Wall clock time and date at job start Fri Apr 10 2020 17:45:18 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 1.31519 * 1 3 3 Si 1.86801 * 120.00029 * 2 1 4 4 H 1.48504 * 109.47016 * 269.99450 * 3 2 1 5 5 H 1.48498 * 109.47518 * 29.99754 * 3 2 1 6 6 H 1.48506 * 109.47171 * 149.99756 * 3 2 1 7 7 C 1.37878 * 119.99974 * 179.97438 * 2 1 3 8 8 H 1.08000 * 119.99547 * 359.97438 * 7 2 1 9 9 C 1.50701 * 120.00057 * 180.02562 * 7 2 1 10 10 C 1.53003 * 109.47134 * 179.97438 * 9 7 2 11 11 C 1.50696 * 109.47354 * 179.97438 * 10 9 7 12 12 O 1.21283 * 119.99490 * 0.02562 * 11 10 9 13 13 N 1.34769 * 120.00394 * 179.97438 * 11 10 9 14 14 C 1.47815 * 134.36922 * 180.02562 * 13 11 10 15 15 C 1.52736 * 85.84371 * 156.29877 * 14 13 11 16 16 C 1.48085 * 134.46669 * 359.88795 * 13 11 10 17 17 S 1.82612 * 115.06697 * 266.25760 * 15 14 13 18 18 C 1.84164 * 95.58408 * 210.34829 * 17 15 14 19 19 C 1.55254 * 100.99686 * 34.79426 * 18 17 15 20 20 C 1.52590 * 116.52353 * 141.42345 * 15 14 13 21 21 H 1.08999 * 108.96383 * 5.91454 * 20 15 14 22 22 C 1.50700 * 108.96054 * 247.17209 * 20 15 14 23 23 N 1.34768 * 120.00023 * 95.64699 * 22 20 15 24 24 O 1.21285 * 119.99928 * 275.64138 * 22 20 15 25 25 H 0.97003 * 119.99722 * 0.02562 * 1 2 3 26 26 H 1.08997 * 109.47151 * 60.00179 * 9 7 2 27 27 H 1.08999 * 109.46927 * 299.99798 * 9 7 2 28 28 H 1.09004 * 109.46818 * 59.99415 * 10 9 7 29 29 H 1.09007 * 109.47059 * 300.00439 * 10 9 7 30 30 H 1.09005 * 113.83545 * 42.04279 * 14 13 11 31 31 H 1.09001 * 113.83855 * 270.55504 * 14 13 11 32 32 H 1.09004 * 113.72368 * 89.49652 * 16 13 11 33 33 H 1.08999 * 114.02330 * 317.94526 * 16 13 11 34 34 H 1.08997 * 111.11354 * 276.85472 * 18 17 15 35 35 H 1.09007 * 111.14559 * 152.73992 * 18 17 15 36 36 H 1.09002 * 109.59354 * 199.07457 * 19 18 17 37 37 H 1.09005 * 109.43717 * 78.88293 * 19 18 17 38 38 H 0.96996 * 120.00114 * 359.97438 * 23 22 20 39 39 H 0.97005 * 120.00009 * 179.97438 * 23 22 20 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 2.4968 2.0463 -1.4001 5 1 1.4467 2.6527 0.7000 6 1 3.5468 1.4402 0.7001 7 6 2.0046 -1.1941 0.0005 8 1 1.4645 -2.1293 0.0014 9 6 3.5116 -1.1941 0.0011 10 6 4.0216 -2.6366 0.0023 11 6 5.5285 -2.6367 0.0022 12 8 6.1349 -1.5863 0.0018 13 7 6.2024 -3.8038 0.0037 14 6 7.6343 -4.1706 0.0046 15 6 7.1807 -5.4937 0.6181 16 6 5.8059 -5.2306 0.0076 17 16 7.2176 -5.5533 2.4429 18 6 7.5593 -7.3594 2.5564 19 6 8.4661 -7.5679 1.3136 20 6 7.9074 -6.7491 0.1444 21 1 8.7312 -6.4571 -0.5067 22 6 6.9456 -7.6058 -0.6380 23 7 6.9064 -7.5193 -1.9823 24 8 6.2069 -8.3731 -0.0579 25 1 -0.4850 0.8401 -0.0004 26 1 3.8746 -0.6801 0.8911 27 1 3.8752 -0.6805 -0.8889 28 1 3.6585 -3.1510 -0.8875 29 1 3.6578 -3.1499 0.8925 30 1 8.2446 -3.5619 0.6719 31 1 8.0638 -4.2716 -0.9921 32 1 5.6782 -5.6530 -0.9891 33 1 4.9760 -5.4587 0.6764 34 1 6.6399 -7.9389 2.4734 35 1 8.0918 -7.6019 3.4761 36 1 8.4817 -8.6244 1.0455 37 1 9.4782 -7.2342 1.5429 38 1 7.4970 -6.9055 -2.4463 39 1 6.2876 -8.0710 -2.4860 RHF calculation, no. of doubly occupied orbitals= 53 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 ZINC001271768472.mol2 39 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Fri Apr 10 2020 17:45:18 Heat of formation + Delta-G solvation = -69.562037 kcal Electronic energy + Delta-G solvation = -22137.068691 eV Core-core repulsion = 18784.622630 eV Total energy + Delta-G solvation = -3352.446061 eV No. of doubly occupied orbitals = 53 Molecular weight (most abundant/longest-lived isotopes) = 298.114 amu Computer time = 0.39 seconds Orbital eigenvalues (eV) -42.03481 -40.52079 -38.92583 -35.76442 -35.59470 -34.63321 -33.41350 -31.22557 -28.79292 -27.81769 -27.12762 -24.09098 -23.42177 -22.49366 -20.62649 -20.16529 -19.17335 -18.40613 -18.08455 -17.88116 -17.25920 -16.98270 -16.61981 -16.28982 -16.10760 -15.59788 -15.21421 -14.90095 -14.74834 -14.40309 -14.21900 -14.17773 -13.99985 -13.48375 -13.18432 -12.93285 -12.70429 -12.50170 -12.42921 -12.27613 -12.17150 -12.02264 -11.81461 -11.45440 -10.99475 -10.84063 -10.80896 -10.80162 -10.64010 -9.85148 -8.84361 -8.34333 -6.38166 0.64608 1.22944 1.31202 1.33313 1.48885 1.50702 1.62397 1.65483 2.32963 2.41042 3.00822 3.01317 3.21486 3.39065 3.71103 3.85119 3.87862 4.12971 4.22093 4.26833 4.27313 4.33848 4.37161 4.48037 4.56040 4.60024 4.71518 4.75321 4.92293 4.95533 5.06011 5.27295 5.36839 5.56102 5.89958 6.19753 6.44281 6.46072 6.67342 7.08583 7.27208 7.32369 8.81510 Molecular weight = 298.11amu Principal moments of inertia in cm(-1) A = 0.024286 B = 0.003555 C = 0.003446 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1152.652521 B = 7874.167364 C = 8124.219581 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.942 5.942 2 C 0.015 3.985 3 Si 0.940 3.060 4 H -0.264 1.264 5 H -0.276 1.276 6 H -0.264 1.264 7 C -0.533 4.533 8 H 0.047 0.953 9 C 0.009 3.991 10 C -0.110 4.110 11 C 0.540 3.460 12 O -0.580 6.580 13 N -0.648 5.648 14 C 0.131 3.869 15 C -0.028 4.028 16 C 0.115 3.885 17 S -0.293 6.293 18 C -0.063 4.063 19 C -0.102 4.102 20 C -0.099 4.099 21 H 0.154 0.846 22 C 0.520 3.480 23 N -0.837 5.837 24 O -0.574 6.574 25 H 0.269 0.731 26 H 0.008 0.992 27 H 0.013 0.987 28 H 0.099 0.901 29 H 0.088 0.912 30 H 0.084 0.916 31 H 0.138 0.862 32 H 0.116 0.884 33 H 0.081 0.919 34 H 0.085 0.915 35 H 0.125 0.875 36 H 0.096 0.904 37 H 0.111 0.889 38 H 0.419 0.581 39 H 0.409 0.591 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 24.027 -20.841 -3.417 31.989 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 -0.583 5.583 2 C -0.182 4.182 3 Si 0.764 3.236 4 H -0.189 1.189 5 H -0.201 1.201 6 H -0.188 1.188 7 C -0.570 4.570 8 H 0.065 0.935 9 C -0.029 4.029 10 C -0.150 4.150 11 C 0.332 3.668 12 O -0.460 6.460 13 N -0.384 5.384 14 C 0.008 3.992 15 C -0.139 4.139 16 C -0.010 4.010 17 S -0.064 6.064 18 C -0.210 4.210 19 C -0.141 4.141 20 C -0.122 4.122 21 H 0.171 0.829 22 C 0.304 3.696 23 N -0.401 5.401 24 O -0.453 6.453 25 H 0.078 0.922 26 H 0.026 0.974 27 H 0.032 0.968 28 H 0.117 0.883 29 H 0.106 0.894 30 H 0.103 0.897 31 H 0.156 0.844 32 H 0.134 0.866 33 H 0.100 0.900 34 H 0.104 0.896 35 H 0.143 0.857 36 H 0.114 0.886 37 H 0.130 0.870 38 H 0.250 0.750 39 H 0.241 0.759 Dipole moment (debyes) X Y Z Total from point charges 23.547 -19.547 -2.005 30.669 hybrid contribution -0.412 0.166 -1.059 1.149 sum 23.135 -19.381 -3.064 30.335 Atomic orbital electron populations 1.70027 1.07797 1.28218 1.52223 1.25809 0.95529 1.02892 0.94019 0.85805 0.79127 0.79281 0.79380 1.18878 1.20104 1.18820 1.21380 0.91091 0.93740 1.50836 0.93519 1.19200 0.94096 0.93182 0.96438 1.21421 