Wall clock time and date at job start Mon Mar 30 2020 01:39:12 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 1.31515 * 1 3 3 Si 1.86801 * 119.99691 * 2 1 4 4 H 1.48504 * 109.47194 * 180.02562 * 3 2 1 5 5 H 1.48496 * 109.47092 * 299.99535 * 3 2 1 6 6 H 1.48503 * 109.47394 * 59.99700 * 3 2 1 7 7 C 1.37872 * 120.00608 * 179.97438 * 2 1 3 8 8 H 1.08001 * 120.00472 * 179.97438 * 7 2 1 9 9 C 1.50702 * 119.99689 * 0.02562 * 7 2 1 10 10 S 1.81404 * 109.47314 * 179.97438 * 9 7 2 11 11 C 1.81394 * 103.00248 * 180.02562 * 10 9 7 12 12 C 1.53002 * 109.47140 * 180.02562 * 11 10 9 13 13 H 1.09003 * 110.54487 * 61.40398 * 12 11 10 14 14 C 1.55024 * 110.60699 * 184.42920 * 12 11 10 15 15 C 1.54883 * 102.09539 * 155.37197 * 14 12 11 16 16 C 1.53835 * 104.07475 * 339.12920 * 15 14 12 17 17 C 1.52878 * 109.75390 * 238.48031 * 16 15 14 18 18 C 1.53148 * 109.17181 * 183.09871 * 17 16 15 19 19 O 1.42904 * 109.39318 * 57.05322 * 18 17 16 20 20 C 1.42914 * 114.16786 * 298.57663 * 19 18 17 21 21 C 1.52888 * 109.74450 * 117.68836 * 16 15 14 22 22 O 1.43453 * 107.60894 * 358.09124 * 16 15 14 23 23 H 0.96995 * 119.99945 * 0.02562 * 1 2 3 24 24 H 1.08996 * 109.47212 * 60.00166 * 9 7 2 25 25 H 1.08993 * 109.47457 * 299.99762 * 9 7 2 26 26 H 1.09003 * 109.47154 * 59.99718 * 11 10 9 27 27 H 1.09008 * 109.47302 * 300.00081 * 11 10 9 28 28 H 1.09012 * 110.90686 * 273.56737 * 14 12 11 29 29 H 1.08996 * 110.91096 * 37.16997 * 14 12 11 30 30 H 1.08994 * 110.50926 * 220.48066 * 15 14 12 31 31 H 1.09004 * 110.50977 * 97.77456 * 15 14 12 32 32 H 1.09007 * 109.51487 * 63.19694 * 17 16 15 33 33 H 1.08994 * 109.52232 * 303.01300 * 17 16 15 34 34 H 1.09002 * 109.48686 * 177.03394 * 18 17 16 35 35 H 1.09002 * 109.48865 * 297.07424 * 18 17 16 36 36 H 1.08996 * 109.46890 * 301.45687 * 20 19 18 37 37 H 1.08992 * 109.49917 * 181.42042 * 20 19 18 38 38 H 1.09004 * 109.51577 * 296.81710 * 21 16 15 39 39 H 1.08995 * 109.52433 * 56.99849 * 21 16 15 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 1.3151 0.0000 0.0000 3 14 2.2491 1.6178 0.0000 4 1 3.7091 1.3465 -0.0006 5 1 1.8904 2.3964 -1.2125 6 1 1.8903 2.3966 1.2125 7 6 2.0046 -1.1939 0.0005 8 1 3.0846 -1.1939 0.0001 9 6 1.2512 -2.4991 0.0005 10 16 2.4300 -3.8779 0.0005 11 6 1.3519 -5.3366 -0.0003 12 6 2.2088 -6.6042 0.0003 13 1 2.8272 -6.6475 0.8969 14 6 1.3159 -7.8664 -0.1124 15 6 2.2917 -8.9004 -0.7270 16 6 3.3876 -8.0393 -1.3783 17 6 3.4717 -8.3532 -2.8721 18 6 4.6169 -7.5468 -3.4917 19 8 5.8352 -7.8518 -2.8099 20 6 5.8266 -7.5199 -1.4199 21 6 4.7335 -8.3252 -0.7116 22 8 3.0296 -6.6635 -1.1869 23 1 -0.4850 0.8400 -0.0004 24 1 0.6249 -2.5571 -0.8897 25 1 0.6242 -2.5567 0.8902 26 1 0.7230 -5.3231 -0.8904 27 1 0.7223 -5.3237 0.8896 28 1 0.9745 -8.1905 0.8708 29 1 0.4705 -7.6869 -0.7765 30 1 1.7840 -9.5049 -1.4785 31 1 2.7164 -9.5344 0.0514 32 1 2.5326 -8.0820 -3.3546 33 1 3.6593 -9.4179 -3.0106 34 1 4.7154 -7.8061 -4.5459 35 1 4.4043 -6.4819 -3.3976 36 1 5.6279 -6.4548 -1.3019 37 1 6.7959 -7.7595 -0.9827 38 1 4.6890 -8.0344 0.3380 39 1 4.9584 -9.3891 -0.7864 RHF calculation, no. of doubly occupied orbitals= 49 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 ZINC000882176950.mol2 39 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Mon Mar 30 2020 