Summary of information
PROJECT
Organic solvent



Upload 23-11-2005 16:44 (Day-Month-Year, Paris time)
Update 28-09-2011 08:41 (Day-Month-Year, Paris time)



Information about the Author (who submitted the project in R.E.DD.B.)

Firstname Francois-Yves

Lastname Dupradeau

Institute UFR de pharmacie, UPJV

City Amiens

Country FRANCE


General information about the Project

Molecule keywords

Organic molecule Alcohol, Ketone Sulfoxide, Nitrile Aromatic, Halogen Carboxylic acid


Abstract

ESP atomic charges for 10 solvent molecules (Dimethylsulfoxide, Ethanol, Trifluoroethanol, Methanol, Acetone, Acetic acid, Acetonitrile, Benzene, Toluene and Chloroform) fitted together based on the Connolly surface algorithm and the HF/6-31G* theory level using R.E.D.-III. Molecular orientation of the optimized structure controlled using the rigid-body reorientation algorithm implemented in R.E.D. (two or four mol. orientations for each structure). Charge values to be compared with those reported in the projects W-46, W-47, and W-49.

Publication YES      

Author(s) F.-Y. Dupradeau, A. Pigache, T. Zaffran, C. Savineau, R. Lelong, N. Grivel, D. Lelong, W. Rosanski and P. Cieplak

Journal Phys. Chem. Chem. Phys.

Year 2010

Volume 12

Page(s) 7821-7839


"Whole molecule" or "Molecule fragment" type project WHOLE MOLECULE

Interface R.E.D. used ? YES


Charge derivation procedure

Number of Tripos mol2 file(s) provided by the author(s) 10

Contain charge values & information about molecular topology

No Name Download Wikipedia 3D visualization
1 Dimethylsulfoxide Jmol Logo
2 Ethanol Jmol Logo
3 Trifluoroethanol Jmol Logo
4 Methanol Jmol Logo
5 Acetone Jmol Logo
6 Acetic acid Jmol Logo
7 Acetonitrile Jmol Logo
8 Benzene Jmol Logo
9 Toluene Jmol Logo
10 Chloroform Jmol Logo


Number of molecule(s) used in the charge derivation procedure 10

File(s) provided to the PDB format

No Molecule name Conformation No Reorientation procedure Mol. orientation No Download Wikipedia
1 Dimethylsulfoxide 1 Rigid Body Reorient Algo 2
2 Ethanol 1 Rigid Body Reorient Algo 2
3 Trifluoroethanol 1 Rigid Body Reorient Algo 2
4 Methanol 1 Rigid Body Reorient Algo 2
5 Acetone 1 Rigid Body Reorient Algo 4
6 Acetic acid 1 Rigid Body Reorient Algo 4
7 Acetonitrile 1 Rigid Body Reorient Algo 2
8 Benzene 1 Rigid Body Reorient Algo 2
9 Toluene 1 Rigid Body Reorient Algo 4
10 Chloroform 1 Rigid Body Reorient Algo 2



Information regarding Quantum Calculations

Geometry optimization

Program 1 GAUSSIAN 1998

Theory level 1 HF

More information 1 Opt=VTight

Basis set 1 6-31G*

Molecular electrostatic potential computation

Program 2 GAUSSIAN 1998

Theory level 2 HF

More information 2 IOp(6/33=2) NoSymm

Basis set 2 6-31G*

Algorithm CONNOLLY SURFACE


Information about the charge fit

Program RESP

Number of stage(s) 1

input of stage 1



Files the author of the project wishes to provide...

A script to convert Tripos mol2 file(s) into LEaP OFF library(ies) (for AMBER)...
A script to convert Tripos mol2 file(s) into RTF or PSF library(ies) (for CHARMM)...
A file to provide new force field parameters compatible with the Tripos mol2 file(s)...
A file (choice made by the author) to provide more information about the project...
A file (choice made by the author) to provide more information about the project...

Download the whole project...





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