Wall clock time and date at job start Tue Mar 31 2020 05:14:27 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 1.31517 * 1 3 3 Si 1.86798 * 120.00054 * 2 1 4 4 H 1.48500 * 109.47117 * 239.99582 * 3 2 1 5 5 H 1.48503 * 109.47340 * 359.97438 * 3 2 1 6 6 H 1.48505 * 109.46980 * 119.99975 * 3 2 1 7 7 C 1.37880 * 119.99705 * 179.97438 * 2 1 3 8 8 H 1.08000 * 119.99825 * 179.97438 * 7 2 1 9 9 C 1.50705 * 120.00062 * 0.02562 * 7 2 1 10 10 O 1.42897 * 109.46999 * 179.97438 * 9 7 2 11 11 C 1.42900 * 113.99713 * 180.02562 * 10 9 7 12 12 C 1.53004 * 109.46584 * 180.02562 * 11 10 9 13 13 N 1.46892 * 109.47510 * 65.00257 * 12 11 10 14 14 C 1.44770 * 111.00195 * 193.16788 * 13 12 11 15 15 C 1.51117 * 116.04306 * 308.18059 * 14 13 12 16 16 C 1.53444 * 110.72847 * 288.75653 * 15 14 13 17 17 C 1.52336 * 107.27881 * 79.21269 * 16 15 14 18 18 S 1.75680 * 125.34365 * 114.54415 * 17 16 15 19 19 C 1.75842 * 90.84984 * 179.43614 * 18 17 16 20 20 C 1.33089 * 109.54207 * 0.20369 * 19 18 17 21 21 C 1.33520 * 124.31579 * 294.51785 * 17 16 15 22 22 C 1.46846 * 111.00485 * 66.03859 * 13 12 11 23 23 H 0.97005 * 119.99923 * 0.02562 * 1 2 3 24 24 H 1.08999 * 109.46841 * 59.99750 * 9 7 2 25 25 H 1.09000 * 109.47005 * 299.99999 * 9 7 2 26 26 H 1.08989 * 109.47433 * 59.99840 * 11 10 9 27 27 H 1.08998 * 109.46900 * 299.99597 * 11 10 9 28 28 H 1.08997 * 109.47225 * 304.99323 * 12 11 10 29 29 H 1.09007 * 109.46662 * 185.00123 * 12 11 10 30 30 H 1.08991 * 108.17372 * 69.90563 * 14 13 12 31 31 H 1.09002 * 108.17132 * 186.71060 * 14 13 12 32 32 H 1.09002 * 109.23822 * 168.42139 * 15 14 13 33 33 H 1.09003 * 109.19795 * 49.06906 * 15 14 13 34 34 H 1.08999 * 109.89300 * 319.77089 * 16 15 14 35 35 H 1.08994 * 109.89289 * 198.65637 * 16 15 14 36 36 H 1.08005 * 125.22875 * 180.18241 * 19 18 17 37 37 H 1.07997 * 122.26858 * 180.18176 * 20 19 18 38 38 H 1.08999 * 109.84436 * 283.89728 * 22 13 12 39 39 H 1.09007 * 109.89469 * 162.95132 * 22 13 12 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 1.3152 0.0000 0.0000 3 14 2.2492 1.6177 0.0000 4 1 3.1030 1.6963 -1.2124 5 1 1.2842 2.7465 -0.0006 6 1 3.1029 1.6963 1.2126 7 6 2.0045 -1.1941 0.0005 8 1 3.0845 -1.1941 0.0001 9 6 1.2509 -2.4992 0.0005 10 8 2.1795 -3.5854 0.0005 11 6 1.5649 -4.8754 0.0000 12 6 2.6479 -5.9562 0.0006 13 7 3.4070 -5.8880 1.2564 14 6 4.6199 -6.6740 1.1728 15 6 4.4535 -8.1038 0.7126 16 6 3.7712 -8.9476 1.7974 17 6 2.2784 -8.6519 1.7285 18 16 1.0334 -9.8067 1.2781 19 6 -0.2153 -8.5905 1.5101 20 6 0.3447 -7.4440 1.8886 21 6 1.7324 -7.4655 2.0061 22 6 2.5603 -6.2411 2.4031 23 1 -0.4850 0.8401 -0.0004 24 1 0.6246 -2.5571 -0.8897 25 1 0.6239 -2.5567 0.8903 26 1 0.9450 -4.9822 -0.8902 27 1 0.9445 -4.9827 0.8897 28 1 3.3220 -5.7956 -0.8407 29 1 2.1819 -6.9375 -0.0894 30 1 5.3028 -6.1733 0.4867 31 1 5.0834 -6.6898 2.1592 32 1 5.4338 -8.5266 0.4925 33 1 3.8448 -8.1208 -0.1915 34 1 4.1586 -8.6738 2.7787 35 1 3.9486 -10.0065 1.6099 36 1 -1.2740 -8.7494 1.3670 37 1 -0.2374 -6.5572 2.0910 38 1 1.8984 -5.4093 2.6443 39 1 3.1837 -6.4796 3.2649 RHF calculation, no. of doubly occupied orbitals= 50 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 ZINC000590160108.mol2 39 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 05:14:27 Heat of formation + Delta-G solvation = -31.035740 