0.89267 1.00130 1.04193 1.20762 0.90441 0.81674 0.73969 1.90639 1.71259 1.32057 1.52073 1.50110 1.09444 1.05073 1.73747 1.23386 0.83459 0.89680 1.02646 1.24095 0.98489 0.97451 0.93877 1.23658 0.96806 0.78435 1.02089 1.88371 1.95020 1.16057 1.06927 1.24551 1.03316 0.90188 1.02977 1.22338 1.00072 1.01352 0.90348 1.21770 0.98630 0.91824 0.99980 0.82851 1.20599 0.83255 0.82129 0.83591 1.43905 1.43903 1.45856 1.06466 1.90782 1.43608 1.40432 1.70498 0.92246 0.97384 0.96839 0.88312 0.89360 0.89733 0.84401 0.86599 0.90042 0.89616 0.85674 0.88587 0.87015 0.74962 0.75911 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 14. 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 -60.15 13.96 21.45 0.30 -59.85 16 2 C 0.02 0.94 5.47 84.65 0.46 1.40 16 3 Si 0.94 47.72 27.47 68.60 1.88 49.61 16 4 H -0.26 -12.79 7.11 99.48 0.71 -12.08 16 5 H -0.28 -13.36 7.11 99.48 0.71 -12.66 16 6 H -0.26 -13.44 6.54 99.48 0.65 -12.79 16 7 C -0.53 -31.95 9.66 25.60 0.25 -31.70 16 8 H 0.05 2.96 7.99 -2.91 -0.02 2.94 16 9 C 0.01 0.46 3.33 29.85 0.10 0.56 16 10 C -0.11 -4.62 5.39 29.85 0.16 -4.46 16 11 C 0.54 20.91 8.06 87.66 0.71 21.62 16 12 O -0.58 -27.00 16.71 -3.04 -0.05 -27.06 16 13 N -0.65 -17.84 3.63 -853.62 -3.10 -20.94 16 14 C 0.13 2.37 8.05 86.04 0.69 3.06 16 15 C -0.03 -0.46 1.31 -11.06 -0.01 -0.47 16 16 C 0.11 2.43 7.06 85.98 0.61 3.03 16 17 S -0.29 -6.47 22.56 -56.49 -1.27 -7.74 16 18 C -0.06 -0.91 7.34 72.76 0.53 -0.38 16 19 C -0.10 -0.90 5.53 31.46 0.17 -0.73 16 20 C -0.10 -0.89 2.84 -11.58 -0.03 -0.92 16 21 H 0.15 0.09 7.77 -2.39 -0.02 0.07 16 22 C 0.52 6.32 4.94 87.66 0.43 6.75 16 23 N -0.84 -4.17 8.27 -173.54 -1.43 -5.61 16 24 O -0.57 -12.41 16.63 -3.05 -0.05 -12.46 16 25 H 0.27 15.95 8.31 -92.71 -0.77 15.17 16 26 H 0.01 0.43 7.16 -2.39 -0.02 0.41 16 27 H 0.01 0.71 7.53 -2.39 -0.02 0.69 16 28 H 0.10 3.77 8.14 -2.39 -0.02 3.75 16 29 H 0.09 3.61 8.14 -2.38 -0.02 3.59 16 30 H 0.08 1.78 8.11 -2.38 -0.02 1.76 16 31 H 0.14 1.29 8.08 -2.39 -0.02 1.27 16 32 H 0.12 1.88 6.42 -2.39 -0.02 1.86 16 33 H 0.08 2.07 8.11 -2.39 -0.02 2.05 16 34 H 0.09 1.57 7.72 -2.39 -0.02 1.55 16 35 H 0.13 1.37 8.14 -2.38 -0.02 1.35 16 36 H 0.10 0.79 7.67 -2.39 -0.02 0.77 16 37 H 0.11 0.52 8.14 -2.38 -0.02 0.50 16 38 H 0.42 -0.55 8.77 -92.71 -0.81 -1.36 16 39 H 0.41 1.94 8.93 -92.70 -0.83 1.11 16 Total: -1.00 -86.05 334.09 -0.26 -86.31 By element: Atomic # 1 Polarization: 0.58 SS G_CDS: -0.61 Total: -0.03 kcal Atomic # 6 Polarization: -6.30 SS G_CDS: 4.07 Total: -2.23 kcal Atomic # 7 Polarization: -82.17 SS G_CDS: -4.23 Total: -86.40 kcal Atomic # 8 Polarization: -39.42 SS G_CDS: -0.10 Total: -39.52 kcal Atomic # 14 Polarization: 47.72 SS G_CDS: 1.88 Total: 49.61 kcal Atomic # 16 Polarization: -6.47 SS G_CDS: -1.27 Total: -7.74 kcal Total: -86.05 -0.26 -86.31 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. ZINC001271768472.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 16.752 kcal (2) G-P(sol) polarization free energy of solvation -86.049 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -69.297 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.265 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -86.314 kcal (6) G-S(sol) free energy of system = (1) + (5) -69.562 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.39 seconds