Wall clock time and date at job start Tue Mar 31 2020 22:48:53 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 1.31514 * 1 3 3 Si 1.86802 * 119.99974 * 2 1 4 4 H 1.48502 * 109.46876 * 269.99154 * 3 2 1 5 5 H 1.48498 * 109.47204 * 29.99213 * 3 2 1 6 6 H 1.48497 * 109.47037 * 149.99431 * 3 2 1 7 7 C 1.37876 * 119.99963 * 179.97438 * 2 1 3 8 8 H 1.08001 * 119.99986 * 0.02562 * 7 2 1 9 9 C 1.50706 * 120.00047 * 180.02562 * 7 2 1 10 10 C 1.53004 * 109.46874 * 180.02562 * 9 7 2 11 11 C 1.53000 * 109.46820 * 179.97438 * 10 9 7 12 12 S 1.81397 * 109.47099 * 180.02562 * 11 10 9 13 13 O 1.42093 * 110.54280 * 68.37580 * 12 11 10 14 14 O 1.42107 * 110.54180 * 291.62711 * 12 11 10 15 15 N 1.65601 * 104.44925 * 180.02562 * 12 11 10 16 16 C 1.47310 * 121.21604 * 278.94651 * 15 12 11 17 17 C 1.53218 * 109.63029 * 119.17395 * 16 15 12 18 18 C 1.50699 * 109.67032 * 46.45739 * 17 16 15 19 19 N 1.33543 * 128.32061 * 160.12596 * 18 17 16 20 20 C 1.30764 * 109.26599 * 179.76000 * 19 18 17 21 21 N 1.35375 * 108.78969 * 0.03941 * 20 19 18 22 22 H 0.96998 * 126.51160 * 180.10215 * 21 20 19 23 23 C 1.35460 * 124.00665 * 340.04761 * 18 17 16 24 24 C 1.46955 * 121.21586 * 98.92182 * 15 12 11 25 25 C 1.52943 * 113.99667 * 350.51168 * 24 15 12 26 26 C 1.53931 * 86.84918 * 90.39396 * 25 24 15 27 27 C 1.52964 * 113.96026 * 89.38356 * 24 15 12 28 28 H 0.97000 * 120.00157 * 0.02562 * 1 2 3 29 29 H 1.08998 * 109.46821 * 60.00282 * 9 7 2 30 30 H 1.08991 * 109.46816 * 300.00282 * 9 7 2 31 31 H 1.08996 * 109.46914 * 60.00045 * 10 9 7 32 32 H 1.08994 * 109.47040 * 299.99917 * 10 9 7 33 33 H 1.09008 * 109.46773 * 60.00353 * 11 10 9 34 34 H 1.09000 * 109.47029 * 300.00483 * 11 10 9 35 35 H 1.08998 * 109.44773 * 359.12429 * 16 15 12 36 36 H 1.08999 * 109.44147 * 239.22029 * 16 15 12 37 37 H 1.08997 * 109.43929 * 286.39998 * 17 16 15 38 38 H 1.08999 * 109.43848 * 166.51542 * 17 16 15 39 39 H 1.08004 * 125.60770 * 180.02562 * 20 19 18 40 40 H 1.09003 * 113.65567 * 204.88502 * 25 24 15 41 41 H 1.09000 * 113.65120 * 335.90821 * 25 24 15 42 42 H 1.08997 * 113.59042 * 270.25323 * 26 25 24 43 43 H 1.08991 * 113.59610 * 139.41653 * 26 25 24 44 44 H 1.09007 * 113.64892 * 24.05636 * 27 24 15 45 45 H 1.08995 * 113.65642 * 155.08688 * 27 24 15 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 2.4968 2.0463 -1.4001 5 1 1.4465 2.6527 0.6999 6 1 3.5466 1.4402 0.7001 7 6 2.0045 -1.1940 0.0005 8 1 1.4645 -2.1294 0.0005 9 6 3.5116 -1.1941 0.0011 10 6 4.0215 -2.6366 0.0010 11 6 5.5515 -2.6366 0.0009 12 16 6.1561 -4.3469 0.0000 13 8 5.8600 -4.9798 -1.2372 14 8 5.8600 -4.9811 1.2367 15 7 7.8058 -4.2019 0.0008 16 6 8.5496 -3.9391 -1.2433 17 6 9.3047 -2.6115 -1.1208 18 6 10.0171 -2.5536 0.2059 19 7 11.0450 -1.7784 0.5606 20 6 11.3666 -2.0301 1.8029 21 