Wall clock time and date at job start Tue Mar 31 2020 22:19:00 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 1.31632 * 1 3 3 Si 1.86797 * 119.99593 * 2 1 4 4 H 1.48500 * 109.47383 * 269.99724 * 3 2 1 5 5 H 1.48500 * 109.47408 * 30.00117 * 3 2 1 6 6 H 1.48505 * 109.46906 * 150.00029 * 3 2 1 7 7 C 1.38797 * 120.00139 * 179.97438 * 2 1 3 8 8 H 1.07997 * 119.99769 * 0.02562 * 7 2 1 9 9 S 1.76195 * 120.00089 * 180.02562 * 7 2 1 10 10 C 1.81000 * 100.00257 * 180.02562 * 9 7 2 11 11 C 1.50699 * 109.47135 * 180.02562 * 10 9 7 12 12 O 1.21282 * 119.99946 * 0.02562 * 11 10 9 13 13 N 1.34776 * 119.99687 * 179.97438 * 11 10 9 14 14 C 1.46506 * 119.99892 * 179.97438 * 13 11 10 15 15 C 1.52996 * 109.47130 * 180.02562 * 14 13 11 16 16 C 1.53935 * 113.73564 * 86.23324 * 15 14 13 17 17 N 1.48296 * 86.06285 * 138.12918 * 16 15 14 18 18 C 1.46902 * 111.00409 * 222.41947 * 17 16 15 19 19 C 1.50702 * 109.47267 * 289.35248 * 18 17 16 20 20 C 1.38230 * 119.59080 * 95.00044 * 19 18 17 21 21 C 1.38590 * 119.18810 * 180.02562 * 20 19 18 22 22 C 1.38884 * 118.40208 * 359.97438 * 21 20 19 23 23 F 1.35093 * 120.44137 * 179.97438 * 22 21 20 24 24 C 1.38420 * 119.11083 * 0.02562 * 22 21 20 25 25 N 1.31850 * 119.58699 * 274.73149 * 19 18 17 26 26 C 1.47961 * 90.75572 * 335.31010 * 17 16 15 27 27 H 0.96996 * 120.00428 * 359.97438 * 1 2 3 28 28 H 1.08998 * 109.46889 * 59.99679 * 10 9 7 29 29 H 1.09007 * 109.46550 * 300.00163 * 10 9 7 30 30 H 0.96992 * 120.00176 * 0.02562 * 13 11 10 31 31 H 1.09002 * 109.47069 * 59.99899 * 14 13 11 32 32 H 1.09006 * 109.47047 * 300.00275 * 14 13 11 33 33 H 1.09002 * 112.93723 * 314.66502 * 15 14 13 34 34 H 1.09001 * 113.76001 * 252.50503 * 16 15 14 35 35 H 1.09000 * 113.75996 * 23.86319 * 16 15 14 36 36 H 1.08997 * 109.47246 * 49.35399 * 18 17 16 37 37 H 1.09007 * 109.46957 * 169.35176 * 18 17 16 38 38 H 1.07999 * 120.40389 * 0.02562 * 20 19 18 39 39 H 1.07998 * 120.79876 * 180.02562 * 21 20 19 40 40 H 1.07999 * 119.63731 * 180.02562 * 24 22 21 41 41 H 1.09007 * 113.75652 * 270.36911 * 26 17 16 42 42 H 1.08993 * 113.76177 * 139.00817 * 26 17 16 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 2.2502 1.6178 0.0000 4 1 2.4977 2.0465 -1.4000 5 1 1.4476 2.6527 0.7000 6 1 3.5478 1.4402 0.7001 7 6 2.0103 -1.2020 0.0005 8 1 1.4703 -2.1373 0.0005 9 16 3.7723 -1.2020 0.0012 10 6 4.0867 -2.9845 0.0009 11 6 5.5731 -3.2324 0.0021 12 8 6.3441 -2.2961 0.0035 13 7 6.0458 -4.4945 0.0026 14 6 7.4909 -4.7356 0.0032 15 6 7.7566 -6.2423 0.0031 16 6 7.7736 -6.8684 -1.4031 17 7 8.9465 -7.6440 -0.9321 18 6 9.9921 -7.6954 -1.9627 19 6 9.5366 -8.5769 -3.0970 20 6 8.9329 -8.0086 -4.2030 