01:39:12 Heat of formation + Delta-G solvation = -130.152203 kcal Electronic energy + Delta-G solvation = -19279.846034 eV Core-core repulsion = 16312.076689 eV Total energy + Delta-G solvation = -2967.769345 eV No. of doubly occupied orbitals = 49 Molecular weight (most abundant/longest-lived isotopes) = 272.123 amu Computer time = 0.40 seconds Orbital eigenvalues (eV) -41.51205 -38.91804 -35.31188 -34.32168 -33.26704 -32.11027 -30.75811 -30.49347 -26.24528 -25.17451 -24.73816 -23.12813 -22.09578 -20.67572 -18.68430 -17.66091 -17.42896 -17.13145 -16.96607 -16.38030 -16.12855 -15.84145 -15.42431 -14.91691 -14.80243 -14.59854 -14.34969 -14.09952 -13.76046 -13.34158 -13.19683 -12.88413 -12.78033 -12.76414 -12.55632 -12.40585 -12.28111 -12.22311 -11.82618 -11.49244 -11.36919 -11.17720 -10.77126 -10.73608 -10.49441 -10.37832 -8.43058 -8.35411 -6.48547 0.99571 1.38173 1.38591 1.53823 2.05149 2.35324 2.79136 2.95771 2.98963 3.50795 3.65173 3.70178 3.93114 4.01895 4.04316 4.07784 4.29024 4.35229 4.37589 4.42740 4.59470 4.68822 4.72344 4.74931 4.78821 4.91292 4.91409 4.92182 4.93470 5.02820 5.08304 5.14231 5.17245 5.30265 5.55203 5.87399 6.09507 6.24297 6.58864 7.19569 8.77070 Molecular weight = 272.12amu Principal moments of inertia in cm(-1) A = 0.026006 B = 0.004173 C = 0.003813 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1076.409751 B = 6708.702687 C = 7341.374019 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.926 5.926 2 C 0.015 3.985 3 Si 0.977 3.023 4 H -0.267 1.267 5 H -0.272 1.272 6 H -0.270 1.270 7 C -0.536 4.536 8 H 0.059 0.941 9 C 0.091 3.909 10 S -0.308 6.308 11 C -0.073 4.073 12 C 0.097 3.903 13 H 0.075 0.925 14 C -0.138 4.138 15 C -0.134 4.134 16 C 0.087 3.913 17 C -0.139 4.139 18 C 0.057 3.943 19 O -0.399 6.399 20 C 0.059 3.941 21 C -0.158 4.158 22 O -0.372 6.372 23 H 0.271 0.729 24 H 0.010 0.990 25 H 0.015 0.985 26 H 0.075 0.925 27 H 0.097 0.903 28 H 0.102 0.898 29 H 0.078 0.922 30 H 0.095 0.905 31 H 0.095 0.905 32 H 0.081 0.919 33 H 0.101 0.899 34 H 0.109 0.891 35 H 0.033 0.967 36 H 0.032 0.968 37 H 0.106 0.894 38 H 0.077 0.923 39 H 0.097 0.903 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 4.955 -21.526 -1.842 22.166 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 -0.564 5.564 2 C -0.186 4.186 3 Si 0.800 3.200 4 H -0.191 1.191 5 H -0.197 1.197 6 H -0.195 1.195 7 C -0.575 4.575 8 H 0.077 0.923 9 C -0.057 4.057 10 S -0.081 6.081 11 C -0.222 4.222 12 C 0.039 3.961 13 H 0.093 0.907 14 C -0.177 4.177 15 C -0.172 4.172 16 C 0.048 3.952 17 C -0.176 4.176 18 C -0.019 4.019 19 O -0.318 6.318 20 C -0.017 4.017 21 C -0.196 4.196 22 O -0.292 6.292 23 H 0.080 0.920 24 H 0.028 0.972 25 H 0.033 0.967 26 H 0.093 0.907 27 H 0.115 0.885 28 H 0.120 0.880 29 H 0.097 0.903 30 H 0.113 0.887 31 H 0.114 0.886 32 H 0.100 0.900 33 H 0.120 0.880 34 H 0.127 0.873 35 H 0.051 0.949 36 H 0.051 0.949 37 H 0.124 0.876 38 H 0.096 0.904 39 H 0.116 0.884 Dipole moment (debyes) X Y Z Total from point charges 6.122 -21.278 -2.067 22.238 hybrid contribution -1.531 1.276 0.255 2.009 sum 4.591 -20.003 -1.812 20.602 Atomic orbital electron populations 1.70061 1.07667 1.28528 1.50191 1.25919 0.95903 1.03058 0.93726 0.85218 0.78675 0.77739 0.78346 1.19099 1.19698 1.19481 