Conformational dependence of the molecular charge distribution and its influence on intermolecular interactions

The conformational dependence of the intermolecular electrostatic interaction energy has been studied for three model compounds interacting with water molecules. The variation in the molecular charge distribution with conformation can have an important influence on intermolecular hydrogen-bond energies. Rotational barriers of hydrated molecules are substantially affected when this variation is taken into account. The significance of this effect has been evaluated for N-methylacetamide, ethanol and N,N-dimethylacetamide. It is shown that the conformational dependence of the molecular charge distribution can be described with high accuracy by expressing the atomic multipole moments as a short Fourier series in the dihedral angle.

[1]  Gerald B. Matson,et al.  Gas-phase nuclear magnetic resonance investigation of chemical exchange in N,N-dimethylacetamide. Medium effects on kinetic parameters , 1984 .

[2]  Roland L. Dunbrack,et al.  Cis-Trans Imide Isomerization of the Proline Dipeptide , 1994 .

[3]  G. Whitesides,et al.  Molecular Dynamics Simulations of H2NSO2C6H4CONH(Gly)3OBn Bound to the Active Site of Human Carbonic Anhydrase II , 1995 .

[4]  Sarah L. Price,et al.  Electrostatic models for polypeptides: can we assume transferability? , 1992 .

[5]  H. Scheraga,et al.  Modeling amino acid side chains. 3. Influence of intra- and intermolecular environment on point charges , 1993 .

[6]  György G. Ferenczy Charges derived from distributed multipole series , 1991 .

[7]  F. Schmid,et al.  Isolation and sequence of an FK506-binding protein from N. crassa which catalyses protein folding , 1990, Nature.

[8]  Donald E. Williams,et al.  Conformational dependence of electrostatic potential‐derived charges: Studies of the fitting procedure , 1993, J. Comput. Chem..

[9]  T. Kiefhaber,et al.  Cyclophilin and peptidyl-prolyl cis-trans isomerase are probably identical proteins , 1989, Nature.

[10]  John B. O. Mitchell,et al.  Gaussian multipoles in practice: Electrostatic energies for intermolecular potentials , 1994, J. Comput. Chem..

[11]  N. Ohtomo,et al.  The Structure of Liquid Alcohols by Neutron and X-ray Diffraction. III. Liquid Structure of Methanol , 1985 .

[12]  Sarah L. Price,et al.  The electrostatic interactions in van der Waals complexes involving aromatic molecules , 1987 .

[13]  J. Thornton,et al.  Amino/aromatic interactions in proteins: is the evidence stacked against hydrogen bonding? , 1994, Journal of molecular biology.

[14]  A. Hagler,et al.  Experimental and theoretical studies of the barrier to rotation about the N-Calpha and Calpha-C' bonds (phi and psi) in amides and peptides. , 1976, Journal of the American Chemical Society.

[15]  E. M. Evleth,et al.  Conformationally invariant modeling of atomic charges , 1993 .

[16]  R F Standaert,et al.  Atomic structure of FKBP-FK506, an immunophilin-immunosuppressant complex , 1991, Science.

[17]  Jonathan W. Essex,et al.  Atomic charges for variable molecular conformations , 1992 .

[18]  James W. Brown,et al.  Structure and orientation of a bilayer-bound model tripeptide: a proton NMR study , 1993 .

[19]  William L. Jorgensen,et al.  Optimized intermolecular potential functions for liquid alcohols , 1986 .

[20]  Anthony J. Stone,et al.  An intermolecular perturbation theory for the region of moderate overlap , 1984 .

[21]  Patrick W. Fowler,et al.  A model for the geometries of Van der Waals complexes , 1985 .

[22]  George R. Famini,et al.  Conformational dependence of the electrostatic potential‐derived charges of dopamine: Ramifications in molecular mechanics force field calculations in the gas phase and in aqueous solution , 1993, J. Comput. Chem..

[23]  Anthony J. Stone,et al.  Distributed multipole analysis, or how to describe a molecular charge distribution , 1981 .

[24]  Norman L. Allinger,et al.  Treatment of electrostatic effects within the molecular-mechanics method. 1 , 1983 .

[25]  Uwe Koch,et al.  Conformational dependence of atomic multipole moments , 1995 .

[26]  Jonathan W. Essex,et al.  Errors in free-energy perturbation calculations due to neglecting the conformational variation of atomic charges , 1992 .

[27]  K. Shaw,et al.  Nuclear Magnetic Resonance Studies of Multi-site Chemical Exchange. III. Hindered Rotation in Dimethylacetamide, Dimethyl Trifluoro-acetamide, and Dimethyl Benzamide , 1971 .

[28]  J. Moult,et al.  Structure, dynamics and energetics of initiation sites in protein folding: I. Analysis of a 1 ns molecular dynamics trajectory of an early folding unit in water: the helix I/loop I-fragment of barnase. , 1995, Journal of molecular biology.

[29]  H. Halvorson,et al.  Consideration of the Possibility that the slow step in protein denaturation reactions is due to cis-trans isomerism of proline residues. , 1975, Biochemistry.

[30]  Julia M. Goodfellow,et al.  What base pairings can occur in DNA? A distributed multipole study of the electrostatic interactions between normal and alkylated nucleic acid bases , 1993 .

[31]  William L. Jorgensen,et al.  Solvent effects on the barrier to isomerization for a tertiary amide from ab initio and Monte Carlo calculations , 1992 .

[32]  Sarah L. Price,et al.  Toward accurate transferable electrostatic models for polypeptides: A distributed multipole study of blocked amino acid residue charge distributions , 1991 .

[33]  Martin Karplus,et al.  Ab initio studies of hydrogen bonding of N-methylacetamide: structure, cooperativity, and internal rotational barriers , 1992 .

[34]  Ian R. Gould,et al.  A quantum Mechanical Investigation of the Conformational Energetics of the Alanine and Glycine Dipeptides in the Gas Phase and in Aqueous Solution , 1994 .

[35]  Terry R. Stouch,et al.  Conformational dependence of electrostatic potential derived charges of a lipid headgroup: Glycerylphosphorylcholine , 1992 .

[36]  F. Bovey,et al.  Cis‐Trans equilibrium and kinetic studies of acetyl‐L‐proline and glycyl‐L‐proline , 1977, Biopolymers.

[37]  P. Kollman,et al.  Application of RESP charges to calculate conformational energies, hydrogen bond energies, and free energies of solvation , 1993 .