Wall clock time and date at job start Tue Mar 31 2020 19:05:18 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 1.31516 * 1 3 3 Si 1.86797 * 120.00352 * 2 1 4 4 H 1.48493 * 109.47209 * 269.99889 * 3 2 1 5 5 H 1.48507 * 109.46943 * 29.99994 * 3 2 1 6 6 H 1.48496 * 109.47348 * 149.99558 * 3 2 1 7 7 C 1.37884 * 119.99809 * 179.97438 * 2 1 3 8 8 H 1.07995 * 120.00176 * 180.02562 * 7 2 1 9 9 C 1.50696 * 119.99762 * 0.02562 * 7 2 1 10 10 O 1.42907 * 109.46942 * 180.02562 * 9 7 2 11 11 C 1.42903 * 113.99838 * 180.02562 * 10 9 7 12 12 C 1.53000 * 109.46726 * 179.97438 * 11 10 9 13 13 S 1.81404 * 109.46946 * 180.02562 * 12 11 10 14 14 O 1.42100 * 109.46600 * 296.38822 * 13 12 11 15 15 C 1.81397 * 103.00143 * 180.02562 * 13 12 11 16 16 C 1.50695 * 109.47452 * 180.02562 * 15 13 12 17 17 C 1.38283 * 119.97037 * 269.72871 * 16 15 13 18 18 C 1.38253 * 120.11470 * 179.72583 * 17 16 15 19 19 C 1.38162 * 120.04815 * 0.54090 * 18 17 16 20 20 C 1.38713 * 119.94797 * 359.73443 * 19 18 17 21 21 O 1.35903 * 120.05596 * 179.97438 * 20 19 18 22 22 C 1.42893 * 117.00349 * 0.02562 * 21 20 19 23 23 F 1.39904 * 109.47283 * 300.00775 * 22 21 20 24 24 F 1.39904 * 109.46845 * 60.00489 * 22 21 20 25 25 C 1.38121 * 119.97443 * 89.99763 * 16 15 13 26 26 H 0.97000 * 119.99632 * 359.97438 * 1 2 3 27 27 H 1.09004 * 109.47569 * 60.00186 * 9 7 2 28 28 H 1.08996 * 109.47305 * 299.99830 * 9 7 2 29 29 H 1.09001 * 109.46938 * 60.00058 * 11 10 9 30 30 H 1.08992 * 109.47388 * 300.00049 * 11 10 9 31 31 H 1.09002 * 109.47398 * 300.00244 * 12 11 10 32 32 H 1.09001 * 109.47194 * 60.00425 * 12 11 10 33 33 H 1.09007 * 109.46846 * 299.99983 * 15 13 12 34 34 H 1.09007 * 109.47453 * 59.99610 * 15 13 12 35 35 H 1.08000 * 119.94456 * 359.97334 * 17 16 15 36 36 H 1.07991 * 119.97490 * 180.25244 * 18 17 16 37 37 H 1.08008 * 120.02682 * 179.74942 * 19 18 17 38 38 H 1.08994 * 109.47779 * 180.02562 * 22 21 20 39 39 H 1.08002 * 120.02747 * 359.97438 * 25 16 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 1.3152 0.0000 0.0000 3 14 2.2492 1.6177 0.0000 4 1 2.4968 2.0463 -1.4000 5 1 1.4467 2.6527 0.7001 6 1 3.5467 1.4401 0.7001 7 6 2.0045 -1.1941 0.0005 8 1 3.0845 -1.1942 0.0010 9 6 1.2510 -2.4991 0.0005 10 8 2.1796 -3.5854 0.0017 11 6 1.5649 -4.8755 0.0013 12 6 2.6479 -5.9563 0.0020 13 16 1.8677 -7.5940 0.0006 14 8 1.1252 -7.7658 1.2000 15 6 3.2878 -8.7226 0.0025 16 6 2.7972 -10.1474 0.0009 17 6 2.5756 -10.8030 1.1981 18 6 2.1201 -12.1083 1.2002 19 6 1.8958 -12.7647 0.0053 20 6 2.1228 -12.1112 -1.1970 21 8 1.9034 -12.7549 -2.3736 