Wall clock time and date at job start Tue Mar 31 2020 14:29:21 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 1.30833 * 1 3 3 Si 1.86798 * 119.99850 * 2 1 4 4 H 1.48503 * 109.47013 * 275.40956 * 3 2 1 5 5 H 1.48498 * 109.47142 * 35.40695 * 3 2 1 6 6 H 1.48500 * 109.47434 * 155.40746 * 3 2 1 7 7 C 1.39936 * 120.00121 * 179.97438 * 2 1 3 8 8 H 1.08006 * 119.99640 * 341.82263 * 7 2 1 9 9 C 1.41432 * 119.99939 * 161.82956 * 7 2 1 10 10 C 1.40782 * 120.17716 * 150.22344 * 9 7 2 11 11 C 1.37700 * 120.01908 * 179.72114 * 10 9 7 12 12 C 1.38394 * 120.40377 * 359.97438 * 11 10 9 13 13 C 1.39809 * 120.36212 * 0.02562 * 12 11 10 14 14 C 1.48032 * 120.01570 * 180.02562 * 13 12 11 15 15 O 1.35244 * 120.00244 * 180.02562 * 14 13 12 16 16 N 1.29982 * 120.00005 * 359.97438 * 14 13 12 17 17 S 1.65602 * 119.99750 * 180.02562 * 16 14 13 18 18 O 1.42101 * 106.39932 * 293.53530 * 17 16 14 19 19 O 1.42094 * 106.40288 * 66.45922 * 17 16 14 20 20 N 1.65600 * 107.21560 * 179.97438 * 17 16 14 21 21 C 1.47020 * 125.64859 * 269.69200 * 20 17 16 22 22 C 1.54314 * 107.27539 * 180.96873 * 21 20 17 23 23 C 1.55156 * 102.86398 * 22.52222 * 22 21 20 24 24 C 1.47429 * 125.64805 * 89.99372 * 20 17 16 25 25 C 1.38940 * 119.97028 * 0.04113 * 13 12 11 26 26 H 0.96999 * 119.99964 * 0.02562 * 1 2 3 27 27 H 1.07998 * 119.99184 * 359.69850 * 10 9 7 28 28 H 1.08005 * 119.79788 * 179.97438 * 11 10 9 29 29 H 1.08005 * 119.81800 * 180.02562 * 12 11 10 30 30 H 0.96695 * 114.00203 * 180.02562 * 15 14 13 31 31 H 1.09001 * 109.87665 * 300.51099 * 21 20 17 32 32 H 1.09000 * 109.88189 * 61.67508 * 21 20 17 33 33 H 1.09003 * 110.92040 * 264.10561 * 22 21 20 34 34 H 1.09001 * 110.58831 * 140.78458 * 22 21 20 35 35 H 1.09001 * 111.00302 * 206.23035 * 23 22 21 36 36 H 1.09002 * 111.00169 * 82.37938 * 23 22 21 37 37 H 1.08996 * 110.37180 * 274.67459 * 24 20 17 38 38 H 1.09002 * 110.36474 * 36.88829 * 24 20 17 39 39 H 1.08002 * 120.19921 * 179.97438 * 25 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 2.3754 2.1124 -1.3939 5 1 1.5015 2.6170 0.8112 6 1 3.5923 1.4100 0.5826 7 6 2.0080 -1.2119 0.0005 8 1 1.5084 -2.1237 0.2928 9 6 3.3695 -1.2425 -0.3814 10 6 4.2367 -2.2065 0.1669 11 6 5.5603 -2.2370 -0.2116 12 6 6.0471 -1.3243 -1.1310 13 6 5.2004 -0.3600 -1.6858 14 6 5.7291 0.6122 -2.6690 15 8 4.9099 1.5452 -3.2051 16 7 6.9809 0.5699 -3.0163 17 16 7.5725 1.6579 -4.1156 18 8 6.9381 1.3635 -5.3527 19 8 7.5071 2.9334 -3.4928 20 7 9.1806 1.3209 -4.3222 21 6 10.2846 1.9019 -3.5444 22 6 11.5977 1.3150 -4.1037 23 6 11.1977 0.8784 -5.5378 24 6 9.7427 0.3932 -5.3208 25 6 3.8625 -0.3144 -1.3138 26 1 -0.4850 0.8400 -0.0004 27 1 3.8639 -2.9220 0.8848 28 1 6.2226 -2.9778 0.2116 29 1 7.0869 -1.3571 -1.4214 30 1 5.3448 2.1344 -3.8366 31 1 10.2848 2.9863 -3.6542 32 1 10.1789 1.6335 -2.4933 33 1 11.9219 0.4565 -3.5155 34 1 12.3756 2.0779 -4.1356 35 1 11.8323 0.0651 -5.8899 36 1 11.2294 1.7228 -6.2264 37 1 9.7362 -0.6269 -4.9369 38 1 9.1789 0.4510 -6.2519 39 1 3.2052 0.4292 -1.7397 RHF calculation, no. of doubly occupied orbitals= 57 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 ZINC000052771351.