Wall clock time and date at job start Tue Mar 31 2020 15:22:01 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 1.31519 * 1 3 3 Si 1.86799 * 119.99914 * 2 1 4 4 H 1.48500 * 109.47004 * 270.00507 * 3 2 1 5 5 H 1.48499 * 109.47143 * 29.99965 * 3 2 1 6 6 H 1.48496 * 109.47374 * 150.00302 * 3 2 1 7 7 C 1.37878 * 120.00025 * 180.02562 * 2 1 3 8 8 H 1.07998 * 119.99965 * 359.97438 * 7 2 1 9 9 C 1.50696 * 119.99739 * 180.02562 * 7 2 1 10 10 N 1.46506 * 109.46953 * 179.97438 * 9 7 2 11 11 C 1.34774 * 119.99912 * 89.99845 * 10 9 7 12 12 O 1.21285 * 120.00163 * 175.26541 * 11 10 9 13 13 C 1.50702 * 120.00168 * 355.26452 * 11 10 9 14 14 S 1.81397 * 109.47253 * 179.97438 * 13 11 10 15 15 C 1.81397 * 103.00117 * 179.97438 * 14 13 11 16 16 C 1.53004 * 109.47153 * 180.02562 * 15 14 13 17 17 N 1.46900 * 109.47006 * 180.02562 * 16 15 14 18 18 C 1.39919 * 119.99979 * 269.99576 * 10 9 7 19 19 C 1.38904 * 120.06116 * 111.84718 * 18 10 9 20 20 C 1.38096 * 119.95141 * 179.72536 * 19 18 10 21 21 C 1.38287 * 120.08800 * 0.57669 * 20 19 18 22 22 C 1.38388 * 120.12143 * 359.69878 * 21 20 19 23 23 Cl 1.73602 * 119.97224 * 180.02562 * 22 21 20 24 24 C 1.38247 * 120.04616 * 0.02562 * 22 21 20 25 25 H 0.96994 * 120.00240 * 359.97438 * 1 2 3 26 26 H 1.08997 * 109.47547 * 59.99713 * 9 7 2 27 27 H 1.09003 * 109.46973 * 299.99213 * 9 7 2 28 28 H 1.09002 * 109.47138 * 60.00510 * 13 11 10 29 29 H 1.08997 * 109.47369 * 300.00165 * 13 11 10 30 30 H 1.09001 * 109.47594 * 299.99964 * 15 14 13 31 31 H 1.08998 * 109.47329 * 60.00523 * 15 14 13 32 32 H 1.09000 * 109.47255 * 300.00170 * 16 15 14 33 33 H 1.09000 * 109.47094 * 60.00301 * 16 15 14 34 34 H 1.00903 * 111.00061 * 56.05005 * 17 16 15 35 35 H 1.00901 * 110.99852 * 179.97438 * 17 16 15 36 36 H 1.07991 * 120.02493 * 0.02562 * 19 18 10 37 37 H 1.07999 * 119.95869 * 180.27621 * 20 19 18 38 38 H 1.07998 * 119.94229 * 179.72351 * 21 20 19 39 39 H 1.07994 * 120.04076 * 180.02562 * 24 22 21 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 2.4965 2.0465 -1.4001 5 1 1.4466 2.6527 0.7000 6 1 3.5467 1.4402 0.6999 7 6 2.0046 -1.1941 -0.0005 8 1 1.4646 -2.1294 -0.0005 9 6 3.5115 -1.1940 0.0000 10 7 3.9999 -2.5752 -0.0001 11 6 4.2250 -3.2103 -1.1673 12 8 4.7100 -4.3220 -1.1692 13 6 3.8740 -2.5392 -2.4702 14 16 4.2936 -3.6399 -3.8497 15 6 3.8061 -2.6738 -5.3055 16 6 4.1004 -3.4781 -6.5733 17 7 3.7061 -2.6954 -7.7523 18 6 4.2328 -3.2351 1.2116 19 6 3.4257 -4.3004 1.5900 20 6 3.6611 -4.9536 2.7838 21 6 4.6916 -4.5410 3.6084 22 6 5.4941 -3.4763 3.2374 23 17 6.7872 -2.9620 4.2753 24 6 5.2668 -2.8222 2.0408 25 1 -0.4850 0.8400 0.0004 26 1 3.8746 -0.6807 0.8904 27 1 3.8752 -0.6796 -0.8895 28 1 4.4363 -1.6100 -2.5633 29 1 2.8062 -2.3213 -2.4906 30 1 2.7398 -2.4533 -5.2549 31 1 4.3693 -1.7409 -5.3278 32 1 5.1666 -3.6990 -6.6242 33 1 3.5368 -4.4108 -6.5509 34 1 4.1674 -1.7981 -7.7614 35 1 3.8911 -3.2053 -8.6031 36 1 2.6179 -4.6207 0.9490 37 1 3.0365 -5.7848 3.0760 38 1 4.8708 -5.0507 4.5435 39 1 5.8934 -1.9917 1.7512 RHF calculation, no. of doubly occupied orbitals= 55 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) Cl: (AM1): M.J.S. DEWAR AND E. G. ZOEBISCH, THEOCHEM, 180, 1 (1988). 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 ZINC001580052041.