Wall clock time and date at job start Tue Mar 31 2020 05:43:19 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 C 2 2 C 1.52998 * 1 3 3 C 1.50701 * 109.46897 * 2 1 4 4 C 1.37466 * 122.45158 * 265.01654 * 3 2 1 5 5 C 1.36652 * 113.30003 * 179.97438 * 4 3 2 6 6 C 1.46584 * 125.45731 * 179.97438 * 5 4 3 7 7 O 1.21703 * 120.00039 * 352.14422 * 6 5 4 8 8 N 1.34778 * 119.99834 * 172.14379 * 6 5 4 9 9 C 1.46491 * 120.00231 * 181.95172 * 8 6 5 10 10 C 1.52999 * 109.46897 * 85.09040 * 9 8 6 11 11 C 1.46510 * 119.99831 * 1.95478 * 8 6 5 12 12 C 1.50699 * 109.47071 * 82.22678 * 11 8 6 13 13 H 1.08011 * 119.99841 * 0.02562 * 12 11 8 14 14 C 1.37871 * 120.00288 * 179.97438 * 12 11 8 15 15 N 1.31516 * 119.99779 * 359.97438 * 14 12 11 16 16 Si 1.86803 * 120.00409 * 180.02562 * 14 12 11 17 17 H 1.48493 * 109.47357 * 89.99779 * 16 14 12 18 18 H 1.48498 * 109.46724 * 210.00088 * 16 14 12 19 19 H 1.48501 * 109.46730 * 329.99503 * 16 14 12 20 20 S 1.75830 * 109.07934 * 0.02562 * 5 4 3 21 21 C 1.33825 * 122.44714 * 84.73400 * 3 2 1 22 22 C 1.50699 * 124.52276 * 0.02562 * 21 3 2 23 23 H 1.08994 * 109.47223 * 179.97438 * 1 2 3 24 24 H 1.09000 * 109.47427 * 300.00485 * 1 2 3 25 25 H 1.09008 * 109.47057 * 59.99905 * 1 2 3 26 26 H 1.08996 * 109.47008 * 239.99776 * 2 1 3 27 27 H 1.09002 * 109.46684 * 119.99919 * 2 1 3 28 28 H 1.08005 * 123.34830 * 0.02588 * 4 3 2 29 29 H 1.09001 * 109.47487 * 205.09072 * 9 8 6 30 30 H 1.09006 * 109.47344 * 325.09166 * 9 8 6 31 31 H 1.09001 * 109.47727 * 299.99899 * 10 9 8 32 32 H 1.09000 * 109.47258 * 60.00300 * 10 9 8 33 33 H 1.09009 * 109.46981 * 180.02562 * 10 9 8 34 34 H 1.08999 * 109.46679 * 202.22314 * 11 8 6 35 35 H 1.08996 * 109.47090 * 322.22566 * 11 8 6 36 36 H 0.96998 * 120.00354 * 179.97438 * 15 14 12 37 37 H 1.08990 * 109.47067 * 89.99804 * 22 21 3 38 38 H 1.08999 * 109.46911 * 210.00266 * 22 21 3 39 39 H 1.09002 * 109.47115 * 329.99856 * 22 21 3 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 6 0.0000 0.0000 0.0000 2 6 1.5300 0.0000 0.0000 3 6 2.0323 1.4208 0.0000 4 6 2.3731 2.0827 -1.1556 5 6 2.8044 3.3612 -0.9391 6 6 3.2334 4.3014 -1.9787 7 8 3.3598 3.9216 -3.1281 8 7 3.4878 5.5864 -1.6617 9 6 3.8751 6.5360 -2.7077 10 6 2.6189 7.1038 -3.3715 11 6 3.3771 6.0335 -0.2709 12 6 4.6435 5.6889 0.4698 13 1 5.4503 5.1874 -0.0442 14 6 4.7727 6.0147 1.8032 15 7 3.7909 6.6267 2.4287 16 14 6.3427 5.5882 2.7212 17 1 7.3035 6.7148 2.6087 18 1 6.0290 5.3461 4.1523 19 1 6.9435 4.3645 2.1322 20 16 2.7638 3.6971 0.7863 21 6 2.1738 2.1323 1.1246 22 6 1.8579 1.6187 2.5057 23 1 -0.3633 -1.0276 -0.0005 24 1 -0.3634 0.5139 0.8899 25 1 -0.3633 0.5139 -0.8900 26 1 1.8933 -0.5139 -0.8899 27 1 1.8932 -0.5138 0.8900 28 1 2.3059 1.6369 -2.1371 29 1 4.4512 7.3488 -2.2655 30 1 4.4819 6.0254 -3.4555 31 1 2.0426 6.2911 -3.8138 32 1 2.0120 7.6144 -2.6238 33 1 2.9070 7.8101 -4.1502 34 1 3.2246 7.1125 -0.2472 35 1 2.5315 5.5364 0.2043 36 1 3.8815 6.8556 3.3669 37 1 2.7466 1.1542 2.9326 38 1 1.5418 2.4482 3.1382 39 1 1.0565 0.8823 2.4449 RHF calculation, no. of doubly occupied orbitals= 50 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 ZINC000103207798.