Wall clock time and date at job start Tue Mar 31 2020 06:01:37 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 1.50703 * 1 3 3 S 1.75850 * 125.23364 * 2 1 4 4 C 1.75802 * 91.16607 * 180.21615 * 3 2 1 5 5 C 1.33015 * 109.96815 * 359.81003 * 4 3 2 6 6 C 1.34709 * 125.23377 * 179.86862 * 2 1 3 7 7 C 1.48153 * 122.79303 * 359.97438 * 6 2 1 8 8 C 1.39207 * 120.28765 * 244.73208 * 7 6 2 9 9 C 1.38313 * 120.10699 * 179.70331 * 8 7 6 10 10 C 1.38057 * 120.76864 * 0.28109 * 9 8 7 11 11 C 1.39136 * 120.24314 * 0.02562 * 10 9 8 12 12 N 1.38170 * 132.73581 * 179.97438 * 11 10 9 13 13 H 0.96997 * 124.70319 * 359.97438 * 12 11 10 14 14 C 1.35614 * 110.59435 * 180.02562 * 12 11 10 15 15 C 1.38999 * 109.24266 * 359.97438 * 14 12 11 16 16 C 1.40955 * 126.93398 * 180.02562 * 15 14 12 17 17 H 1.07995 * 120.00646 * 164.48148 * 16 15 14 18 18 C 1.39657 * 119.99674 * 344.48066 * 16 15 14 19 19 N 1.31095 * 119.99931 * 161.16607 * 18 16 15 20 20 Si 1.86799 * 120.00286 * 341.16974 * 18 16 15 21 21 H 1.48498 * 109.47064 * 93.59721 * 20 18 16 22 22 H 1.48500 * 109.47498 * 213.60046 * 20 18 16 23 23 H 1.48504 * 109.47041 * 333.59931 * 20 18 16 24 24 C 1.40213 * 120.28361 * 65.00750 * 7 6 2 25 25 H 1.08995 * 109.47183 * 270.12559 * 1 2 3 26 26 H 1.08995 * 109.46992 * 30.13525 * 1 2 3 27 27 H 1.08999 * 109.46722 * 150.13010 * 1 2 3 28 28 H 1.08000 * 125.01968 * 179.81352 * 4 3 2 29 29 H 1.07999 * 122.54259 * 179.97438 * 5 4 3 30 30 H 1.08003 * 119.94335 * 359.97438 * 8 7 6 31 31 H 1.07995 * 119.61770 * 180.25355 * 9 8 7 32 32 H 1.08001 * 119.87675 * 179.97438 * 10 9 8 33 33 H 1.07998 * 125.38257 * 180.02562 * 14 12 11 34 34 H 0.97003 * 120.00380 * 180.02562 * 19 18 16 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 1.5070 0.0000 0.0000 3 16 2.5215 1.4364 0.0000 4 6 3.9778 0.4516 -0.0066 5 6 3.6538 -0.8385 -0.0043 6 6 2.2842 -1.1003 0.0025 7 6 1.7298 -2.4742 0.0062 8 6 1.9434 -3.3145 1.0954 9 6 1.4189 -4.5944 1.0975 10 6 0.6849 -5.0586 0.0244 11 6 0.4626 -4.2407 -1.0790 12 7 -0.2169 -4.4325 -2.2667 13 1 -0.6771 -5.2499 -2.5138 14 6 -0.1503 -3.3201 -3.0394 15 6 0.5854 -2.3450 -2.3761 16 6 0.8837 -1.0476 -2.8394 17 1 1.2417 -0.2970 -2.1503 18 6 0.7164 -0.7327 -4.1897 19 7 0.6296 0.5205 -4.5646 20 14 0.6163 -2.0971 -5.4616 21 1 -0.8068 -2.4468 -5.7014 22 1 1.2338 -1.6367 -6.7312 23 1 1.3425 -3.2927 -4.9631 24 6 0.9905 -2.9413 -1.0897 25 1 -0.3633 0.0023 1.0276 26 1 -0.3633 0.8887 -0.5159 27 1 -0.3633 -0.8912 -0.5118 28 1 4.9867 0.8371 -0.0118 29 1 4.3953 -1.6237 -0.0079 30 1 2.5158 -2.9649 1.9419 31 1 1.5860 -5.2382 1.9483 32 1 0.2824 -6.0607 0.0411 33 1 -0.5987 -3.2090 -4.0156 34 1 0.5130 0.7393 -5.5024 RHF calculation, no. of doubly occupied orbitals= 48 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 ZINC001240501022.mol2 34 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 06:01:37 Heat of formation + Delta-G solvation = 69.385241 kcal Electronic energy + Delta-G solvation = -19704.076066 eV Core-core repulsion = 16885.927661 