Wall clock time and date at job start Tue Mar 31 2020 23:59:18 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 1.31635 * 1 3 3 Si 1.86793 * 120.00189 * 2 1 4 4 H 1.48504 * 109.47449 * 270.00124 * 3 2 1 5 5 H 1.48502 * 109.47197 * 30.00168 * 3 2 1 6 6 H 1.48507 * 109.47101 * 150.00398 * 3 2 1 7 7 C 1.38802 * 119.99567 * 179.97438 * 2 1 3 8 8 H 1.07998 * 120.00047 * 0.02562 * 7 2 1 9 9 S 1.76197 * 119.99885 * 179.97438 * 7 2 1 10 10 C 1.80998 * 99.99955 * 180.02562 * 9 7 2 11 11 C 1.50704 * 109.46974 * 180.02562 * 10 9 7 12 12 O 1.21279 * 119.99883 * 359.97438 * 11 10 9 13 13 N 1.34779 * 120.00010 * 180.02562 * 11 10 9 14 14 C 1.47425 * 125.64416 * 4.94523 * 13 11 10 15 15 C 1.54914 * 104.83004 * 204.09575 * 14 13 11 16 16 C 1.55158 * 101.58176 * 322.99637 * 15 14 13 17 17 C 1.47014 * 125.64918 * 184.91264 * 13 11 10 18 18 H 1.08994 * 110.01338 * 59.47909 * 17 13 11 19 19 C 1.53001 * 109.88328 * 298.38960 * 17 13 11 20 20 N 1.46503 * 109.47566 * 176.83220 * 19 17 13 21 21 C 1.34770 * 119.99876 * 184.96374 * 20 19 17 22 22 O 1.21282 * 120.00480 * 359.97438 * 21 20 19 23 23 C 1.50708 * 119.99734 * 179.97438 * 21 20 19 24 24 C 1.52999 * 109.46988 * 179.97438 * 23 21 20 25 25 C 1.53784 * 113.61169 * 272.49804 * 24 23 21 26 26 C 1.53787 * 87.07766 * 220.01860 * 25 24 23 27 27 C 1.53782 * 87.08228 * 25.43642 * 26 25 24 28 28 H 0.97006 * 119.99479 * 359.97438 * 1 2 3 29 29 H 1.09001 * 109.47226 * 60.00271 * 10 9 7 30 30 H 1.09001 * 109.47007 * 299.99714 * 10 9 7 31 31 H 1.09005 * 110.36649 * 85.26254 * 14 13 11 32 32 H 1.08994 * 110.37068 * 322.93574 * 14 13 11 33 33 H 1.09003 * 111.00293 * 81.06633 * 15 14 13 34 34 H 1.08998 * 111.00311 * 204.92041 * 15 14 13 35 35 H 1.08999 * 110.72196 * 153.86161 * 16 15 14 36 36 H 1.09003 * 110.71966 * 277.13550 * 16 15 14 37 37 H 1.09005 * 109.47049 * 296.83001 * 19 17 13 38 38 H 1.08998 * 109.47134 * 56.82862 * 19 17 13 39 39 H 0.96996 * 119.99568 * 4.95424 * 20 19 17 40 40 H 1.08993 * 109.47102 * 300.00083 * 23 21 20 41 41 H 1.09002 * 109.46872 * 60.00249 * 23 21 20 42 42 H 1.08996 * 112.85138 * 43.80246 * 24 23 21 43 43 H 1.09002 * 113.61631 * 334.56781 * 25 24 23 44 44 H 1.09002 * 113.61304 * 105.47531 * 25 24 23 45 45 H 1.08994 * 113.61812 * 270.88162 * 26 25 24 46 46 H 1.09007 * 113.60824 * 139.98150 * 26 25 24 47 47 H 1.08997 * 113.61229 * 220.01965 * 27 26 25 48 48 H 1.09000 * 113.69256 * 89.11954 * 27 26 25 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 2.2504 1.6176 0.0000 4 1 2.4979 2.0464 -1.4001 5 1 1.4479 2.6526 0.7001 6 1 3.5480 1.4400 0.7000 7 6 2.0103 -1.2021 0.0005 8 1 1.4702 -2.1374 0.0005 9 16 3.7722 -1.2022 -0.0001 10 6 4.0864 -2.9847 0.0001 11 6 5.5729 -3.2328 0.0002 12 8 6.3439 -2.2966 -0.0003 13 7 6.0455 -4.4950 -0.0001 14 6 5.2290 -5.7180 -0.1038 15 6 6.0927 -6.8278 0.5460 16 6 7.5181 -6.4221 0.0866 17 6 7.4606 -4.8801 0.1023 18 1 7.8835 -4.5028 1.0334 19 6 