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 15:22:01 Heat of formation + Delta-G solvation = -27.753016 kcal Electronic energy + Delta-G solvation = -22828.905808 eV Core-core repulsion = 19308.928981 eV Total energy + Delta-G solvation = -3519.976827 eV No. of doubly occupied orbitals = 55 Molecular weight (most abundant/longest-lived isotopes) = 328.075 amu Computer time = 0.66 seconds Orbital eigenvalues (eV) -41.60954 -39.64233 -37.57212 -36.81315 -36.30130 -34.64436 -32.29055 -31.80696 -30.54371 -29.97408 -29.28003 -24.76753 -24.12794 -23.56846 -23.20354 -20.68975 -19.16486 -18.74621 -18.02119 -17.59907 -17.12532 -17.05185 -16.67050 -16.16016 -16.11009 -15.92924 -15.68038 -15.27732 -14.94189 -14.75186 -14.52060 -14.31745 -13.98123 -13.81030 -13.48865 -13.26734 -12.99861 -12.80911 -12.71240 -12.55845 -12.50198 -12.41324 -12.12420 -11.95613 -11.75996 -11.15321 -10.99836 -10.82247 -10.31184 -9.84635 -9.70494 -9.42081 -8.72575 -8.33572 -6.42375 0.08098 0.17629 0.38397 1.02865 1.36156 1.39801 1.42304 1.47687 1.50266 2.04775 2.30405 2.56452 2.99795 3.47110 3.71342 3.82302 3.87342 3.97138 4.01441 4.01985 4.08250 4.26831 4.33036 4.41429 4.47098 4.62385 4.65951 4.75606 4.75732 4.89637 5.10179 5.24741 5.28807 5.33708 5.52193 5.82091 6.06406 6.11869 6.32567 6.55217 6.62613 7.00374 7.23202 8.82151 Molecular weight = 328.08amu Principal moments of inertia in cm(-1) A = 0.009199 B = 0.004144 C = 0.003202 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 3043.066449 B = 6754.938111 C = 8742.724448 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.936 5.936 2 C 0.026 3.974 3 Si 0.933 3.067 4 H -0.256 1.256 5 H -0.286 1.286 6 H -0.241 1.241 7 C -0.542 4.542 8 H 0.034 0.966 9 C 0.216 3.784 10 N -0.554 5.554 11 C 0.537 3.463 12 O -0.555 6.555 13 C -0.107 4.107 14 S -0.221 6.221 15 C -0.093 4.093 16 C 0.086 3.914 17 N -0.852 5.852 18 C 0.151 3.849 19 C -0.121 4.121 20 C -0.091 4.091 21 C -0.110 4.110 22 C -0.029 4.029 23 Cl -0.059 7.059 24 C -0.126 4.126 25 H 0.269 0.731 26 H 0.046 0.954 27 H 0.058 0.942 28 H 0.129 0.871 29 H 0.114 0.886 30 H 0.083 0.917 31 H 0.093 0.907 32 H 0.043 0.957 33 H 0.074 0.926 34 H 0.350 0.650 35 H 0.357 0.643 36 H 0.109 0.891 37 H 0.165 0.835 38 H 0.167 0.833 39 H 0.137 0.863 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 11.821 -3.551 -2.708 12.637 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 -0.575 5.575 2 C -0.174 4.174 3 Si 0.755 3.245 4 H -0.180 1.180 5 H -0.212 1.212 6 H -0.164 1.164 7 C -0.580 4.580 8 H 0.053 0.947 9 C 0.096 3.904 10 N -0.281 5.281 11 C 0.326 3.674 12 O -0.434 6.434 13 C -0.258 4.258 14 S 0.004 5.996 15 C -0.242 4.242 16 C -0.046 4.046 17 N -0.386 5.386 18 C 0.060 3.940 19 C -0.141 4.141 20 C -0.109 4.109 21 C -0.128 4.128 22 C -0.056 4.056 23 Cl -0.030 7.030 24 C -0.146 4.146 25 H 0.079 0.921 26 H 0.064 0.936 27 H 0.075 0.925 28 H 0.147 0.853 29 H 0.133 0.867 30 H 0.101 0.899 31 H 0.112 0.888 32 H 0.062 0.938 33 H 0.093 0.907 34 H 0.163 0.837 35 H 0.172 0.828 36 H 0.127 0.873 37 H 0.183 0.817 38 H 0.184 0.816 39 H 0.155 0.845 Dipole moment (debyes) X Y Z Total from point charges 11.741 -4.991 -2.321 12.967 hybrid contribution 0.013 2.167 -0.160 2.172 sum 11.754 -2.824 -2.481 12.340 Atomic orbital electron populations 1.70031 1.08296 1.28473 1.50707 1.25700 0.95395 1.02791 0.93511 0.85935 0.79879 0.78715 0.79979 1.18019 1.21162 1.16400 1.21362 0.90612 0.93498 1.52572 0.94722 1.19862 0.93716 