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 14:29:21 Heat of formation + Delta-G solvation = -91.988384 kcal Electronic energy + Delta-G solvation = -25234.300441 eV Core-core repulsion = 21461.285046 eV Total energy + Delta-G solvation = -3773.015395 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 324.098 amu Computer time = 0.58 seconds Orbital eigenvalues (eV) -41.48518 -39.51845 -39.27938 -38.69632 -37.38738 -35.81553 -35.08026 -32.37658 -32.05181 -31.96173 -29.99466 -27.14528 -25.84272 -23.80107 -23.41025 -22.15342 -21.79274 -21.14077 -19.76765 -19.38221 -19.24089 -17.99140 -17.61284 -17.12327 -16.89260 -16.57403 -16.24844 -16.20391 -15.62551 -15.03147 -14.82375 -14.80256 -14.47451 -14.31646 -14.02113 -13.98863 -13.75105 -13.66699 -13.55591 -13.51932 -12.88494 -12.80700 -12.69343 -12.33401 -12.20261 -12.12019 -12.06850 -11.82924 -11.73430 -11.57240 -11.50944 -11.09281 -10.18462 -9.75244 -9.60745 -8.93955 -6.54670 -0.88270 -0.63289 0.72877 1.02235 1.26878 1.36032 1.41231 1.48943 1.56435 1.89815 2.05630 2.53614 3.06800 3.38158 3.50671 3.73096 3.81738 4.04396 4.15946 4.21216 4.28676 4.46674 4.49439 4.52391 4.62781 4.80094 4.82964 4.84829 4.93036 4.94432 4.98438 5.12649 5.14410 5.29711 5.32650 5.40041 5.52261 5.74223 5.76825 5.95576 6.11412 6.27902 6.58930 6.76718 8.13918 Molecular weight = 324.10amu Principal moments of inertia in cm(-1) A = 0.022071 B = 0.003680 C = 0.003378 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1268.341065 B = 7606.175080 C = 8286.692175 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.842 5.842 2 C 0.057 3.943 3 Si 0.932 3.068 4 H -0.264 1.264 5 H -0.272 1.272 6 H -0.249 1.249 7 C -0.477 4.477 8 H 0.073 0.927 9 C 0.060 3.940 10 C -0.159 4.159 11 C -0.091 4.091 12 C -0.133 4.133 13 C -0.067 4.067 14 C 0.543 3.457 15 O -0.495 6.495 16 N -1.003 6.003 17 S 2.745 3.255 18 O -1.014 7.014 19 O -1.015 7.015 20 N -0.993 5.993 21 C 0.105 3.895 22 C -0.118 4.118 23 C -0.121 4.121 24 C 0.101 3.899 25 C -0.200 4.200 26 H 0.294 0.706 27 H 0.127 0.873 28 H 0.157 0.843 29 H 0.146 0.854 30 H 0.394 0.606 31 H 0.068 0.932 32 H 0.068 0.932 33 H 0.092 0.908 34 H 0.103 0.897 35 H 0.112 0.888 36 H 0.079 0.921 37 H 0.080 0.920 38 H 0.073 0.927 39 H 0.102 0.898 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 22.498 1.244 -6.895 23.563 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 -0.468 5.468 2 C -0.158 4.158 3 Si 0.756 3.244 4 H -0.189 1.189 5 H -0.199 1.199 6 H -0.172 1.172 7 C -0.506 4.506 8 H 0.091 0.909 9 C 0.058 3.942 10 C -0.179 4.179 11 C -0.109 4.109 12 C -0.153 4.153 13 C -0.071 4.071 14 C 0.330 3.670 15 O -0.288 6.288 16 N -0.869 5.869 17 S 2.757 3.243 18 O -0.996 6.996 19 O -0.998 6.998 20 N -0.838 5.838 21 C -0.020 4.020 22 C -0.157 4.157 23 C -0.160 4.160 24 C -0.023 4.023 25 C -0.221 4.221 26 H 0.104 0.896 27 H 0.145 0.855 28 H 0.175 0.825 29 H 0.164 0.836 30 H 0.251 0.749 31 H 0.086 0.914 32 H 0.087 0.913 33 H 0.110 0.890 34 H 0.122 0.878 35 H 0.130 0.870 36 H 0.097 0.903 37 H 0.099 0.901 38 H 0.091 0.909 39 H 0.120 0.880 Dipole moment (debyes) X Y Z Total from point charges 21.785 1.552 -6.919 22.910 hybrid contribution -0.591 1.485 -0.580 1.700 sum 21.194 3.037 -7.499 22.686 Atomic orbital electron populations 1.69699 1.08816 1.31318 1.36972 1.26579 0.95156 1.03397 0.90712 0.85967 0.80411 0.78363 0.79619 1.18928 1.19854 1.17203 1.19454 0.94049 0.95824 1.41297 0.90890 1.17790 0.93353 0.92395 0.90695 1.21700 0.93583 1.01235 