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 05:43:19 Heat of formation + Delta-G solvation = -35.744061 kcal Electronic energy + Delta-G solvation = -20469.596197 eV Core-core repulsion = 17502.724696 eV Total energy + Delta-G solvation = -2966.871501 eV No. of doubly occupied orbitals = 50 Molecular weight (most abundant/longest-lived isotopes) = 281.119 amu Computer time = 0.43 seconds Orbital eigenvalues (eV) -40.82303 -39.32309 -36.97471 -34.86011 -33.78383 -32.44943 -31.83048 -29.08582 -27.86940 -25.09283 -24.90724 -24.60710 -22.79750 -20.38184 -19.06602 -18.90068 -18.45742 -17.29090 -16.74159 -16.35832 -16.20325 -15.45616 -15.07669 -14.92345 -14.55582 -14.38849 -14.24719 -14.19503 -13.69060 -13.44625 -13.41937 -13.23488 -13.04193 -12.80441 -12.74358 -12.63587 -12.34636 -12.19602 -12.08405 -11.85211 -11.77910 -11.74004 -10.98046 -10.64442 -10.54685 -9.70074 -9.18917 -9.00340 -8.23562 -6.30888 -0.17611 0.98955 1.38495 1.44504 1.51273 1.51985 1.57035 2.23638 2.34966 2.44011 3.08260 3.76932 4.07351 4.17333 4.29512 4.33003 4.36133 4.50042 4.52492 4.60660 4.71383 4.76688 4.78000 4.87035 4.87665 4.97832 5.05583 5.06394 5.08675 5.15294 5.25675 5.28650 5.44817 5.61340 5.65798 5.78388 5.81372 5.91613 6.44157 6.72246 7.21657 7.33625 8.80507 Molecular weight = 281.12amu Principal moments of inertia in cm(-1) A = 0.012867 B = 0.008693 C = 0.005769 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2175.611100 B = 3220.315047 C = 4852.645768 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.141 4.141 2 C -0.058 4.058 3 C -0.140 4.140 4 C -0.069 4.069 5 C -0.323 4.323 6 C 0.582 3.418 7 O -0.594 6.594 8 N -0.599 5.599 9 C 0.110 3.890 10 C -0.153 4.153 11 C 0.235 3.765 12 C -0.543 4.543 13 H 0.049 0.951 14 C 0.051 3.949 15 N -0.896 5.896 16 Si 0.934 3.066 17 H -0.273 1.273 18 H -0.272 1.272 19 H -0.275 1.275 20 S 0.349 5.651 21 C -0.281 4.281 22 C -0.078 4.078 23 H 0.075 0.925 24 H 0.053 0.947 25 H 0.043 0.957 26 H 0.070 0.930 27 H 0.079 0.921 28 H 0.137 0.863 29 H 0.088 0.912 30 H 0.066 0.934 31 H 0.039 0.961 32 H 0.055 0.945 33 H 0.092 0.908 34 H 0.043 0.957 35 H 0.041 0.959 36 H 0.273 0.727 37 H 0.078 0.922 38 H 0.065 0.935 39 H 0.090 0.910 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -4.972 -6.602 0.010 8.264 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 C -0.198 4.198 2 C -0.098 4.098 3 C -0.152 4.152 4 C -0.104 4.104 5 C -0.444 4.444 6 C 0.373 3.627 7 O -0.480 6.480 8 N -0.329 5.329 9 C -0.012 4.012 10 C -0.211 4.211 11 C 0.112 3.888 12 C -0.584 4.584 13 H 0.067 0.933 14 C -0.153 4.153 15 N -0.533 5.533 16 Si 0.759 3.241 17 H -0.199 1.199 18 H -0.197 1.197 19 H -0.200 1.200 20 S 0.626 5.374 21 C -0.401 4.401 22 C -0.136 4.136 23 H 0.094 0.906 24 H 0.072 0.928 25 H 0.063 0.937 26 H 0.089 0.911 27 H 0.098 0.902 28 H 0.154 0.846 29 H 0.106 0.894 30 H 0.084 0.916 31 H 0.058 0.942 32 H 0.074 0.926 33 H 0.110 0.890 34 H 0.061 0.939 35 H 0.057 0.943 36 H 0.083 0.917 37 H 0.096 0.904 38 H 0.084 0.916 39 H 0.108 0.892 Dipole moment (debyes) X Y Z Total from point charges -4.626 -5.421 0.568 7.149 hybrid contribution 0.646 -1.088 -0.506 1.363 sum -3.980 -6.509 0.062 7.630 Atomic orbital electron populations 1.21710 0.94267 1.02258 1.01587 1.20228 0.96432 0.90195 1.02902 1.18648 1.06557 0.99361 0.90615 1.20490 0.98389 0.91821 0.99750 1.24626 1.19253 1.00950 0.99523 