22 6 1.4385 -14.1040 -2.2983 23 9 2.3769 -14.8830 -1.6128 24 9 0.2169 -14.1389 -1.6173 25 6 2.5745 -10.7992 -1.1963 26 1 -0.4849 0.8401 0.0004 27 1 0.6246 -2.5571 -0.8897 28 1 0.6240 -2.5567 0.8903 29 1 0.9458 -4.9826 -0.8894 30 1 0.9438 -4.9824 0.8905 31 1 3.2687 -5.8492 -0.8875 32 1 3.2674 -5.8493 0.8925 33 1 3.8932 -8.5461 -0.8867 34 1 3.8908 -8.5465 0.8933 35 1 2.7549 -10.2932 2.1332 36 1 1.9439 -12.6168 2.1364 37 1 1.5438 -13.7858 0.0073 38 1 1.3049 -14.4991 -3.3052 39 1 2.7515 -10.2881 -2.1311 RHF calculation, no. of doubly occupied orbitals= 59 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) F: (AM1): M.J.S. DEWAR AND E. G. ZOEBISCH, THEOCHEM, 180, 1 (1988). 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 ZINC000840872780.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 19:05:18 Heat of formation + Delta-G solvation = -236.120772 kcal Electronic energy + Delta-G solvation = -24871.232853 eV Core-core repulsion = 20540.363561 eV Total energy + Delta-G solvation = -4330.869293 eV No. of doubly occupied orbitals = 59 Molecular weight (most abundant/longest-lived isotopes) = 334.088 amu Computer time = 0.61 seconds Orbital eigenvalues (eV) -50.28352 -48.28635 -41.03883 -38.71274 -38.65689 -36.91789 -35.02858 -33.71427 -32.44417 -31.51873 -29.19679 -28.26602 -26.98715 -24.68018 -24.01777 -23.66699 -22.59481 -19.75272 -19.06995 -18.85189 -18.69891 -18.49933 -17.64292 -17.29792 -17.10139 -16.97617 -16.58723 -16.13026 -15.94072 -15.72358 -15.53054 -15.15996 -15.01996 -14.91629 -14.79847 -14.61934 -14.22594 -14.12896 -13.89765 -13.83189 -13.47741 -13.13014 -13.00175 -12.92252 -12.74515 -12.50887 -12.42102 -12.34101 -12.06190 -12.03282 -11.50675 -11.28793 -10.90695 -10.30811 -9.98724 -9.56185 -9.14985 -8.34164 -6.47564 -0.10602 0.28490 0.65293 1.39645 1.42952 1.54807 1.61251 1.63011 2.33703 2.59521 2.62210 2.72741 2.99358 3.28774 3.51681 3.57058 3.72856 3.81059 3.91914 3.94506 4.07380 4.09436 4.18990 4.33937 4.38422 4.54456 4.70265 4.76700 4.77719 4.97334 5.03028 5.09058 5.12707 5.30552 5.43134 5.48025 5.52224 5.91800 6.03070 6.47098 6.76130 7.24196 8.78152 Molecular weight = 334.09amu Principal moments of inertia in cm(-1) A = 0.034656 B = 0.001717 C = 0.001699 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 807.752338 B =16305.348273 C =16480.675719 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.930 5.930 2 C 0.004 3.996 3 Si 0.987 3.013 4 H -0.263 1.263 5 H -0.275 1.275 6 H -0.266 1.266 7 C -0.552 4.552 8 H 0.064 0.936 9 C 0.203 3.797 10 O -0.407 