Wall clock time and date at job start Tue Mar 31 2020 13:36:18 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 1.30825 * 1 3 3 Si 1.86799 * 120.00013 * 2 1 4 4 H 1.48504 * 109.47178 * 239.99739 * 3 2 1 5 5 H 1.48503 * 109.47360 * 359.97438 * 3 2 1 6 6 H 1.48498 * 109.47679 * 119.99645 * 3 2 1 7 7 C 1.39924 * 120.00198 * 179.97438 * 2 1 3 8 8 H 1.08004 * 120.00364 * 168.45270 * 7 2 1 9 9 C 1.41416 * 119.99952 * 348.45097 * 7 2 1 10 10 C 1.40787 * 120.20609 * 332.60100 * 9 7 2 11 11 C 1.37648 * 119.89340 * 179.97438 * 10 9 7 12 12 C 1.38521 * 120.32918 * 0.02562 * 11 10 9 13 13 C 1.39306 * 120.41951 * 359.97362 * 12 11 10 14 14 N 1.39751 * 119.95211 * 179.97438 * 13 12 11 15 15 C 1.38513 * 119.99985 * 150.05005 * 14 13 12 16 16 N 1.30231 * 125.58392 * 354.33926 * 15 14 13 17 17 N 1.26255 * 117.65630 * 179.97438 * 16 15 14 18 18 C 1.30448 * 116.37141 * 359.97438 * 17 16 15 19 19 C 1.47724 * 126.14674 * 180.02562 * 18 17 16 20 20 C 1.39602 * 119.75385 * 359.97266 * 19 18 17 21 21 C 1.38308 * 119.04762 * 179.97438 * 20 19 18 22 22 C 1.38849 * 118.53872 * 0.02562 * 21 20 19 23 23 C 1.38253 * 119.41396 * 359.97438 * 22 21 20 24 24 N 1.31743 * 120.91865 * 359.72029 * 23 22 21 25 25 S 1.71280 * 125.58685 * 174.28760 * 15 14 13 26 26 C 1.38327 * 120.09540 * 0.27794 * 13 12 11 27 27 H 0.97003 * 120.00521 * 0.02562 * 1 2 3 28 28 H 1.07997 * 120.05451 * 0.02562 * 10 9 7 29 29 H 1.08002 * 119.83840 * 179.97438 * 11 10 9 30 30 H 1.07994 * 119.79108 * 179.97438 * 12 11 10 31 31 H 0.97003 * 119.99981 * 330.06291 * 14 13 12 32 32 H 1.08003 * 120.47297 * 0.02562 * 20 19 18 33 33 H 1.08010 * 120.72742 * 180.02562 * 21 20 19 34 34 H 1.07999 * 120.29538 * 180.02562 * 22 21 20 35 35 H 1.07996 * 119.54045 * 179.97438 * 23 22 21 36 36 H 1.08000 * 120.16168 * 179.71988 * 26 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 1.3083 0.0000 0.0000 3 14 2.2423 1.6177 0.0000 4 1 3.0961 1.6964 -1.2125 5 1 1.2773 2.7465 -0.0006 6 1 3.0960 1.6966 1.2125 7 6 2.0079 -1.2118 0.0005 8 1 3.0716 -1.2213 -0.1867 9 6 1.3223 -2.4240 0.2463 10 6 0.1500 -2.4292 1.0258 11 6 -0.5125 -3.6128 1.2605 12 6 -0.0312 -4.8001 0.7338 13 6 1.1275 -4.8103 -0.0394 14 7 1.6047 -6.0139 -0.5655 15 6 2.3060 -6.0179 -1.7600 16 7 2.4928 -4.9862 -2.5325 17 7 3.1587 -5.1597 -3.5910 18 6 3.5986 -6.3686 -3.8073 19 6 4.3957 -6.8109 -4.9698 20 6 4.7407 -5.8925 -5.9630 21 6 5.4878 -6.3223 -7.0447 22 6 5.8668 -7.6569 -7.1009 23 6 5.4908 -8.5129 -6.0825 24 7 4.7839 -8.0784 -5.0592 25 16 3.0706 -7.3801 -2.4623 26 6 1.8100 -3.6318 -0.2819 27 1 -0.4851 0.8400 -0.0004 28 1 -0.2294 -1.5061 1.4383 29 1 -1.4115 -3.6158 1.8590 30 1 -0.5577 -5.7237 0.9237 31 1 1.4445 -6.8465 -0.0943 32 1 4.4293 -4.8611 -5.8874 33 1 5.7702 -5.6348 -7.8284 34 1 6.4508 -8.0228 -7.9324 35 1 5.7841 -9.5515 -6.1243 36 1 2.7110 -3.6392 -0.8774 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) 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 ZINC001651858071.mol2 36 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 13:36:18 Heat of formation + Delta-G solvation = 114.125427 kcal Electronic energy + Delta-G solvation = -22678.967526 eV Core-core repulsion = 19254.491568 eV Total energy + Delta-G