Wall clock time and date at job start Tue Mar 31 2020 08:27:21 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 N 2 2 C 1.31510 * 1 3 3 Si 1.86805 * 119.99873 * 2 1 4 4 H 1.48495 * 109.46997 * 179.97438 * 3 2 1 5 5 H 1.48498 * 109.47291 * 300.00364 * 3 2 1 6 6 H 1.48502 * 109.46698 * 60.00364 * 3 2 1 7 7 C 1.37875 * 120.00275 * 180.02562 * 2 1 3 8 8 H 1.07996 * 120.00453 * 184.42400 * 7 2 1 9 9 C 1.50703 * 119.99657 * 4.42393 * 7 2 1 10 10 C 1.52999 * 115.54985 * 84.82803 * 9 7 2 11 11 S 1.81399 * 109.47592 * 62.49646 * 10 9 7 12 12 C 1.81395 * 103.00032 * 185.17157 * 11 10 9 13 13 H 1.08993 * 109.44157 * 53.21990 * 12 11 10 14 14 C 1.53071 * 109.43731 * 293.30238 * 12 11 10 15 15 C 1.53411 * 108.29402 * 191.74876 * 14 12 11 16 16 O 1.42831 * 108.37196 * 64.74549 * 15 14 12 17 17 C 1.35847 * 117.86076 * 310.85416 * 16 15 14 18 18 C 1.39142 * 118.49844 * 197.01717 * 17 16 15 19 19 C 1.37969 * 120.21868 * 180.17804 * 18 17 16 20 20 C 1.38289 * 119.95504 * 0.02562 * 19 18 17 21 21 C 1.38104 * 119.98716 * 359.91571 * 20 19 18 22 22 C 1.38310 * 121.79089 * 17.11224 * 17 16 15 23 23 C 1.53002 * 117.49496 * 230.49244 * 9 7 2 24 24 C 1.52995 * 117.50075 * 299.15171 * 9 7 2 25 25 H 0.97002 * 120.00142 * 5.00177 * 1 2 3 26 26 H 1.09002 * 109.46914 * 302.49484 * 10 9 7 27 27 H 1.09000 * 109.47310 * 182.50207 * 10 9 7 28 28 H 1.09007 * 109.70344 * 311.44855 * 14 12 11 29 29 H 1.09001 * 109.70278 * 72.04532 * 14 12 11 30 30 H 1.08997 * 109.69020 * 184.47048 * 15 14 12 31 31 H 1.09004 * 109.67950 * 305.02722 * 15 14 12 32 32 H 1.08003 * 119.89559 * 0.16325 * 18 17 16 33 33 H 1.07994 * 120.02316 * 180.02562 * 19 18 17 34 34 H 1.08000 * 120.00867 * 179.89651 * 20 19 18 35 35 H 1.08000 * 119.84726 * 180.02562 * 21 20 19 36 36 H 1.09009 * 117.49520 * 214.99875 * 23 9 7 37 37 H 1.08997 * 117.49939 * 0.02819 * 23 9 7 38 38 H 1.09003 * 117.49807 * 359.97438 * 24 9 7 39 39 H 1.08998 * 117.50298 * 144.97020 * 24 9 7 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 7 0.0000 0.0000 0.0000 2 6 1.3151 0.0000 0.0000 3 14 2.2491 1.6178 0.0000 4 1 3.7090 1.3465 0.0006 5 1 1.8903 2.3966 -1.2124 6 1 1.8903 2.3964 1.2126 7 6 2.0045 -1.1940 -0.0005 8 1 3.0821 -1.1955 0.0716 9 6 1.2544 -2.4971 -0.1018 10 6 0.9101 -2.9518 -1.5215 11 16 2.4404 -3.2379 -2.4527 12 6 1.8383 -3.6071 -4.1235 13 1 1.1725 -2.8099 -4.4536 14 6 1.0756 -4.9342 -4.1085 15 6 0.8363 -5.3686 -5.5602 16 8 2.1027 -5.6329 -6.1656 17 6 3.0788 -4.6979 -6.0298 18 6 4.1737 -4.7520 -6.8866 19 6 5.1874 -3.8224 -6.7777 20 6 5.1165 -2.8333 -5.8138 21 6 4.0306 -2.7757 -4.9624 22 6 3.0092 -3.7063 -5.0682 23 6 1.5794 -3.5812 0.9279 24 6 0.2519 -2.8232 1.0070 25 1 -0.4850 0.8369 -0.0732 26 1 0.3219 -2.1798 -2.0176 27 1 0.3335 -3.8757 -1.4774 28 1 1.6651 -5.6911 -3.5910 29 1 0.1194 -4.8028 -3.6019 30 1 0.2255 -6.2711 -5.5776 31 1 0.3291 -4.5710 -6.1032 32 1 4.2306 -5.5244 -7.6394 33 1 6.0356 -3.8671 -7.4446 34 1 5.9102 -2.1061 -5.7266 35 1 3.9773 -2.0021 -4.2108 36 1 1.5479 -4.6183 0.5937 37 1 2.3355 -3.3516 1.6787 38 1 0.1352 -2.0954 1.8100 39 1 -0.6532 -3.3612 0.7251 RHF calculation, no. of doubly occupied orbitals= 51 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) O: (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 ZINC001559385880.mol2 39 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Tue