6.407 11 C 0.066 3.934 12 C -0.443 4.443 13 S 1.311 4.689 14 O -0.901 6.901 15 C -0.403 4.403 16 C -0.040 4.040 17 C -0.157 4.157 18 C -0.088 4.088 19 C -0.203 4.203 20 C 0.097 3.903 21 O -0.321 6.321 22 C 0.404 3.596 23 F -0.211 7.211 24 F -0.212 7.212 25 C -0.129 4.129 26 H 0.272 0.728 27 H -0.001 1.001 28 H -0.021 1.021 29 H 0.077 0.923 30 H 0.019 0.981 31 H 0.159 0.841 32 H 0.077 0.923 33 H 0.178 0.822 34 H 0.098 0.902 35 H 0.117 0.883 36 H 0.141 0.859 37 H 0.137 0.863 38 H 0.237 0.763 39 H 0.177 0.823 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 5.728 -32.130 -9.506 33.993 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 -0.569 5.569 2 C -0.194 4.194 3 Si 0.810 3.190 4 H -0.188 1.188 5 H -0.200 1.200 6 H -0.190 1.190 7 C -0.589 4.589 8 H 0.082 0.918 9 C 0.128 3.872 10 O -0.327 6.327 11 C -0.012 4.012 12 C -0.579 4.579 13 S 1.511 4.489 14 O -0.897 6.897 15 C -0.539 4.539 16 C -0.042 4.042 17 C -0.176 4.176 18 C -0.106 4.106 19 C -0.222 4.222 20 C 0.054 3.946 21 O -0.238 6.238 22 C 0.315 3.685 23 F -0.193 7.193 24 F -0.194 7.194 25 C -0.148 4.148 26 H 0.081 0.919 27 H 0.017 0.983 28 H -0.003 1.003 29 H 0.095 0.905 30 H 0.037 0.963 31 H 0.177 0.823 32 H 0.096 0.904 33 H 0.195 0.805 34 H 0.117 0.883 35 H 0.135 0.865 36 H 0.159 0.841 37 H 0.154 0.846 38 H 0.253 0.747 39 H 0.195 0.805 Dipole moment (debyes) X Y Z Total from point charges 4.818 -32.113 -9.622 33.868 hybrid contribution 0.897 0.822 2.778 3.033 sum 5.715 -31.292 -6.844 32.537 Atomic orbital electron populations 1.70075 1.07806 1.28782 1.50206 1.26027 0.96037 1.03562 0.93808 0.85125 0.78173 0.76695 0.79053 1.18774 1.20038 1.19034 1.21386 0.94183 0.90716 1.52640 0.91818 1.19924 0.88776 0.84671 0.93821 1.87827 1.35507 1.14130 1.95256 1.22073 0.94953 0.83956 1.00219 1.27837 1.07411 1.13146 1.09488 1.70292 0.85609 0.83555 1.09442 1.93024 1.60066 1.83418 1.53191 1.26699 1.14984 1.01127 1.11132 1.19024 0.98376 0.94039 0.92749 1.21279 1.02300 0.95693 0.98373 1.21125 0.96707 0.94282 0.98459 1.21695 1.06294 1.01716 0.92492 1.18982 0.98241 0.93237 0.84168 1.86618 1.81091 1.26772 1.29368 1.24335 0.71521 0.77407 0.95257 1.93077 1.66899 1.75583 1.83769 1.93084 1.46518 1.95830 1.83949 1.20661 1.02661 0.91801 0.99690 0.91937 0.98328 1.00336 0.90531 0.96268 0.82302 0.90448 0.80489 0.88335 0.86525 0.84072 0.84551 0.74740 0.80546 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 -0.93 -56.34 13.29 21.45 0.28 -56.05 16 2 C 0.00 0.25 5.46 84.66 0.46 0.71 16 3 Si 0.99 44.43 29.54 68.60 2.03 46.46 16 4 H -0.26 -11.16 7.11 