kcal Electronic energy + Delta-G solvation = -20226.865254 eV Core-core repulsion = 17260.197921 eV Total energy + Delta-G solvation = -2966.667333 eV No. of doubly occupied orbitals = 50 Molecular weight (most abundant/longest-lived isotopes) = 281.119 amu Computer time = 0.45 seconds Orbital eigenvalues (eV) -41.13532 -38.44308 -37.21778 -35.03141 -34.39892 -31.24806 -30.94778 -28.92200 -26.83986 -26.11392 -24.54900 -23.81901 -22.68608 -20.89991 -19.22448 -18.57463 -18.20066 -17.51496 -17.16514 -16.81893 -16.40055 -15.82924 -15.76936 -15.17649 -15.00307 -14.74307 -14.29148 -13.78848 -13.68488 -13.56744 -13.45265 -13.20817 -12.95263 -12.72705 -12.54640 -12.33671 -12.31288 -12.19079 -12.07962 -11.68645 -11.65526 -11.50252 -11.24090 -10.83123 -10.17034 -9.53012 -9.35212 -9.04629 -8.29775 -6.41915 0.06439 0.71253 1.01912 1.40848 1.46129 1.54398 1.69766 2.36829 3.03787 3.08797 3.27303 3.70609 3.86322 3.91043 4.08151 4.15114 4.26587 4.35580 4.44718 4.49030 4.53689 4.65393 4.66545 4.78424 4.80019 4.85271 4.88782 4.97013 4.99764 5.13258 5.16639 5.20521 5.30273 5.40547 5.57065 5.58447 5.99256 6.13126 6.41025 6.58701 6.87752 7.30283 8.82485 Molecular weight = 281.12amu Principal moments of inertia in cm(-1) A = 0.028132 B = 0.003966 C = 0.003629 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 995.055978 B = 7058.802052 C = 7714.582592 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.932 5.932 2 C 0.006 3.994 3 Si 0.983 3.017 4 H -0.265 1.265 5 H -0.275 1.275 6 H -0.265 1.265 7 C -0.546 4.546 8 H 0.061 0.939 9 C 0.211 3.789 10 O -0.393 6.393 11 C 0.063 3.937 12 C 0.078 3.922 13 N -0.538 5.538 14 C 0.056 3.944 15 C -0.143 4.143 16 C -0.042 4.042 17 C -0.179 4.179 18 S 0.107 5.893 19 C -0.218 4.218 20 C -0.140 4.140 21 C -0.145 4.145 22 C 0.124 3.876 23 H 0.270 0.730 24 H -0.020 1.020 25 H -0.019 1.019 26 H 0.034 0.966 27 H 0.039 0.961 28 H 0.071 0.929 29 H 0.064 0.936 30 H 0.067 0.933 31 H 0.081 0.919 32 H 0.099 0.901 33 H 0.054 0.946 34 H 0.092 0.908 35 H 0.090 0.910 36 H 0.180 0.820 37 H 0.130 0.870 38 H 0.064 0.936 39 H 0.096 0.904 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 5.546 -22.127 4.163 23.188 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 -0.572 5.572 2 C -0.192 4.192 3 Si 0.806 3.194 4 H -0.190 1.190 5 H -0.200 1.200 6 H -0.190 1.190 7 C -0.583 4.583 8 H 0.079 0.921 9 C 0.136 3.864 10 O -0.313 6.313 11 C -0.014 4.014 12 C -0.050 4.050 13 N -0.259 5.259 14 C -0.072 4.072 15 C -0.183 4.183 16 C -0.082 4.082 17 C -0.297 4.297 18 S 0.372 5.628 19 C -0.353 4.353 20 C -0.170 4.170 21 C -0.159 4.159 22 C -0.006 4.006 23 H 0.079 0.921 24 H -0.002 1.002 25 H -0.001 1.001 26 H 0.053 0.947 27 H 0.057 0.943 28 H 0.090 0.910 29 H 0.081 0.919 30 H 0.086 0.914 31 H 0.099 0.901 32 H 0.117 0.883 33 H 0.073 0.927 34 H 0.110 0.890 35 H 0.108 0.892 36 H 0.197 0.803 37 H 0.148 0.852 38 H 0.083 0.917 39 H 0.115 0.885 Dipole moment (debyes) X Y Z Total from point charges 5.709 -23.049 3.783 24.045 hybrid contribution -1.028 1.608 0.199 1.919 sum 4.681 -21.440 3.982 22.304 Atomic orbital electron populations 1.70075 1.07796 1.28627 1.50654 1.25964 0.95942 1.03363 0.93906 0.85237 0.78096 0.76681 0.79405 1.18996 1.19956 1.18986 1.21355 0.94067 0.90828 1.52079 0.92070 1.19763 0.88668 