Derivation of class II force fields. VIII. Derivation of a general quantum mechanical force field for organic compounds

A class II valence force field covering a broad range of organic molecules has been derived employing ab initio quantum mechanical "observables." The procedure includes selecting representative molecules and molecular structures, and systematically sampling their energy surfaces as described by energies and energy first and second derivatives with respect to molecular deformations. In this article the procedure for fitting the force field parameters to these energies and energy derivatives is briefly reviewed. The application of the methodology to the derivation of a class II quantum mechanical force field (QMFF) for 32 organic functional groups is then described. A training set of 400 molecules spanning the 32 functional groups was used to parameterize the force field. The molecular families comprising the functional groups and, within each family, the torsional angles used to sample different conformers, are described. The number of stationary points (equilibria and transition states) for these molecules is given for each functional group. This set contains 1324 stationary structures, with 718 minimum energy structures and 606 transition states. The quality of the fit to the quantum data is gauged based on the deviations between the ab initio and force field energies and energy derivatives. The accuracy with which the QMFF reproduces the ab initio molecular bond lengths, bond angles, torsional angles, vibrational frequencies, and conformational energies is then given for each functional group. Consistently good accuracy is found for these computed properties for the various types of molecules. This demonstrates that the methodology is broadly applicable for the derivation of force field parameters across widely differing types of molecular structures. Copyright 2001 John Wiley & Sons, Inc. J Comput Chem 22: 1782-1800, 2001     

Probing the kinetic landscape of transient peptide-protein interactions by use of peptide (15)n NMR relaxation dispersion spectroscopy: binding of an antithrombin peptide to human prothrombin

Protein-ligand interactions may lead to the formation of multiple molecular complexes in dynamic exchange, affecting the kinetic and thermodynamic characteristics of the binding equilibrium. We followed the dissociation kinetics of the transient and specific complex of an antithrombotic peptide N-acetyl-Asp(55)-Phe-Glu-Glu-Ile-Pro(60)-Glu-Glu-Tyr-Leu-Gln(65) with human prothrombin by use of (15)N NMR relaxation dispersion spectroscopy of the peptide. Every one of the five (15)N-labeled adjacent residues of the peptide exhibited apparently different kinetic exchange and relaxation behaviors, which were especially evident at different concentrations of prothrombin. Binding-induced (15)N relaxation dispersion of residues Phe(56), Glu(57), Glu(58), and Ile(59) can be fitted phenomenologically to a two-site on-and-off exchange mechanism with physically feasible relaxation and kinetic parameters obtained for residues Phe(56), Glu(58), and Ile(59), independent of the prothrombin concentration. The apparent kinetic parameters of Glu(57) show some dependence on the concentration of prothrombin and the extracted transverse relaxation rate for Glu(57) in the bound state was severalfold higher than that expected for a protein-peptide complex with a size of approximately 72 kDa. In addition, the equilibrium population of the bound peptide obtained for Glu(57) was inconsistent with those for Phe(56), Glu(58), and Ile(59) and with the prothrombin/peptide ratios used in the experiments. These discrepancies can be explained by the presence of two conformations for the peptide-protein complex exchanging at a rate of approximately 100 s(-)(1). In all, our study shows that fast dissociation of protein-peptide complexes can be studied quantitatively using peptide (15)N NMR relaxation dispersion measurements without a precise knowledge of the peptide and protein concentrations. In addition, protein titration was found to improve the accuracy of quantitative analysis and may make it possible to determine the rate of conformational changes within the protein-peptide complex.     

Synthesis,crystal structure and spectroscopic characterization of a hydrogen-bonded 1D copper(II) complex

Novel 1:2 and 1:1 (M:L) copper(II) complexes have been prepared from the tridentate ligand 2-(1-methyl-2-aza-5-oxapentyl)phenol (H₂L¹). The crystal structure of [Cu(HL¹)₂] (1) exhibits a noncentrosymmetric square-planar geometry with a slightly tetrahedral distortion. The Cu^II atom is coordinated by two amino N and two phenoxo O atoms of two (HL¹)^– ligands. The phenoxo and the alkoxy groups are involved in two strong intramolecular hydrogen bonds. The coordination moieties are further connected to a 1D linear structure by the action of intermolecular hydrogen bonds between the alkoxyl and the amino groups. The importance of steric hindrance introduced by the methyl group in the molecular structure and the packing of the complex molecules has been demonstrated. The e.p.r. parameters of (1) have been obtained: g = 2.231, g = 2.005, g _iso = 2.080, A = 185.0 G, A _iso = 86.5 G, A = (3A _iso – A )/2 = 37.3 G. These results confirm a distorted square planar stereochemistry with a ( )¹ ground state.     