1.01410 1.21160 0.95164 0.98236 0.96332 1.21055 0.99643 0.95261 0.99356 1.17936 0.94376 0.96657 0.98136 1.22482 0.82160 0.80581 0.81744 1.85234 1.43210 1.43283 1.57104 1.74148 1.19252 1.51183 1.42304 1.02889 0.74453 0.73254 0.73752 1.93629 1.74377 1.85298 1.46286 1.93626 1.86506 1.42239 1.77392 1.58002 1.20506 1.58111 1.47148 1.22091 0.86398 0.98108 0.95356 1.22667 0.94681 1.02407 0.95906 1.22805 0.93072 1.02743 0.97356 1.22440 0.96332 0.93053 0.90455 1.21353 0.94564 1.04043 1.02151 0.89586 0.85523 0.82513 0.83631 0.74914 0.91358 0.91312 0.88985 0.87838 0.86985 0.90278 0.90124 0.90862 0.87982 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 -0.84 -45.29 13.93 21.82 0.30 -44.98 16 2 C 0.06 3.00 5.40 85.25 0.46 3.47 16 3 Si 0.93 42.74 24.52 68.60 1.68 44.42 16 4 H -0.26 -12.05 6.71 99.48 0.67 -11.39 16 5 H -0.27 -11.71 7.11 99.48 0.71 -11.00 16 6 H -0.25 -11.43 6.87 99.48 0.68 -10.75 16 7 C -0.48 -25.17 9.57 23.47 0.22 -24.94 16 8 H 0.07 4.04 8.06 -2.91 -0.02 4.02 16 9 C 0.06 2.86 5.10 -21.32 -0.11 2.75 16 10 C -0.16 -6.28 9.78 22.76 0.22 -6.06 16 11 C -0.09 -3.01 10.01 22.18 0.22 -2.79 16 12 C -0.13 -4.71 9.58 22.69 0.22 -4.49 16 13 C -0.07 -2.81 5.87 -20.13 -0.12 -2.93 16 14 C 0.54 21.55 7.89 87.57 0.69 22.24 16 15 O -0.49 -19.58 12.80 -85.09 -1.09 -20.67 16 16 N -1.00 -35.27 10.07 -166.91 -1.68 -36.95 16 17 S 2.74 89.99 4.91 -56.49 -0.28 89.71 16 18 O -1.01 -36.96 16.78 -127.13 -2.13 -39.09 16 19 O -1.02 -37.32 17.04 -127.11 -2.17 -39.48 16 20 N -0.99 -24.29 3.76 -506.44 -1.90 -26.20 16 21 C 0.10 1.98 6.98 86.73 0.61 2.58 16 22 C -0.12 -1.24 6.95 31.78 0.22 -1.02 16 23 C -0.12 -1.31 7.08 31.98 0.23 -1.08 16 24 C 0.10 1.87 7.11 86.85 0.62 2.49 16 25 C -0.20 -9.35 6.75 22.99 0.16 -9.20 16 26 H 0.29 14.34 8.30 -92.71 -0.77 13.57 16 27 H 0.13 4.53 8.06 -2.91 -0.02 4.51 16 28 H 0.16 3.75 8.06 -2.91 -0.02 3.73 16 29 H 0.15 4.46 7.54 -2.91 -0.02 4.44 16 30 H 0.39 13.55 5.71 -78.39 -0.45 13.10 16 31 H 0.07 1.30 8.14 -2.39 -0.02 1.28 16 32 H 0.07 1.29 8.14 -2.39 -0.02 1.27 16 33 H 0.09 0.77 8.14 -2.39 -0.02 0.76 16 34 H 0.10 0.69 8.14 -2.39 -0.02 0.67 16 35 H 0.11 0.66 8.14 -2.39 -0.02 0.64 16 36 H 0.08 0.83 8.14 -2.39 -0.02 0.81 16 37 H 0.08 1.33 8.14 -2.39 -0.02 1.31 16 38 H 0.07 1.46 7.78 -2.39 -0.02 1.44 16 39 H 0.10 5.01 4.28 -2.91 -0.01 5.00 16 Total: -1.00 -65.77 337.32 -3.04 -68.81 By element: Atomic # 1 Polarization: 22.84 SS G_CDS: 0.58 Total: 23.42 kcal Atomic # 6 Polarization: -22.62 SS G_CDS: 3.64 Total: -18.99 kcal Atomic # 7 Polarization: -104.85 SS G_CDS: -3.28 Total: -108.13 kcal Atomic # 8 Polarization: -93.86 SS G_CDS: -5.39 Total: -99.25 kcal Atomic # 14 Polarization: 42.74 SS G_CDS: 1.68 Total: 44.42 kcal Atomic # 16 Polarization: 89.99 SS G_CDS: -0.28 Total: 89.71 kcal Total: -65.77 -3.04 -68.81 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. ZINC000052771351.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 -23.175 kcal (2) G-P(sol) polarization free energy of solvation -65.769 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -88.945 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -3.044 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -68.813 kcal (6) G-S(sol) free energy of system = (1) + (5) -91.988 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.58 seconds