Wall clock time and date at job start Tue Mar 31 2020 22:27:29 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 1.31628 * 1 3 3 Si 1.86793 * 120.00321 * 2 1 4 4 H 1.48506 * 109.47057 * 270.00371 * 3 2 1 5 5 H 1.48508 * 109.47020 * 29.99827 * 3 2 1 6 6 H 1.48492 * 109.47537 * 149.99953 * 3 2 1 7 7 C 1.38806 * 119.99647 * 179.97438 * 2 1 3 8 8 H 1.08001 * 119.99994 * 0.02562 * 7 2 1 9 9 S 1.76198 * 119.99595 * 179.97438 * 7 2 1 10 10 C 1.80999 * 99.99780 * 180.02562 * 9 7 2 11 11 C 1.50702 * 109.46968 * 179.97438 * 10 9 7 12 12 O 1.21280 * 119.99972 * 5.01811 * 11 10 9 13 13 N 1.34784 * 119.99783 * 185.01598 * 11 10 9 14 14 C 1.46502 * 119.99631 * 185.04573 * 13 11 10 15 15 C 1.53007 * 109.46967 * 269.99636 * 14 13 11 16 16 N 1.46492 * 109.46980 * 180.02562 * 15 14 13 17 17 C 1.34783 * 119.99971 * 180.02562 * 16 15 14 18 18 O 1.21613 * 119.99524 * 359.97438 * 17 16 15 19 19 C 1.47232 * 120.00075 * 179.97438 * 17 16 15 20 20 C 1.37004 * 127.19064 * 179.97438 * 19 17 16 21 21 N 1.33316 * 106.37447 * 180.02562 * 20 19 17 22 22 N 1.28518 * 109.43688 * 359.97438 * 21 20 19 23 23 N 1.28705 * 110.64004 * 0.02562 * 22 21 20 24 24 H 0.97006 * 126.03871 * 179.97438 * 23 22 21 25 25 C 1.46499 * 119.99930 * 5.04331 * 13 11 10 26 26 C 1.53005 * 117.49641 * 182.75388 * 25 13 11 27 27 C 1.52998 * 60.00016 * 252.51169 * 26 25 13 28 28 H 0.96997 * 119.99800 * 0.02562 * 1 2 3 29 29 H 1.08998 * 109.47205 * 60.00051 * 10 9 7 30 30 H 1.08996 * 109.47255 * 299.99697 * 10 9 7 31 31 H 1.09000 * 109.46841 * 150.00460 * 14 13 11 32 32 H 1.08999 * 109.47105 * 30.00063 * 14 13 11 33 33 H 1.09004 * 109.46426 * 60.00264 * 15 14 13 34 34 H 1.08997 * 109.46877 * 300.00461 * 15 14 13 35 35 H 0.96998 * 120.00252 * 359.97438 * 16 15 14 36 36 H 1.08001 * 126.81324 * 0.04381 * 20 19 17 37 37 H 1.08998 * 115.55365 * 328.46367 * 25 13 11 38 38 H 1.09001 * 117.49628 * 0.02562 * 26 25 13 39 39 H 1.09003 * 117.49758 * 145.02104 * 26 25 13 40 40 H 1.09000 * 117.50004 * 252.51357 * 27 26 25 41 41 H 1.09006 * 117.51971 * 107.48075 * 27 26 25 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 1.3163 0.0000 0.0000 3 14 2.2503 1.6176 0.0000 4 1 2.4978 2.0463 -1.4001 5 1 1.4478 2.6527 0.7000 6 1 3.5478 1.4401 0.7000 7 6 2.0102 -1.2021 0.0005 8 1 1.4702 -2.1374 0.0005 9 16 3.7722 -1.2021 -0.0001 10 6 4.0865 -2.9846 0.0001 11 6 5.5729 -3.2326 -0.0010 12 8 6.3433 -2.3003 0.0899 13 7 6.0462 -4.4905 -0.1031 14 6 7.4851 -4.7428 0.0067 15 6 8.1243 -4.6630 -1.3811 16 7 9.5630 -4.9160 -1.2714 17 6 10.3369 -4.8960 -2.3747 18 8 9.8406 -4.6684 -3.4614 19 6 11.7830 -5.1496 -2.2644 