Wall clock time and date at job start Tue Mar 31 2020 13:54:38 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 1.86800 * 120.00136 * 2 1 4 4 H 1.48500 * 109.47084 * 180.02562 * 3 2 1 5 5 H 1.48504 * 109.46880 * 299.99865 * 3 2 1 6 6 H 1.48489 * 109.46924 * 60.00143 * 3 2 1 7 7 C 1.38733 * 119.99691 * 180.02562 * 2 1 3 8 8 H 1.08000 * 120.00019 * 179.97438 * 7 2 1 9 9 S 1.76201 * 120.00320 * 359.97438 * 7 2 1 10 10 C 1.76193 * 99.99997 * 185.12012 * 9 7 2 11 11 C 1.39228 * 120.02382 * 265.52799 * 10 9 7 12 12 C 1.38128 * 120.20437 * 179.97438 * 11 10 9 13 13 C 1.38085 * 120.24522 * 359.77177 * 12 11 10 14 14 C 1.39638 * 120.03754 * 0.50602 * 13 12 11 15 15 C 1.47853 * 120.10240 * 179.74354 * 14 13 12 16 16 O 1.21557 * 120.00324 * 179.72401 * 15 14 13 17 17 N 1.34778 * 120.00128 * 359.72856 * 15 14 13 18 18 C 1.46500 * 120.00355 * 180.02562 * 17 15 14 19 19 C 1.52997 * 109.47554 * 179.97438 * 18 17 15 20 20 H 1.09005 * 109.46528 * 60.00116 * 19 18 17 21 21 O 1.42897 * 109.47272 * 300.00397 * 19 18 17 22 22 C 1.52997 * 109.47584 * 179.97438 * 19 18 17 23 23 C 1.50698 * 109.47549 * 184.99699 * 22 19 18 24 24 O 1.20828 * 119.99489 * 0.02562 * 23 22 19 25 25 O 1.34224 * 120.00083 * 179.72415 * 23 22 19 26 26 C 1.38841 * 120.02120 * 85.50999 * 10 9 7 27 27 H 0.96999 * 119.99507 * 0.02562 * 1 2 3 28 28 H 1.08005 * 119.89310 * 359.97438 * 11 10 9 29 29 H 1.07997 * 119.88106 * 180.02562 * 12 11 10 30 30 H 1.08001 * 119.98091 * 180.25386 * 13 12 11 31 31 H 0.97001 * 119.99995 * 0.02562 * 17 15 14 32 32 H 1.09004 * 109.47067 * 59.99394 * 18 17 15 33 33 H 1.09010 * 109.46978 * 299.99996 * 18 17 15 34 34 H 0.96703 * 113.99579 * 300.00019 * 21 19 18 35 35 H 1.09001 * 109.46684 * 65.00155 * 22 19 18 36 36 H 1.08995 * 109.47458 * 305.00858 * 22 19 18 37 37 H 0.96698 * 116.99667 * 180.27923 * 25 23 22 38 38 H 1.07999 * 120.12040 * 0.04703 * 26 10 9 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 1.6177 0.0000 4 1 3.7103 1.3463 -0.0006 5 1 1.8916 2.3964 -1.2126 6 1 1.8916 2.3963 1.2124 7 6 2.0099 -1.2015 -0.0005 8 1 3.0899 -1.2016 -0.0010 9 16 1.1289 -2.7274 -0.0005 10 6 2.4727 -3.8566 0.1535 11 6 3.0360 -4.4284 -0.9840 12 6 4.0900 -5.3136 -0.8676 13 6 4.5950 -5.6339 0.3770 14 6 4.0340 -5.0708 1.5251 15 6 4.5700 -5.4171 2.8588 16 8 4.0835 -4.9220 3.8567 17 7 5.5981 -6.2816 2.9682 18 6 6.1289 -6.6252 4.2898 19 6 7.2822 -7.6184 4.1338 20 1 8.0709 -7.1676 3.5315 21 8 6.8077 -8.8019 3.4887 22 6 7.8369 -7.9768 5.5139 23 6 9.0492 -8.8577 5.3549 24 8 9.4307 -9.1668 4.2508 25 8 9.7088 -9.2940 6.4395 26 6 2.9707 -4.1764 1.4095 27 1 -0.4849 0.8401 -0.0004 28 1 2.6477 -4.1790 -1.9605 29 1 4.5233 -5.7538 -1.7535 30 1 5.4219 -6.3234 0.4628 31 1 5.9867 -6.6764 2.1719 32 1 5.3403 -7.0763 4.8920 33 1 6.4905 -5.7223 4.7820 34 1 6.1027 -9.2564 3.9699 35 1 7.0750 -8.5070 6.0852 36 1 8.1170 -7.0648 6.0410 37 1 10.4828 -9.8531 6.2871 38 1 2.5354 -3.7348 2.2937 RHF calculation, no. of doubly occupied orbitals= 57 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 ZINC001601075833.mol2 38 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 13:54:38 Heat of formation + Delta-G solvation = -190.189027 kcal Electronic energy + Delta-G solvation = -23624.217597 eV Core-core repulsion = 19749.225240 