Wall clock time and date at job start Sat Apr 11 2020 07:44:04 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 1.31638 * 1 3 3 Si 1.86795 * 120.00233 * 2 1 4 4 H 1.48504 * 109.47348 * 270.00213 * 3 2 1 5 5 H 1.48507 * 109.47046 * 30.00244 * 3 2 1 6 6 H 1.48502 * 109.47121 * 149.99894 * 3 2 1 7 7 C 1.38796 * 119.99862 * 180.02562 * 2 1 3 8 8 H 1.08003 * 119.99848 * 359.97438 * 7 2 1 9 9 S 1.76202 * 120.00335 * 180.02562 * 7 2 1 10 10 C 1.80994 * 100.00087 * 179.97438 * 9 7 2 11 11 C 1.50703 * 109.47013 * 179.97438 * 10 9 7 12 12 O 1.21282 * 119.99998 * 0.02562 * 11 10 9 13 13 N 1.34777 * 120.00049 * 179.97438 * 11 10 9 14 14 C 1.46499 * 119.99908 * 180.02562 * 13 11 10 15 15 C 1.53002 * 109.47138 * 180.02562 * 14 13 11 16 16 H 1.09004 * 109.46930 * 294.99710 * 15 14 13 17 17 C 1.52997 * 109.47143 * 174.99644 * 15 14 13 18 18 O 1.42891 * 109.47221 * 304.99839 * 17 15 14 19 19 N 1.46506 * 109.47035 * 54.99480 * 15 14 13 20 20 C 1.34775 * 119.99693 * 204.99878 * 19 15 14 21 21 O 1.21738 * 120.00312 * 0.02562 * 20 19 15 22 22 C 1.46376 * 119.99642 * 179.97438 * 20 19 15 23 23 C 1.33976 * 119.23453 * 359.73480 * 22 20 19 24 24 O 1.35000 * 121.69007 * 180.12224 * 23 22 20 25 25 C 1.43253 * 116.82857 * 343.31207 * 24 23 22 26 26 C 1.53546 * 108.08474 * 45.25435 * 25 24 23 27 27 O 1.36217 * 119.23055 * 179.97438 * 22 20 19 28 28 H 0.97001 * 119.99526 * 359.97438 * 1 2 3 29 29 H 1.09000 * 109.47101 * 59.99993 * 10 9 7 30 30 H 1.09000 * 109.47426 * 299.99754 * 10 9 7 31 31 H 0.97006 * 120.00010 * 0.02562 * 13 11 10 32 32 H 1.09000 * 109.47411 * 60.00005 * 14 13 11 33 33 H 1.09000 * 109.46747 * 299.99993 * 14 13 11 34 34 H 1.09004 * 109.46881 * 65.00322 * 17 15 14 35 35 H 1.09002 * 109.47196 * 184.99837 * 17 15 14 36 36 H 0.96705 * 114.00199 * 179.97438 * 18 17 15 37 37 H 0.97000 * 120.00117 * 25.00230 * 19 15 14 38 38 H 1.08004 * 119.15339 * 0.36682 * 23 22 20 39 39 H 1.08999 * 109.73460 * 285.60789 * 25 24 23 40 40 H 1.08995 * 109.73637 * 164.90790 * 25 24 23 41 41 H 1.08998 * 109.75389 * 182.21506 * 26 25 24 42 42 H 1.09004 * 109.75740 * 61.47772 * 26 25 24 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 1.3164 0.0000 0.0000 3 14 2.2504 1.6177 0.0000 4 1 2.4979 2.0464 -1.4001 5 1 1.4479 2.6526 0.7001 6 1 3.5480 1.4400 0.7001 7 6 2.0103 -1.2020 -0.0005 8 1 1.4703 -2.1373 -0.0005 9 16 3.7723 -1.2022 0.0001 10 6 4.0865 -2.9846 -0.0001 11 6 5.5730 -3.2327 -0.0002 12 8 6.3440 -2.2965 0.0003 13 7 6.0456 -4.4949 0.0001 14 6 7.4906 -4.7360 0.0005 15 6 7.7562 -6.2428 0.0002 16 1 7.3913 -6.6763 0.9313 17 6 9.2600 -6.4955 -0.1252 18 8 9.7600 -5.8286 -1.2858 19 7 7.0611 -6.8609 -1.1317 20 6 6.7157 -8.1627 -1.0808 21 8 6.9808 -8.8247 -0.0942 22 6 6.0207 -8.7801 -2.2114 23 6 5.7308 -8.0356 -3.2869 24 8 5.0892 -8.5535 -4.3559 25 6 5.0568 -9.9818 -4.4610 26 6 4.6969 -10.5531 -3.0820 27 8 5.6793 -10.0971 -2.1435 28 1 -0.4849 0.8401 0.0004 29 1 3.6439 -3.4314 -0.8904 30 1 3.6433 -3.4319 0.8896 31 1 5.4289 -5.2437 0.0000 32 1 7.9333 -4.2889 0.8906 33 1 7.9337 -4.2891 -0.8894 34 1 9.7677 -6.1134 0.7605 35 1 9.4422 -7.5664 -0.2147 36 1 10.7093 -5.9452 -1.4281 37 1 6.8495 -6.3333 -1.9177 38 1 6.0212 -6.9955 -3.3006 39 1 6.0354 -10.3505 -4.7683 40 1 4.3044 -10.2801 -5.1910 41 1 4.7031 -11.6424 -3.1215 42 1 3.7098 -10.2004 -2.7832 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 ZINC001572311133.mol2 42 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Sat Apr 11 2020 07:44:04 Heat of formation + Delta-G solvation = -202.187911 kcal Electronic energy + Delta-G solvation = -27807.015229 eV Core-core repulsion = 23492.771502 eV Total energy + Delta-G solvation = -4314.243727 eV No. of doubly occupied orbitals = 62 Molecular weight (most abundant/longest-lived isotopes) = 346.112 amu Computer time = 0.63 seconds Orbital eigenvalues (eV) -42.18679 -41.06685 -40.33593 -38.43061 -37.86725 -36.41835 -34.99648 -34.66059 -33.36734 -31.74408 -30.56065 -29.33811 -27.86945 -26.48884 -26.39561 -23.66894 -22.06713 -21.79593 -20.67803 -19.98664 -19.51368 -19.35216 -18.49255 -17.87384 -17.63894 -17.44592 -17.09417 -16.85643 -16.61837 -16.36194 -16.04838 -15.79890 -15.55684 -15.50282 -15.23351 -15.01772 -14.87193 -14.72113 -14.55763 -14.40508 -13.97873 -13.42888 -13.33306 -13.21498 -13.04965 -12.98131 -12.67285 -12.36748 -12.01106 -11.85744 -11.73545 -11.17781 -11.16050 -11.04533 -10.88541 -10.52738 -10.36762 -10.18159 -9.29812 -8.98137 -8.50748 -6.21334 0.18077 0.99571 1.32673 1.45199 1.48573 1.56047 1.57738 2.01816 2.18624 2.19534 2.26453 2.66183 2.73010 2.87674 3.29316 3.36532 3.55893 3.66857 3.83013 3.90098 3.95762 4.01921 4.21904 4.23065 4.29564 4.42309 4.48149 4.48684 4.58610 4.61360 4.66727 4.79541 4.92155 5.21178 5.34338 5.71452 5.73315 6.12384 6.13243 6.38211 6.42466 6.88014 6.94481 7.01044 7.15216 8.61760 Molecular weight = 346.11amu Principal moments of inertia in cm(-1) A = 0.011256 B = 0.002566 C = 0.002208 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2486.865670 B =10909.754337 C =12678.614635 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.918 5.918 2 C 0.044 3.956 3 Si 0.915 3.085 4 H -0.261 1.261 5 H -0.261 1.261 6 H -0.235 1.235 7 C -0.529 4.529 8 H 0.061 0.939 9 S -0.171 6.171 10 C -0.114 4.114 11 C 0.539 3.461 12 O -0.556 6.556 13 N -0.715 5.715 14 C 0.122 3.878 15 C 0.146 3.854 16 H 0.109 0.891 17 C 0.072 3.928 18 O -0.581 6.581 19 N -0.701 5.701 20 C 0.581 3.419 21 O -0.566 6.566 22 C -0.103 4.103 23 C 0.037 3.963 24 O -0.310 6.310 25 C 0.011 3.989 26 C 0.012 3.988 27 O -0.318 6.318 28 H 0.277 0.723 29 H 0.114 0.886 30 H 0.111 0.889 31 H 0.412 0.588 32 H 0.086 0.914 33 H 0.082 0.918 34 H 0.080 0.920 35 H 0.050 0.950 36 H 0.399 0.601 37 H 0.412 0.588 38 H 0.199 0.801 39 H 0.089 0.911 40 H 0.152 0.848 41 H 0.148 0.852 42 H 0.078 0.922 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 17.736 -22.937 -8.161 30.121 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 -0.556 5.556 2 C -0.161 4.161 3 Si 0.737 3.263 4 H -0.186 1.186 5 H -0.185 1.185 6 H -0.159 1.159 7 C -0.677 4.677 8 H 0.079 0.921 9 S 0.056 5.944 10 C -0.265 4.265 11 C 0.324 3.676 12 O -0.434 6.434 13 N -0.369 5.369 14 C -0.002 4.002 15 C 0.041 3.959 16 H 0.127 0.873 17 C -0.008 4.008 18 O -0.389 6.389 19 N -0.356 5.356 20 C 0.370 3.630 21 O -0.446 6.446 22 C -0.151 4.151 23 C -0.030 4.030 24 O -0.221 6.221 25 C -0.064 4.064 26 C -0.063 4.063 27 O -0.233 6.233 28 H 0.086 0.914 29 H 0.133 0.867 30 H 0.129 0.871 31 H 0.248 0.752 32 H 0.104 0.896 33 H 0.100 0.900 34 H 0.098 0.902 35 H 0.069 0.931 36 H 0.249 0.751 37 H 0.250 0.750 38 H 0.215 0.785 39 H 0.108 0.892 40 H 0.170 0.830 41 H 0.165 0.835 42 H 0.096 0.904 Dipole moment (debyes) X Y Z Total from point charges 18.400 -21.654 -7.543 29.400 hybrid contribution -1.133 -0.867 -0.230 1.445 sum 17.267 -22.521 -7.773 29.424 Atomic orbital electron populations 1.70026 1.07374 1.29022 1.49228 1.25585 0.95273 1.02335 0.92893 0.85854 0.80690 0.79483 0.80264 1.18587 1.18505 1.15916 1.22473 0.90403 0.96627 1.58175 0.92082 1.84675 1.06211 1.05974 1.97577 1.23287 0.96025 0.99759 1.07436 1.19863 0.89289 0.83166 0.75242 1.90707 1.59176 1.43635 1.49887 1.45730 1.08501 1.06856 1.75780 1.21579 0.80320 0.93929 1.04334 1.21399 0.92158 0.91603 0.90740 0.87272 1.22434 0.92390 0.96470 0.89476 1.86417 1.30630 1.75750 1.46147 1.45713 1.59464 1.09255 1.21191 1.17299 0.78210 0.81954 0.85536 1.90834 1.56398 1.63010 1.34391 1.20225 1.11333 0.87407 0.96167 1.23514 0.95087 0.99605 0.84788 1.86121 1.70224 1.24316 1.41486 1.24053 1.05845 0.77693 0.98779 1.23985 0.91043 1.03210 0.88088 1.86365 1.58501 1.20761 1.57669 0.91390 0.86733 0.87108 0.75157 0.89594 0.89965 0.90171 0.93144 0.75083 0.74978 0.78476 0.89237 0.82990 0.83475 0.90363 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 -55.85 13.97 21.65 0.30 -55.55 16 2 C 0.04 2.59 5.50 84.86 0.47 3.06 16 3 Si 0.92 44.65 27.74 68.60 1.90 