20 6 12.7010 -5.1655 -3.2813 21 7 13.8794 -5.4358 -2.7196 22 7 13.7260 -5.5795 -1.4518 23 7 12.4920 -5.4193 -1.1231 24 1 12.1279 -5.4792 -0.2259 25 6 5.1217 -5.6053 -0.3238 26 6 5.7132 -7.0157 -0.3664 27 6 5.2217 -6.3531 -1.6549 28 1 -0.4850 0.8400 -0.0004 29 1 3.6432 -3.4319 -0.8896 30 1 3.6439 -3.4315 0.8904 31 1 7.6489 -5.7358 0.4255 32 1 7.9365 -3.9946 0.6583 33 1 7.9604 -3.6701 -1.7999 34 1 7.6728 -5.4112 -2.0326 35 1 9.9589 -5.0971 -0.4046 36 1 12.5082 -4.9930 -4.3299 37 1 4.1305 -5.4879 0.1142 38 1 6.7901 -7.1141 -0.2298 39 1 5.1112 -7.8265 0.0439 40 1 4.2964 -6.7279 -2.0923 41 1 5.9751 -6.0152 -2.3666 RHF calculation, no. of doubly occupied orbitals= 60 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 ZINC001759089501.mol2 41 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 22:27:29 Heat of formation + Delta-G solvation = 33.674717 kcal Electronic energy + Delta-G solvation = -25976.713448 eV Core-core repulsion = 22020.476436 eV Total energy + Delta-G solvation = -3956.237013 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.115 amu Computer time = 0.60 seconds Orbital eigenvalues (eV) -44.49336 -41.41065 -40.63480 -38.56403 -36.54650 -34.81142 -34.67782 -34.21094 -32.76510 -31.81744 -29.43043 -27.85272 -25.85397 -24.56278 -23.85327 -23.60161 -22.95144 -22.26311 -20.90622 -20.20179 -19.59196 -18.44487 -17.96213 -17.71440 -17.52677 -17.15980 -16.98556 -16.60225 -16.32320 -15.78814 -15.70551 -15.40839 -15.34217 -15.23001 -14.90980 -14.61025 -14.15090 -13.52221 -13.39678 -13.33819 -13.14950 -13.02599 -12.88038 -12.65207 -12.46247 -12.07234 -12.03092 -11.90154 -11.87259 -11.63769 -11.58500 -11.17991 -10.95639 -10.78442 -10.53706 -10.37408 -9.67105 -9.00778 -8.52118 -6.22844 -0.28845 0.93111 1.11475 1.26556 1.30572 1.39810 1.44431 1.49769 1.68061 1.85260 2.10272 2.23805 2.65997 2.86197 2.87464 3.20194 3.42109 3.51499 3.67436 3.79164 3.83940 3.87687 4.00676 4.01612 4.08151 4.19676 4.26246 4.43350 4.60608 4.72675 4.82386 4.86463 4.90144 4.95851 5.13200 5.24215 5.40806 5.60886 5.70292 6.11025 6.12209 6.13359 6.78384 6.93131 6.98722 7.09260 8.60075 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.016756 B = 0.002289 C = 0.002109 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1670.639376 B =12228.264222 C =13270.356666 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.916 5.916 2 C 0.046 3.954 3 Si 0.913 3.087 4 H -0.264 1.264 5 H -0.260 1.260 6 H -0.236 1.236 7 C -0.526 4.526 8 H 0.064 0.936 9 S -0.178 6.178 10 C -0.106 4.106 11 C 0.541 3.459 12 O -0.551 6.551 13 N -0.574 5.574 14 C 0.103 3.897 15 