Wall clock time and date at job start Thu Apr 9 2020 12:23:07 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 1.31512 * 1 3 3 Si 1.86801 * 119.99760 * 2 1 4 4 H 1.48496 * 109.47524 * 270.00435 * 3 2 1 5 5 H 1.48500 * 109.46973 * 30.00376 * 3 2 1 6 6 H 1.48503 * 109.47087 * 149.99998 * 3 2 1 7 7 C 1.37874 * 120.00550 * 180.02562 * 2 1 3 8 8 H 1.08002 * 120.00346 * 179.97438 * 7 2 1 9 9 C 1.50704 * 119.99710 * 0.02562 * 7 2 1 10 10 S 1.81401 * 109.46966 * 179.97438 * 9 7 2 11 11 C 1.81397 * 103.00066 * 180.02562 * 10 9 7 12 12 C 1.50696 * 109.47513 * 180.02562 * 11 10 9 13 13 C 1.35004 * 125.68895 * 89.99873 * 12 11 10 14 14 N 1.36841 * 107.09654 * 180.28408 * 13 12 11 15 15 C 1.36454 * 132.73385 * 180.48279 * 14 13 12 16 16 C 1.35580 * 119.07357 * 179.58625 * 15 14 13 17 17 C 1.40202 * 119.32860 * 359.73661 * 16 15 14 18 18 N 1.31220 * 120.38078 * 359.97438 * 17 16 15 19 19 C 1.34093 * 120.91790 * 0.02562 * 18 17 16 20 20 N 1.32514 * 131.94534 * 180.02562 * 19 18 17 21 21 H 0.96993 * 120.00801 * 359.97438 * 1 2 3 22 22 H 1.09002 * 109.46888 * 60.00491 * 9 7 2 23 23 H 1.08996 * 109.46956 * 299.99676 * 9 7 2 24 24 H 1.09000 * 109.47408 * 59.99916 * 11 10 9 25 25 H 1.09004 * 109.47335 * 300.00149 * 11 10 9 26 26 H 1.08002 * 126.44797 * 0.02562 * 13 12 11 27 27 H 1.07995 * 120.46083 * 359.34844 * 15 14 13 28 28 H 1.08005 * 120.33347 * 179.71365 * 16 15 14 29 29 H 1.08001 * 119.81011 * 179.97438 * 17 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 1.3151 0.0000 0.0000 3 14 2.2491 1.6178 0.0000 4 1 2.4965 2.0466 -1.4000 5 1 1.4465 2.6526 0.7001 6 1 3.5466 1.4403 0.7001 7 6 2.0046 -1.1940 -0.0005 8 1 3.0846 -1.1939 -0.0010 9 6 1.2511 -2.4991 -0.0017 10 16 2.4300 -3.8778 -0.0029 11 6 1.3519 -5.3366 -0.0050 12 6 2.1959 -6.5851 -0.0056 13 6 2.6362 -7.2386 1.0906 14 7 3.3682 -8.3091 0.6539 15 6 4.0337 -9.3046 1.3081 16 6 4.6770 -10.2534 0.5841 17 6 4.6386 -10.1923 -0.8161 18 7 3.9865 -9.2274 -1.4206 19 6 3.3459 -8.2826 -0.7170 20 7 2.6334 -7.2298 -1.0913 21 1 -0.4851 0.8399 0.0004 22 1 0.6249 -2.5563 -0.8920 23 1 0.6242 -2.5575 0.8880 24 1 0.7230 -5.3224 -0.8952 25 1 0.7224 -5.3245 0.8848 26 1 2.4496 -6.9653 2.1187 27 1 4.0509 -9.3341 2.3875 28 1 5.2139 -11.0479 1.0810 29 1 5.1487 -10.9438 -1.4004 RHF calculation, no. of doubly occupied orbitals= 42 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) 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 ZINC001652029952.mol2 29 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Thu Apr 9 2020 12:23:07 Heat of formation + Delta-G solvation = 79.666227 kcal Electronic energy + Delta-G solvation = -14531.415729 eV Core-core repulsion = 11967.539740 eV Total energy + Delta-G solvation = -2563.875989 eV