46.56 16 4 H -0.26 -12.40 7.11 99.48 0.71 -11.69 16 5 H -0.26 -11.97 7.11 99.48 0.71 -11.27 16 6 H -0.24 -11.41 6.74 99.48 0.67 -10.74 16 7 C -0.53 -30.56 10.04 67.95 0.68 -29.88 16 8 H 0.06 3.73 8.03 -2.91 -0.02 3.70 16 9 S -0.17 -8.47 18.55 -56.49 -1.05 -9.51 16 10 C -0.11 -4.15 6.16 71.24 0.44 -3.71 16 11 C 0.54 17.39 7.85 87.66 0.69 18.08 16 12 O -0.56 -22.47 15.86 -3.04 -0.05 -22.52 16 13 N -0.71 -15.44 5.39 -463.05 -2.49 -17.93 16 14 C 0.12 2.24 5.12 86.38 0.44 2.68 16 15 C 0.15 2.20 2.53 44.99 0.11 2.31 16 16 H 0.11 1.77 7.58 -2.38 -0.02 1.76 16 17 C 0.07 0.90 6.85 71.98 0.49 1.39 16 18 O -0.58 -7.11 12.64 -148.98 -1.88 -8.99 16 19 N -0.70 -10.65 4.39 -446.76 -1.96 -12.61 16 20 C 0.58 12.31 7.69 86.36 0.66 12.97 16 21 O -0.57 -16.40 16.58 10.08 0.17 -16.23 16 22 C -0.10 -1.99 6.61 23.42 0.15 -1.84 16 23 C 0.04 0.55 10.58 66.85 0.71 1.25 16 24 O -0.31 -4.50 10.47 -69.22 -0.72 -5.23 16 25 C 0.01 0.09 7.30 72.17 0.53 0.62 16 26 C 0.01 0.13 7.31 72.17 0.53 0.66 16 27 O -0.32 -6.70 10.28 -71.81 -0.74 -7.44 16 28 H 0.28 15.55 8.31 -92.71 -0.77 14.78 16 29 H 0.11 3.78 8.14 -2.40 -0.02 3.76 16 30 H 0.11 3.76 8.14 -2.40 -0.02 3.74 16 31 H 0.41 7.18 8.14 -92.70 -0.75 6.42 16 32 H 0.09 1.63 8.14 -2.39 -0.02 1.61 16 33 H 0.08 1.69 7.39 -2.39 -0.02 1.67 16 34 H 0.08 0.73 8.14 -2.38 -0.02 0.71 16 35 H 0.05 0.74 8.14 -2.39 -0.02 0.72 16 36 H 0.40 1.75 9.12 -74.05 -0.68 1.07 16 37 H 0.41 4.95 6.44 -92.71 -0.60 4.35 16 38 H 0.20 1.86 6.08 -2.91 -0.02 1.84 16 39 H 0.09 0.67 8.14 -2.39 -0.02 0.65 16 40 H 0.15 0.38 8.14 -2.39 -0.02 0.37 16 41 H 0.15 0.80 8.14 -2.39 -0.02 0.78 16 42 H 0.08 0.88 8.14 -2.39 -0.02 0.86 16 Total: -1.00 -85.17 374.71 -1.59 -86.76 By element: Atomic # 1 Polarization: 16.06 SS G_CDS: -0.97 Total: 15.09 kcal Atomic # 6 Polarization: 1.69 SS G_CDS: 5.90 Total: 7.60 kcal Atomic # 7 Polarization: -81.93 SS G_CDS: -4.16 Total: -86.09 kcal Atomic # 8 Polarization: -57.18 SS G_CDS: -3.23 Total: -60.41 kcal Atomic # 14 Polarization: 44.65 SS G_CDS: 1.90 Total: 46.56 kcal Atomic # 16 Polarization: -8.47 SS G_CDS: -1.05 Total: -9.51 kcal Total: -85.17 -1.59 -86.76 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. ZINC001572311133.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 -115.428 kcal (2) G-P(sol) polarization free energy of solvation -85.172 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -200.600 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.588 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -86.760 kcal (6) G-S(sol) free energy of system = (1) + (5) -202.188 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.63 seconds