7 10.5396 -2.9890 2.2817 22 1 10.5507 -3.3674 3.1747 23 6 9.6920 -3.3200 1.2744 24 6 8.5811 -4.3303 1.2426 25 6 7.7246 -4.3719 2.5090 26 6 7.6978 -5.9015 2.3384 27 6 9.0170 -5.7622 1.5575 28 1 -0.4850 0.8400 -0.0004 29 1 3.8745 -0.6801 0.8912 30 1 3.8752 -0.6804 -0.8888 31 1 3.6585 -3.1502 -0.8892 32 1 3.6578 -3.1506 0.8907 33 1 5.9148 -2.1229 0.8911 34 1 5.9148 -2.1227 -0.8890 35 1 7.8517 -3.8839 -2.0787 36 1 9.2610 -4.7463 -1.4181 37 1 8.5979 -1.7846 -1.1894 38 1 10.0335 -2.5329 -1.9276 39 1 12.1616 -1.5519 2.3559 40 1 8.2512 -4.0409 3.4042 41 1 6.7482 -3.9017 2.3922 42 1 6.8665 -6.2581 1.7302 43 1 7.8015 -6.4470 3.2763 44 1 9.0751 -6.4049 0.6790 45 1 9.9055 -5.8206 2.1862 RHF calculation, no. of doubly occupied orbitals= 61 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 ZINC001671665697.mol2 45 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 22:48:53 Heat of formation + Delta-G solvation = 12.723875 kcal Electronic energy + Delta-G solvation = -28805.848716 eV Core-core repulsion = 24952.243550 eV Total energy + Delta-G solvation = -3853.605166 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 339.140 amu Computer time = 1.35 seconds Orbital eigenvalues (eV) -43.34516 -40.65188 -38.35968 -37.14561 -36.55725 -36.36142 -34.26902 -33.48018 -31.61886 -30.19147 -29.81949 -26.88818 -25.51936 -25.30209 -24.42639 -22.82275 -22.26823 -21.03618 -20.57786 -19.52314 -19.04185 -18.95959 -18.11693 -17.49997 -17.20571 -16.71930 -16.32468 -16.25237 -15.97796 -15.72855 -15.39113 -15.08561 -14.89067 -14.67964 -14.21986 -14.12254 -13.87251 -13.71497 -13.58380 -13.38169 -13.25557 -13.22097 -12.80082 -12.74203 -12.64765 -12.38047 -11.94933 -11.88095 -11.86351 -11.68090 -11.56248 -11.49080 -11.41692 -10.93141 -10.87873 -10.79255 -10.69667 -10.06957 -9.10450 -8.31668 -6.37221 -0.85742 1.02447 1.34911 1.36507 1.46645 1.48093 2.13848 2.21310 2.34025 2.70856 3.03399 3.05882 3.20395 3.56273 3.59400 3.68770 3.73811 3.82611 3.97444 4.04056 4.10989 4.28218 4.30244 4.36778 4.54722 4.58215 4.66213 4.68272 4.74798 4.82020 4.84773 4.93940 4.95049 5.00252 5.07725 5.15858 5.19946 5.31244 5.38341 5.42644 5.45253 5.60493 5.75656 5.78838 6.23495 6.57263 6.70737 7.14793 7.27527 8.85193 Molecular weight = 339.14amu Principal moments of inertia in cm(-1) A = 0.013750 B = 0.003666 C = 0.003281 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2035.823675 B = 7635.411782 C = 8530.654658 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.950 5.950 2 C 0.005 3.995 3 Si 0.950 3.050 4 H -0.264 1.264 5 H -0.283 1.283 6 H -0.244 1.244 7 C -0.543 4.543 8 H 0.033 0.967 9 C -0.005 4.005 10 C -0.099 4.099 11 C -0.616 4.616 12 S 2.609 3.391 13 O -0.980 6.980 14 O -0.947 6.947 15 N -0.973 5.973 16 C 0.120 3.880 17 C -0.055 