eV Total energy + Delta-G solvation = -3874.992356 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 325.086 amu Computer time = 0.49 seconds Orbital eigenvalues (eV) -41.43515 -41.09655 -39.33460 -38.52811 -36.97074 -35.45795 -34.65420 -32.95215 -32.09067 -31.85355 -28.49655 -27.74429 -24.99814 -23.86694 -23.23819 -22.20821 -21.44869 -20.01866 -19.24771 -18.88656 -18.11011 -17.61825 -17.29144 -16.93804 -16.79985 -16.67894 -16.52461 -16.29042 -15.70362 -15.64651 -15.13433 -14.69396 -14.60461 -14.55500 -13.98700 -13.95366 -13.56163 -13.25289 -13.07539 -12.98394 -12.96645 -12.65540 -12.46224 -12.38664 -12.05991 -11.73747 -11.59494 -11.37066 -11.24600 -11.07834 -10.74486 -10.29061 -9.89774 -9.69657 -8.80499 -8.39553 -6.19418 -0.18297 0.25639 1.28185 1.29644 1.36301 1.46501 1.64460 1.78939 1.87128 2.23392 2.32345 2.80451 2.93382 3.41343 3.43336 3.56406 3.62514 3.78275 3.94701 3.99968 4.04085 4.35916 4.38458 4.48179 4.55542 4.61423 4.66114 4.74332 4.92882 4.97832 5.21806 5.29993 5.33950 5.38723 5.50489 5.68430 5.86053 6.15893 6.42964 6.77530 7.00874 7.03928 7.11757 8.67733 Molecular weight = 325.09amu Principal moments of inertia in cm(-1) A = 0.022238 B = 0.002235 C = 0.002142 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1258.793351 B =12522.493657 C =13068.931346 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.906 5.906 2 C 0.018 3.982 3 Si 0.993 3.007 4 H -0.266 1.266 5 H -0.266 1.266 6 H -0.272 1.272 7 C -0.535 4.535 8 H 0.067 0.933 9 S -0.095 6.095 10 C -0.130 4.130 11 C -0.063 4.063 12 C -0.122 4.122 13 C -0.063 4.063 14 C -0.158 4.158 15 C 0.564 3.436 16 O -0.579 6.579 17 N -0.704 5.704 18 C 0.087 3.913 19 C 0.120 3.880 20 H 0.106 0.894 21 O -0.562 6.562 22 C -0.143 4.143 23 C 0.482 3.518 24 O -0.543 6.543 25 O -0.518 6.518 26 C -0.044 4.044 27 H 0.274 0.726 28 H 0.135 0.865 29 H 0.173 0.827 30 H 0.170 0.830 31 H 0.416 0.584 32 H 0.082 0.918 33 H 0.082 0.918 34 H 0.389 0.611 35 H 0.139 0.861 36 H 0.141 0.859 37 H 0.426 0.574 38 H 0.105 0.895 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 19.699 -19.830 9.168 29.416 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 -0.542 5.542 2 C -0.187 4.187 3 Si 0.815 3.185 4 H -0.190 1.190 5 H -0.191 1.191 6 H -0.197 1.197 7 C -0.682 4.682 8 H 0.085 0.915 9 S 0.140 5.860 10 C -0.242 4.242 11 C -0.084 4.084 12 C -0.142 4.142 13 C -0.082 4.082 14 C -0.163 4.163 15 C 0.352 3.648 16 O -0.460 6.460 17 N -0.357 5.357 18 C -0.037 4.037 19 C 0.060 3.940 20 H 0.124 0.876 21 O -0.369 6.369 22 C -0.181 4.181 23 C 0.325 3.675 24 O -0.433 6.433 25 O -0.332 6.332 26 C -0.066 4.066 27 H 0.083 0.917 28 H 0.153 0.847 29 H 0.191 0.809 30 H 0.187 0.813 31 H 0.255 0.745 32 H 0.100 0.900 33 H 0.101 0.899 34 H 0.239 0.761 35 H 0.157 0.843 36 H 0.159 0.841 37 H 0.288 0.712 38 H 0.123 0.877 Dipole moment (debyes) X Y Z Total from point charges 18.248 -19.238 9.142 28.047 hybrid contribution 1.420 0.775 0.230 1.634 sum 19.668 -18.463 9.372 28.558 Atomic orbital electron populations 1.70118 1.07484 1.28729 1.47890 1.26025 0.96095 1.02909 0.93676 0.84981 0.78291 0.76689 0.78516 1.19046 1.19077 1.19684 1.23094 0.94624 0.91606 1.58882 0.91489 1.83482 1.08572 0.98548 1.95384 1.22515 1.03077 1.02833 0.95726 1.22070 0.94451 0.94153 