solvation = -3424.475958 eV No. of doubly occupied orbitals = 55 Molecular weight (most abundant/longest-lived isotopes) = 324.074 amu Computer time = 0.25 seconds Orbital eigenvalues (eV) -42.24016 -40.95541 -39.85371 -37.25129 -35.20248 -33.75124 -33.33669 -31.81966 -30.81492 -29.73953 -27.47866 -26.89511 -24.70029 -24.29959 -23.02845 -22.84090 -21.11060 -20.42914 -19.31798 -18.48971 -17.78190 -17.27937 -17.08406 -16.94594 -16.63025 -16.41598 -16.20109 -15.27886 -15.00227 -14.91372 -14.69921 -14.39871 -14.03755 -13.99442 -13.81116 -13.24904 -12.86602 -12.81107 -12.75198 -12.42269 -12.17276 -11.95396 -11.71076 -11.43667 -11.17768 -11.05753 -10.93584 -10.82094 -10.57635 -10.35037 -9.63541 -9.38552 -8.61340 -8.42605 -6.38158 -0.93333 -0.46117 0.19584 0.25288 0.34958 0.96261 1.10319 1.36077 1.47921 1.50662 1.68346 1.96891 2.21761 2.70000 2.74340 2.85156 3.56957 3.72352 3.86822 3.94739 4.06740 4.12542 4.30188 4.45015 4.57475 4.59958 4.83501 4.94174 5.07867 5.12306 5.14822 5.18185 5.24142 5.35973 5.69532 5.76221 5.84118 6.04191 6.11853 6.22790 6.49777 6.70411 6.82749 6.95486 6.99952 7.63259 8.36469 Molecular weight = 324.07amu Principal moments of inertia in cm(-1) A = 0.014989 B = 0.003179 C = 0.002679 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1867.563998 B = 8804.599218 C =10449.994879 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.829 5.829 2 C 0.034 3.966 3 Si 0.983 3.017 4 H -0.266 1.266 5 H -0.262 1.262 6 H -0.258 1.258 7 C -0.497 4.497 8 H 0.064 0.936 9 C 0.092 3.908 10 C -0.193 4.193 11 C -0.090 4.090 12 C -0.247 4.247 13 C 0.163 3.837 14 N -0.600 5.600 15 C 0.241 3.759 16 N -0.358 5.358 17 N -0.228 5.228 18 C -0.004 4.004 19 C 0.172 3.828 20 C -0.142 4.142 21 C -0.070 4.070 22 C -0.147 4.147 23 C 0.099 3.901 24 N -0.498 5.498 25 S 0.206 5.794 26 C -0.232 4.232 27 H 0.288 0.712 28 H 0.108 0.892 29 H 0.125 0.875 30 H 0.133 0.867 31 H 0.437 0.563 32 H 0.134 0.866 33 H 0.172 0.828 34 H 0.182 0.818 35 H 0.196 0.804 36 H 0.094 0.906 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 9.259 -16.508 -10.985 21.884 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 -0.455 5.455 2 C -0.180 4.180 3 Si 0.803 3.197 4 H -0.191 1.191 5 H -0.186 1.186 6 H -0.182 1.182 7 C -0.527 4.527 8 H 0.082 0.918 9 C 0.089 3.911 10 C -0.213 4.213 11 C -0.109 4.109 12 C -0.269 4.269 13 C 0.067 3.933 14 N -0.232 5.232 15 C -0.129 4.129 16 N -0.207 5.207 17 N -0.067 5.067 18 C -0.285 4.285 19 C 0.034 3.966 20 C -0.165 4.165 21 C -0.096 4.096 22 C -0.167 4.167 23 C -0.060 4.060 24 N -0.209 5.209 25 S 0.448 5.552 26 C -0.254 4.254 27 H 0.098 0.902 28 H 0.126 0.874 29 H 0.143 0.857 30 H 0.151 0.849 31 H 0.278 0.722 32 H 0.152 0.848 33 H 0.189 0.811 34 H 0.199 0.801 35 H 0.213 0.787 36 H 0.112 0.888 Dipole moment (debyes) X Y Z Total from point charges 8.676 -16.537 -10.251 21.303 hybrid contribution 0.195 1.443 -0.313 1.490 sum 8.871 -15.094 -10.563 20.448 Atomic orbital electron populations 1.69841 1.08669 1.30372 1.36644 1.26693 0.95676 1.04250 0.91337 0.85254 0.78781 0.75777 0.79862 1.19098 1.18645 1.18199 1.19715 0.95927 0.92052 1.45034 0.91768 1.17790 0.92345 0.92275 0.88658 1.21414 0.99413 0.97545 1.02943 1.20829 