eV Total energy + Delta-G solvation = -2818.148406 eV No. of doubly occupied orbitals = 48 Molecular weight (most abundant/longest-lived isotopes) = 283.073 amu Computer time = 0.63 seconds Orbital eigenvalues (eV) -41.64293 -39.10614 -37.06624 -35.30107 -33.27230 -32.09156 -30.65899 -29.86755 -27.28929 -26.16955 -24.10821 -23.02957 -22.53561 -21.25885 -19.85187 -18.15925 -18.12521 -17.86375 -16.97493 -16.28653 -16.03565 -15.68244 -15.13832 -15.00685 -14.82501 -14.34031 -14.03055 -13.89362 -13.44377 -13.33462 -13.12451 -12.88083 -12.79298 -12.40184 -12.37202 -12.24778 -11.91938 -11.87569 -11.39787 -11.28551 -11.01813 -10.17889 -9.26100 -9.11714 -8.80291 -8.62957 -8.43342 -5.94779 0.12791 0.50569 0.86760 0.98263 1.19674 1.24188 1.35376 1.49214 1.92732 2.02217 2.22528 2.77831 3.09846 3.54666 4.02476 4.14540 4.25912 4.37221 4.43102 4.55491 4.62950 4.74714 4.75572 4.84818 4.97416 5.00932 5.14588 5.26692 5.30574 5.40847 5.50970 5.57036 5.69509 5.84219 5.98614 6.03512 6.20173 6.58239 6.65420 6.91659 7.13542 7.27294 8.44944 Molecular weight = 283.07amu Principal moments of inertia in cm(-1) A = 0.012622 B = 0.010380 C = 0.006417 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2217.859661 B = 2696.819884 C = 4362.429955 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.073 4.073 2 C -0.154 4.154 3 S 0.082 5.918 4 C -0.218 4.218 5 C -0.126 4.126 6 C -0.077 4.077 7 C 0.020 3.980 8 C -0.169 4.169 9 C -0.090 4.090 10 C -0.156 4.156 11 C 0.095 3.905 12 N -0.580 5.580 13 H 0.415 0.585 14 C -0.180 4.180 15 C 0.013 3.987 16 C -0.441 4.441 17 H 0.090 0.910 18 C 0.041 3.959 19 N -0.866 5.866 20 Si 0.950 3.050 21 H -0.266 1.266 22 H -0.295 1.295 23 H -0.255 1.255 24 C -0.146 4.146 25 H 0.081 0.919 26 H 0.056 0.944 27 H 0.067 0.933 28 H 0.190 0.810 29 H 0.149 0.851 30 H 0.132 0.868 31 H 0.155 0.845 32 H 0.139 0.861 33 H 0.138 0.862 34 H 0.281 0.719 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 2.503 -5.790 9.390 11.312 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 -0.132 4.132 2 C -0.271 4.271 3 S 0.346 5.654 4 C -0.353 4.353 5 C -0.156 4.156 6 C -0.089 4.089 7 C 0.017 3.983 8 C -0.189 4.189 9 C -0.109 4.109 10 C -0.177 4.177 11 C -0.016 4.016 12 N -0.184 5.184 13 H 0.252 0.748 14 C -0.302 4.302 15 C 0.006 3.994 16 C -0.473 4.473 17 H 0.108 0.892 18 C -0.170 4.170 19 N -0.496 5.496 20 Si 0.777 3.223 21 H -0.193 1.193 22 H -0.223 1.223 23 H -0.180 1.180 24 C -0.153 4.153 25 H 0.099 0.901 26 H 0.075 0.925 27 H 0.086 0.914 28 H 0.207 0.793 29 H 0.166 0.834 30 H 0.150 0.850 31 H 0.173 0.827 32 H 0.156 0.844 33 H 0.155 0.845 34 H 0.091 0.909 Dipole moment (debyes) X Y Z Total from point charges 2.152 -4.015 9.095 10.172 hybrid contribution -0.112 -1.831 -1.503 2.372 sum 2.040 -5.847 7.592 9.797 Atomic orbital electron populations 1.20296 0.88294 1.02888 1.01701 1.24537 1.00001 0.95096 1.07437 1.83836 0.97682 1.09893 1.73953 1.25550 1.02231 0.96108 1.11414 1.20202 0.95038 0.97074 1.03268 1.17832 0.93008 0.92870 