C 0.108 3.892 16 N -0.701 5.701 17 C 0.601 3.399 18 O -0.549 6.549 19 C -0.062 4.062 20 C 0.029 3.971 21 N -0.297 5.297 22 N -0.054 5.054 23 N -0.346 5.346 24 H 0.470 0.530 25 C 0.042 3.958 26 C -0.152 4.152 27 C -0.198 4.198 28 H 0.277 0.723 29 H 0.109 0.891 30 H 0.114 0.886 31 H 0.131 0.869 32 H 0.088 0.912 33 H 0.044 0.956 34 H 0.082 0.918 35 H 0.417 0.583 36 H 0.216 0.784 37 H 0.135 0.865 38 H 0.116 0.884 39 H 0.125 0.875 40 H 0.111 0.889 41 H 0.091 0.909 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 21.027 -19.623 1.273 28.789 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 -0.553 5.553 2 C -0.160 4.160 3 Si 0.735 3.265 4 H -0.189 1.189 5 H -0.184 1.184 6 H -0.160 1.160 7 C -0.674 4.674 8 H 0.082 0.918 9 S 0.048 5.952 10 C -0.256 4.256 11 C 0.328 3.672 12 O -0.429 6.429 13 N -0.305 5.305 14 C -0.019 4.019 15 C -0.017 4.017 16 N -0.355 5.355 17 C 0.385 3.615 18 O -0.425 6.425 19 C -0.197 4.197 20 C -0.131 4.131 21 N -0.161 5.161 22 N -0.037 5.037 23 N -0.077 5.077 24 H 0.321 0.679 25 C -0.062 4.062 26 C -0.189 4.189 27 C -0.237 4.237 28 H 0.086 0.914 29 H 0.127 0.873 30 H 0.132 0.868 31 H 0.148 0.852 32 H 0.106 0.894 33 H 0.063 0.937 34 H 0.100 0.900 35 H 0.254 0.746 36 H 0.233 0.767 37 H 0.153 0.847 38 H 0.134 0.866 39 H 0.143 0.857 40 H 0.129 0.871 41 H 0.110 0.890 Dipole moment (debyes) X Y Z Total from point charges 23.059 -18.276 0.969 29.439 hybrid contribution -2.446 0.092 0.286 2.464 sum 20.613 -18.184 1.255 27.516 Atomic orbital electron populations 1.70010 1.07237 1.28980 1.49117 1.25549 0.95274 1.02190 0.92987 0.85890 0.80751 0.79759 0.80117 1.18915 1.18385 1.15981 1.22429 0.90101 0.96668 1.58173 0.91818 1.84708 1.06657 1.06233 1.97571 1.23264 0.95893 0.99363 1.07126 1.19951 0.89583 0.82611 0.75023 1.90703 1.59237 1.43025 1.49911 1.47116 1.06857 1.05183 1.71381 1.21749 0.79404 1.05271 0.95511 1.21815 0.79234 1.01557 0.99065 1.45449 1.08500 1.71651 1.09853 1.16778 0.83296 0.76902 0.84524 1.90910 1.73643 1.49643 1.28285 1.22055 0.94439 1.14829 0.88371 1.24273 0.86959 0.99656 1.02237 1.75037 1.24135 1.17461 0.99478 1.78188 0.98961 1.16578 1.09945 1.45549 1.05934 1.44820 1.11424 0.67931 1.22099 0.95312 0.85618 1.03189 1.23477 1.02919 0.93044 0.99442 1.23572 1.04491 1.03960 0.91663 0.91393 0.87305 0.86792 0.85160 0.89407 0.93732 0.90021 0.74579 0.76723 0.84711 0.86586 0.85663 0.87073 0.89046 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 -0.92 -55.07 13.97 21.65 0.30 -54.76 16 2 C 0.05 2.64 5.50 84.86 0.47 3.10 16 3 Si 0.91 44.53 27.74 68.60 1.90 46.43 16 4 H -0.26 -12.67 7.11 99.48 0.71 -11.97 