Wall clock time and date at job start Sun Mar 29 2020 21:42:05 AMSOL-version 7.1 by G. D. Hawkins, D. J. Giesen, G. C. Lynch, C. C. Chambers, I. Rossi, J. W. Storer, J. Li, J. D. Thompson, P. Winget, B. J. Lynch, D. Rinaldi, D. A. Liotard, C. J. Cramer, and D. G. Truhlar Copyright 2004 by Regents of the University of Minnesota. All rights reserved. Notice: recipients of this code are asked to comply with the user agreement in Section 1 of the documentation file. ******************************************************************************* * 1SCF - SCF CALCULATION WITHOUT GEOMETRY OPTIMIZATION * - USE EF ROUTINE FOR MINIMUM SEARCH (DEFAULT) * GEO-OK - OVERRIDE INTERATOMIC DISTANCE CHECK * TLIMIT= - A TIME OF 15. SECONDS REQUESTED * CHARGE - CHARGE ON SYSTEM= -1 * AM1 - THE AM1 HAMILTONIAN TO BE USED * SM5.42R - SM5.42R CALCULATIONS WILL BE PERFORMED * - CHARGE MODEL 2 WILL BE USED (CM2A) * - THE SOLVENT IS WATER ******************************************************************************* Atom NO. Chemical Bond length Bond angle Dihedral angle number (k) symbol (angstroms) (degrees) (degrees) (I) NA:I NB:NA:I NC:NB:NA:I NA NB NC 1 1 C 2 2 C 1.50695 * 1 3 3 N 1.29414 * 125.70010 * 2 1 4 4 N 1.26396 * 116.47623 * 179.73746 * 3 2 1 5 5 C 1.29409 * 116.47502 * 359.97438 * 4 3 2 6 6 C 1.50707 * 125.69372 * 180.02562 * 5 4 3 7 7 S 1.81402 * 109.46994 * 89.97710 * 6 5 4 8 8 C 1.81394 * 103.00165 * 179.97438 * 7 6 5 9 9 C 1.50703 * 109.47467 * 179.97438 * 8 7 6 10 10 H 1.07994 * 119.99682 * 0.02562 * 9 8 7 11 11 C 1.37876 * 120.00008 * 179.97438 * 9 8 7 12 12 N 1.31513 * 120.00209 * 0.02562 * 11 9 8 13 13 Si 1.86803 * 119.99498 * 180.02562 * 11 9 8 14 14 H 1.48491 * 109.47137 * 60.00216 * 13 11 9 15 15 H 1.48510 * 109.46704 * 180.02562 * 13 11 9 16 16 H 1.48499 * 109.46979 * 299.99667 * 13 11 9 17 17 S 1.71215 * 108.61179 * 0.02562 * 5 4 3 18 18 H 1.09001 * 109.47835 * 90.02159 * 1 2 3 19 19 H 1.09007 * 109.47583 * 210.02562 * 1 2 3 20 20 H 1.08996 * 109.47200 * 330.02073 * 1 2 3 21 21 H 1.09000 * 109.47136 * 209.97649 * 6 5 4 22 22 H 1.09001 * 109.46989 * 329.97993 * 6 5 4 23 23 H 1.08997 * 109.47168 * 300.00620 * 8 7 6 24 24 H 1.09003 * 109.47137 * 59.99814 * 8 7 6 25 25 H 0.96999 * 119.99715 * 180.02562 * 12 11 9 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 6 0.0000 0.0000 0.0000 2 6 1.5070 0.0000 0.0000 3 7 2.2621 1.0509 0.0000 4 7 3.5097 0.8484 0.0052 5 6 3.8935 -0.3875 0.0104 6 6 5.3232 -0.8643 0.0177 7 16 5.8900 -1.0498 1.7309 8 6 7.6003 -1.6214 1.5352 9 6 8.2206 -1.8249 2.8935 10 1 7.6434 -1.6302 3.7853 11 6 9.5245 -2.2606 2.9977 12 7 10.2273 -2.4981 1.9117 13 14 10.2930 -2.5134 4.6814 14 1 9.5141 -3.5296 5.4335 15 1 11.6933 -2.9813 4.5212 16 1 10.2829 -1.2298 5.4279 17 16 2.5060 -1.3906 0.0078 18 1 -0.3635 -0.0004 -1.0276 19 1 -0.3634 -0.8898 0.5142 20 1 -0.3633 0.8901 0.5135 21 1 5.3883 -1.8252 -0.4927 22 1 5.9514 -0.1366 -0.4961 23 1 7.6081 -2.5634 0.9869 24 1 8.1719 -0.8752 0.9833 25 1 11.1445 -2.8050 1.9851 RHF calculation, no. of doubly occupied orbitals= 36 REFERENCES FOR PARAMETERS IN GAS-PHASE HAMILTONIAN: H: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985) C: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985) N: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985) Si: (AM1): M.J.S.DEWAR, C. JIE, ORGANOMETALLICS, 6, 1486-1490 (1987). S: (AM1): M.J.S. DEWAR, Y.