Wall clock time and date at job start Mon Mar 30 2020 08:05:43 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 1.53005 * 1 3 3 H 1.08997 * 110.38642 * 2 1 4 4 S 1.83389 * 110.34200 * 237.77169 * 2 1 3 5 5 C 1.83996 * 95.85089 * 221.37831 * 4 2 1 6 6 C 1.55150 * 100.90866 * 35.35356 * 5 4 2 7 7 C 1.52943 * 108.81114 * 318.65022 * 6 5 4 8 8 H 1.09002 * 108.88630 * 269.21865 * 7 6 5 9 9 N 1.46898 * 108.88433 * 150.80268 * 7 6 5 10 10 C 1.46897 * 110.99589 * 86.45899 * 9 7 6 11 11 C 1.50709 * 109.47103 * 179.97438 * 10 9 7 12 12 C 1.38628 * 119.74814 * 269.72725 * 11 10 9 13 13 C 1.37626 * 120.24576 * 179.72194 * 12 11 10 14 14 C 1.40715 * 119.74292 * 0.56620 * 13 12 11 15 15 C 1.41388 * 120.24397 * 179.68553 * 14 13 12 16 16 H 1.08001 * 120.00168 * 204.40213 * 15 14 13 17 17 C 1.39950 * 120.00113 * 24.39981 * 15 14 13 18 18 N 1.30824 * 119.99663 * 17.86541 * 17 15 14 19 19 Si 1.86796 * 119.99940 * 197.85844 * 17 15 14 20 20 H 1.48493 * 109.47479 * 0.02562 * 19 17 15 21 21 H 1.48505 * 109.46974 * 120.00543 * 19 17 15 22 22 H 1.48506 * 109.47139 * 240.00190 * 19 17 15 23 23 C 1.40712 * 119.51396 * 359.70639 * 14 13 12 24 24 C 1.37624 * 119.74556 * 0.02562 * 23 14 13 25 25 H 1.09009 * 109.46715 * 180.77526 * 1 2 3 26 26 H 1.08999 * 109.47110 * 300.76794 * 1 2 3 27 27 H 1.08991 * 109.47104 * 60.77943 * 1 2 3 28 28 H 1.08996 * 111.12689 * 277.44000 * 5 4 2 29 29 H 1.09005 * 111.16696 * 153.28331 * 5 4 2 30 30 H 1.08994 * 109.60501 * 78.49382 * 6 5 4 31 31 H 1.08998 * 109.59885 * 198.81500 * 6 5 4 32 32 H 1.00894 * 111.00657 * 322.50440 * 9 7 6 33 33 H 1.09001 * 109.47075 * 299.99635 * 10 9 7 34 34 H 1.08997 * 109.47907 * 59.99753 * 10 9 7 35 35 H 1.08002 * 119.87964 * 359.97438 * 12 11 10 36 36 H 1.07993 * 120.12548 * 180.27882 * 13 12 11 37 37 H 0.97002 * 119.99497 * 179.97438 * 18 17 15 38 38 H 1.07999 * 120.13251 * 180.02562 * 23 14 13 39 39 H 1.07998 * 119.88007 * 179.97438 * 24 23 14 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 1.5300 0.0000 0.0000 3 1 1.9097 1.0217 0.0000 4 16 2.1675 -0.9170 -1.4546 5 6 3.5205 -1.7797 -0.5542 6 6 2.8495 -2.0201 0.8238 7 6 2.0636 -0.7676 1.2148 8 1 2.7138 -0.1081 1.7896 9 7 0.9279 -1.1631 2.0585 10 6 1.3246 -1.2448 3.4706 11 6 0.1362 -1.6515 4.3034 12 6 -0.6948 -0.6788 4.8373 13 6 -1.7861 -1.0389 5.5947 14 6 -2.0499 -2.3998 5.8361 15 6 -3.1643 -2.7814 6.6182 16 1 -3.1648 -3.7325 7.1297 17 6 -4.2667 -1.9265 6.7295 18 7 -4.4352 -0.9603 5.8638 19 14 -5.4976 -2.1651 8.1142 20 1 -5.0827 -3.3188 8.9521 21 1 -5.5461 -0.9387 8.9502 22 1 -6.8425 -2.4271 7.5414 23 6 -1.1963 -3.3782 5.2939 24 6 -0.1140 -2.9953 4.5349 25 1 -0.3633 -1.0277 0.0139 26 1 -0.3633 0.5257 0.8830 27 1 -0.3633 0.5016 -0.8968 28 1 4.3982 -1.1406 -0.4579 29 1 3.7756 -2.7231 -1.0371 30 1 2.1719 -2.8711 0.7572 31 1 3.6152 -2.2201 1.5734 32 1 0.5299 -2.0351 1.7437 33 1 2.1176 -1.9841 3.5830 34 1 1.6852 -0.2717 3.8037 35 1 -0.4875 0.3653 4.6549 36 1 -2.4348 -0.2797 6.0059 37 1 -5.1996 -0.3680 5.9407 38 1 -1.3896 -4.4256 5.4726 39 1 0.5428 -3.7444 4.1180 RHF calculation, no. of doubly occupied orbitals= 49 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 ZINC000399108035.mol2 39 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Mon Mar 30 2020 08:05:43 Heat of formation + Delta-G solvation = -1.258471 kcal Electronic energy + Delta-G