4.055 18 C -0.010 4.010 19 N -0.528 5.528 20 C 0.190 3.810 21 N -0.537 5.537 22 H 0.436 0.564 23 C -0.027 4.027 24 C 0.239 3.761 25 C -0.156 4.156 26 C -0.147 4.147 27 C -0.138 4.138 28 H 0.267 0.733 29 H 0.028 0.972 30 H 0.027 0.973 31 H 0.063 0.937 32 H 0.067 0.933 33 H 0.144 0.856 34 H 0.146 0.854 35 H 0.106 0.894 36 H 0.091 0.909 37 H 0.079 0.921 38 H 0.100 0.900 39 H 0.247 0.753 40 H 0.104 0.896 41 H 0.086 0.914 42 H 0.105 0.895 43 H 0.078 0.922 44 H 0.075 0.925 45 H 0.106 0.894 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 28.698 -8.498 5.547 30.440 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 -0.590 5.590 2 C -0.192 4.192 3 Si 0.773 3.227 4 H -0.189 1.189 5 H -0.209 1.209 6 H -0.167 1.167 7 C -0.581 4.581 8 H 0.051 0.949 9 C -0.044 4.044 10 C -0.138 4.138 11 C -0.747 4.747 12 S 2.708 3.292 13 O -0.971 6.971 14 O -0.937 6.937 15 N -0.808 5.808 16 C -0.005 4.005 17 C -0.095 4.095 18 C -0.140 4.140 19 N -0.247 5.247 20 C -0.093 4.093 21 N -0.141 5.141 22 H 0.278 0.722 23 C -0.146 4.146 24 C 0.149 3.851 25 C -0.195 4.195 26 C -0.186 4.186 27 C -0.178 4.178 28 H 0.076 0.924 29 H 0.047 0.953 30 H 0.046 0.954 31 H 0.082 0.918 32 H 0.086 0.914 33 H 0.162 0.838 34 H 0.164 0.836 35 H 0.125 0.875 36 H 0.110 0.890 37 H 0.097 0.903 38 H 0.118 0.882 39 H 0.263 0.737 40 H 0.122 0.878 41 H 0.104 0.896 42 H 0.123 0.877 43 H 0.097 0.903 44 H 0.094 0.906 45 H 0.124 0.876 Dipole moment (debyes) X Y Z Total from point charges 28.443 -8.637 4.956 30.136 hybrid contribution -0.631 0.825 0.834 1.332 sum 27.812 -7.811 5.790 29.462 Atomic orbital electron populations 1.70070 1.08378 1.28297 1.52299 1.26040 0.95644 1.03626 0.93922 0.85659 0.79580 0.78036 0.79417 1.18916 1.20902 1.16708 1.21535 0.92170 0.93376 1.50979 0.94856 1.19496 0.93857 0.93579 0.97430 1.21147 0.90034 1.00336 1.02293 1.30631 1.05748 1.25155 1.13133 1.05090 0.72676 0.77599 0.73814 1.93541 1.83238 1.73530 1.46761 1.93630 1.83935 1.72333 1.43850 1.57543 1.22858 1.87313 1.13128 1.21664 0.96888 0.97423 0.84533 1.20303 0.98500 0.97848 0.92840 1.20705 0.97792 0.98260 0.97238 1.69901 1.15317 1.26105 1.13393 1.25834 0.98755 0.93147 0.91531 1.42623 1.25797 1.31820 1.13854 0.72249 1.20446 0.99220 1.04235 0.90745 1.19015 0.88990 0.92855 0.84218 1.23721 1.00558 0.99370 0.95830 1.23492 0.97530 0.95684 1.01856 1.23387 0.99039 0.94126 1.01199 0.92381 0.95348 0.95418 0.91830 0.91444 0.83785 0.83555 0.87543 0.89034 0.90256 0.88203 0.73687 0.87795 0.89581 0.87737 0.90302 0.90627 0.87550 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 18. 