniocarbonyl pyrrole cation in DMSO that can be controlled by the counteranion

In the presence of chloride anions cation 1 dimerizes in DMSO with a surprisingly high association constant of > 10(3) M(-1) whereas the addition of picrate disrupts these dimers by formation of even more stable discrete pi-stacked ion pairs.     

Highly stable chiral (A)6-B supramolecular copolymers: a multivalency-based self-assembly process

A novel type of chiral layered supramolecular copolymer with high molecular weight has been assembled from a hydrogen bonded C(6)-symmetric zinc porphyrin hexamer and chiral C(3)-symmetric pyridine hexadentate linkers driven by multivalent zinc porphyrin-pyridine coordination. UV-vis, circular dichroism, and static light scattering experiments revealed that the formation of the layered supramolecular copolymers is at first dynamically controlled and then becomes thermodynamically controlled.     

Sodium chloride ion pair interaction in water: computer simulation

The thermodynamics and structure of a sodium chloride ion pair in liquid water are studied as a function of the ion pair separation. Distinct minima in the free energy of the system are found for contact and solvent separated ion geometries.     

Arginine zwitterion is more stable than the canonical form when solvated by a water molecule

We present calculations for the Arg-H2O system and predict that the zwitterionic Arg is thermodynamically more stable than the canonical form in the gas phase under the influence of a single water molecule because of the strongly basic guanidine side chain. Canonical conformers of Arg-H2O are found to isomerize to the zwitterionic forms via a small barrier (approximately 6 kcal/mol).     

Oxozinc carboxylate complexes: a new synthetic approach and the carboxylate ligand effect on the noncovalent-interactions-driven self-assembly

An atom-efficient and mild synthesis of a series of oxozinc carboxylates [Zn(4)(μ(4)-O)(O(2)CR)(6)] [where R = Ph (2a), p-PhC(6)H(4) (2b), p-MeC(6)H(4) (2c), and p-MeSC(6)H(4) (2d)] from well-defined alkylzinc precursors and H(2)O is described. The molecular and crystal structures of the resulting complexes have been determined by single-crystal X-ray diffraction. A closer examination of their crystal structure provides a direct picture of the effect of the nature of substituents on the molecular self-assembly of the octahedral oxozinc through noncovalent interactions. It was revealed that these discrete oxozinc clusters can form diverse types of noncovalent assemblies ranging from structures representing zeolitic topologies in the case of 2a to soft porous materials with gated voids or open channels for the remaining molecular clusters.     

Self-folding molecules: a well defined, stable loop formed by a carboxylate-guanidinium zwitterion in DMSO

Two zwitterions 1a,b have been synthesized, in which a carboxylate group is attached via a flexible alkyl chain of different length (butylene and ethylene, respectively) to a guanidiniocarbonyl pyrrole cation moiety. For 1b, no signs for either an intra- or intermolecular association between these two groups in polar solution (DMSO) could be found. In contrast to this, the 1H NMR spectrum of 1a shows clear evidence for a strong interaction between the carboxylate and the guanidiniocarbonyl pyrrole cation. According to variable-temperature and concentration-dependent concentration-dependent NMR studies, this interaction stems from an intramolecular complexation. It was shown by ROESY and H/D-solvent exchange experiments that 1a, even in DMSO, folds into a well-defined intramolecular loop conformation held together by multiple weak interactions.     

Rate constants for ion pair formation and dissociation in water

The reactive flux time correlation function for an associating ion pair in water is obtained by computer simulation. The transmission coefficient is found directly from the reactive flux and also through the method of absorbing barriers. Rate constants for the transitions between the contact and solvent-separated states of the ion pair are calculated.     

N'-alkylated guanidiniocarbonyl pyrroles: new receptors for amino acid recognition in water

[reaction: see text] N'-Substituted guanidiniocarbonyl pyrroles 7 were synthesized for the first time by activation of a Boc-protected guanidiniocarbonyl pyrrole 3 with triflic anhydride and subsequent reaction with a primary amine. These guanidinium cations are efficient receptors for the complexation of amino acid carboxylates even in water (K(assoc) > 10(3) M(-1)) as could be shown by UV titration studies.     

Electrospray ionization ion mobility spectrometry of carboxylate anions: ion mobilities and a mass-mobility correlation

A number of carboxylate anions spanning a mass range of 87-253 amu (pyruvate, oxalate, malonate, maleate, succinate, malate, tartarate, glutarate, adipate, phthalate, citrate, gluconate, 1,2,4-benzenetricarboxylate, and 1,2,4,5-benzenetetracarboxylate) were investigated using electrospray ionization ion mobility spectrometry. Measured ion mobilities demonstrated a high correlation between mass and mobility in both N2 and CO2 drift gases. Such a strong mass-mobility correlation among structurally dissimilar ions suggests that the carboxylate functional group that these ions have in common is the source of the correlation. Computational analysis was performed to determine the most stable conformation of the studied carboxylate anions in the gas phase under the current experimental conditions. This analysis indicated that the most stable conformations for multicarboxylate anions included intramolecular hydrogen-bonded ring structures formed between the carboxylate group and the neutral carboxyl group. The carboxylate anions that form ring confirmations generally show higher ion mobility values than those that form extended conformations. This is the first observation of intramolecular hydrogen-bonded ring conformation of carboxylate anions in the gas phase at atmospheric pressure.     

Anab initio pair potential for the interaction between a water molecule and a formate ion

The potential surface for the interaction between a rigid formate ion and a rigid water molecule has been investigated byab initio methods. An analytical potential expression was derived to fit the 591 calculated SCF energies. The global minimum on the surface is –16.3 kcal/mol and corresponds to a bifurcated bonding situation.     

Electron transfer through a stable phenanthrenyl pair in DNA

Within an oligonucleotide duplex, excess electron transfer from a excited 5-(pyren-1-yl)uridine through an internal stacked phenanthrenyl pair to 5-bromouridine as an electron acceptor was observed.     

Factor analysis in ion chromatography of carboxylate ions

The retention times of five carboxylate ions (formate, acetate, propionate, n-butanoate and n-pentanoate) in ion chromatography were determined using 25 eluents prepared from NaHCO₃ and Na₂CO₃. Principal component analysis (PCA) and correspondence factor analysis (CFA) were applied to describe the behaviour of the carboxylate anions and the influence of the carbonate concentration of the eluents. With PCA, only one factor is necessary to model the retention times of each ion studied. CFA offers an analysis of second-order effects and shows how the selectivities of the chromatographic systems are modified with either the carbonate concentration or the concentration ratio of NaHCO₃ and Na₂CO₃.