Wall clock time and date at job start Tue Mar 31 2020 22:54:53 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 1.31614 * 1 3 3 Si 1.86794 * 120.00130 * 2 1 4 4 H 1.48506 * 109.47112 * 240.00050 * 3 2 1 5 5 H 1.48503 * 109.47433 * 359.97438 * 3 2 1 6 6 H 1.48506 * 109.47355 * 120.00157 * 3 2 1 7 7 C 1.38815 * 120.00035 * 180.02562 * 2 1 3 8 8 H 1.07994 * 120.00072 * 179.97438 * 7 2 1 9 9 N 1.36944 * 119.99683 * 0.02562 * 7 2 1 10 10 C 1.46498 * 119.99561 * 179.97438 * 9 7 2 11 11 C 1.53004 * 109.46975 * 179.97438 * 10 9 7 12 12 C 1.53349 * 109.41783 * 295.13086 * 11 10 9 13 13 C 1.53190 * 109.15027 * 178.67356 * 12 11 10 14 14 N 1.46926 * 108.89632 * 54.57583 * 13 12 11 15 15 C 1.34771 * 120.63170 * 126.34021 * 14 13 12 16 16 O 1.21558 * 120.00193 * 354.17238 * 15 14 13 17 17 C 1.47762 * 120.00025 * 174.17329 * 15 14 13 18 18 C 1.40597 * 120.26573 * 318.75141 * 17 15 14 19 19 N 1.30800 * 121.53374 * 179.76073 * 18 17 15 20 20 C 1.33821 * 121.71949 * 0.50061 * 19 18 17 21 21 C 1.40526 * 120.80725 * 179.72849 * 20 19 18 22 22 C 1.36133 * 119.80941 * 180.02562 * 21 20 19 23 23 C 1.39335 * 121.08855 * 0.02562 * 22 21 20 24 24 C 1.36142 * 120.83634 * 359.97438 * 23 22 21 25 25 C 1.40538 * 119.61993 * 0.02562 * 24 23 22 26 26 C 1.39016 * 120.26745 * 139.02985 * 17 15 14 27 27 C 1.46933 * 118.73381 * 306.32592 * 14 13 12 28 28 C 1.53034 * 109.45990 * 175.00196 * 11 10 9 29 29 H 0.97004 * 120.00017 * 0.02562 * 1 2 3 30 30 H 0.97002 * 120.00021 * 0.02562 * 9 7 2 31 31 H 1.09000 * 109.47325 * 60.00242 * 10 9 7 32 32 H 1.08994 * 109.47536 * 299.99742 * 10 9 7 33 33 H 1.09005 * 109.45596 * 55.02607 * 11 10 9 34 34 H 1.09003 * 109.68505 * 58.71102 * 12 11 10 35 35 H 1.08997 * 109.47672 * 298.50886 * 12 11 10 36 36 H 1.09004 * 109.58607 * 294.71955 * 13 12 11 37 37 H 1.09001 * 109.59138 * 174.43997 * 13 12 11 38 38 H 1.08001 * 119.23321 * 0.02562 * 18 17 15 39 39 H 1.07994 * 120.09796 * 0.02601 * 21 20 19 40 40 H 1.08000 * 119.45217 * 180.02562 * 22 21 20 41 41 H 1.08004 * 119.58479 * 180.02562 * 23 22 21 42 42 H 1.08004 * 120.19389 * 179.97438 * 24 23 22 43 43 H 1.07999 * 121.01354 * 359.95835 * 26 17 15 44 44 H 1.09002 * 109.57919 * 173.38941 * 27 14 13 45 45 H 1.09001 * 109.58332 * 293.67117 * 27 14 13 46 46 H 1.08999 * 109.50150 * 61.43560 * 28 11 10 47 47 H 1.08996 * 109.49697 * 301.33430 * 28 11 10 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 1.3161 0.0000 0.0000 3 14 2.2502 1.6177 0.0000 4 1 3.1039 1.6963 -1.2126 5 1 1.2852 2.7465 -0.0006 6 1 3.1040 1.6963 1.2125 7 6 2.0102 -1.2022 -0.0005 8 1 3.0902 -1.2022 -0.0010 9 7 1.3255 -2.3881 -0.0016 10 6 2.0580 -3.6568 -0.0027 11 6 1.0637 -4.8197 -0.0031 12 6 0.2661 -4.8090 1.3065 13 6 -0.7499 -5.9553 1.2856 14 7 -0.0413 -7.2145 1.0191 15 6 -0.1828 -8.2701 1.8448 16 8 -0.8160 -8.1546 2.8760 17 6 0.4317 -9.5681 1.4966 18 6 0.3881 -10.0404 0.1731 19 7 0.9279 -11.1833 -0.1635 20 6 1.5392 -11.9643 0.7348 21 6 2.1078 -13.1914 0.3531 22 6 2.7244 -13.9703 1.2839 23 6 2.8032 -13.5724 2.6169 24 6 2.2645 -12.3907 3.0254 25 6 1.6203 -11.5612 2.0916 26 6 1.0524 -10.3347 2.4762 27 6 0.8245 -7.3008 -0.1650 28 6 1.8249 -6.1413 -0.1300 29 1 -0.4850 0.8401 -0.0004 30 1 0.3554 -2.3881 -0.0023 31 1 2.6846 -3.7154 0.8872 32 1 2.6846 -3.7138 -0.8927 33 1 0.3797 -4.7123 -0.8450 34 1 -0.2590 -3.8593 1.4089 35 1 0.9466 -4.9415 2.1476 36 1 -1.4857 -5.7771 0.5013 37 1 -1.2524 -6.0160 2.2510 38 1 -0.0987 -9.4436 -0.5841 39 1 2.0557 -13.5157 -0.6757 40 1 3.1598 -14.9121 0.9841 41 1 3.2985 -14.2091 3.3350 42 1 2.3312 -12.0927 4.0614 43 1 1.0970 -9.9977 3.5013 44 1 1.3630 -8.2485 -0.1554 45 1 0.2168 -7.2349 -1.0675 46 1 2.4910 -6.2610 0.7245 47 1 2.4096 -6.1374 -1.0499 RHF calculation, no. of doubly occupied orbitals= 63 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). 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 ZINC001206403066.mol2 47 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 22:54:53 Heat of formation + Delta-G solvation = 11.781324 kcal Electronic energy + Delta-G solvation = -28325.642378 eV Core-core repulsion = 24472.385483 eV Total energy + Delta-G solvation = -3853.256895 eV No. of doubly occupied orbitals = 63 Molecular weight (most abundant/longest-lived isotopes) = 339.169 amu Computer time = 0.93 seconds Orbital eigenvalues (eV) -42.20293 -40.99741 -38.99000 -37.97051 -36.60799 -34.64476 -34.45920 -32.67494 -32.25801 -31.27671 -31.04459 -28.32224 -26.10019 -25.66048 -24.95494 -24.03279 -23.35489 -23.09296 -21.72834 -20.53085 -19.45100 -19.07207 -18.77442 -17.84649 -17.37410 -16.70121 -16.64522 -16.35769 -15.76009 -15.58655 -15.42936 -15.37301 -15.29721 -15.15593 -14.96936 -14.56443 -14.33160 -14.20774 -14.16575 -13.85836 -13.54589 -13.17167 -12.93679 -12.75552 -12.73903 -12.70559 -12.43679 -12.25480 -12.17553 -11.97688 -11.69528 -11.67370 -11.53277 -11.40399 -11.19161 -10.90766 -10.55322 -9.87800 -9.71838 -9.30634 -8.97849 -7.94535 -5.22581 -0.80116 -0.42558 0.83872 1.42387 1.46912 1.49713 1.55894 1.76488 2.04952 2.56325 3.00662 3.11334 3.33192 3.38615 3.53415 3.63092 3.72170 3.79625 3.81346 3.85379 3.94765 4.06523 4.21502 4.26360 4.31181 4.32990 4.40961 4.43524 4.57925 4.67994 4.70110 4.74396 4.75018 4.85637 4.94277 4.96061 4.99057 5.04804 5.07298 5.15402 5.25748 5.34334 5.40096 5.46354 5.47122 5.50851 5.54235 5.83925 6.24400 6.28104 6.72477 6.93732 7.34570 8.11732 8.34993 9.28565 Molecular weight = 339.17amu Principal moments of inertia in cm(-1) A = 0.024950 B = 0.002017 C = 0.001974 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1121.996472 B =13879.774721 C =14178.500059 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.967 5.967 2 C -0.076 4.076 3 Si 0.973 3.027 4 H -0.277 1.277 5 H -0.295 1.295 6 H -0.280 1.280 7 C -0.247 4.247 8 H 0.073 0.927 