1.17305 0.76696 0.81968 0.86742 1.90647 1.57107 1.78652 1.21549 1.48170 1.65870 1.08374 1.10478 1.21485 0.97773 0.92038 0.89895 1.22033 0.97433 1.00731 1.00946 1.19502 0.96752 0.96326 0.76195 1.21425 1.01348 1.39829 0.95778 0.93267 1.25310 0.98657 0.93934 0.97448 1.69953 1.32474 1.39077 1.11759 0.85906 0.80771 0.78877 0.78544 1.19872 1.19690 1.20004 1.85951 1.52443 1.03344 0.95677 1.25832 1.07081 1.06073 1.01113 1.20353 1.02678 1.01372 0.89159 0.90596 0.92788 0.93745 0.91114 0.90219 0.84571 0.89375 0.91578 0.94170 0.92565 0.88974 0.93928 0.94266 0.91718 0.90388 0.91625 0.89152 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 C -0.14 -3.03 9.82 71.98 0.71 -2.32 16 2 C -0.06 -1.46 5.54 29.85 0.17 -1.29 16 3 C -0.14 -4.72 5.04 -21.05 -0.11 -4.82 16 4 C -0.07 -2.69 9.79 21.72 0.21 -2.48 16 5 C -0.32 -14.24 6.23 24.08 0.15 -14.09 16 6 C 0.58 27.48 7.53 86.42 0.65 28.13 16 7 O -0.59 -29.81 16.50 -4.36 -0.07 -29.88 16 8 N -0.60 -26.66 2.49 -830.97 -2.07 -28.73 16 9 C 0.11 4.12 6.06 86.38 0.52 4.64 16 10 C -0.15 -4.82 10.20 71.98 0.73 -4.08 16 11 C 0.24 11.02 4.72 85.63 0.40 11.43 16 12 C -0.54 -26.95 6.94 25.60 0.18 -26.77 16 13 H 0.05 2.59 7.81 -2.90 -0.02 2.57 16 14 C 0.05 2.46 5.02 84.65 0.42 2.89 16 15 N -0.90 -44.54 13.29 21.45 0.28 -44.25 16 16 Si 0.93 39.48 29.54 68.60 2.03 41.51 16 17 H -0.27 -11.38 7.11 99.48 0.71 -10.68 16 18 H -0.27 -11.05 7.11 99.48 0.71 -10.34 16 19 H -0.28 -11.86 7.11 99.48 0.71 -11.15 16 20 S 0.35 14.63 15.80 -56.49 -0.89 13.73 16 21 C -0.28 -9.75 6.28 24.68 0.15 -9.60 16 22 C -0.08 -2.08 9.71 71.24 0.69 -1.39 16 23 H 0.08 1.26 8.14 -2.39 -0.02 1.24 16 24 H 0.05 1.16 7.21 -2.39 -0.02 1.14 16 25 H 0.04 1.04 8.14 -2.38 -0.02 1.02 16 26 H 0.07 1.67 8.10 -2.39 -0.02 1.65 16 27 H 0.08 1.75 7.47 -2.39 -0.02 1.73 16 28 H 0.14 5.12 8.06 -2.91 -0.02 5.10 16 29 H 0.09 3.08 8.03 -2.39 -0.02 3.06 16 30 H 0.07 2.52 7.55 -2.38 -0.02 2.50 16 31 H 0.04 1.38 8.14 -2.39 -0.02 1.36 16 32 H 0.06 1.74 8.14 -2.39 -0.02 1.72 16 33 H 0.09 2.26 8.14 -2.38 -0.02 2.24 16 34 H 0.04 2.05 8.01 -2.39 -0.02 2.03 16 35 H 0.04 1.93 4.50 -21.18 -0.10 1.84 16 36 H 0.27 12.88 8.31 -92.71 -0.77 12.11 16 37 H 0.08 1.92 8.14 -2.39 -0.02 1.90 16 38 H 0.06 1.74 8.14 -2.39 -0.02 1.72 16 39 H 0.09 1.97 6.37 -2.39 -0.02 1.95 16 Total: -1.00 -57.76 330.24 5.11 -52.65 By element: Atomic # 1 Polarization: 13.78 SS G_CDS: 0.95 Total: 14.73 kcal Atomic # 6 Polarization: -24.64 SS G_CDS: 4.89 Total: -19.75 kcal Atomic # 7 Polarization: -71.20 SS G_CDS: -1.78 Total: -72.99 kcal Atomic # 8 Polarization: -29.81 SS G_CDS: -0.07 Total: -29.88 kcal Atomic # 14 Polarization: 39.48 SS G_CDS: 2.03 Total: 41.51 kcal Atomic # 16 Polarization: 14.63 SS G_CDS: -0.89 Total: 13.73 kcal Total: -57.76 5.11 -52.65 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. ZINC000103207798.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 16.902 kcal (2) G-P(sol) polarization free energy of solvation -57.760 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -40.859 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 5.115 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -52.646 kcal (6) G-S(sol) free energy of system = (1) + (5) -35.744 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.43 seconds