0.97687 1.21539 0.95923 0.97654 0.99048 1.21704 0.98505 0.97250 0.90723 1.19967 0.99698 1.02488 0.94100 1.18294 0.79789 0.78555 0.88169 1.90761 1.60989 1.54718 1.39570 1.45564 1.33989 1.45300 1.10891 1.22177 0.97017 0.99879 0.84604 1.21801 0.94361 0.84978 0.92862 0.87594 1.86700 1.58447 1.39651 1.52076 1.22079 0.94357 1.01669 0.99956 1.23561 0.84383 0.78101 0.81405 1.90787 1.67445 1.56516 1.28551 1.84495 1.45327 1.65288 1.38127 1.21637 0.94097 0.94221 0.96609 0.91698 0.84739 0.80923 0.81313 0.74546 0.89962 0.89942 0.76146 0.84321 0.84122 0.71221 0.87715 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 -54.80 13.22 21.64 0.29 -54.52 16 2 C 0.02 1.04 5.49 84.84 0.47 1.51 16 3 Si 0.99 44.82 29.55 68.60 2.03 46.85 16 4 H -0.27 -11.68 7.11 99.48 0.71 -10.97 16 5 H -0.27 -11.35 7.11 99.48 0.71 -10.64 16 6 H -0.27 -11.85 7.11 99.48 0.71 -11.15 16 7 C -0.53 -31.56 9.46 67.94 0.64 -30.92 16 8 H 0.07 3.92 7.79 -2.91 -0.02 3.90 16 9 S -0.09 -5.20 21.41 -56.49 -1.21 -6.41 16 10 C -0.13 -5.79 5.45 22.65 0.12 -5.67 16 11 C -0.06 -2.20 9.79 22.48 0.22 -1.98 16 12 C -0.12 -3.05 10.02 22.21 0.22 -2.83 16 13 C -0.06 -1.50 9.54 22.57 0.22 -1.28 16 14 C -0.16 -5.10 5.87 -20.11 -0.12 -5.22 16 15 C 0.56 16.95 7.77 86.79 0.67 17.62 16 16 O -0.58 -22.37 16.34 -3.90 -0.06 -22.44 16 17 N -0.70 -13.29 5.40 -465.95 -2.52 -15.80 16 18 C 0.09 1.15 5.34 86.38 0.46 1.61 16 19 C 0.12 1.15 2.60 30.59 0.08 1.23 16 20 H 0.11 1.26 7.96 -2.38 -0.02 1.25 16 21 O -0.56 -6.74 12.32 -135.18 -1.67 -8.40 16 22 C -0.14 -0.76 5.49 29.85 0.16 -0.60 16 23 C 0.48 5.35 8.21 71.24 0.58 5.94 16 24 O -0.54 -10.64 16.18 27.03 0.44 -10.20 16 25 O -0.52 -3.75 13.42 -51.35 -0.69 -4.44 16 26 C -0.04 -1.86 9.34 22.70 0.21 -1.64 16 27 H 0.27 15.29 8.31 -92.71 -0.77 14.52 16 28 H 0.13 4.54 8.06 -2.91 -0.02 4.52 16 29 H 0.17 2.74 8.06 -2.91 -0.02 2.72 16 30 H 0.17 2.33 6.40 -2.91 -0.02 2.31 16 31 H 0.42 5.97 6.38 -92.71 -0.59 5.38 16 32 H 0.08 1.03 8.14 -2.38 -0.02 1.01 16 33 H 0.08 1.14 8.14 -2.38 -0.02 1.12 16 34 H 0.39 2.05 9.05 -74.06 -0.67 1.38 16 35 H 0.14 0.11 8.14 -2.39 -0.02 0.09 16 36 H 0.14 0.23 8.14 -2.39 -0.02 0.22 16 37 H 0.43 0.18 9.10 -74.06 -0.67 -0.50 16 38 H 0.10 5.04 7.65 -2.91 -0.02 5.01 16 Total: -1.00 -87.18 354.86 -0.24 -87.41 By element: Atomic # 1 Polarization: 10.97 SS G_CDS: -0.79 Total: 10.17 kcal Atomic # 6 Polarization: -26.17 SS G_CDS: 3.95 Total: -22.22 kcal Atomic # 7 Polarization: -68.09 SS G_CDS: -2.23 Total: -70.32 kcal Atomic # 8 Polarization: -43.50 SS G_CDS: -1.98 Total: -45.48 kcal Atomic # 14 Polarization: 44.82 SS G_CDS: 2.03 Total: 46.85 kcal Atomic # 16 Polarization: -5.20 SS G_CDS: -1.21 Total: -6.41 kcal Total: -87.18 -0.24 -87.41 kcal The number of atoms in the molecule is 38 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. ZINC001601075833.mol2 38 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 -102.776 kcal (2) G-P(sol) polarization free energy of solvation -87.177 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -189.953 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.236 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -87.413 kcal (6) G-S(sol) free energy of system = (1) + (5) -190.189 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.49 seconds