Wall clock time and date at job start Wed Apr 1 2020 03:08:32 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 1.30648 * 1 3 3 Si 1.86794 * 120.00182 * 2 1 4 4 H 1.48507 * 109.46838 * 274.00060 * 3 2 1 5 5 H 1.48501 * 109.47567 * 33.99863 * 3 2 1 6 6 H 1.48497 * 109.47358 * 154.00661 * 3 2 1 7 7 C 1.40310 * 119.99504 * 179.97438 * 2 1 3 8 8 H 1.07999 * 120.00109 * 342.39897 * 7 2 1 9 9 C 1.40532 * 119.99591 * 162.40237 * 7 2 1 10 10 C 1.44189 * 123.71802 * 335.14992 * 9 7 2 11 11 C 1.32767 * 114.43432 * 180.30923 * 10 9 7 12 12 S 1.75480 * 111.36002 * 359.73932 * 11 10 9 13 13 C 1.39550 * 123.71709 * 154.96704 * 9 7 2 14 14 C 1.46243 * 125.22286 * 359.97438 * 13 9 7 15 15 O 1.21757 * 120.00143 * 359.72106 * 14 13 9 16 16 N 1.34774 * 119.99481 * 179.97438 * 14 13 9 17 17 C 1.46498 * 119.99755 * 179.72085 * 16 14 13 18 18 H 1.09000 * 109.47299 * 35.00425 * 17 16 14 19 19 C 1.53005 * 109.47197 * 154.99877 * 17 16 14 20 20 C 1.50700 * 109.46944 * 295.00163 * 19 17 16 21 21 C 1.38230 * 120.00371 * 269.72219 * 20 19 17 22 22 C 1.38231 * 120.00110 * 179.76923 * 21 20 19 23 23 C 1.38235 * 120.00046 * 0.50551 * 22 21 20 24 24 C 1.38238 * 120.00011 * 359.75022 * 23 22 21 25 25 C 1.38235 * 119.99763 * 359.97438 * 24 23 22 26 26 C 1.50700 * 109.47728 * 275.00104 * 17 16 14 27 27 O 1.20823 * 119.99461 * 359.97438 * 26 17 16 28 28 O 1.34224 * 120.00193 * 179.97438 * 26 17 16 29 29 H 0.97002 * 119.99493 * 0.02562 * 1 2 3 30 30 H 1.08000 * 122.78167 * 0.05486 * 10 9 7 31 31 H 1.07994 * 124.32481 * 179.75598 * 11 10 9 32 32 H 0.97001 * 120.00393 * 359.72190 * 16 14 13 33 33 H 1.08999 * 109.46931 * 55.00124 * 19 17 16 34 34 H 1.09003 * 109.47353 * 175.00211 * 19 17 16 35 35 H 1.08001 * 119.99979 * 359.97438 * 21 20 19 36 36 H 1.08001 * 120.00010 * 180.23321 * 22 21 20 37 37 H 1.08004 * 119.99998 * 179.72411 * 23 22 21 38 38 H 1.07997 * 119.99878 * 179.97438 * 24 23 22 39 39 H 1.07995 * 120.00217 * 179.97438 * 25 24 23 40 40 H 0.96705 * 116.99829 * 179.97438 * 28 26 17 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 1.3065 0.0000 0.0000 3 14 2.2405 1.6177 0.0000 4 1 2.4034 2.0951 -1.3967 5 1 1.4829 2.6268 0.7829 6 1 3.5778 1.4171 0.6136 7 6 2.0079 -1.2152 0.0005 8 1 1.5058 -2.1284 0.2838 9 6 3.3639 -1.2438 -0.3674 10 6 3.9822 -0.2611 -1.2223 11 6 5.2725 -0.4698 -1.4554 12 16 5.8472 -1.9064 -0.6276 13 6 4.2613 -2.2245 0.0573 14 6 3.9305 -3.3480 0.9332 15 8 2.7957 -3.4777 1.3550 16 7 4.8832 -4.2369 1.2777 17 6 4.5534 -5.3589 2.1600 18 1 3.5380 -5.6973 1.9536 19 6 5.5337 -6.5074 1.9128 20 6 5.3484 -7.0334 