Mar 31 2020 08:27:21 Heat of formation + Delta-G solvation = -9.648485 kcal Electronic energy + Delta-G solvation = -20544.180804 eV Core-core repulsion = 17542.952141 eV Total energy + Delta-G solvation = -3001.228663 eV No. of doubly occupied orbitals = 51 Molecular weight (most abundant/longest-lived isotopes) = 290.108 amu Computer time = 0.62 seconds Orbital eigenvalues (eV) -41.59793 -38.48246 -38.37647 -35.37947 -33.99842 -31.63595 -31.18720 -29.42988 -27.44807 -26.69256 -24.68291 -23.47880 -22.92081 -21.26222 -20.94843 -18.83708 -18.18739 -17.60336 -17.22246 -16.81058 -16.61105 -15.99944 -15.73182 -15.24205 -15.20379 -15.03009 -14.71135 -14.30854 -14.23952 -13.89877 -13.62026 -13.34761 -12.98801 -12.87021 -12.68940 -12.49802 -12.37273 -12.29773 -12.01746 -11.82531 -11.57567 -11.42544 -10.97004 -10.73071 -10.41185 -9.88467 -9.71977 -9.14844 -8.41156 -8.12029 -6.21446 0.19899 0.45189 0.96691 1.37106 1.40991 1.51467 1.85996 2.34057 2.42438 2.82741 3.16912 3.48116 3.53713 3.57502 3.73153 4.04349 4.08520 4.18364 4.23605 4.33366 4.38764 4.48753 4.52113 4.55260 4.60547 4.63117 4.67688 4.87989 4.91494 4.97639 4.99155 5.08443 5.23480 5.34180 5.52182 5.55595 5.61714 5.65059 5.76739 5.85826 6.38111 6.43536 6.82238 7.46058 8.96221 Molecular weight = 290.11amu Principal moments of inertia in cm(-1) A = 0.018366 B = 0.004997 C = 0.004282 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1524.212815 B = 5602.250796 C = 6538.168386 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.907 5.907 2 C 0.031 3.969 3 Si 0.940 3.060 4 H -0.271 1.271 5 H -0.280 1.280 6 H -0.282 1.282 7 C -0.491 4.491 8 H 0.045 0.955 9 C 0.024 3.976 10 C -0.018 4.018 11 S -0.246 6.246 12 C -0.019 4.019 13 H 0.083 0.917 14 C -0.149 4.149 15 C 0.066 3.934 16 O -0.323 6.323 17 C 0.126 3.874 18 C -0.158 4.158 19 C -0.077 4.077 20 C -0.157 4.157 21 C -0.089 4.089 22 C -0.156 4.156 23 C -0.186 4.186 24 C -0.144 4.144 25 H 0.259 0.741 26 H 0.051 0.949 27 H 0.067 0.933 28 H 0.081 0.919 29 H 0.092 0.908 30 H 0.141 0.859 31 H 0.071 0.929 32 H 0.150 0.850 33 H 0.163 0.837 34 H 0.143 0.857 35 H 0.118 0.882 36 H 0.090 0.910 37 H 0.073 0.927 38 H 0.062 0.938 39 H 0.077 0.923 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 3.941 -10.022 -14.084 17.729 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 N -0.545 5.545 2 C -0.169 4.169 3 Si 0.766 3.234 4 H -0.195 1.195 5 H -0.206 1.206 6 H -0.208 1.208 7 C -0.528 4.528 8 H 0.064 0.936 9 C 0.022 3.978 10 C -0.167 4.167 11 S -0.012 6.012 12 C -0.148 4.148 13 H 0.102 0.898 14 C -0.188 4.188 15 C -0.010 4.010 16 O -0.238 6.238 17 C 0.079 3.921 18 C -0.177 4.177 19 C -0.095 4.095 20 C -0.175 4.175 21 C -0.109 4.109 22 C -0.158 4.158 23 C -0.223 4.223 24 C -0.184 4.184 25 H 0.068 0.932 26 H 0.070 0.930 27 H 0.086 0.914 28 H 0.099 0.901 29 H 0.111 0.889 30 H 0.158 0.842 31 H 0.089 0.911 32 H 0.168 0.832 33 H 0.180 0.820 34 H 0.161 0.839 35 H 0.136 0.864 36 H 0.108 0.892 37 H 0.092 0.908 38 H 0.081 0.919 39 H 0.096 0.904 Dipole moment (debyes) X Y Z Total from point charges 4.835 -10.002 -13.703 17.640 hybrid contribution -1.327 1.500 0.265 2.020 sum 3.508 -8.502 -13.438 16.284 Atomic orbital electron populations 1.70093 1.06742 1.27171 1.50519 1.25522 0.95488 1.01425 0.94507 0.85783 0.79371 0.80716 0.77528 1.19520 1.20613 