21 6 8.5167 -8.8271 -5.2411 22 6 8.7251 -10.1955 -5.1276 23 9 8.3353 -11.0314 -6.1147 24 6 9.3367 -10.6914 -3.9892 25 7 9.7238 -9.8800 -3.0244 26 6 9.2498 -6.6081 0.0799 27 1 -0.4850 0.8400 0.0004 28 1 3.6441 -3.4313 -0.8893 29 1 3.6433 -3.4317 0.8907 30 1 5.4292 -5.2433 0.0019 31 1 7.9335 -4.2883 0.8932 32 1 7.9341 -4.2887 -0.8868 33 1 7.1351 -6.7833 0.7167 34 1 6.8988 -7.4809 -1.6217 35 1 8.0064 -6.1587 -2.1970 36 1 10.1823 -6.6898 -2.3378 37 1 10.9073 -8.1016 -1.5318 38 1 8.7872 -6.9399 -4.2575 39 1 8.0425 -8.4108 -6.1175 40 1 9.5033 -11.7541 -3.8922 41 1 9.9136 -5.8224 -0.2813 42 1 9.5538 -7.0128 1.0451 RHF calculation, no. of doubly occupied orbitals= 60 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 ZINC001732120295.mol2 42 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 22:19:00 Heat of formation + Delta-G solvation = -36.369219 kcal Electronic energy + Delta-G solvation = -25108.886095 eV Core-core repulsion = 21129.691787 eV Total energy + Delta-G solvation = -3979.194307 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.116 amu Computer time = 0.63 seconds Orbital eigenvalues (eV) -50.04098 -41.65663 -40.81994 -40.13887 -35.89995 -34.66281 -33.71948 -33.53178 -31.64604 -30.03806 -27.90048 -27.39619 -27.04975 -24.99205 -24.37184 -22.49088 -21.86554 -20.64962 -19.80603 -18.69914 -18.33049 -17.92019 -17.59342 -17.28602 -17.07132 -16.98708 -16.79588 -16.48278 -16.01244 -15.61389 -15.52469 -15.06506 -14.91497 -14.81323 -14.58691 -14.51962 -14.20918 -13.94902 -13.65841 -13.44897 -13.33372 -13.28502 -12.99739 -12.70993 -12.55263 -12.30875 -11.87590 -11.78209 -11.62452 -11.16234 -10.99044 -10.97476 -10.63687 -10.52252 -10.11951 -9.98922 -9.71763 -8.98151 -8.50636 -6.21252 -0.20039 0.05033 1.00951 1.32221 1.47954 1.57635 1.59672 2.23824 2.27907 2.44485 2.72985 2.87557 2.93068 3.00468 3.20736 3.46684 3.58894 3.70415 3.75340 3.81068 3.92094 4.17352 4.23689 4.27251 4.34504 4.37989 4.46610 4.49962 4.54677 4.63324 4.74906 4.77435 4.82741 4.83984 4.87358 4.94120 5.23275 5.31443 5.47268 5.55426 5.71541 5.99772 6.12495 6.49670 6.79909 6.94544 7.22326 8.61670 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.017454 B = 0.001817 C = 0.001703 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1603.848875 B =15407.079728 C =16440.239795 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.917 5.917 2 C 0.044 3.956 3 Si 0.915 3.085 4 H -0.262 1.262 5 H -0.260 1.260 6 H -0.236 1.236 7 C -0.529 4.529 8 H 0.062 0.938 9 S -0.176 6.176 10 C -0.113 4.113 11 C 0.535 3.465 12 O -0.564 6.564 13 N -0.710 5.710 14 C 0.132 3.868 15 C -0.115 4.115 16 C 0.005 3.995 17 N -0.485 5.485 18 C 0.071 3.929 19 C 0.116 3.884 20 C -0.134 4.134 21 C -0.106 4.106 22 C 0.033 3.967 23 F -0.136 7.136 24 C 0.069 3.931 25 N -0.467 5.467 26 C 0.019 3.981 27 H 0.277 0.723 28 H 0.113 0.887 29 H 0.112 0.888 30 H 0.416 0.584 31 H 0.065 0.935 32 H 0.065 0.935 33 H 0.113 0.887 34 H 0.085 0.915 35 H 0.084 0.916 36 H 0.081 0.919 37 H 0.094 0.906 38 H 0.166 0.834 39 H 0.168 0.832 40 H 0.181 0.819 41 H 0.089 0.911 42 H 0.101 0.899 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 22.678 -21.470 -7.185 32.045 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 -0.555 5.555 2 C -0.162 4.162 3 Si 0.737 3.263 4 H -0.187 1.187 5 H -0.185 1.185 6 H -0.160 1.160 7 C -0.676 4.676 8 H 0.080 0.920 9 S 0.051 5.949 10 C -0.264 4.264 11 C 0.321 3.679 12 O -0.442 6.442 13 N -0.364 5.364 14 C 0.008 3.992 15 C -0.134 4.134 16 C -0.124 4.124 17 N -0.208 5.208 18 C -0.058 4.058 19 C -0.022 4.022 20 C -0.154 4.154 21 C -0.133 4.133 22 C 0.011 3.989 23 F -0.115 7.115 24 C -0.089 4.089 25 N -0.175 5.175 26 C -0.110 4.110 27 H 0.086 0.914 28 H 0.131 0.869 29 H 0.131 0.869 30 H 0.253 0.747 31 H 0.084 0.916 32 H 0.084 0.916 33 H 0.131 0.869 34 H 0.103 0.897 35 H 0.102 0.898 36 H 0.099 0.901 37 H 0.112 0.888 38 H 0.183 0.817 39 H 0.186 0.814 40 H 0.198 0.802 41 H 0.107 0.893 42 H 0.119 0.881 Dipole moment (debyes) X Y Z Total from point charges 24.149 -20.927 -6.286 32.568 hybrid contribution -1.884 0.098 -1.380 2.338 sum 22.265 -20.829 -7.666 31.438 Atomic orbital electron populations 1.70017 1.07322 1.29007 1.49189 1.25590 0.95296 1.02335 0.92952 0.85851 0.80677 0.79530 0.80213 1.18664 1.18474 1.15987 1.22469 0.90349 0.96650 1.58153 0.91981 1.84692 1.06297 1.06376 1.97584 1.23285 0.96180 0.99466 1.07427 1.19906 0.89248 0.83464 0.75313 1.90692 1.59289 1.43884 1.50372 1.45736 1.08873 1.06636 1.75153 1.21441 0.79963 0.95582 1.02236 1.23130 0.98541 0.93142 0.98598 1.24199 0.95701 0.96014 0.96481 1.68742 1.04684 1.38211 1.09144 1.21561 0.96521 0.97417 0.90272 1.21376 0.95277 0.90426 0.95125 1.22193 0.97741 1.02702 0.92797 1.21977 0.98747 0.91315 1.01219 1.18998 1.02194 0.89283 0.88418 1.91518 1.88944 1.71028 1.60015 1.23187 0.95684 1.01780 0.88258 1.67558 1.17147 1.05195 1.27641 1.23991 0.95256 0.93512 0.98262 0.91403 0.86855 0.86937 0.74690 0.91634 0.91630 0.86927 0.89650 0.89831 0.90111 0.88768 0.81684 0.81418 0.80174 0.89313 0.88053 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 -55.47 13.97 21.65 0.30 -55.16 16 2 C 0.04 2.53 5.50 84.86 0.47 3.00 16 3 Si 0.92 44.49 27.74 68.60 1.90 46.39 16 4 H -0.26 -12.40 7.11 99.48 0.71 -11.69 16 5 H -0.26 -11.90 7.11 99.48 0.71 -11.20 16 6 