1.05144 1.17954 0.95946 0.91389 0.92995 1.20978 1.05272 0.94731 0.97961 1.20909 0.96731 0.95364 0.97906 1.20276 1.05249 0.99694 0.92526 1.18523 0.98303 0.95577 0.89220 1.40780 1.48788 1.14482 1.14392 0.74846 1.21543 1.17687 0.90594 1.00405 1.18372 0.96103 0.93000 0.91915 1.19101 1.38159 0.95616 0.94432 0.89183 1.26477 0.92113 0.97402 1.00979 1.69851 1.40703 1.20048 1.18975 0.85741 0.78926 0.80661 0.76940 1.19258 1.22270 1.17951 1.19381 1.04691 0.94735 0.96468 0.90080 0.92485 0.91436 0.79322 0.83367 0.85040 0.82741 0.84365 0.84467 0.90872 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 -0.07 -2.95 9.13 71.24 0.65 -2.30 16 2 C -0.15 -6.22 4.30 24.88 0.11 -6.12 16 3 S 0.08 2.90 23.31 -56.49 -1.32 1.59 16 4 C -0.22 -7.03 11.18 66.65 0.75 -6.28 16 5 C -0.13 -4.46 10.00 21.40 0.21 -4.25 16 6 C -0.08 -3.10 4.42 -21.16 -0.09 -3.20 16 7 C 0.02 0.81 5.01 -19.93 -0.10 0.71 16 8 C -0.17 -5.57 9.77 22.52 0.22 -5.35 16 9 C -0.09 -2.57 10.00 22.24 0.22 -2.34 16 10 C -0.16 -4.87 10.06 22.44 0.23 -4.64 16 11 C 0.09 3.76 7.23 38.85 0.28 4.04 16 12 N -0.58 -22.65 5.99 -184.93 -1.11 -23.76 16 13 H 0.41 12.62 8.96 -92.71 -0.83 11.78 16 14 C -0.18 -8.39 9.30 84.29 0.78 -7.60 16 15 C 0.01 0.64 4.86 -20.00 -0.10 0.54 16 16 C -0.44 -24.37 8.50 23.28 0.20 -24.17 16 17 H 0.09 5.13 4.35 -2.91 -0.01 5.12 16 18 C 0.04 2.23 5.49 85.15 0.47 2.70 16 19 N -0.87 -48.82 13.94 21.79 0.30 -48.52 16 20 Si 0.95 44.08 24.54 68.60 1.68 45.77 16 21 H -0.27 -11.67 6.76 99.48 0.67 -11.00 16 22 H -0.29 -13.35 7.11 99.48 0.71 -12.65 16 23 H -0.26 -12.04 6.52 99.48 0.65 -11.39 16 24 C -0.15 -6.65 5.16 -19.88 -0.10 -6.75 16 25 H 0.08 2.75 8.14 -2.39 -0.02 2.73 16 26 H 0.06 2.32 8.14 -2.39 -0.02 2.30 16 27 H 0.07 3.09 5.24 -2.39 -0.01 3.08 16 28 H 0.19 4.64 8.06 -2.91 -0.02 4.62 16 29 H 0.15 4.66 8.06 -2.91 -0.02 4.64 16 30 H 0.13 3.70 8.06 -2.91 -0.02 3.68 16 31 H 0.16 3.09 8.06 -2.91 -0.02 3.07 16 32 H 0.14 3.34 8.06 -2.91 -0.02 3.32 16 33 H 0.14 6.32 4.10 -2.91 -0.01 6.31 16 34 H 0.28 14.64 8.30 -92.71 -0.77 13.87 16 Total: -1.00 -63.98 290.13 3.52 -60.46 By element: Atomic # 1 Polarization: 29.24 SS G_CDS: 0.23 Total: 29.48 kcal Atomic # 6 Polarization: -68.74 SS G_CDS: 3.72 Total: -65.02 kcal Atomic # 7 Polarization: -71.47 SS G_CDS: -0.80 Total: -72.27 kcal Atomic # 14 Polarization: 44.08 SS G_CDS: 1.68 Total: 45.77 kcal Atomic # 16 Polarization: 2.90 SS G_CDS: -1.32 Total: 1.59 kcal Total: -63.98 3.52 -60.46 kcal The number of atoms in the molecule is 34 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. ZINC001240501022.mol2 34 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 129.847 kcal (2) G-P(sol) polarization free energy of solvation -63.980 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 65.866 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.519 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -60.461 kcal (6) G-S(sol) free energy of system = (1) + (5) 69.385 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.63 seconds