1.21017 0.93320 0.90341 1.52781 0.92282 1.20728 0.94185 0.93098 0.97661 1.86645 1.21008 1.02492 1.97944 1.23395 0.99724 0.94017 1.05019 1.22830 0.91199 0.92799 0.89287 0.90734 1.23180 0.98238 0.92938 1.03372 1.22974 0.95166 0.97723 1.01299 1.22131 0.94740 0.82250 0.96120 1.22277 0.99738 1.01891 0.93697 1.22625 0.84112 0.98119 0.97058 1.87841 1.36598 1.85066 1.22288 1.22579 1.00033 0.97875 0.81242 1.22581 0.94669 1.02080 1.00286 1.89052 1.69708 1.25773 1.44676 0.92032 0.97183 0.96686 0.90652 0.88452 0.87954 0.90281 0.88656 0.88643 0.90048 0.88045 0.87335 0.94859 0.94932 0.87576 0.90431 0.88419 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 -55.47 13.29 21.45 0.28 -55.18 16 2 C 0.01 0.84 5.46 84.65 0.46 1.30 16 3 Si 0.98 44.76 29.54 68.60 2.03 46.78 16 4 H -0.27 -12.00 7.11 99.48 0.71 -11.29 16 5 H -0.27 -11.96 7.11 99.48 0.71 -11.25 16 6 H -0.27 -11.78 7.11 99.48 0.71 -11.07 16 7 C -0.54 -31.82 9.13 25.60 0.23 -31.59 16 8 H 0.06 3.53 7.71 -2.91 -0.02 3.50 16 9 C 0.09 5.04 5.70 71.24 0.41 5.44 16 10 S -0.31 -14.21 21.39 -56.49 -1.21 -15.42 16 11 C -0.07 -2.49 5.73 71.98 0.41 -2.08 16 12 C 0.10 2.62 3.31 31.29 0.10 2.72 16 13 H 0.07 1.99 8.10 -2.39 -0.02 1.98 16 14 C -0.14 -2.51 6.59 31.93 0.21 -2.30 16 15 C -0.13 -2.03 6.27 31.52 0.20 -1.83 16 16 C 0.09 1.83 0.72 -10.59 -0.01 1.83 16 17 C -0.14 -2.68 4.92 30.60 0.15 -2.53 16 18 C 0.06 1.35 6.72 72.03 0.48 1.83 16 19 O -0.40 -10.33 10.76 -148.98 -1.60 -11.93 16 20 C 0.06 1.42 6.72 72.03 0.48 1.90 16 21 C -0.16 -3.10 4.87 30.60 0.15 -2.95 16 22 O -0.37 -11.09 9.43 -148.98 -1.41 -12.49 16 23 H 0.27 15.01 8.31 -92.71 -0.77 14.24 16 24 H 0.01 0.58 8.14 -2.39 -0.02 0.56 16 25 H 0.01 0.86 8.14 -2.39 -0.02 0.84 16 26 H 0.07 2.60 8.14 -2.39 -0.02 2.58 16 27 H 0.10 3.03 8.14 -2.39 -0.02 3.01 16 28 H 0.10 1.44 8.14 -2.38 -0.02 1.42 16 29 H 0.08 1.46 8.05 -2.39 -0.02 1.44 16 30 H 0.09 1.16 7.69 -2.39 -0.02 1.14 16 31 H 0.10 1.11 7.69 -2.38 -0.02 1.09 16 32 H 0.08 1.55 8.14 -2.38 -0.02 1.53 16 33 H 0.10 1.50 8.14 -2.39 -0.02 1.48 16 34 H 0.11 2.06 8.14 -2.39 -0.02 2.04 16 35 H 0.03 0.97 7.90 -2.39 -0.02 0.95 16 36 H 0.03 0.96 7.90 -2.39 -0.02 0.95 16 37 H 0.11 2.09 8.14 -2.39 -0.02 2.07 16 38 H 0.08 1.49 8.08 -2.38 -0.02 1.47 16 39 H 0.10 1.49 8.14 -2.39 -0.02 1.47 16 Total: -1.00 -68.72 324.68 2.38 -66.34 By element: Atomic # 1 Polarization: 9.15 SS G_CDS: 1.00 Total: 10.15 kcal Atomic # 6 Polarization: -31.54 SS G_CDS: 3.29 Total: -28.25 kcal Atomic # 7 Polarization: -55.47 SS G_CDS: 0.28 Total: -55.18 kcal Atomic # 8 Polarization: -21.42 SS G_CDS: -3.01 Total: -24.42 kcal Atomic # 14 Polarization: 44.76 SS G_CDS: 2.03 Total: 46.78 kcal Atomic # 16 Polarization: -14.21 SS G_CDS: -1.21 Total: -15.42 kcal Total: -68.72 2.38 -66.34 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. ZINC000882176950.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 -63.810 kcal (2) G-P(sol) polarization free energy of solvation -68.724 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -132.534 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.382 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -66.343 kcal (6) G-S(sol) free energy of system = (1) + (5) -130.152 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.40 seconds