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 -0.95 -59.96 13.96 21.45 0.30 -59.66 16 2 C 0.00 0.28 5.47 84.65 0.46 0.74 16 3 Si 0.95 43.80 27.47 68.60 1.88 45.69 16 4 H -0.26 -11.65 7.11 99.48 0.71 -10.94 16 5 H -0.28 -12.83 7.11 99.48 0.71 -12.12 16 6 H -0.24 -10.27 6.54 99.48 0.65 -9.62 16 7 C -0.54 -31.53 9.66 25.60 0.25 -31.28 16 8 H 0.03 2.13 7.99 -2.91 -0.02 2.11 16 9 C -0.01 -0.23 4.04 29.85 0.12 -0.11 16 10 C -0.10 -3.79 5.16 30.60 0.16 -3.63 16 11 C -0.62 -17.03 6.18 71.98 0.44 -16.59 16 12 S 2.61 69.43 4.93 -56.49 -0.28 69.15 16 13 O -0.98 -31.86 17.03 -127.65 -2.17 -34.03 16 14 O -0.95 -27.25 10.25 -127.65 -1.31 -28.56 16 15 N -0.97 -20.16 3.07 -473.40 -1.45 -21.61 16 16 C 0.12 2.11 6.31 86.30 0.54 2.65 16 17 C -0.06 -1.01 6.39 29.92 0.19 -0.82 16 18 C -0.01 -0.21 7.05 41.66 0.29 0.09 16 19 N -0.53 -11.43 11.24 -187.72 -2.11 -13.54 16 20 C 0.19 2.54 13.05 180.08 2.35 4.89 16 21 N -0.54 -6.21 6.14 -186.79 -1.15 -7.36 16 22 H 0.44 1.98 8.96 -92.71 -0.83 1.15 16 23 C -0.03 -0.48 6.31 41.15 0.26 -0.22 16 24 C 0.24 4.38 1.36 2.58 0.00 4.38 16 25 C -0.16 -2.93 6.68 30.89 0.21 -2.73 16 26 C -0.15 -2.84 7.23 31.22 0.23 -2.61 16 27 C -0.14 -2.16 7.47 30.90 0.23 -1.93 16 28 H 0.27 15.67 8.31 -92.71 -0.77 14.90 16 29 H 0.03 1.25 7.20 -2.39 -0.02 1.23 16 30 H 0.03 1.20 7.57 -2.39 -0.02 1.19 16 31 H 0.06 2.48 8.14 -2.39 -0.02 2.46 16 32 H 0.07 2.58 8.14 -2.39 -0.02 2.56 16 33 H 0.14 3.49 8.14 -2.39 -0.02 3.47 16 34 H 0.15 3.44 8.14 -2.39 -0.02 3.42 16 35 H 0.11 1.75 7.27 -2.39 -0.02 1.73 16 36 H 0.09 1.39 8.14 -2.39 -0.02 1.37 16 37 H 0.08 1.45 8.14 -2.39 -0.02 1.43 16 38 H 0.10 1.59 8.14 -2.39 -0.02 1.57 16 39 H 0.25 1.00 8.06 -2.91 -0.02 0.98 16 40 H 0.10 1.38 8.11 -2.39 -0.02 1.36 16 41 H 0.09 1.95 5.52 -2.43 -0.01 1.94 16 42 H 0.10 2.59 5.21 -35.73 -0.19 2.40 16 43 H 0.08 1.26 8.14 -2.39 -0.02 1.24 16 44 H 0.08 1.24 8.14 -2.38 -0.02 1.22 16 45 H 0.11 1.17 8.11 -2.39 -0.02 1.15 16 Total: -1.00 -80.32 362.78 -0.60 -80.92 By element: Atomic # 1 Polarization: 16.23 SS G_CDS: -0.05 Total: 16.18 kcal Atomic # 6 Polarization: -52.91 SS G_CDS: 5.74 Total: -47.17 kcal Atomic # 7 Polarization: -97.77 SS G_CDS: -4.41 Total: -102.17 kcal Atomic # 8 Polarization: -59.11 SS G_CDS: -3.48 Total: -62.59 kcal Atomic # 14 Polarization: 43.80 SS G_CDS: 1.88 Total: 45.69 kcal Atomic # 16 Polarization: 69.43 SS G_CDS: -0.28 Total: 69.15 kcal Total: -80.32 -0.60 -80.92 kcal The number of atoms in the molecule is 45 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. ZINC001671665697.mol2 45 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 93.642 kcal (2) G-P(sol) polarization free energy of solvation -80.323 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 13.319 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.595 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -80.918 kcal (6) G-S(sol) free energy of system = (1) + (5) 12.724 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 1.35 seconds