H -0.24 -11.42 6.74 99.48 0.67 -10.75 16 7 C -0.53 -30.37 10.04 67.95 0.68 -29.69 16 8 H 0.06 3.76 8.03 -2.91 -0.02 3.74 16 9 S -0.18 -8.69 18.55 -56.49 -1.05 -9.74 16 10 C -0.11 -4.03 6.16 71.24 0.44 -3.60 16 11 C 0.54 17.01 7.85 87.66 0.69 17.70 16 12 O -0.56 -22.73 15.86 -3.04 -0.05 -22.78 16 13 N -0.71 -14.37 5.56 -463.04 -2.57 -16.95 16 14 C 0.13 2.13 5.51 86.38 0.48 2.61 16 15 C -0.11 -1.23 3.93 -10.15 -0.04 -1.27 16 16 C 0.00 0.05 6.68 86.34 0.58 0.63 16 17 N -0.48 -6.01 6.26 -911.41 -5.70 -11.71 16 18 C 0.07 0.79 5.14 85.56 0.44 1.23 16 19 C 0.12 1.61 5.95 42.55 0.25 1.87 16 20 C -0.13 -1.41 9.20 22.35 0.21 -1.21 16 21 C -0.11 -1.19 10.16 22.51 0.23 -0.96 16 22 C 0.03 0.46 7.35 22.47 0.17 0.63 16 23 F -0.14 -2.12 17.28 44.97 0.78 -1.34 16 24 C 0.07 1.02 11.17 84.73 0.95 1.97 16 25 N -0.47 -8.06 10.27 -183.71 -1.89 -9.94 16 26 C 0.02 0.18 7.54 86.41 0.65 0.83 16 27 H 0.28 15.46 8.31 -92.71 -0.77 14.69 16 28 H 0.11 3.70 8.14 -2.40 -0.02 3.68 16 29 H 0.11 3.71 8.14 -2.39 -0.02 3.69 16 30 H 0.42 6.00 8.47 -92.71 -0.79 5.21 16 31 H 0.07 1.20 8.14 -2.39 -0.02 1.18 16 32 H 0.07 1.13 7.88 -2.38 -0.02 1.11 16 33 H 0.11 1.17 8.14 -2.39 -0.02 1.15 16 34 H 0.09 1.03 8.14 -2.39 -0.02 1.01 16 35 H 0.08 0.77 7.27 -2.39 -0.02 0.75 16 36 H 0.08 0.58 7.59 -2.39 -0.02 0.56 16 37 H 0.09 1.12 8.14 -2.38 -0.02 1.10 16 38 H 0.17 0.94 7.82 -2.91 -0.02 0.92 16 39 H 0.17 1.14 8.06 -2.91 -0.02 1.12 16 40 H 0.18 1.88 8.06 -2.91 -0.02 1.86 16 41 H 0.09 0.65 7.75 -2.38 -0.02 0.64 16 42 H 0.10 0.90 8.14 -2.39 -0.02 0.88 16 Total: -1.00 -75.98 374.85 -1.87 -77.85 By element: Atomic # 1 Polarization: 9.44 SS G_CDS: 0.23 Total: 9.67 kcal Atomic # 6 Polarization: -12.46 SS G_CDS: 6.18 Total: -6.28 kcal Atomic # 7 Polarization: -83.91 SS G_CDS: -9.86 Total: -93.77 kcal Atomic # 8 Polarization: -22.73 SS G_CDS: -0.05 Total: -22.78 kcal Atomic # 9 Polarization: -2.12 SS G_CDS: 0.78 Total: -1.34 kcal Atomic # 14 Polarization: 44.49 SS G_CDS: 1.90 Total: 46.39 kcal Atomic # 16 Polarization: -8.69 SS G_CDS: -1.05 Total: -9.74 kcal Total: -75.98 -1.87 -77.85 kcal The number of atoms in the molecule is 42 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. ZINC001732120295.mol2 42 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 41.478 kcal (2) G-P(sol) polarization free energy of solvation -75.976 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -34.498 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.871 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -77.847 kcal (6) G-S(sol) free energy of system = (1) + (5) -36.369 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.63 seconds