16 5 H -0.26 -11.89 7.11 99.48 0.71 -11.18 16 6 H -0.24 -11.44 6.74 99.48 0.67 -10.77 16 7 C -0.53 -30.04 10.04 67.96 0.68 -29.36 16 8 H 0.06 3.82 8.03 -2.91 -0.02 3.80 16 9 S -0.18 -8.79 18.55 -56.49 -1.05 -9.84 16 10 C -0.11 -3.81 4.68 71.24 0.33 -3.48 16 11 C 0.54 17.20 7.67 87.66 0.67 17.87 16 12 O -0.55 -21.67 15.50 -3.03 -0.05 -21.72 16 13 N -0.57 -11.77 2.80 -797.80 -2.24 -14.01 16 14 C 0.10 1.42 5.02 86.38 0.43 1.85 16 15 C 0.11 1.74 5.96 86.38 0.51 2.26 16 16 N -0.70 -7.31 5.55 -466.57 -2.59 -9.90 16 17 C 0.60 9.72 7.81 86.61 0.68 10.40 16 18 O -0.55 -13.97 16.92 -4.07 -0.07 -14.03 16 19 C -0.06 -0.81 7.17 40.41 0.29 -0.52 16 20 C 0.03 0.46 11.87 84.18 1.00 1.45 16 21 N -0.30 -5.57 12.35 -57.50 -0.71 -6.28 16 22 N -0.05 -0.83 13.35 37.02 0.49 -0.34 16 23 N -0.35 -2.86 6.97 -48.52 -0.34 -3.20 16 24 H 0.47 -0.52 8.32 -219.90 -1.83 -2.34 16 25 C 0.04 0.64 5.79 44.99 0.26 0.90 16 26 C -0.15 -1.23 9.74 30.60 0.30 -0.93 16 27 C -0.20 -2.61 10.19 30.59 0.31 -2.30 16 28 H 0.28 15.41 8.31 -92.71 -0.77 14.64 16 29 H 0.11 3.68 7.87 -2.40 -0.02 3.66 16 30 H 0.11 3.76 7.96 -2.40 -0.02 3.74 16 31 H 0.13 0.67 5.99 -2.39 -0.01 0.65 16 32 H 0.09 1.39 7.50 -2.39 -0.02 1.37 16 33 H 0.04 1.12 8.14 -2.39 -0.02 1.10 16 34 H 0.08 1.31 5.89 -2.39 -0.01 1.29 16 35 H 0.42 0.72 7.74 -92.71 -0.72 0.01 16 36 H 0.22 2.71 8.06 -2.91 -0.02 2.69 16 37 H 0.14 2.13 7.13 -2.39 -0.02 2.11 16 38 H 0.12 0.54 6.11 -2.39 -0.01 0.53 16 39 H 0.13 0.65 8.14 -2.39 -0.02 0.63 16 40 H 0.11 1.36 8.14 -2.39 -0.02 1.34 16 41 H 0.09 1.40 6.12 -2.38 -0.01 1.38 16 Total: -1.00 -83.85 365.54 0.13 -83.72 By element: Atomic # 1 Polarization: 4.15 SS G_CDS: -1.47 Total: 2.68 kcal Atomic # 6 Polarization: -4.69 SS G_CDS: 5.94 Total: 1.25 kcal Atomic # 7 Polarization: -83.42 SS G_CDS: -5.08 Total: -88.50 kcal Atomic # 8 Polarization: -35.64 SS G_CDS: -0.12 Total: -35.75 kcal Atomic # 14 Polarization: 44.53 SS G_CDS: 1.90 Total: 46.43 kcal Atomic # 16 Polarization: -8.79 SS G_CDS: -1.05 Total: -9.84 kcal Total: -83.85 0.13 -83.72 kcal The number of atoms in the molecule is 41 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. ZINC001759089501.mol2 41 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 117.393 kcal (2) G-P(sol) polarization free energy of solvation -83.850 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 33.544 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.131 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -83.719 kcal (6) G-S(sol) free energy of system = (1) + (5) 33.675 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.60 seconds