0.5128 21 6 4.4539 -8.0594 0.2726 22 6 4.2805 -8.5386 -1.0124 23 6 5.0094 -7.9987 -2.0556 24 6 5.9079 -6.9762 -1.8146 25 6 6.0771 -6.4932 -0.5305 26 6 4.6524 -4.9144 3.5966 27 8 4.9668 -3.7772 3.8566 28 8 4.3915 -5.7819 4.5870 29 1 -0.4849 0.8401 -0.0004 30 1 3.4397 0.5733 -1.6418 31 1 5.8897 0.1637 -2.0750 32 1 5.7872 -4.1339 0.9414 33 1 6.5549 -6.1457 2.0329 34 1 5.3448 -7.3069 2.6293 35 1 3.8880 -8.4845 1.0883 36 1 3.5788 -9.3377 -1.2007 37 1 4.8772 -8.3762 -3.0589 38 1 6.4776 -6.5548 -2.6295 39 1 6.7793 -5.6946 -0.3420 40 1 4.4686 -5.4507 5.4923 RHF calculation, no. of doubly occupied orbitals= 60 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 ZINC001594611042.mol2 40 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Wed Apr 1 2020 03:08:32 Heat of formation + Delta-G solvation = -103.493556 kcal Electronic energy + Delta-G solvation = -27459.587290 eV Core-core repulsion = 23522.358102 eV Total energy + Delta-G solvation = -3937.229188 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 345.087 amu Computer time = 0.73 seconds Orbital eigenvalues (eV) -41.71840 -40.22129 -39.84072 -38.07718 -37.12554 -36.31825 -35.23108 -33.39726 -31.71462 -31.19104 -30.33373 -28.20198 -26.05769 -24.07215 -23.44534 -22.93597 -22.12654 -21.62146 -20.81453 -19.59266 -19.12392 -18.06114 -17.86178 -17.53726 -17.34373 -16.73476 -16.50911 -16.15025 -15.88793 -15.76912 -15.40484 -15.27700 -14.96132 -14.45577 -14.23267 -14.15466 -13.97251 -13.85840 -13.67845 -13.33560 -13.18274 -12.99816 -12.75873 -12.67009 -12.53335 -12.26999 -12.13281 -11.81926 -11.80922 -11.65558 -11.39006 -11.20310 -10.56122 -10.22626 -9.74000 -9.59332 -9.47997 -9.09857 -9.07409 -6.52799 0.09536 0.44557 0.57507 1.13610 1.14998 1.17570 1.33412 1.41706 1.61093 1.64838 1.84524 2.04559 2.39859 2.59032 2.91700 3.18252 3.74258 3.75694 3.92765 4.13438 4.20887 4.22139 4.33647 4.37556 4.42477 4.52950 4.67561 4.77477 4.80528 4.85652 5.00361 5.17912 5.18166 5.22131 5.31748 5.44374 5.55639 5.62018 5.68621 5.72595 5.77385 6.17983 6.18810 6.46749 6.55345 6.82330 6.93326 7.62585 7.98015 Molecular weight = 345.09amu Principal moments of inertia in cm(-1) A = 0.011012 B = 0.004084 C = 0.003609 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2542.084138 B = 6853.637003 C = 7756.693994 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.812 5.812 2 C 0.041 3.959 3 Si 0.970 3.030 4 H -0.230 1.230 5 H -0.270 1.270 6 H -0.253 1.253 7 C -0.410 4.410 8 H 0.066 0.934 9 C 0.096 3.904 10 C -0.199 4.199 11 C -0.153 4.153 12 S 0.053 5.947 13 C -0.457 4.457 14 C 0.598 3.402 15 O -0.600 6.600 16 N -0.709 5.709 17 C 0.167 3.833 18 H 0.107 0.893 19 C -0.067 4.067 20 C -0.095 4.095 21 C -0.124 4.124 22 C -0.131 4.131 23 C -0.131 4.131 24 C -0.129 4.129 25 C -0.119 4.119 26 C 0.468 3.532 27 O -0.542 6.542 28 O -0.502 6.502 29 H 0.304 0.696 30 H 0.138 0.862 31 H 0.196 0.804 32 H 0.404 0.596 33 H 0.098 0.902 34 H 0.125 0.875 35 H 0.138 0.862 36 H 0.139 0.861 37 H 0.138 0.862 38 H 0.136 0.864 39 H 0.126 0.874 40 H 0.426 0.574 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 13.532 -11.289 -0.969 17.649 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 -0.436 5.436 2 C -0.180 4.180 3 Si 0.791 3.209 4 H -0.154 1.154 5 H -0.196 1.196 6 H -0.176 1.176 7 C -0.441 4.441 8 H 0.084 0.916 9 C 0.085 3.915 10 C -0.232 4.232 11 C -0.288 4.288 12 S 0.311 5.689 13 C -0.576 4.576 14 C 0.395 3.605 15 O -0.485 6.485 16 N -0.362 5.362 17 C 0.059 3.941 18 H 0.125 0.875 19 C -0.105 4.105 20 C -0.095 4.095 21 C -0.142 4.142 22 C -0.149 4.149 23 C -0.149 4.149 24 C -0.147 4.147 25 C -0.137 4.137 26 C 0.309 3.691 27 O -0.431 6.431 28 O -0.315 6.315 29 H 0.115 0.885 30 H 0.155 0.845 31 H 0.213 0.787 32 H 0.241 0.759 33 H 0.116 0.884 34 H 0.144 0.856 35 H 0.156 0.844 36 H 0.157 0.843 37 H 0.156 0.844 38 H 0.153 0.847 39 H 0.144 0.856 40 H 0.287 0.713 Dipole moment (debyes) X Y Z Total from point charges 13.902 -11.896 -0.880 18.318 hybrid contribution -1.517 1.642 0.598 2.314 sum 12.385 -10.254 -0.282 16.081 Atomic orbital electron populations 1.69619 1.09753 1.32666 1.31601 1.27348 0.95601 1.05048 0.89954 0.85538 0.79491 0.74940 0.80977 1.15371 1.19609 1.17648 1.19602 0.93552 0.96208 1.34709 0.91571 1.18229 0.92419 0.90832 0.90030 1.21418 0.96127 1.02063 1.03555 1.25575 0.98106 1.01302 1.03812 1.82349 1.10861 1.24900 1.50802 1.22915 0.97701 1.11806 1.25151 1.17048 0.83665 0.80946 0.78883 1.90683 1.22957 1.76232 1.58602 1.45353 1.13081 1.27537 1.50248 1.20390 1.03435 0.87899 0.82349 0.87534 1.20817 0.98704 0.95538 0.95392 1.19745 0.97919 0.96990 0.94861 1.21339 0.97916 0.96876 0.98086 1.21438 0.99813 1.00787 0.92836 1.21475 0.96429 0.96965 1.00021 1.21411 0.99077 0.97097 0.97130 1.21248 1.00000 0.99378 0.93091 1.24391 0.71693 0.83118 0.89937 1.90731 1.45067 1.22184 1.85160 1.84461 1.81831 1.44907 1.20289 0.88482 0.84453 0.78700 0.75943 0.88354 0.85637 0.84434 0.84283 0.84421 0.84659 0.85627 0.71257 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 -0.81 -44.48 13.92 21.89 0.30 -44.18 16 2 C 0.04 2.19 5.48 85.37 0.47 2.66 16 3 Si 0.97 40.58 24.53 68.60 1.68 