No. of doubly occupied orbitals = 42 Molecular weight (most abundant/longest-lived isotopes) = 249.063 amu Computer time = 0.23 seconds Orbital eigenvalues (eV) -44.02040 -39.32972 -35.63086 -35.29337 -33.02354 -31.13617 -30.66782 -28.73342 -25.37607 -24.82057 -24.31132 -21.93626 -19.24291 -18.64263 -18.60285 -17.50414 -17.17961 -16.89137 -16.30831 -15.42073 -15.27190 -14.91496 -14.69949 -14.59724 -14.13193 -13.93210 -13.55980 -13.40849 -12.96573 -12.73924 -12.52823 -12.04707 -11.62925 -11.48667 -10.81001 -10.74652 -10.74336 -9.95651 -9.22375 -8.49150 -8.33054 -6.46377 -0.37425 0.06305 0.76777 1.39580 1.41622 1.41958 1.53387 1.88379 2.06550 2.37100 2.56117 2.62153 3.01075 3.29881 3.59712 3.70749 4.04341 4.08813 4.26159 4.42492 4.57774 4.71619 4.77442 4.95069 4.95624 5.20928 5.37283 5.56794 5.70466 5.88622 6.53075 6.60230 6.94498 7.21126 8.78859 Molecular weight = 249.06amu Principal moments of inertia in cm(-1) A = 0.060956 B = 0.003846 C = 0.003820 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 459.234155 B = 7277.635833 C = 7327.787006 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.924 5.924 2 C 0.014 3.986 3 Si 0.978 3.022 4 H -0.271 1.271 5 H -0.272 1.272 6 H -0.266 1.266 7 C -0.537 4.537 8 H 0.060 0.940 9 C 0.093 3.907 10 S -0.304 6.304 11 C 0.002 3.998 12 C 0.065 3.935 13 C -0.060 4.060 14 N -0.403 5.403 15 C 0.103 3.897 16 C -0.194 4.194 17 C 0.179 3.821 18 N -0.493 5.493 19 C 0.357 3.643 20 N -0.521 5.521 21 H 0.271 0.729 22 H 0.012 0.988 23 H 0.025 0.975 24 H 0.080 0.920 25 H 0.117 0.883 26 H 0.225 0.775 27 H 0.219 0.781 28 H 0.219 0.781 29 H 0.223 0.777 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 8.919 -23.523 7.265 26.185 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 -0.562 5.562 2 C -0.187 4.187 3 Si 0.801 3.199 4 H -0.196 1.196 5 H -0.197 1.197 6 H -0.190 1.190 7 C -0.576 4.576 8 H 0.078 0.922 9 C -0.054 4.054 10 S -0.076 6.076 11 C -0.146 4.146 12 C -0.067 4.067 13 C -0.194 4.194 14 N -0.081 5.081 15 C -0.027 4.027 16 C -0.216 4.216 17 C -0.006 4.006 18 N -0.207 5.207 19 C 0.008 3.992 20 N -0.245 5.245 21 H 0.080 0.920 22 H 0.030 0.970 23 H 0.043 0.957 24 H 0.099 0.901 25 H 0.136 0.864 26 H 0.241 0.759 27 H 0.236 0.764 28 H 0.236 0.764 29 H 0.240 0.760 Dipole moment (debyes) X Y Z Total from point charges 9.498 -22.838 5.572 25.354 hybrid contribution -1.198 0.835 1.162 1.866 sum 8.300 -22.003 6.734 24.462 Atomic orbital electron populations 1.70050 1.07607 1.28606 1.49974 1.25918 0.95940 1.03015 0.93779 0.85255 0.78478 0.77465 0.78700 1.19649 1.19689 1.18984 1.20966 0.93352 0.90226 1.53020 0.92227 1.20777 0.94052 0.92305 0.98264 1.86712 1.21077 1.01819 1.98028 1.21435 0.97315 0.89645 1.06227 1.20055 1.01227 0.96520 