99.48 0.71 -10.46 16 5 H -0.28 -11.89 7.11 99.48 0.71 -11.19 16 6 H -0.27 -11.63 7.11 99.48 0.71 -10.92 16 7 C -0.55 -33.27 9.43 25.60 0.24 -33.03 16 8 H 0.06 3.77 7.81 -2.91 -0.02 3.75 16 9 C 0.20 11.69 5.69 71.23 0.41 12.10 16 10 O -0.41 -20.27 10.33 -148.98 -1.54 -21.81 16 11 C 0.07 2.48 5.95 71.98 0.43 2.90 16 12 C -0.44 -11.48 6.29 71.98 0.45 -11.02 16 13 S 1.31 26.59 13.14 -56.49 -0.74 25.85 16 14 O -0.90 -31.39 18.14 -148.98 -2.70 -34.09 16 15 C -0.40 -5.76 6.05 71.23 0.43 -5.33 16 16 C -0.04 -0.72 5.14 -19.88 -0.10 -0.82 16 17 C -0.16 -3.33 9.70 22.28 0.22 -3.12 16 18 C -0.09 -1.71 10.04 22.26 0.22 -1.48 16 19 C -0.20 -3.76 8.26 22.37 0.18 -3.57 16 20 C 0.10 1.65 6.48 22.51 0.15 1.80 16 21 O -0.32 -4.12 10.43 -92.45 -0.96 -5.08 16 22 C 0.40 3.21 5.98 113.37 0.68 3.89 16 23 F -0.21 -2.55 15.58 44.97 0.70 -1.85 16 24 F -0.21 -2.73 15.58 44.97 0.70 -2.03 16 25 C -0.13 -1.91 9.64 22.36 0.22 -1.69 16 26 H 0.27 15.20 8.31 -92.71 -0.77 14.43 16 27 H 0.00 -0.06 8.14 -2.39 -0.02 -0.08 16 28 H -0.02 -1.30 8.14 -2.39 -0.02 -1.32 16 29 H 0.08 2.44 8.14 -2.39 -0.02 2.42 16 30 H 0.02 0.79 8.14 -2.39 -0.02 0.77 16 31 H 0.16 2.95 8.14 -2.39 -0.02 2.93 16 32 H 0.08 2.24 8.14 -2.39 -0.02 2.22 16 33 H 0.18 0.97 8.08 -2.39 -0.02 0.95 16 34 H 0.10 1.57 8.08 -2.39 -0.02 1.56 16 35 H 0.12 2.59 8.06 -2.91 -0.02 2.56 16 36 H 0.14 2.21 8.06 -2.91 -0.02 2.19 16 37 H 0.14 2.32 5.10 -2.91 -0.01 2.31 16 38 H 0.24 -0.83 8.14 -2.39 -0.02 -0.85 16 39 H 0.18 1.32 8.06 -2.91 -0.02 1.30 16 Total: -1.00 -87.52 360.00 2.82 -84.71 By element: Atomic # 1 Polarization: 1.50 SS G_CDS: 1.07 Total: 2.56 kcal Atomic # 6 Polarization: -42.65 SS G_CDS: 3.98 Total: -38.66 kcal Atomic # 7 Polarization: -56.34 SS G_CDS: 0.28 Total: -56.05 kcal Atomic # 8 Polarization: -55.78 SS G_CDS: -5.20 Total: -60.98 kcal Atomic # 9 Polarization: -5.28 SS G_CDS: 1.40 Total: -3.88 kcal Atomic # 14 Polarization: 44.43 SS G_CDS: 2.03 Total: 46.46 kcal Atomic # 16 Polarization: 26.59 SS G_CDS: -0.74 Total: 25.85 kcal Total: -87.52 2.82 -84.71 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. ZINC000840872780.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 -151.415 kcal (2) G-P(sol) polarization free energy of solvation -87.521 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -238.936 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.815 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -84.705 kcal (6) G-S(sol) free energy of system = (1) + (5) -236.121 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.61 seconds