Wall clock time and date at job start Tue Mar 31 2020 02:50:03 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 C 2 2 C 1.52997 * 1 3 3 S 1.81396 * 109.46949 * 2 1 4 4 C 1.81409 * 102.99858 * 180.02562 * 3 2 1 5 5 C 1.52995 * 109.47023 * 179.97438 * 4 3 2 6 6 C 1.52997 * 109.47207 * 179.97438 * 5 4 3 7 7 H 1.09003 * 109.46981 * 55.00378 * 6 5 4 8 8 C 1.53002 * 109.47303 * 174.99864 * 6 5 4 9 9 N 1.46501 * 109.47453 * 295.00083 * 6 5 4 10 10 C 1.38822 * 119.99981 * 154.99479 * 9 6 5 11 11 C 1.39794 * 119.58827 * 0.02562 * 10 9 6 12 12 C 1.38595 * 119.49187 * 179.97438 * 11 10 9 13 13 C 1.38382 * 118.67909 * 359.97438 * 12 11 10 14 14 C 1.40555 * 119.15495 * 359.97438 * 13 12 11 15 15 C 1.41312 * 119.78654 * 180.02562 * 14 13 12 16 16 H 1.07994 * 119.99836 * 359.97438 * 15 14 13 17 17 C 1.40030 * 119.99812 * 180.02562 * 15 14 13 18 18 N 1.30741 * 120.00024 * 359.97438 * 17 15 14 19 19 Si 1.86800 * 119.99798 * 180.02562 * 17 15 14 20 20 H 1.48495 * 109.47123 * 359.97438 * 19 17 15 21 21 H 1.48503 * 109.47089 * 119.99544 * 19 17 15 22 22 H 1.48499 * 109.46635 * 239.99541 * 19 17 15 23 23 N 1.31955 * 119.57837 * 180.02562 * 10 9 6 24 24 H 1.09003 * 109.47319 * 299.99634 * 1 2 3 25 25 H 1.08993 * 109.47601 * 60.00426 * 1 2 3 26 26 H 1.09007 * 109.47439 * 180.02562 * 1 2 3 27 27 H 1.09000 * 109.47010 * 239.99669 * 2 1 3 28 28 H 1.09002 * 109.47079 * 119.99881 * 2 1 3 29 29 H 1.08996 * 109.46780 * 59.99841 * 4 3 2 30 30 H 1.08997 * 109.46658 * 299.99647 * 4 3 2 31 31 H 1.09001 * 109.47291 * 59.99868 * 5 4 3 32 32 H 1.09002 * 109.47218 * 299.99929 * 5 4 3 33 33 H 1.08997 * 109.46995 * 60.00079 * 8 6 5 34 34 H 1.09001 * 109.47309 * 180.02562 * 8 6 5 35 35 H 1.09001 * 109.47129 * 299.99886 * 8 6 5 36 36 H 0.96999 * 119.99173 * 334.99933 * 9 6 5 37 37 H 1.08001 * 120.25405 * 0.24578 * 11 10 9 38 38 H 1.08005 * 120.65686 * 180.02562 * 12 11 10 39 39 H 1.08006 * 120.42240 * 179.97438 * 13 12 11 40 40 H 0.96996 * 120.00058 * 180.02562 * 18 17 15 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 6 0.0000 0.0000 0.0000 2 6 1.5300 0.0000 0.0000 3 16 2.1346 1.7102 0.0000 4 6 3.9371 1.5058 -0.0008 5 6 4.6064 2.8816 -0.0015 6 6 6.1266 2.7092 -0.0015 7 1 6.4211 2.0822 -0.8431 8 6 6.7953 4.0796 -0.1280 9 7 6.5462 2.0748 1.2505 10 6 7.7311 1.3531 1.2999 11 6 8.5175 1.2377 0.1499 12 6 9.7003 0.5172 0.2016 13 6 10.0687 -0.0695 1.3995 14 6 9.2360 0.0834 2.5215 15 6 9.5996 -0.5096 3.7515 16 1 10.5145 -1.0783 3.8272 17 6 8.7731 -0.3605 4.8720 18 7 7.6652 0.3276 4.7802 19 14 9.2541 -1.1438 6.4982 20 1 10.5436 -1.8628 6.3391 21 1 9.3999 -0.0879 7.5322 22 1 8.2008 -2.1036 6.9159 23 7 8.1008 0.7846 2.4319 24 1 -0.3634 0.5138 0.8900 25 1 -0.3634 0.5137 -0.8899 26 1 -0.3634 -1.0277 0.0005 27 1 1.8933 -0.5139 -0.8900 28 1 1.8933 -0.5138 0.8900 29 1 4.2398 0.9544 -0.8910 30 1 4.2405 0.9542 0.8890 31 1 4.3037 3.4334 0.8884 32 1 4.3029 3.4328 -0.8915 33 1 6.5008 4.7066 0.7135 34 1 7.8784 3.9567 -0.1285 35 1 6.4832 4.5516 -1.0596 36 1 5.9961 2.1590 2.0449 37 1 8.2079 1.7101 -0.7707 38 1 10.3224 0.4164 -0.6755 39 1 10.9845 -0.6376 1.4714 40 1 7.0929 0.4312 5.5564 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) 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 ZINC001321329235.mol2 40 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 02:50:03 Heat