-C. YUAN, INORGANIC CHEM., 29, 589 (1990) REFERENCE FOR CHARGE MODEL 2: J. Li, J. Xing, C. J. Cramer, and D. G. Truhlar, J. Chem. Phys. 111 (1999) 885. REFERENCE FOR THE PARAMETERIZATION OF THE SM5.42R SOLVATION MODEL: J. Li, T. Zhu, G. D. Hawkins, P. Winget, D. A. Liotard, C. J. Cramer, and D. G. Truhlar, Theor. Chem. Acc. 103 (1999) 9-63 P. Winget, J. D. Thompson C. J. Cramer,and D. G. Truhlar, J. Phys. Chem. B. submitted. CHARGE=-1 AM1 1SCF TLIMIT=15 GEO-OK SM5.42R & SOLVNT=WATER ZINC000596023120.mol2 25 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Sun Mar 29 2020 21:42:05 Heat of formation + Delta-G solvation = 27.595915 kcal Electronic energy + Delta-G solvation = -11039.671134 eV Core-core repulsion = 8884.567645 eV Total energy + Delta-G solvation = -2155.103489 eV No. of doubly occupied orbitals = 36 Molecular weight (most abundant/longest-lived isotopes) = 230.024 amu Computer time = 0.15 seconds Orbital eigenvalues (eV) -42.38210 -35.31079 -34.89509 -32.08185 -30.70095 -28.24341 -25.76442 -25.02142 -20.99018 -20.39423 -18.68606 -17.52359 -17.05701 -16.40284 -16.12683 -15.28826 -14.83793 -14.63050 -14.34314 -14.30181 -13.82408 -13.71877 -13.35868 -12.72714 -12.65042 -12.23607 -11.71201 -11.53209 -11.25904 -10.94809 -10.75048 -10.68368 -10.51222 -8.60455 -8.34451 -6.47699 -0.76415 -0.15784 0.28820 0.77767 1.40662 1.43490 1.51436 1.60563 1.85888 2.36494 2.83820 3.00616 3.49012 3.70045 4.11926 4.23435 4.40303 4.64540 4.74500 4.92400 4.92958 5.08406 5.55361 5.85818 6.58644 7.20323 7.46245 8.77085 Molecular weight = 230.02amu Principal moments of inertia in cm(-1) A = 0.074134 B = 0.004970 C = 0.004913 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 377.602427 B = 5632.791338 C = 5698.371323 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.074 4.074 2 C -0.021 4.021 3 N -0.300 5.300 4 N -0.284 5.284 5 C -0.019 4.019 6 C -0.008 4.008 7 S -0.289 6.289 8 C 0.095 3.905 9 C -0.539 4.539 10 H 0.061 0.939 11 C 0.018 3.982 12 N -0.922 5.922 13 Si 0.975 3.025 14 H -0.265 1.265 15 H -0.275 1.275 16 H -0.269 1.269 17 S 0.248 5.752 18 H 0.113 0.887 19 H 0.111 0.889 20 H 0.098 0.902 21 H 0.123 0.877 22 H 0.106 0.894 23 H 0.027 0.973 24 H 0.019 0.981 25 H 0.271 0.729 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -17.803 -0.838 -5.277 18.588 Note: The Mulliken population analysis charges presented below were not used in the solvation calculation but are provided for completeness. The chosen solvation model uses CM2 partial charges for calculating solvation energies. Net atomic charges, atomic populations, and dipole contributions using Mulliken population analysis Atom NO. Type Charge No. of electrons 1 C -0.135 4.135 2 C -0.300 4.300 3 N -0.139 5.139 4 N -0.123 5.123 5 C -0.298 4.298 6 C -0.159 4.159 7 S -0.063 6.063 8 C -0.052 4.052 9 C -0.578 4.578 10 H 0.079 0.921 11 C -0.183 4.183 12 N -0.561 5.561 13 Si 0.798 3.202 14 H -0.190 1.190 15 H -0.200 1.200 16 H -0.194 1.194 17 S 0.492 5.508 18 H 0.132 0.868 19 H 0.130 0.870 20 H 0.116 0.884 21 H 0.142 0.858 22 H 0.125 0.875 23 H 0.046 0.954 24 H 0.037 0.963 25 H 0.080 0.920 Dipole moment (debyes) X Y Z Total from point charges -18.143 -0.352 -4.449 18.684 hybrid contribution 1.645 -0.036 -0.476 1.713 sum -16.498 -0.389 -4.924 17.222 Atomic orbital electron populations 1.20683 0.80442 