9 N -0.743 5.743 10 C 0.156 3.844 11 C -0.083 4.083 12 C -0.115 4.115 13 C 0.118 3.882 14 N -0.597 5.597 15 C 0.566 3.434 16 O -0.576 6.576 17 C -0.199 4.199 18 C 0.159 3.841 19 N -0.489 5.489 20 C 0.117 3.883 21 C -0.116 4.116 22 C -0.081 4.081 23 C -0.114 4.114 24 C -0.096 4.096 25 C -0.124 4.124 26 C 0.001 3.999 27 C 0.102 3.898 28 C -0.119 4.119 29 H 0.251 0.749 30 H 0.375 0.625 31 H 0.011 0.989 32 H 0.024 0.976 33 H 0.075 0.925 34 H 0.061 0.939 35 H 0.050 0.950 36 H 0.087 0.913 37 H 0.078 0.922 38 H 0.183 0.817 39 H 0.146 0.854 40 H 0.164 0.836 41 H 0.161 0.839 42 H 0.151 0.849 43 H 0.152 0.848 44 H 0.100 0.900 45 H 0.100 0.900 46 H 0.061 0.939 47 H 0.097 0.903 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 5.244 -32.294 1.665 32.760 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 -0.618 5.618 2 C -0.268 4.268 3 Si 0.801 3.199 4 H -0.203 1.203 5 H -0.221 1.221 6 H -0.206 1.206 7 C -0.378 4.378 8 H 0.091 0.909 9 N -0.386 5.386 10 C 0.030 3.970 11 C -0.102 4.102 12 C -0.153 4.153 13 C -0.004 4.004 14 N -0.328 5.328 15 C 0.354 3.646 16 O -0.457 6.457 17 C -0.204 4.204 18 C -0.014 4.014 19 N -0.196 5.196 20 C -0.003 4.003 21 C -0.135 4.135 22 C -0.100 4.100 23 C -0.132 4.132 24 C -0.115 4.115 25 C -0.126 4.126 26 C -0.025 4.025 27 C -0.020 4.020 28 C -0.157 4.157 29 H 0.060 0.940 30 H 0.208 0.792 31 H 0.029 0.971 32 H 0.042 0.958 33 H 0.094 0.906 34 H 0.080 0.920 35 H 0.069 0.931 36 H 0.105 0.895 37 H 0.097 0.903 38 H 0.200 0.800 39 H 0.164 0.836 40 H 0.181 0.819 41 H 0.179 0.821 42 H 0.169 0.831 43 H 0.170 0.830 44 H 0.118 0.882 45 H 0.118 0.882 46 H 0.079 0.921 47 H 0.116 0.884 Dipole moment (debyes) X Y Z Total from point charges 5.096 -32.507 1.328 32.931 hybrid contribution -0.172 1.969 1.002 2.216 sum 4.924 -30.538 2.330 31.020 Atomic orbital electron populations 1.69797 1.06485 1.26103 1.59424 1.25551 0.96437 1.01036 1.03784 0.85229 0.77220 0.79278 0.78127 1.20330 1.22120 1.20623 1.19587 0.91429 0.85546 1.41286 0.90938 1.42569 1.05682 1.01073 1.89308 1.20832 0.93893 0.84969 0.97304 1.21262 0.97064 0.94288 0.97597 1.21820 0.98012 0.97787 0.97729 1.21608 0.94242 0.81700 1.02836 1.48103 1.46204 1.12029 1.26443 1.18339 0.79658 0.84006 0.82562 1.90768 1.43898 1.84864 1.26167 1.20777 1.06004 0.96813 0.96833 1.23377 0.93088 0.91722 0.93262 1.68027 1.10077 1.05153 1.36366 1.19416 0.96153 0.95619 0.89106 1.21073 0.98486 0.92110 1.01803 1.21431 0.95691 1.00228 0.92652 1.21396 0.98557 0.96282 0.96925 1.21379 0.96133 0.94315 0.99672 1.18981 1.02146 0.96088 0.95345 1.22044 0.89723 0.91127 0.99630 1.22264 0.92465 0.99804 0.87456 1.21857 0.97678 0.92532 1.03639 0.94016 0.79202 0.97121 0.95848 0.90618 0.92002 0.93079 0.89524 0.90314 0.79988 0.83640 0.81889 0.82100 0.83090 0.82994 0.88220 0.88200 0.92057 0.88446 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 -0.97 -59.23 13.06 21.65 0.28 -58.95 16 2 