不同分子量N-琥珀酰壳聚糖的制备及其与K562肿瘤细胞间亲和性的初步探讨

用化学降解法制备不同分子量的壳聚糖 ,以其为原料合成了系列N 琥珀酰壳聚糖 ,然后用异硫氰酸荧光素进行荧光标记 ,再与K5 6 2肿瘤细胞共孵育 ,通过流式细胞仪检测细胞的荧光强度来确定不同分子量N 琥珀酰壳聚糖与K5 6 2肿瘤细胞间亲和性的强弱 ,为靶向抗肿瘤药物载体的研究提供初步的参考 .结果表明N 琥珀酰壳聚糖和K5 6 2肿瘤细胞间有较强的亲和性 ,随着分子量的增加 ,其亲和性逐渐减弱 .     

Fe(bpb)(CN)2]- as a versatile building block for the design of novel low-dimensional heterobimetallic systems: synthesis, crystal structures, and magnetic properties of cyano-bridged Fe(III)-Ni(II) complexes [(bpb)(2-) = 1,2-bis(pyridine-2-carboxamido)benzenate

A dicyano-containing [Fe(bpb)(CN)2]- building block has been employed for the synthesis of cyano-bridged heterometallic Ni(II)-Fe(III) complexes. The presence of steric bpb(2-) ligand around the iron ion results in the formation of low-dimensional species: five are neutral NiFe2 trimers and three are one-dimensional (1D). The structure of the 1D complexes consists of alternating [NiL]2+ and [Fe(bpb)(CN)2]- generating a cyano-bridged cationic polymeric chain and the perchlorate as the counteranion. In all complexes, the coordination geometry of the nickel ions is approximately octahedral with the cyano nitrogen atoms at the trans positions. Magnetic studies of seven complexes show the presence of ferromagnetic interaction between the metal ions through the cyano bridges. Variable temperature magnetic susceptibility investigations of the trimeric complexes yield the following J(NiFe) values (based on the spin exchange Hamiltonian H = -2J(NiFe) S(Ni) (S(Fe(1)) + S(Fe(2))): J(NiFe) = 6.40(5), 7.8(1), 8.9(2), and 6.03(4) cm(-1), respectively. The study of the magneto-structural correlation reveals that the cyanide-bridging bond angle is related to the strength of magnetic exchange coupling: the larger the Ni-N[triple bond]C bond angle, the stronger the Ni- - -Fe magnetic interaction. One 1D complex exhibits long-range antiferromagnetic ordering with T(N) = 3.5 K. Below T(N) (1.82 K), a metamagnetic behavior was observed with the critical field of approximately 6 kOe. The present research shows that the [Fe(bpb)(CN)2]- building block is a good candidate for the construction of low-dimensional magnetic materials.     

Syntheses and characterizations of poly[2‐(dimethylamino)ethyl methacrylate]–poly(propylene oxide)–poly[2‐(dimethylamino)ethyl methacrylate] ABA triblock copolymers

A novel, near‐monodisperse, well‐defined ABA triblock copolymer, poly[2‐(dimethylamino)ethyl methacrylate]‐b‐poly(propylene oxide)‐b‐poly[2‐(dimethylamino)ethyl methacrylate], was synthesized via oxyanion‐initiated polymerization. The initiator was a telechelic‐type potassium alcoholate prepared from poly(propylene glycol) and KH in dry tetrahydrofuran. The copolymers produced were characterized by Fourier transform infrared, ¹H NMR, and gel permeation chromatography (GPC). GPC and ¹H NMR analyses showed that the products obtained were the desired copolymers, with narrow molecular weight distributions (ca. 1.09–1.11) very close to that of the original poly(propylene glycol). ¹H NMR, surface tension measurements, and dynamic light scattering all indicated that the triblock copolymer led to interesting aqueous solution behaviors, including temperature‐induced micellization and very high surface activity. © 2002 John Wiley & Sons, Inc. J Polym Sci Part A: Polym Chem 40: 624–631, 2002; DOI 10.1002/pola.10144     

Effect of catalysts on the reaction of an aliphatic isocyanate and water

The kinetics of the reaction of aliphatic isocyanate with water were investigated with hexyl isocyanate as a model compound. The kinetic study was carried out with a titration method to determine the concentration of the isocyanate group as a function of time. Gas chromatography was used to augment the kinetic data obtained from the titration method. The effects of an organic acid [p‐toluene sulfonic acid monohydrate (p‐TSA)], a tertiary amine {diazabicyclo[2.2.2]octane (DABCO)}, and an organotin compound [dibutyltin dilaurate (DBTDL)] on the reaction were investigated for the conversion of isocyanate to a urea. Under the reaction conditions in this study, urea was the only product observed. The rate constants indicated that p‐TSA had low catalytic activity, DABCO had intermediate catalytic activity, and DBTDL had high catalytic activity. A reaction mechanism was proposed for each of the catalysts. © 2002 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 40: 1677–1688, 2002     

Effect of Cationic Surfactant on the Inhibition of Ligninase by Hydrogen Peroxide

The inhibition of lingninase by hydrogen peroxide in the presence of cationic surfactant CTAB was studied by kinetic speetrophotometdc technique. Results showed that addition of CTAB enhanced the inhibition by H202, but it did not alter the inhibition pattern and the inhibition constant changed little with theco-ncentration of CTAB. Modification of the enzymic protein by the surfactant monomer may be responsible for the above mentioned results.