8.2403 -4.3181 -1.0882 20 7 9.6611 -4.6424 -0.9385 21 6 10.5587 -4.1611 -1.8211 22 8 10.1903 -3.4599 -2.7396 23 6 12.0204 -4.4942 -1.6668 24 6 12.8166 -3.8286 -2.7910 25 6 12.9093 -4.6805 -4.0680 26 6 14.3697 -4.2118 -4.1802 27 6 14.3383 -4.0059 -2.6565 28 1 -0.4850 0.8401 0.0004 29 1 3.6432 -3.4319 -0.8896 30 1 3.6438 -3.4315 0.8904 31 1 5.0312 -5.9546 -1.1493 32 1 4.2934 -5.5971 0.4421 33 1 6.0102 -6.8012 1.6326 34 1 5.8223 -7.8102 0.1590 35 1 8.2680 -6.7872 0.7883 36 1 7.7184 -6.7904 -0.9197 37 1 7.8623 -4.7589 -2.0107 38 1 8.1166 -3.2358 -1.1253 39 1 9.9557 -5.2034 -0.2041 40 1 12.3765 -4.1292 -0.7035 41 1 12.1541 -5.5748 -1.7179 42 1 12.5114 -2.7982 -2.9731 43 1 12.8067 -5.7505 -3.8875 44 1 12.2729 -4.3238 -4.8779 45 1 14.4893 -3.2864 -4.7435 46 1 15.0562 -4.9954 -4.5008 47 1 14.8554 -3.1048 -2.3270 48 1 14.6262 -4.8908 -2.0890 RHF calculation, no. of doubly occupied orbitals= 62 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 ZINC001581235759.mol2 48 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 23:59:18 Heat of formation + Delta-G solvation = -87.366475 kcal Electronic energy + Delta-G solvation = -26852.275000 eV Core-core repulsion = 23032.444023 eV Total energy + Delta-G solvation = -3819.830977 eV No. of doubly occupied orbitals = 62 Molecular weight (most abundant/longest-lived isotopes) = 340.161 amu Computer time = 0.99 seconds Orbital eigenvalues (eV) -41.51287 -40.81971 -39.24470 -38.54919 -35.85312 -34.70396 -33.07792 -32.12854 -30.94841 -29.88985 -27.88238 -26.65473 -26.42709 -24.52229 -23.69396 -22.15028 -21.52584 -20.46827 -20.24466 -19.56366 -18.34182 -18.10719 -17.61389 -17.16200 -16.81908 -16.61815 -16.47301 -16.02053 -15.93786 -15.46204 -15.27114 -15.06182 -14.93132 -14.69121 -14.19203 -14.09996 -13.92482 -13.65474 -13.57231 -13.36579 -13.27368 -13.08034 -12.97166 -12.79977 -12.70582 -12.31158 -12.13160 -11.96501 -11.88827 -11.64679 -11.52365 -11.25976 -11.20529 -11.09124 -11.05161 -10.82298 -10.57392 -10.15657 -9.81853 -9.04758 -8.54752 -6.26028 0.91459 1.28283 1.40032 1.43782 1.48947 1.65899 1.85845 2.21639 2.36122 2.65545 2.83338 3.36855 3.52253 3.63839 3.74965 3.78266 3.80453 3.82363 4.00407 4.06196 4.09792 4.13448 4.22746 4.35749 4.40274 4.48644 4.56807 4.64556 4.73519 4.75901 4.81416 4.88218 4.91659 4.93921 4.99608 5.02225 5.09852 5.12828 5.18116 5.26817 5.35778 5.40341 5.42979 5.64778 5.67861 6.08003 6.29148 6.55353 6.90426 7.00306 7.29471 8.57493 Molecular weight = 340.16amu Principal moments of inertia in cm(-1) A = 0.013801 B = 0.002279 C = 0.002010 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2028.384698 B =12284.620511 C =13925.549802 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.914 5.914 2 C 0.047 3.953 3 Si 0.912 3.088 4 H -0.265 1.265 5 H -0.256 1.256 6 H -0.239 1.239 7 C -0.527 4.527 8 H 0.064 0.936 9 S -0.179 6.179 10 C -0.101 4.101 11 C 0.545 3.455 12 O -0.558 