of formation + Delta-G solvation = 3.286477 kcal Electronic energy + Delta-G solvation = -19290.527642 eV Core-core repulsion = 16423.067294 eV Total energy + Delta-G solvation = -2867.460348 eV No. of doubly occupied orbitals = 50 Molecular weight (most abundant/longest-lived isotopes) = 280.130 amu Computer time = 0.60 seconds Orbital eigenvalues (eV) -40.25408 -38.10923 -35.43003 -33.72673 -33.66230 -32.25332 -31.07062 -29.65885 -27.29297 -25.43342 -24.00645 -23.46081 -22.75000 -21.30748 -19.22628 -18.15144 -17.19850 -16.86740 -16.59555 -16.26050 -15.88406 -15.61832 -15.41055 -14.99092 -14.87566 -14.57292 -14.32609 -13.75620 -13.55295 -13.45471 -13.03397 -12.88944 -12.79887 -12.71218 -12.58594 -12.49990 -12.32590 -12.22006 -11.96657 -11.67298 -11.53947 -11.28891 -10.96175 -10.64465 -9.82324 -9.42470 -8.70759 -8.25795 -8.22253 -6.47026 0.67353 1.06806 1.36796 1.40752 1.55621 1.57029 1.60319 2.24600 2.67177 2.93324 3.74712 3.91455 3.97377 3.99595 4.05342 4.10656 4.32807 4.45125 4.48187 4.56270 4.61091 4.72197 4.81813 4.83764 4.88229 4.91642 4.97962 5.02196 5.02537 5.13169 5.18560 5.20588 5.39165 5.41103 5.74129 5.98798 6.10590 6.23912 6.59504 6.85405 6.97068 7.25013 8.36596 8.52161 Molecular weight = 280.13amu Principal moments of inertia in cm(-1) A = 0.014327 B = 0.004453 C = 0.003720 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1953.913213 B = 6286.325748 C = 7524.931233 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.131 4.131 2 C -0.087 4.087 3 S -0.293 6.293 4 C -0.072 4.072 5 C -0.095 4.095 6 C 0.164 3.836 7 H 0.076 0.924 8 C -0.159 4.159 9 N -0.726 5.726 10 C 0.399 3.601 11 C -0.364 4.364 12 C -0.031 4.031 13 C -0.348 4.348 14 C 0.260 3.740 15 C -0.473 4.473 16 H 0.084 0.916 17 C 0.028 3.972 18 N -0.752 5.752 19 Si 0.983 3.017 20 H -0.256 1.256 21 H -0.267 1.267 22 H -0.267 1.267 23 N -0.566 5.566 24 H 0.060 0.940 25 H 0.067 0.933 26 H 0.087 0.913 27 H 0.087 0.913 28 H 0.074 0.926 29 H 0.082 0.918 30 H 0.063 0.937 31 H 0.073 0.927 32 H 0.105 0.895 33 H 0.053 0.947 34 H 0.042 0.958 35 H 0.088 0.912 36 H 0.390 0.610 37 H 0.120 0.880 38 H 0.127 0.873 39 H 0.099 0.901 40 H 0.275 0.725 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -11.098 2.768 -8.406 14.195 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 C -0.189 4.189 2 C -0.235 4.235 3 S -0.067 6.067 4 C -0.220 4.220 5 C -0.134 4.134 6 C 0.057 3.943 7 H 0.094 0.906 8 C -0.218 4.218 9 N -0.361 5.361 10 C 0.158 3.842 11 C -0.389 4.389 12 C -0.056 4.056 13 C -0.371 4.371 14 C 0.133 3.867 15 C -0.506 4.506 16 H 0.102 0.898 17 C -0.194 4.194 18 N -0.374 5.374 19 Si 0.804 3.196 20 H -0.179 1.179 21 H -0.192 1.192 22 H -0.192 1.192 23 N -0.289 5.289 24 H 0.079 0.921 25 H 0.086 0.914 26 H 0.106 0.894 27 H 0.105 0.895 28 H 0.093 0.907 29 H 0.101 0.899 30 H 0.082 0.918 31 H 0.091 0.909 32 H 0.123 0.877 33 H 0.072 0.928 34 H 0.061 0.939 35 H 0.107 0.893 36 H 0.224 0.776 37 H 0.138 0.862 38 H 0.145 0.855 39 H 0.117 0.883 40 H 0.085 0.915 Dipole moment (debyes) X Y Z Total from point charges -12.404 3.895 -7.782 15.152 hybrid contribution 1.489 -1.573 0.398 2.202 sum -10.915 2.321 -7.384 13.381 Atomic orbital electron populations 1.21512 0.90801 1.03595 1.03039 1.23378 1.01259 0.93783 1.05078 1.86718 1.06608 1.15211 1.98173 1.23281 0.92182 1.01956 1.04593 