1.06214 1.06118 1.30075 1.06270 0.91690 1.01924 1.71427 0.96716 1.28540 1.17195 1.71402 1.07551 1.18304 1.15069 1.28287 1.02594 0.93428 1.05519 1.21636 0.90182 1.05665 0.98442 1.86787 1.20272 1.89338 1.09943 1.20819 0.86760 0.97393 1.00268 1.20916 0.98130 1.47134 0.91646 0.92072 1.25863 0.96851 0.94083 1.01548 1.70033 1.10563 1.45339 1.30130 0.85348 0.77427 0.79025 0.78379 1.18953 1.20009 1.19435 1.83364 0.94542 1.09477 1.63458 0.86850 0.87039 0.88388 0.85834 0.87523 0.95449 0.96273 0.91968 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 15. Note: The number of geometries may not correspond to the number of cycles due to rejected geometry changes. In the following table subtotal= G_P + SS G_CDS. Atom Chem. CM2 G_P Area Sigma k SS G_CDS Subtotal M number symbol chg. (kcal) (Ang**2) cal/(Ang**2) (kcal) (kcal) value 1 C -0.07 -0.84 10.48 71.23 0.75 -0.09 15 2 C -0.02 -0.47 7.53 88.46 0.67 0.20 15 3 N -0.30 -9.54 11.66 -50.85 -0.59 -10.13 15 4 N -0.28 -10.24 11.66 -50.85 -0.59 -10.83 15 5 C -0.02 -0.61 6.79 88.47 0.60 -0.01 15 6 C -0.01 -0.27 6.54 71.24 0.47 0.19 15 7 S -0.29 -12.64 21.64 -56.49 -1.22 -13.87 15 8 C 0.10 4.96 5.70 71.24 0.41 5.36 15 9 C -0.54 -30.54 9.13 25.60 0.23 -30.30 15 10 H 0.06 3.46 7.71 -2.91 -0.02 3.44 15 11 C 0.02 0.99 5.46 84.65 0.46 1.46 15 12 N -0.92 -53.37 13.29 21.45 0.28 -53.09 15 13 Si 0.98 43.29 29.54 68.60 2.03 45.32 15 14 H -0.26 -11.32 7.11 99.48 0.71 -10.62 15 15 H -0.28 -11.71 7.11 99.48 0.71 -11.00 15 16 H -0.27 -11.72 7.11 99.48 0.71 -11.02 15 17 S 0.25 5.57 23.04 -56.49 -1.30 4.27 15 18 H 0.11 0.83 8.14 -2.39 -0.02 0.81 15 19 H 0.11 0.71 8.14 -2.38 -0.02 0.69 15 20 H 0.10 1.09 8.14 -2.39 -0.02 1.07 15 21 H 0.12 3.55 8.14 -2.39 -0.02 3.53 15 22 H 0.11 3.63 8.14 -2.39 -0.02 3.61 15 23 H 0.03 1.45 8.14 -2.39 -0.02 1.43 15 24 H 0.02 1.05 8.14 -2.39 -0.02 1.03 15 25 H 0.27 14.68 8.31 -92.71 -0.77 13.91 15 Total: -1.00 -68.02 256.78 3.37 -64.65 By element: Atomic # 1 Polarization: -4.31 SS G_CDS: 1.19 Total: -3.12 kcal Atomic # 6 Polarization: -26.78 SS G_CDS: 3.58 Total: -23.20 kcal Atomic # 7 Polarization: -73.15 SS G_CDS: -0.90 Total: -74.05 kcal Atomic # 14 Polarization: 43.29 SS G_CDS: 2.03 Total: 45.32 kcal Atomic # 16 Polarization: -7.07 SS G_CDS: -2.52 Total: -9.60 kcal Total: -68.02 3.37 -64.65 kcal The number of atoms in the molecule is 25 The average number of expansion shells was 15.00 The maximum number of expansion shells was 15 The minimum number of expansion shells was 15 **** NOTA BENE **** This is the net solvation energy for this exact molecular structure (nuclear and electronic)! The standard-state solvation energy should be obtained as the difference between the heat of formation plus delta-G solvation for the relaxed solvated system and that for the relaxed gas-phase system. ZINC000596023120.mol2 25 1SCF run This is a breakdown of the solvation energy calculated without geometric relaxation in solution: (1) E-EN(sol) electronic-nuclear energy of solute 92.244 kcal (2) G-P(sol) polarization free energy of solvation -68.023 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 24.221 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.375 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -64.649 kcal (6) G-S(sol) free energy of system = (1) + (5) 27.596 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.15 seconds