C -0.08 -4.37 5.50 84.86 0.47 -3.91 16 3 Si 0.97 46.40 29.55 68.60 2.03 48.42 16 4 H -0.28 -12.70 7.11 99.48 0.71 -11.99 16 5 H -0.29 -14.15 7.11 99.48 0.71 -13.44 16 6 H -0.28 -12.94 7.11 99.48 0.71 -12.23 16 7 C -0.25 -13.86 9.99 84.03 0.84 -13.02 16 8 H 0.07 3.93 7.83 -2.91 -0.02 3.90 16 9 N -0.74 -37.51 5.32 -343.45 -1.83 -39.33 16 10 C 0.16 6.10 5.65 86.38 0.49 6.59 16 11 C -0.08 -2.46 2.19 -10.66 -0.02 -2.48 16 12 C -0.12 -3.59 5.27 30.77 0.16 -3.42 16 13 C 0.12 3.16 6.43 86.36 0.56 3.71 16 14 N -0.60 -14.11 2.97 -822.39 -2.45 -16.56 16 15 C 0.57 14.97 7.32 86.76 0.63 15.61 16 16 O -0.58 -19.56 16.36 -3.90 -0.06 -19.62 16 17 C -0.20 -4.35 5.09 -20.00 -0.10 -4.45 16 18 C 0.16 3.06 8.54 85.42 0.73 3.79 16 19 N -0.49 -10.15 10.30 -187.68 -1.93 -12.09 16 20 C 0.12 2.26 6.61 40.27 0.27 2.52 16 21 C -0.12 -1.61 9.97 22.34 0.22 -1.39 16 22 C -0.08 -0.69 9.94 22.04 0.22 -0.47 16 23 C -0.11 -0.94 9.96 22.05 0.22 -0.72 16 24 C -0.10 -1.17 9.77 22.34 0.22 -0.95 16 25 C -0.12 -2.22 5.74 -21.29 -0.12 -2.34 16 26 C 0.00 0.02 9.54 23.02 0.22 0.24 16 27 C 0.10 1.84 4.91 86.36 0.42 2.26 16 28 C -0.12 -2.58 5.36 30.67 0.16 -2.42 16 29 H 0.25 14.95 8.31 -92.71 -0.77 14.18 16 30 H 0.38 19.96 6.85 -92.71 -0.64 19.32 16 31 H 0.01 0.44 8.14 -2.39 -0.02 0.42 16 32 H 0.02 0.90 8.14 -2.39 -0.02 0.88 16 33 H 0.08 2.24 8.14 -2.38 -0.02 2.22 16 34 H 0.06 2.27 7.16 -2.39 -0.02 2.26 16 35 H 0.05 1.69 8.14 -2.39 -0.02 1.67 16 36 H 0.09 2.07 8.14 -2.39 -0.02 2.05 16 37 H 0.08 2.34 7.00 -2.39 -0.02 2.32 16 38 H 0.18 2.67 6.66 -2.91 -0.02 2.65 16 39 H 0.15 1.68 8.06 -2.91 -0.02 1.65 16 40 H 0.16 0.34 8.06 -2.91 -0.02 0.32 16 41 H 0.16 0.33 8.06 -2.91 -0.02 0.30 16 42 H 0.15 1.19 8.06 -2.91 -0.02 1.17 16 43 H 0.15 2.78 8.06 -2.91 -0.02 2.76 16 44 H 0.10 1.58 4.79 -2.39 -0.01 1.57 16 45 H 0.10 1.41 8.12 -2.39 -0.02 1.39 16 46 H 0.06 1.42 8.14 -2.39 -0.02 1.41 16 47 H 0.10 1.81 8.14 -2.39 -0.02 1.79 16 Total: -1.00 -74.39 380.68 1.98 -72.42 By element: Atomic # 1 Polarization: 26.22 SS G_CDS: 0.36 Total: 26.57 kcal Atomic # 6 Polarization: -6.45 SS G_CDS: 5.58 Total: -0.86 kcal Atomic # 7 Polarization: -121.00 SS G_CDS: -5.92 Total: -126.93 kcal Atomic # 8 Polarization: -19.56 SS G_CDS: -0.06 Total: -19.62 kcal Atomic # 14 Polarization: 46.40 SS G_CDS: 2.03 Total: 48.42 kcal Total: -74.39 1.98 -72.42 kcal The number of atoms in the molecule is 47 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. ZINC001206403066.mol2 47 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 84.197 kcal (2) G-P(sol) polarization free energy of solvation -74.394 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 9.803 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.979 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -72.416 kcal (6) G-S(sol) free energy of system = (1) + (5) 11.781 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.93 seconds