0.98862 0.92052 0.99124 1.20404 0.97878 0.98748 1.09862 1.17486 0.94249 0.84277 0.97282 1.41176 1.54549 1.09668 1.17824 1.26263 0.97676 0.95242 0.93741 1.71696 1.21037 1.26085 1.01879 1.71642 1.07253 1.17410 1.10369 1.27463 1.08031 0.91908 1.01112 1.18139 0.96523 0.90877 0.91040 1.22206 0.98964 1.00897 0.94478 1.22003 0.93592 0.97371 0.96622 1.22748 0.99748 0.93477 1.00770 1.23381 0.92327 1.02116 0.88159 1.67522 1.12485 1.14129 1.26773 1.84174 1.47587 1.07715 1.15734 1.20958 1.03462 0.92781 1.08249 0.90178 0.87411 0.85717 0.84923 0.72209 0.84775 0.81060 0.80102 0.78749 0.88814 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 16. 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 -0.83 -45.31 10.79 21.82 0.24 -45.07 16 2 C 0.03 1.83 5.25 85.25 0.45 2.28 16 3 Si 0.98 40.78 29.57 68.60 2.03 42.81 16 4 H -0.27 -11.00 7.11 99.48 0.71 -10.29 16 5 H -0.26 -10.09 7.11 99.48 0.71 -9.38 16 6 H -0.26 -10.31 7.11 99.48 0.71 -9.61 16 7 C -0.50 -28.96 9.07 23.46 0.21 -28.75 16 8 H 0.06 3.71 7.87 -2.91 -0.02 3.69 16 9 C 0.09 5.30 5.56 -21.31 -0.12 5.18 16 10 C -0.19 -10.38 8.67 22.75 0.20 -10.18 16 11 C -0.09 -4.08 10.01 22.20 0.22 -3.86 16 12 C -0.25 -10.28 9.96 22.59 0.23 -10.06 16 13 C 0.16 7.29 6.40 38.16 0.24 7.53 16 14 N -0.60 -21.46 5.49 -190.43 -1.05 -22.50 16 15 C 0.24 9.07 7.87 179.20 1.41 10.48 16 16 N -0.36 -16.21 8.86 -59.30 -0.53 -16.73 16 17 N -0.23 -9.37 11.30 -49.55 -0.56 -9.93 16 18 C 0.00 -0.14 7.49 87.41 0.65 0.52 16 19 C 0.17 4.78 6.75 41.83 0.28 5.07 16 20 C -0.14 -3.32 9.73 22.62 0.22 -3.10 16 21 C -0.07 -1.01 10.16 22.43 0.23 -0.78 16 22 C -0.15 -1.55 10.11 22.42 0.23 -1.32 16 23 C 0.10 1.44 11.17 84.71 0.95 2.38 16 24 N -0.50 -11.71 10.15 -185.11 -1.88 -13.59 16 25 S 0.21 5.95 23.12 -56.49 -1.31 4.65 16 26 C -0.23 -12.41 8.52 22.86 0.19 -12.22 16 27 H 0.29 14.20 8.30 -92.71 -0.77 13.43 16 28 H 0.11 6.03 6.13 -2.91 -0.02 6.01 16 29 H 0.12 4.80 8.06 -2.91 -0.02 4.78 16 30 H 0.13 4.39 8.06 -2.91 -0.02 4.37 16 31 H 0.44 11.46 8.92 -92.71 -0.83 10.63 16 32 H 0.13 3.43 7.84 -2.91 -0.02 3.41 16 33 H 0.17 1.34 8.06 -2.91 -0.02 1.31 16 34 H 0.18 0.38 8.06 -2.91 -0.02 0.36 16 35 H 0.20 1.33 8.06 -2.91 -0.02 1.31 16 36 H 0.09 5.28 6.18 -2.91 -0.02 5.27 16 Total: -1.00 -74.79 332.87 2.87 -71.92 By element: Atomic # 1 Polarization: 24.95 SS G_CDS: 0.33 Total: 25.27 kcal Atomic # 6 Polarization: -42.42 SS G_CDS: 5.59 Total: -36.83 kcal Atomic # 7 Polarization: -104.05 SS G_CDS: -3.78 Total: -107.83 kcal Atomic # 14 Polarization: 40.78 SS G_CDS: 2.03 Total: 42.81 kcal Atomic # 16 Polarization: 5.95 SS G_CDS: -1.31 Total: 4.65 kcal Total: -74.79 2.87 -71.92 kcal The number of atoms in the molecule is 36 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. ZINC001651858071.mol2 36 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 186.046 kcal (2) G-P(sol) polarization free energy of solvation -74.787 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 111.259 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.867 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -71.920 kcal (6) G-S(sol) free energy of system = (1) + (5) 114.125 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.25 seconds