42.26 16 4 H -0.23 -8.26 6.63 99.48 0.66 -7.60 16 5 H -0.27 -10.62 7.11 99.48 0.71 -9.91 16 6 H -0.25 -10.99 6.73 99.48 0.67 -10.32 16 7 C -0.41 -24.56 8.99 23.33 0.21 -24.35 16 8 H 0.07 4.58 6.30 -2.91 -0.02 4.56 16 9 C 0.10 5.12 5.27 -20.89 -0.11 5.01 16 10 C -0.20 -8.66 7.55 22.61 0.17 -8.49 16 11 C -0.15 -5.50 11.07 66.64 0.74 -4.76 16 12 S 0.05 1.98 22.25 -56.49 -1.26 0.72 16 13 C -0.46 -22.91 6.51 24.67 0.16 -22.74 16 14 C 0.60 30.31 7.59 86.32 0.66 30.96 16 15 O -0.60 -35.82 14.14 -4.53 -0.06 -35.88 16 16 N -0.71 -27.15 4.05 -450.46 -1.83 -28.97 16 17 C 0.17 5.32 2.47 44.25 0.11 5.43 16 18 H 0.11 3.82 7.58 -2.39 -0.02 3.80 16 19 C -0.07 -1.43 4.86 29.85 0.14 -1.28 16 20 C -0.10 -2.23 4.95 -19.87 -0.10 -2.33 16 21 C -0.12 -2.77 9.70 22.27 0.22 -2.55 16 22 C -0.13 -2.79 10.05 22.27 0.22 -2.56 16 23 C -0.13 -2.80 10.05 22.27 0.22 -2.58 16 24 C -0.13 -2.93 10.05 22.27 0.22 -2.70 16 25 C -0.12 -2.84 9.10 22.27 0.20 -2.64 16 26 C 0.47 15.34 7.66 71.24 0.55 15.88 16 27 O -0.54 -22.68 17.08 21.97 0.38 -22.31 16 28 O -0.50 -11.50 13.23 -51.36 -0.68 -12.18 16 29 H 0.30 14.50 8.29 -92.71 -0.77 13.73 16 30 H 0.14 5.56 4.55 -2.91 -0.01 5.54 16 31 H 0.20 4.99 8.06 -2.91 -0.02 4.97 16 32 H 0.40 13.53 6.90 -92.71 -0.64 12.89 16 33 H 0.10 1.79 8.09 -2.39 -0.02 1.77 16 34 H 0.13 2.03 7.94 -2.39 -0.02 2.01 16 35 H 0.14 2.51 8.06 -2.91 -0.02 2.49 16 36 H 0.14 2.30 8.06 -2.91 -0.02 2.28 16 37 H 0.14 2.30 8.06 -2.91 -0.02 2.27 16 38 H 0.14 2.55 8.06 -2.91 -0.02 2.53 16 39 H 0.13 2.71 7.57 -2.91 -0.02 2.69 16 40 H 0.43 6.18 9.10 -74.05 -0.67 5.51 16 Total: -1.00 -80.72 357.60 2.35 -78.37 By element: Atomic # 1 Polarization: 39.48 SS G_CDS: -0.27 Total: 39.21 kcal Atomic # 6 Polarization: -21.13 SS G_CDS: 4.08 Total: -17.05 kcal Atomic # 7 Polarization: -71.63 SS G_CDS: -1.52 Total: -73.15 kcal Atomic # 8 Polarization: -70.00 SS G_CDS: -0.37 Total: -70.37 kcal Atomic # 14 Polarization: 40.58 SS G_CDS: 1.68 Total: 42.26 kcal Atomic # 16 Polarization: 1.98 SS G_CDS: -1.26 Total: 0.72 kcal Total: -80.72 2.35 -78.37 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. ZINC001594611042.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 -25.119 kcal (2) G-P(sol) polarization free energy of solvation -80.721 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -105.839 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.346 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -78.375 kcal (6) G-S(sol) free energy of system = (1) + (5) -103.494 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.73 seconds