0.88895 1.22775 1.03640 0.91250 1.01699 1.44067 1.34130 1.19791 1.10082 1.23234 0.91432 0.85792 1.02260 1.22440 1.02918 1.01701 0.94518 1.24292 0.89657 0.92322 0.94332 1.67953 1.11477 1.03426 1.37845 1.22011 1.01642 0.97128 0.78455 1.70403 1.16827 1.06680 1.30628 0.92013 0.96951 0.95719 0.90125 0.86444 0.75856 0.76393 0.76401 0.76040 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 -55.33 13.29 21.45 0.28 -55.04 15 2 C 0.01 0.83 5.46 84.65 0.46 1.29 15 3 Si 0.98 44.79 29.54 68.60 2.03 46.82 15 4 H -0.27 -12.09 7.11 99.48 0.71 -11.38 15 5 H -0.27 -11.83 7.11 99.48 0.71 -11.13 15 6 H -0.27 -11.82 7.11 99.48 0.71 -11.12 15 7 C -0.54 -31.83 9.13 25.60 0.23 -31.59 15 8 H 0.06 3.54 7.71 -2.91 -0.02 3.52 15 9 C 0.09 5.19 5.70 71.24 0.41 5.59 15 10 S -0.30 -14.47 21.64 -56.49 -1.22 -15.69 15 11 C 0.00 0.09 6.47 71.23 0.46 0.55 15 12 C 0.06 2.34 6.32 41.54 0.26 2.60 15 13 C -0.06 -1.59 11.67 83.17 0.97 -0.62 15 14 N -0.40 -9.78 2.95 -357.66 -1.05 -10.84 15 15 C 0.10 1.18 11.07 83.36 0.92 2.10 15 16 C -0.19 -1.30 10.06 22.13 0.22 -1.08 15 17 C 0.18 2.38 11.27 85.26 0.96 3.34 15 18 N -0.49 -13.68 10.48 -197.25 -2.07 -15.74 15 19 C 0.36 11.85 8.92 261.38 2.33 14.18 15 20 N -0.52 -21.20 11.31 -187.64 -2.12 -23.32 15 21 H 0.27 15.07 8.31 -92.71 -0.77 14.30 15 22 H 0.01 0.72 8.14 -2.39 -0.02 0.70 15 23 H 0.02 1.39 8.14 -2.39 -0.02 1.37 15 24 H 0.08 3.23 8.14 -2.39 -0.02 3.21 15 25 H 0.12 3.79 8.14 -2.39 -0.02 3.77 15 26 H 0.22 4.07 8.06 -2.91 -0.02 4.05 15 27 H 0.22 0.37 8.06 -2.91 -0.02 0.34 15 28 H 0.22 -0.96 8.06 -2.91 -0.02 -0.98 15 29 H 0.22 0.76 8.06 -2.91 -0.02 0.74 15 Total: -1.00 -84.30 277.40 4.23 -80.06 By element: Atomic # 1 Polarization: -3.77 SS G_CDS: 1.16 Total: -2.61 kcal Atomic # 6 Polarization: -10.87 SS G_CDS: 7.23 Total: -3.64 kcal Atomic # 7 Polarization: -99.98 SS G_CDS: -4.96 Total: -104.94 kcal Atomic # 14 Polarization: 44.79 SS G_CDS: 2.03 Total: 46.82 kcal Atomic # 16 Polarization: -14.47 SS G_CDS: -1.22 Total: -15.69 kcal Total: -84.30 4.23 -80.06 kcal The number of atoms in the molecule is 29 The average number of expansion shells was 15.00 The maximum number of expansion shells was 15 The minimum number of expansion shells was 15 **** 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. ZINC001652029952.mol2 29 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 159.729 kcal (2) G-P(sol) polarization free energy of solvation -84.297 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 75.433 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.234 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -80.063 kcal (6) G-S(sol) free energy of system = (1) + (5) 79.666 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.23 seconds