6.558 13 N -0.612 5.612 14 C 0.083 3.917 15 C -0.119 4.119 16 C -0.117 4.117 17 C 0.128 3.872 18 H 0.081 0.919 19 C 0.116 3.884 20 N -0.711 5.711 21 C 0.502 3.498 22 O -0.593 6.593 23 C -0.119 4.119 24 C -0.108 4.108 25 C -0.140 4.140 26 C -0.143 4.143 27 C -0.124 4.124 28 H 0.277 0.723 29 H 0.108 0.892 30 H 0.114 0.886 31 H 0.079 0.921 32 H 0.084 0.916 33 H 0.085 0.915 34 H 0.113 0.887 35 H 0.118 0.882 36 H 0.087 0.913 37 H 0.055 0.945 38 H 0.035 0.965 39 H 0.420 0.580 40 H 0.119 0.881 41 H 0.128 0.872 42 H 0.064 0.936 43 H 0.095 0.905 44 H 0.041 0.959 45 H 0.070 0.930 46 H 0.081 0.919 47 H 0.068 0.932 48 H 0.105 0.895 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 27.589 -22.359 0.742 35.520 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 -0.552 5.552 2 C -0.158 4.158 3 Si 0.734 3.266 4 H -0.190 1.190 5 H -0.180 1.180 6 H -0.163 1.163 7 C -0.675 4.675 8 H 0.082 0.918 9 S 0.047 5.953 10 C -0.252 4.252 11 C 0.333 3.667 12 O -0.436 6.436 13 N -0.347 5.347 14 C -0.039 4.039 15 C -0.157 4.157 16 C -0.155 4.155 17 C 0.024 3.976 18 H 0.099 0.901 19 C -0.010 4.010 20 N -0.365 5.365 21 C 0.291 3.709 22 O -0.473 6.473 23 C -0.158 4.158 24 C -0.127 4.127 25 C -0.177 4.177 26 C -0.181 4.181 27 C -0.161 4.161 28 H 0.087 0.913 29 H 0.126 0.874 30 H 0.132 0.868 31 H 0.097 0.903 32 H 0.102 0.898 33 H 0.104 0.896 34 H 0.132 0.868 35 H 0.136 0.864 36 H 0.106 0.894 37 H 0.073 0.927 38 H 0.054 0.946 39 H 0.257 0.743 40 H 0.137 0.863 41 H 0.146 0.854 42 H 0.083 0.917 43 H 0.114 0.886 44 H 0.060 0.940 45 H 0.089 0.911 46 H 0.100 0.900 47 H 0.087 0.913 48 H 0.124 0.876 Dipole moment (debyes) X Y Z Total from point charges 28.232 -20.328 0.107 34.789 hybrid contribution -1.615 0.181 -0.094 1.628 sum 26.617 -20.147 0.014 33.382 Atomic orbital electron populations 1.70010 1.07131 1.29019 1.48991 1.25523 0.95290 1.02100 0.92913 0.85901 0.80685 0.79857 0.80129 1.18963 1.17979 1.16297 1.22417 0.89933 0.96761 1.58370 0.91773 1.84787 1.06832 1.06077 1.97570 1.23207 0.95436 0.99512 1.07056 1.19733 0.89521 0.81973 0.75445 1.90701 1.59269 1.43182 1.50490 1.48442 1.08378 1.05097 1.72742 1.22769 0.95646 0.83182 1.02300 1.22789 0.93079 0.98213 1.01625 1.22813 0.99243 0.89115 1.04310 1.21890 0.80809 0.97875 0.97002 0.90136 1.21448 0.81509 0.99701 0.98327 1.45723 1.06110 1.53337 1.31326 1.21621 0.90060 0.78414 0.80828 1.90723 1.82119 1.39698 1.34783 1.21758 0.87698 1.04474 1.01884 1.22336 0.95957 0.99213 0.95154 1.23013 0.97070 1.00248 0.97392 1.22805 0.96508 1.01577 0.97171 1.22956 0.93630 1.03065 0.96458 0.91304 0.87400 0.86807 0.90273 0.89772 0.89626 0.86846 0.86383 0.89400 0.92712 0.94623 0.74257 0.86328 0.85396 0.91707 0.88639 0.94025 0.91147 0.90009 0.91333 0.87630 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 -56.14 13.97 21.65 0.30 -55.83 16 2 C 0.05 2.83 5.50 84.86 0.47 3.30 16 3 Si 0.91 46.17 27.74 68.60 1.90 48.07 16 4 H -0.26 -13.20 7.11 99.48 0.71 -12.50 16 5 H -0.26 -12.03 7.11 99.48 0.71 -11.32 16 6 H -0.24 -12.16 6.74 99.48 0.67 -11.49 16 7 C -0.53 -31.27 10.04 67.96 0.68 -30.59 16 8 H 0.06 3.98 8.03 -2.91 -0.02 3.96 16 9 S -0.18 -9.41 18.55 -56.49 -1.05 -10.46 16 10 C -0.10 -4.02 5.09 71.24 0.36 -3.66 16 11 C 0.55 20.14 7.69 87.66 0.67 20.81 16 12 O -0.56 -25.45 14.67 -3.03 -0.04 -25.50 16 13 N -0.61 -15.58 3.06 -788.07 -2.42 -18.00 16 14 C 0.08 1.37 6.74 86.86 0.59 1.96 16 15 C -0.12 -1.01 7.09 31.99 0.23 -0.79 16 16 C -0.12 -0.99 6.00 31.78 0.19 -0.80 16 17 C 0.13 2.47 3.00 45.34 0.14 2.61 16 18 H 0.08 1.59 8.14 -2.39 -0.02 1.57 16 19 C 0.12 2.91 5.05 86.38 0.44 3.35 16 20 N -0.71 -12.41 5.39 -463.05 -2.50 -14.90 16 21 C 0.50 11.09 7.83 87.66 0.69 11.77 16 22 O -0.59 -20.46 15.75 -3.04 -0.05 -20.51 16 23 C -0.12 -1.40 5.54 29.85 0.17 -1.24 16 24 C -0.11 -1.72 3.15 -10.27 -0.03 -1.75 16 25 C -0.14 -2.16 7.63 31.12 0.24 -1.92 16 26 C -0.14 -1.75 8.08 31.12 0.25 -1.49 16 27 C -0.12 -1.27 7.64 31.12 0.24 -1.03 16 28 H 0.28 15.75 8.31 -92.70 -0.77 14.98 16 29 H 0.11 4.00 8.14 -2.39 -0.02 3.99 16 30 H 0.11 4.11 7.95 -2.39 -0.02 4.09 16 31 H 0.08 1.23 8.14 -2.38 -0.02 1.21 16 32 H 0.08 1.41 7.47 -2.39 -0.02 1.40 16 33 H 0.09 0.68 8.14 -2.39 -0.02 0.66 16 34 H 0.11 0.45 8.14 -2.39 -0.02 0.44 16 35 H 0.12 0.28 8.14 -2.39 -0.02 0.26 16 36 H 0.09 0.70 7.80 -2.39 -0.02 0.68 16 37 H 0.05 1.47 8.07 -2.38 -0.02 1.45 16 38 H 0.04 1.31 6.59 -2.39 -0.02 1.29 16 39 H 0.42 3.40 8.19 -92.71 -0.76 2.65 16 40 H 0.12 0.87 8.14 -2.39 -0.02 0.85 16 41 H 0.13 0.66 7.84 -2.39 -0.02 0.64 16 42 H 0.06 1.50 7.67 -2.39 -0.02 1.48 16 43 H 0.10 1.10 7.89 -2.39 -0.02 1.08 16 44 H 0.04 0.86 8.14 -2.39 -0.02 0.84 16 45 H 0.07 0.97 8.14 -2.39 -0.02 0.95 16 46 H 0.08 0.75 8.14 -2.38 -0.02 0.73 16 47 H 0.07 0.71 8.14 -2.39 -0.02 0.69 16 48 H 0.11 0.59 8.10 -2.39 -0.02 0.57 16 Total: -1.00 -87.05 399.64 1.61 -85.44 By element: Atomic # 1 Polarization: 11.00 SS G_CDS: 0.15 Total: 11.15 kcal Atomic # 6 Polarization: -4.77 SS G_CDS: 5.31 Total: 0.54 kcal Atomic # 7 Polarization: -84.12 SS G_CDS: -4.61 Total: -88.73 kcal Atomic # 8 Polarization: -45.92 SS G_CDS: -0.09 Total: -46.01 kcal Atomic # 14 Polarization: 46.17 SS G_CDS: 1.90 Total: 48.07 kcal Atomic # 16 Polarization: -9.41 SS G_CDS: -1.05 Total: -10.46 kcal Total: -87.05 1.61 -85.44 kcal The number of atoms in the molecule is 48 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. ZINC001581235759.mol2 48 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 -1.925 kcal (2) G-P(sol) polarization free energy of solvation -87.052 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -88.977 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.610 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -85.441 kcal (6) G-S(sol) free energy of system = (1) + (5) -87.366 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.99 seconds