1.20795 1.20546 0.92094 0.90086 1.50123 0.93633 1.18596 0.99660 0.93608 0.85890 1.22812 0.94749 1.00635 0.98466 1.87026 1.17366 1.91395 1.05460 1.21944 0.97522 1.00942 0.94351 0.89850 1.22594 1.01779 0.95580 0.98888 1.23204 0.82640 1.04177 0.91029 1.85943 1.21764 1.42480 1.73588 1.18871 0.90497 0.88601 0.94107 1.20891 0.93696 1.02607 1.00480 1.21329 0.98170 0.92674 0.97377 1.21329 0.98587 1.00832 0.96800 1.21246 0.93537 0.97735 0.98366 1.19348 0.98276 0.99704 0.98485 1.22997 0.99000 0.96320 1.03980 1.22454 0.91929 1.01468 1.02532 0.93189 0.92998 0.91408 0.90082 0.88908 0.84152 0.91061 0.83181 0.81950 0.83944 0.86354 0.89152 0.90789 0.91948 0.90446 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 N -0.91 -51.05 12.66 21.45 0.27 -50.78 16 2 C 0.03 1.67 5.43 84.65 0.46 2.13 16 3 Si 0.94 43.85 29.54 68.60 2.03 45.88 16 4 H -0.27 -12.51 7.11 99.48 0.71 -11.80 16 5 H -0.28 -12.85 7.11 99.48 0.71 -12.14 16 6 H -0.28 -12.93 7.11 99.48 0.71 -12.22 16 7 C -0.49 -26.77 8.40 25.60 0.21 -26.55 16 8 H 0.05 2.58 7.82 -2.91 -0.02 2.55 16 9 C 0.02 1.16 1.45 -52.93 -0.08 1.08 16 10 C -0.02 -0.79 5.61 71.98 0.40 -0.39 16 11 S -0.25 -9.78 19.25 -56.49 -1.09 -10.86 16 12 C -0.02 -0.62 2.81 29.89 0.08 -0.53 16 13 H 0.08 2.76 8.14 -2.39 -0.02 2.74 16 14 C -0.15 -3.83 5.32 30.76 0.16 -3.67 16 15 C 0.07 1.35 7.03 72.12 0.51 1.86 16 16 O -0.32 -8.18 10.27 -91.83 -0.94 -9.12 16 17 C 0.13 3.45 6.47 22.50 0.15 3.59 16 18 C -0.16 -3.56 9.94 22.42 0.22 -3.34 16 19 C -0.08 -1.56 10.04 22.22 0.22 -1.33 16 20 C -0.16 -3.81 10.04 22.25 0.22 -3.58 16 21 C -0.09 -2.74 9.02 22.32 0.20 -2.54 16 22 C -0.16 -4.81 5.44 -19.74 -0.11 -4.91 16 23 C -0.19 -7.99 9.96 30.62 0.30 -7.68 16 24 C -0.14 -6.66 9.17 30.62 0.28 -6.38 16 25 H 0.26 13.97 8.32 -92.71 -0.77 13.20 16 26 H 0.05 2.47 8.14 -2.39 -0.02 2.45 16 27 H 0.07 2.60 7.83 -2.39 -0.02 2.58 16 28 H 0.08 2.23 8.11 -2.38 -0.02 2.21 16 29 H 0.09 2.22 7.85 -2.39 -0.02 2.20 16 30 H 0.14 1.97 8.14 -2.39 -0.02 1.96 16 31 H 0.07 1.37 8.14 -2.39 -0.02 1.35 16 32 H 0.15 2.64 8.06 -2.91 -0.02 2.62 16 33 H 0.16 2.04 8.06 -2.91 -0.02 2.02 16 34 H 0.14 2.80 8.06 -2.91 -0.02 2.78 16 35 H 0.12 4.06 7.16 -2.91 -0.02 4.04 16 36 H 0.09 3.43 8.14 -2.38 -0.02 3.41 16 37 H 0.07 3.22 8.14 -2.39 -0.02 3.20 16 38 H 0.06 3.17 8.14 -2.39 -0.02 3.15 16 39 H 0.08 3.27 8.14 -2.39 -0.02 3.25 16 Total: -1.00 -62.14 335.56 4.54 -57.60 By element: Atomic # 1 Polarization: 18.51 SS G_CDS: 1.02 Total: 19.54 kcal Atomic # 6 Polarization: -55.50 SS G_CDS: 3.25 Total: -52.25 kcal Atomic # 7 Polarization: -51.05 SS G_CDS: 0.27 Total: -50.78 kcal Atomic # 8 Polarization: -8.18 SS G_CDS: -0.94 Total: -9.12 kcal Atomic # 14 Polarization: 43.85 SS G_CDS: 2.03 Total: 45.88 kcal Atomic # 16 Polarization: -9.78 SS G_CDS: -1.09 Total: -10.86 kcal Total: -62.14 4.54 -57.60 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. ZINC001559385880.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 47.947 kcal (2) G-P(sol) polarization free energy of solvation -62.138 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -14.190 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.542 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -57.596 kcal (6) G-S(sol) free energy of system = (1) + (5) -9.648 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.63 seconds