0.77590 0.99249 1.45455 1.63864 1.15779 1.03052 1.20012 0.77057 0.85292 0.85055 1.90671 1.44918 1.20394 1.87415 1.23408 1.07346 1.02142 0.92868 1.87140 1.83966 1.28998 0.99518 1.23466 1.04988 1.01478 0.94292 1.21267 0.99073 0.96226 0.88007 1.58630 1.67158 1.08221 1.04573 1.17627 0.94737 0.94481 0.87135 1.21478 0.98306 0.96403 0.97913 1.21290 0.97497 0.99838 0.92293 1.21372 0.94428 0.95604 1.01423 1.20756 0.93810 0.98351 0.92702 1.98352 1.48319 1.90452 1.65897 1.21106 0.97504 1.01814 0.94216 0.92136 0.93576 0.92468 0.85287 0.86730 0.89864 0.88794 0.93841 0.90733 0.83680 0.82797 0.87267 0.81735 0.81592 0.84490 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 -0.94 -53.96 13.96 21.45 0.30 -53.66 16 2 C 0.03 1.35 5.47 84.65 0.46 1.82 16 3 Si 0.93 38.25 27.47 68.60 1.88 40.13 16 4 H -0.26 -9.81 7.11 99.48 0.71 -9.10 16 5 H -0.29 -11.96 7.11 99.48 0.71 -11.25 16 6 H -0.24 -8.94 6.54 99.48 0.65 -8.29 16 7 C -0.54 -27.81 9.71 25.60 0.25 -27.56 16 8 H 0.03 2.06 8.06 -2.91 -0.02 2.03 16 9 C 0.22 9.01 3.95 85.63 0.34 9.35 16 10 N -0.55 -22.45 2.50 -635.32 -1.59 -24.04 16 11 C 0.54 21.70 7.55 87.66 0.66 22.36 16 12 O -0.56 -24.83 15.63 -3.04 -0.05 -24.87 16 13 C -0.11 -3.70 5.09 71.24 0.36 -3.34 16 14 S -0.22 -6.97 20.87 -56.49 -1.18 -8.15 16 15 C -0.09 -2.21 6.20 71.98 0.45 -1.76 16 16 C 0.09 1.70 6.79 86.30 0.59 2.29 16 17 N -0.85 -13.88 9.62 -186.71 -1.80 -15.68 16 18 C 0.15 5.82 4.74 38.15 0.18 6.00 16 19 C -0.12 -4.42 9.56 22.40 0.21 -4.20 16 20 C -0.09 -2.51 10.04 22.25 0.22 -2.29 16 21 C -0.11 -2.76 9.83 22.32 0.22 -2.54 16 22 C -0.03 -0.82 6.32 22.31 0.14 -0.68 16 23 Cl -0.06 -1.43 28.95 -2.72 -0.08 -1.51 16 24 C -0.13 -4.21 9.47 22.41 0.21 -4.00 16 25 H 0.27 14.54 8.31 -92.71 -0.77 13.77 16 26 H 0.05 1.89 6.92 -2.39 -0.02 1.87 16 27 H 0.06 2.13 5.90 -2.39 -0.01 2.12 16 28 H 0.13 3.79 7.26 -2.39 -0.02 3.77 16 29 H 0.11 4.29 7.91 -2.39 -0.02 4.27 16 30 H 0.08 2.14 8.14 -2.39 -0.02 2.13 16 31 H 0.09 1.93 8.14 -2.39 -0.02 1.91 16 32 H 0.04 0.80 8.14 -2.39 -0.02 0.78 16 33 H 0.07 1.59 8.14 -2.39 -0.02 1.57 16 34 H 0.35 4.70 8.99 -89.69 -0.81 3.89 16 35 H 0.36 4.34 9.08 -89.69 -0.81 3.52 16 36 H 0.11 4.30 8.06 -2.92 -0.02 4.28 16 37 H 0.17 3.40 8.06 -2.91 -0.02 3.38 16 38 H 0.17 2.98 8.06 -2.91 -0.02 2.96 16 39 H 0.14 4.28 8.06 -2.91 -0.02 4.26 16 Total: -1.00 -65.67 361.71 1.20 -64.47 By element: Atomic # 1 Polarization: 28.46 SS G_CDS: -0.59 Total: 27.87 kcal Atomic # 6 Polarization: -8.86 SS G_CDS: 4.30 Total: -4.57 kcal Atomic # 7 Polarization: -90.29 SS G_CDS: -3.09 Total: -93.38 kcal Atomic # 8 Polarization: -24.83 SS G_CDS: -0.05 Total: -24.87 kcal Atomic # 14 Polarization: 38.25 SS G_CDS: 1.88 Total: 40.13 kcal Atomic # 16 Polarization: -6.97 SS G_CDS: -1.18 Total: -8.15 kcal Atomic # 17 Polarization: -1.43 SS G_CDS: -0.08 Total: -1.51 kcal Total: -65.67 1.20 -64.47 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. ZINC001580052041.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 36.717 kcal (2) G-P(sol) polarization free energy of solvation -65.668 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -28.952 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.199 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -64.470 kcal (6) G-S(sol) free energy of system = (1) + (5) -27.753 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.66 seconds