1.21537 0.92494 0.94698 1.04637 1.20899 0.93042 0.93913 0.86439 0.90560 1.22214 1.00425 0.96436 1.02752 1.44463 1.21912 1.57103 1.12607 1.18952 0.86783 0.88326 0.90110 1.20968 1.01528 1.17758 0.98655 1.21009 0.94936 0.93219 0.96387 1.21674 1.04546 1.15077 0.95772 1.18651 0.86921 0.88067 0.93040 1.19950 1.07170 1.29383 0.94050 0.89794 1.26915 0.93980 0.94532 1.03945 1.70250 1.08996 1.27300 1.30859 0.85148 0.79531 0.78594 0.76329 1.17932 1.19176 1.19187 1.68198 1.19253 1.17804 1.23647 0.92102 0.91413 0.89385 0.89462 0.90702 0.89885 0.91812 0.90875 0.87687 0.92808 0.93909 0.89315 0.77636 0.86183 0.85498 0.88278 0.91453 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 C -0.13 -2.04 9.92 71.98 0.71 -1.33 16 2 C -0.09 -1.73 6.66 71.98 0.48 -1.25 16 3 S -0.29 -7.03 21.74 -56.49 -1.23 -8.26 16 4 C -0.07 -1.83 5.83 71.98 0.42 -1.41 16 5 C -0.09 -2.21 4.76 30.59 0.15 -2.06 16 6 C 0.16 4.64 2.26 44.99 0.10 4.75 16 7 H 0.08 2.19 6.44 -2.39 -0.02 2.18 16 8 C -0.16 -4.10 9.40 71.98 0.68 -3.42 16 9 N -0.73 -28.03 4.69 -324.45 -1.52 -29.55 16 10 C 0.40 19.25 7.63 133.42 1.02 20.26 16 11 C -0.36 -16.12 8.84 22.73 0.20 -15.91 16 12 C -0.03 -1.42 10.15 22.39 0.23 -1.19 16 13 C -0.35 -17.99 9.83 22.87 0.22 -17.77 16 14 C 0.26 15.01 6.55 40.18 0.26 15.28 16 15 C -0.47 -26.69 9.14 23.46 0.21 -26.48 16 16 H 0.08 4.48 7.85 -2.91 -0.02 4.46 16 17 C 0.03 1.46 5.50 85.29 0.47 1.93 16 18 N -0.75 -41.16 11.46 21.84 0.25 -40.91 16 19 Si 0.98 39.21 29.56 68.60 2.03 41.24 16 20 H -0.26 -9.86 7.11 99.48 0.71 -9.15 16 21 H -0.27 -10.24 7.11 99.48 0.71 -9.53 16 22 H -0.27 -10.22 7.11 99.48 0.71 -9.52 16 23 N -0.57 -32.01 7.89 -186.59 -1.47 -33.48 16 24 H 0.06 1.00 8.14 -2.39 -0.02 0.98 16 25 H 0.07 1.00 8.14 -2.39 -0.02 0.98 16 26 H 0.09 1.06 8.14 -2.38 -0.02 1.04 16 27 H 0.09 1.60 8.14 -2.39 -0.02 1.58 16 28 H 0.07 1.60 8.14 -2.39 -0.02 1.58 16 29 H 0.08 2.03 8.14 -2.39 -0.02 2.01 16 30 H 0.06 1.96 7.75 -2.39 -0.02 1.94 16 31 H 0.07 1.77 8.14 -2.39 -0.02 1.76 16 32 H 0.10 1.99 8.14 -2.39 -0.02 1.97 16 33 H 0.05 1.40 8.14 -2.39 -0.02 1.38 16 34 H 0.04 1.29 7.64 -2.39 -0.02 1.27 16 35 H 0.09 1.70 8.14 -2.39 -0.02 1.68 16 36 H 0.39 15.69 8.72 -92.71 -0.81 14.88 16 37 H 0.12 4.54 6.03 -2.91 -0.02 4.52 16 38 H 0.13 4.74 8.06 -2.91 -0.02 4.72 16 39 H 0.10 4.82 8.06 -2.91 -0.02 4.80 16 40 H 0.27 13.61 8.29 -92.71 -0.77 12.84 16 Total: -1.00 -64.65 343.36 3.42 -61.23 By element: Atomic # 1 Polarization: 38.14 SS G_CDS: 0.21 Total: 38.35 kcal Atomic # 6 Polarization: -33.77 SS G_CDS: 5.15 Total: -28.62 kcal Atomic # 7 Polarization: -101.20 SS G_CDS: -2.74 Total: -103.94 kcal Atomic # 14 Polarization: 39.21 SS G_CDS: 2.03 Total: 41.24 kcal Atomic # 16 Polarization: -7.03 SS G_CDS: -1.23 Total: -8.26 kcal Total: -64.65 3.42 -61.23 kcal The number of atoms in the molecule is 40 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. ZINC001321329235.mol2 40 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 64.516 kcal (2) G-P(sol) polarization free energy of solvation -64.648 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -0.132 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.419 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -61.230 kcal (6) G-S(sol) free energy of system = (1) + (5) 3.286 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.60 seconds