solvation = -18824.324999 eV Core-core repulsion = 16049.404957 eV Total energy + Delta-G solvation = -2774.920042 eV No. of doubly occupied orbitals = 49 Molecular weight (most abundant/longest-lived isotopes) = 277.120 amu Computer time = 0.58 seconds Orbital eigenvalues (eV) -39.80457 -38.76222 -35.82581 -34.00750 -32.77304 -31.45036 -31.02334 -28.16055 -26.35283 -24.74075 -24.14631 -22.82763 -21.67585 -20.85952 -19.19790 -17.81497 -17.20533 -16.81756 -16.50998 -15.74792 -15.71190 -15.22762 -15.12001 -14.82564 -14.28179 -14.19441 -13.92675 -13.77386 -13.53697 -13.25267 -13.07417 -12.93278 -12.71831 -12.59534 -12.24670 -12.14855 -12.09920 -11.88875 -11.68486 -11.39785 -11.20694 -10.99352 -10.73841 -9.34327 -9.31037 -9.10266 -8.70802 -8.61809 -6.31337 0.90563 0.97811 1.18749 1.38051 1.41041 1.50735 1.53445 2.21368 2.70808 3.35344 3.55571 3.79555 3.83826 4.01319 4.11338 4.22794 4.35775 4.39180 4.45173 4.57168 4.61190 4.67807 4.73043 4.88323 4.89110 4.96247 5.04117 5.10382 5.16719 5.18293 5.42365 5.49371 5.49943 5.74403 5.97349 6.12902 6.18572 6.30621 6.42802 6.48400 6.74761 6.97187 7.07721 8.34783 Molecular weight = 277.12amu Principal moments of inertia in cm(-1) A = 0.036455 B = 0.003441 C = 0.003292 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 767.890513 B = 8136.379472 C = 8504.708515 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.105 4.105 2 C -0.013 4.013 3 H 0.101 0.899 4 S -0.358 6.358 5 C -0.049 4.049 6 C -0.147 4.147 7 C 0.081 3.919 8 H 0.092 0.908 9 N -0.677 5.677 10 C 0.132 3.868 11 C -0.197 4.197 12 C -0.085 4.085 13 C -0.192 4.192 14 C 0.079 3.921 15 C -0.504 4.504 16 H 0.072 0.928 17 C 0.035 3.965 18 N -0.825 5.825 19 Si 0.980 3.020 20 H -0.259 1.259 21 H -0.264 1.264 22 H -0.266 1.266 23 C -0.245 4.245 24 C -0.084 4.084 25 H 0.051 0.949 26 H 0.069 0.931 27 H 0.046 0.954 28 H 0.105 0.895 29 H 0.115 0.885 30 H 0.072 0.928 31 H 0.097 0.903 32 H 0.341 0.659 33 H 0.039 0.961 34 H 0.070 0.930 35 H 0.102 0.898 36 H 0.096 0.904 37 H 0.287 0.713 38 H 0.092 0.908 39 H 0.115 0.885 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 12.836 1.105 -8.388 15.373 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 -0.164 4.164 2 C -0.142 4.142 3 H 0.119 0.881 4 S -0.132 6.132 5 C -0.197 4.197 6 C -0.187 4.187 7 C -0.030 4.030 8 H 0.111 0.889 9 N -0.308 5.308 10 C 0.004 3.996 11 C -0.199 4.199 12 C -0.104 4.104 13 C -0.212 4.212 14 C 0.077 3.923 15 C -0.534 4.534 16 H 0.090 0.910 17 C -0.179 4.179 18 N -0.451 5.451 19 Si 0.801 3.199 20 H -0.183 1.183 21 H -0.189 1.189 22 H -0.191 1.191 23 C -0.265 4.265 24 C -0.103 4.103 25 H 0.071 0.929 26 H 0.088 0.912 27 H 0.065 0.935 28 H 0.124 0.876 29 H 0.133 0.867 30 H 0.090 0.910 31 H 0.115 0.885 32 H 0.160 0.840 33 H 0.057 0.943 34 H 0.089 0.911 35 H 0.120 0.880 36 H 0.114 0.886 37 H 0.097 0.903 38 H 0.110 0.890 39 H 0.133 0.867 Dipole moment (debyes) X Y Z Total from point charges 12.090 1.911 -9.564 15.534 hybrid contribution -0.149 -0.822 1.662 1.860 sum 11.941 1.089 -7.902 14.361 Atomic orbital electron populations 1.21363 0.91908 1.02219 1.00912 1.23624 0.99665 1.00087 0.90797 0.88103 1.88069 1.42413 1.60226 1.22498 1.24266 0.96836 1.03054 0.95590 1.23094 1.00407 0.98489 0.96748 1.22080 0.91267 0.95905 0.93788 0.88937 1.60824 1.29495 1.38668 1.01776 1.20528 0.92827 0.99852 