0.85071 0.92938 1.87893 1.34610 1.13749 1.95004 1.22500 0.95552 0.84593 0.98769 1.21948 0.95095 0.95541 0.92424 1.61127 1.07268 1.54721 1.02764 1.21449 0.91243 0.91561 1.02989 1.21838 1.02160 0.96106 0.98173 1.20709 0.85949 1.01020 1.00489 1.25075 1.00698 0.96142 1.07804 1.83968 0.96388 1.14405 1.68078 1.25675 1.03887 0.96588 1.09150 1.20328 0.94437 0.99133 1.03133 1.20293 0.94187 0.96584 1.04823 1.21349 0.94087 0.91678 0.93492 0.92106 1.00219 1.00095 0.94736 0.94324 0.91019 0.91870 0.91412 0.90081 0.88301 0.92719 0.88960 0.89190 0.80290 0.85234 0.91743 0.88549 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 -0.93 -57.30 13.29 21.45 0.28 -57.02 16 2 C 0.01 0.38 5.46 84.65 0.46 0.84 16 3 Si 0.98 45.32 29.54 68.60 2.03 47.34 16 4 H -0.27 -11.75 7.11 99.48 0.71 -11.05 16 5 H -0.27 -12.03 7.11 99.48 0.71 -11.33 16 6 H -0.27 -11.77 7.11 99.48 0.71 -11.06 16 7 C -0.55 -33.59 9.43 25.60 0.24 -33.35 16 8 H 0.06 3.73 7.81 -2.91 -0.02 3.71 16 9 C 0.21 12.38 5.69 71.24 0.41 12.78 16 10 O -0.39 -20.27 10.27 -148.98 -1.53 -21.80 16 11 C 0.06 2.54 5.97 71.98 0.43 2.97 16 12 C 0.08 2.47 4.01 86.31 0.35 2.82 16 13 N -0.54 -15.99 4.69 -905.71 -4.25 -20.24 16 14 C 0.06 1.23 5.08 86.09 0.44 1.67 16 15 C -0.14 -2.43 5.43 30.13 0.16 -2.26 16 16 C -0.04 -0.67 5.94 30.52 0.18 -0.49 16 17 C -0.18 -3.73 5.06 25.14 0.13 -3.61 16 18 S 0.11 2.02 23.33 -56.49 -1.32 0.71 16 19 C -0.22 -4.61 11.22 66.66 0.75 -3.87 16 20 C -0.14 -3.49 9.28 21.37 0.20 -3.29 16 21 C -0.15 -3.57 3.22 -19.92 -0.06 -3.63 16 22 C 0.12 3.38 5.37 86.33 0.46 3.85 16 23 H 0.27 15.39 8.31 -92.70 -0.77 14.62 16 24 H -0.02 -1.22 8.14 -2.39 -0.02 -1.24 16 25 H -0.02 -1.15 8.14 -2.39 -0.02 -1.17 16 26 H 0.03 1.36 8.14 -2.39 -0.02 1.34 16 27 H 0.04 1.53 5.69 -2.39 -0.01 1.52 16 28 H 0.07 2.32 8.03 -2.39 -0.02 2.30 16 29 H 0.06 1.84 4.99 -2.38 -0.01 1.82 16 30 H 0.07 1.58 8.14 -2.39 -0.02 1.56 16 31 H 0.08 1.56 7.57 -2.39 -0.02 1.55 16 32 H 0.10 1.23 8.14 -2.39 -0.02 1.21 16 33 H 0.05 1.09 6.40 -2.39 -0.02 1.08 16 34 H 0.09 1.32 7.88 -2.39 -0.02 1.31 16 35 H 0.09 1.12 8.14 -2.39 -0.02 1.11 16 36 H 0.18 3.01 8.06 -2.91 -0.02 2.99 16 37 H 0.13 3.40 7.82 -2.91 -0.02 3.38 16 38 H 0.06 2.07 7.17 -2.39 -0.02 2.06 16 39 H 0.10 2.24 7.76 -2.38 -0.02 2.22 16 Total: -1.00 -69.04 319.95 0.39 -68.65 By element: Atomic # 1 Polarization: 6.89 SS G_CDS: 1.03 Total: 7.92 kcal Atomic # 6 Polarization: -29.71 SS G_CDS: 4.14 Total: -25.57 kcal Atomic # 7 Polarization: -73.29 SS G_CDS: -3.96 Total: -77.25 kcal Atomic # 8 Polarization: -20.27 SS G_CDS: -1.53 Total: -21.80 kcal Atomic # 14 Polarization: 45.32 SS G_CDS: 2.03 Total: 47.34 kcal Atomic # 16 Polarization: 2.02 SS G_CDS: -1.32 Total: 0.71 kcal Total: -69.04 0.39 -68.65 kcal The number of atoms in the molecule is 39 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. ZINC000590160108.mol2 39 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 37.613 kcal (2) G-P(sol) polarization free energy of solvation -69.037 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -31.425 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.389 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -68.648 kcal (6) G-S(sol) free energy of system = (1) + (5) -31.036 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.45 seconds