0.86364 1.19331 1.01136 0.92467 1.06941 1.20737 0.94532 0.97939 0.97174 1.21267 0.98774 0.96107 1.05017 1.17953 0.92069 0.92236 0.90071 1.19860 1.00998 1.04412 1.28132 0.90985 1.26730 1.00234 0.93362 0.97611 1.69896 1.28168 1.15301 1.31744 0.85196 0.77180 0.79508 0.78035 1.18253 1.18876 1.19089 1.21147 1.00983 0.97420 1.06904 1.20689 0.96424 0.95363 0.97801 0.92950 0.91193 0.93518 0.87618 0.86654 0.90969 0.88496 0.83954 0.94284 0.91112 0.87996 0.88608 0.90270 0.88957 0.86692 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 17. 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 -0.11 -2.68 8.24 71.98 0.59 -2.09 16 2 C -0.01 -0.28 3.91 30.69 0.12 -0.16 16 3 H 0.10 2.05 8.14 -2.39 -0.02 2.03 16 4 S -0.36 -8.11 22.66 -56.49 -1.28 -9.39 16 5 C -0.05 -0.76 7.52 72.72 0.55 -0.22 16 6 C -0.15 -2.48 5.80 31.31 0.18 -2.29 16 7 C 0.08 1.67 2.95 44.99 0.13 1.80 16 8 H 0.09 1.75 7.71 -2.39 -0.02 1.73 16 9 N -0.68 -17.84 4.25 -495.17 -2.10 -19.94 16 10 C 0.13 3.82 5.57 85.56 0.48 4.30 16 11 C -0.20 -7.76 5.42 -19.67 -0.11 -7.87 16 12 C -0.09 -3.84 9.67 22.22 0.21 -3.63 16 13 C -0.19 -10.15 8.70 22.73 0.20 -9.96 16 14 C 0.08 4.30 5.57 -21.29 -0.12 4.19 16 15 C -0.50 -27.72 9.05 23.46 0.21 -27.51 16 16 H 0.07 3.84 7.91 -2.91 -0.02 3.82 16 17 C 0.04 1.81 5.14 85.26 0.44 2.25 16 18 N -0.82 -43.94 10.95 21.83 0.24 -43.70 16 19 Si 0.98 38.79 29.59 68.60 2.03 40.82 16 20 H -0.26 -10.04 7.11 99.48 0.71 -9.34 16 21 H -0.26 -10.02 7.11 99.48 0.71 -9.31 16 22 H -0.27 -10.08 7.11 99.48 0.71 -9.37 16 23 C -0.24 -11.94 9.80 22.73 0.22 -11.72 16 24 C -0.08 -3.48 9.67 22.22 0.21 -3.26 16 25 H 0.05 1.45 7.48 -2.38 -0.02 1.43 16 26 H 0.07 1.97 7.79 -2.39 -0.02 1.95 16 27 H 0.05 1.14 8.14 -2.39 -0.02 1.12 16 28 H 0.11 1.32 8.14 -2.39 -0.02 1.30 16 29 H 0.12 1.53 8.14 -2.38 -0.02 1.51 16 30 H 0.07 1.37 7.50 -2.39 -0.02 1.35 16 31 H 0.10 1.35 8.14 -2.39 -0.02 1.33 16 32 H 0.34 9.56 7.60 -89.70 -0.68 8.87 16 33 H 0.04 1.00 7.98 -2.39 -0.02 0.98 16 34 H 0.07 1.97 7.97 -2.39 -0.02 1.95 16 35 H 0.10 4.20 8.06 -2.91 -0.02 4.18 16 36 H 0.10 5.37 6.16 -2.91 -0.02 5.35 16 37 H 0.29 13.78 8.30 -92.71 -0.77 13.01 16 38 H 0.09 4.31 8.06 -2.91 -0.02 4.29 16 39 H 0.12 3.96 8.06 -2.91 -0.02 3.93 16 Total: -1.00 -58.84 327.04 2.56 -56.27 By element: Atomic # 1 Polarization: 31.76 SS G_CDS: 0.35 Total: 32.11 kcal Atomic # 6 Polarization: -59.50 SS G_CDS: 3.33 Total: -56.18 kcal Atomic # 7 Polarization: -61.78 SS G_CDS: -1.86 Total: -63.64 kcal Atomic # 14 Polarization: 38.79 SS G_CDS: 2.03 Total: 40.82 kcal Atomic # 16 Polarization: -8.11 SS G_CDS: -1.28 Total: -9.39 kcal Total: -58.84 2.56 -56.27 kcal The number of atoms in the molecule is 39 The average number of expansion shells was 16.00 The maximum number of expansion shells was 16 The minimum number of expansion shells was 16 **** 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. ZINC000399108035.mol2 39 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 55.015 kcal (2) G-P(sol) polarization free energy of solvation -58.837 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -3.822 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.564 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -56.273 kcal (6) G-S(sol) free energy of system = (1) + (5) -1.258 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.58 seconds