Wall clock time and date at job start Wed Apr 1 2020 04:14:51 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 1.30824 * 1 3 3 Si 1.86804 * 119.99956 * 2 1 4 4 H 1.48503 * 109.46834 * 239.99852 * 3 2 1 5 5 H 1.48498 * 109.47047 * 359.97438 * 3 2 1 6 6 H 1.48495 * 109.47235 * 120.00045 * 3 2 1 7 7 C 1.39940 * 119.99935 * 179.97438 * 2 1 3 8 8 H 1.08003 * 120.00022 * 197.84813 * 7 2 1 9 9 C 1.41397 * 120.00246 * 17.84172 * 7 2 1 10 10 C 1.40711 * 120.24791 * 204.38678 * 9 7 2 11 11 C 1.37621 * 119.74483 * 180.02562 * 10 9 7 12 12 C 1.38635 * 120.24952 * 0.02562 * 11 10 9 13 13 C 1.50695 * 119.75001 * 179.97438 * 12 11 10 14 14 S 1.81400 * 109.47363 * 90.00033 * 13 12 11 15 15 O 1.42094 * 110.54193 * 291.62392 * 14 13 12 16 16 O 1.42094 * 110.54087 * 68.37610 * 14 13 12 17 17 O 1.52206 * 104.44850 * 179.97438 * 14 13 12 18 18 C 1.35903 * 113.99802 * 75.00199 * 17 14 13 19 19 C 1.38762 * 120.05174 * 269.72216 * 18 17 14 20 20 C 1.38122 * 119.93811 * 179.70250 * 19 18 17 21 21 C 1.38281 * 120.05906 * 0.59765 * 20 19 18 22 22 C 1.38252 * 120.11144 * 359.67757 * 21 20 19 23 23 C 1.50697 * 119.97318 * 180.02562 * 22 21 20 24 24 N 1.46895 * 109.47151 * 270.02182 * 23 22 21 25 25 C 1.38168 * 120.05139 * 0.02562 * 22 21 20 26 26 C 1.38636 * 120.49906 * 0.25576 * 12 11 10 27 27 C 1.37620 * 120.25044 * 359.44736 * 26 12 11 28 28 H 0.97008 * 119.99997 * 0.02562 * 1 2 3 29 29 H 1.07998 * 120.12526 * 359.97438 * 10 9 7 30 30 H 1.07999 * 119.87677 * 180.02562 * 11 10 9 31 31 H 1.09007 * 109.47105 * 329.99501 * 13 12 11 32 32 H 1.08999 * 109.47008 * 210.00015 * 13 12 11 33 33 H 1.08000 * 120.02833 * 359.97438 * 19 18 17 34 34 H 1.08001 * 119.96492 * 180.29752 * 20 19 18 35 35 H 1.08003 * 119.94949 * 179.70116 * 21 20 19 36 36 H 1.09002 * 109.46827 * 30.02628 * 23 22 21 37 37 H 1.09006 * 109.46995 * 150.02103 * 23 22 21 38 38 H 1.00907 * 110.99685 * 56.05067 * 24 23 22 39 39 H 1.00900 * 110.99903 * 179.97438 * 24 23 22 40 40 H 1.08007 * 120.02260 * 180.02562 * 25 22 21 41 41 H 1.08004 * 119.87352 * 179.70329 * 26 12 11 42 42 H 1.07997 * 120.13018 * 180.27197 * 27 26 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 1.3082 0.0000 0.0000 3 14 2.2422 1.6178 0.0000 4 1 3.0960 1.6964 -1.2125 5 1 1.2772 2.7465 -0.0006 6 1 3.0960 1.6965 1.2124 7 6 2.0079 -1.2119 0.0005 8 1 3.0490 -1.2343 0.2872 9 6 1.3520 -2.4072 -0.3741 10 6 1.8257 -3.6498 0.0857 11 6 1.1796 -4.8068 -0.2857 12 6 0.0665 -4.7512 -1.1102 13 6 -0.6320 -6.0251 -1.5104 14 16 -1.9236 -6.4135 -0.2973 15 8 -1.3446 -6.7725 0.9497 16 8 -2.9773 -5.4629 -0.3693 17 8 -2.5479 -7.7044 -0.8075 18 6 -1.7810 -8.8077 -0.6033 19 6 -0.8677 -9.2075 -1.5684 20 6 -0.0851 -10.3256 -1.3557 21 6 -0.2200 -11.0534 -0.1877 22 6 -1.1333 -10.6604 0.7729 23 6 -1.2772 -11.4556 2.0449 24 7 -2.2934 -12.4997 1.8573 25 6 -1.9141 -9.5392 0.5676 26 6 -0.4055 -3.5329 -1.5739 27 6 0.2210 -2.3628 -1.2103 28 1 -0.4850 0.8401 -0.0004 29 1 2.6935 -3.6955 0.7271 30 1 1.5412 -5.7616 0.0663 31 1 0.0908 -6.8403 -1.5453 32 1 -1.0839 -5.8980 -2.4942 33 1 -0.7658 -8.6424 -2.4831 34 1 0.6293 -10.6344 -2.1045 35 1 0.3894 -11.9302 -0.0254 36 1 -0.3223 -11.9185 2.2940 37 1 -1.5822 -10.7931 2.8550 38 1 -2.0658 -13.0885 1.0701 39 1 -2.4083 -13.0474 2.6969 40 1 -2.6272 -9.2324 1.3186 41 1 -1.2708 -3.5017 -2.2196 42 1 -0.1509 -1.4145 -1.5691 RHF calculation, no. of doubly occupied orbitals= 61 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 ZINC001580055460.mol2 42 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 04:14:51 Heat of formation + Delta-G solvation = -87.698931 kcal Electronic energy + Delta-G solvation = -27460.953100 eV Core-core repulsion = 23497.097340 eV Total energy + Delta-G solvation = -3963.855760 eV No. of doubly occupied orbitals = 61 Molecular weight (most abundant/longest-lived isotopes) = 347.102 amu Computer time = 0.89 seconds Orbital eigenvalues (eV) -42.10207 -39.64492 -39.41859 -38.30900 -37.19225 -36.00449 -35.63212 -33.31906 -31.82799 -31.31335 -31.18156 -29.63752 -26.31266 -25.88681 -24.59752 -23.07562 -22.93207 -22.08788 -21.15912 -19.32087 -19.28066 -18.65193 -18.45588 -17.46602 -17.25566 -17.03475 -16.61405 -16.29894 -16.06327 -15.71132 -15.58650 -15.46362 -14.85632 -14.51806 -14.37988 -14.20515 -14.02944 -13.92694 -13.77269 -13.65042 -13.32542 -13.30129 -13.16735 -13.09707 -13.05598 -12.81296 -12.75670 -12.69219 -12.24126 -12.01489 -11.92146 -11.57947 -11.37414 -11.03744 -10.02494 -9.97019 -9.58752 -9.49682 -9.31251 -8.72981 -6.42645 -1.08260 0.07657 0.22649 0.85633 1.05174 1.17853 1.37621 1.49404 1.52722 2.17215 2.49302 2.54985 2.70663 2.93525 3.53425 3.62839 3.64385 3.74411 3.78426 3.87701 4.00038 4.10807 4.21014 4.28130 4.41156 4.47942 4.53768 4.57676 4.65690 4.93778 4.97410 5.01311 5.06673 5.13667 5.22934 5.27833 5.31927 5.43159 5.58980 5.80468 5.82807 6.00015 6.01654 6.19268 6.25496 6.58224 6.61697 6.82523 6.90747 8.23408 Molecular weight = 347.10amu Principal moments of inertia in cm(-1) A = 0.022946 B = 0.002487 C = 0.002436 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1219.987922 B =11255.591942 C =11489.867946 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.817 5.817 2 C 0.031 3.969 3 Si 0.989 3.011 4 H -0.256 1.256 5 H -0.268 1.268 6 H -0.257 1.257 7 C -0.485 4.485 8 H 0.086 0.914 9 C 0.086 3.914 10 C -0.243 4.243 11 C -0.071 4.071 12 C -0.233 4.233 13 C -0.533 4.533 14 S 2.568 3.432 15 O -0.981 6.981 16 O -0.981 6.981 17 O -0.673 6.673 18 C 0.033 3.967 19 C -0.136 4.136 20 C -0.094 4.094 21 C -0.091 4.091 22 C -0.078 4.078 23 C 0.100 3.900 24 N -0.857 5.857 25 C -0.101 4.101 26 C -0.093 4.093 27 C -0.194 4.194 28 H 0.292 0.708 29 H 0.109 0.891 30 H 0.128 0.872 31 H 0.163 0.837 32 H 0.160 0.840 33 H 0.164 0.836 34 H 0.179 0.821 35 H 0.169 0.831 36 H 0.068 0.932 37 H 0.072 0.928 38 H 0.351 0.649 39 H 0.357 0.643 40 H 0.118 0.882 41 H 0.112 0.888 42 H 0.107 0.893 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 1.856 -23.035 -2.965 23.299 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 -0.442 5.442 2 C -0.185 4.185 3 Si 0.809 3.191 4 H -0.181 1.181 5 H -0.193 1.193 6 H -0.181 1.181 7 C -0.514 4.514 8 H 0.104 0.896 9 C 0.083 3.917 10 C -0.263 4.263 11 C -0.090 4.090 12 C -0.237 4.237 13 C -0.663 4.663 14 S 2.673 3.327 15 O -0.980 6.980 16 O -0.980 6.980 17 O -0.632 6.632 18 C -0.008 4.008 19 C -0.157 4.157 20 C -0.111 4.111 21 C -0.110 4.110 22 C -0.079 4.079 23 C -0.030 4.030 24 N -0.389 5.389 25 C -0.122 4.122 26 C -0.112 4.112 27 C -0.214 4.214 28 H 0.103 0.897 29 H 0.127 0.873 30 H 0.145 0.855 31 H 0.181 0.819 32 H 0.177 0.823 33 H 0.182 0.818 34 H 0.196 0.804 35 H 0.186 0.814 36 H 0.086 0.914 37 H 0.091 0.909 38 H 0.164 0.836 39 H 0.171 0.829 40 H 0.136 0.864 41 H 0.130 0.870 42 H 0.125 0.875 Dipole moment (debyes) X Y Z Total from point charges 0.398 -22.285 -2.546 22.433 hybrid contribution 0.707 0.883 0.020 1.132 sum 1.106 -21.401 -2.527 21.578 Atomic orbital electron populations 1.69885 1.09352 1.31241 1.33729 1.26945 0.95497 1.05092 0.90996 0.85143 0.78687 0.74930 0.80336 1.18057 1.19279 1.18072 1.19985 0.98739 0.92217 1.40426 0.89587 1.18109 0.91510 0.93461 0.88627 1.21224 1.04859 0.92735 1.07442 1.20846 0.94326 0.97960 0.95863 1.18378 1.02799 0.91358 1.11177 1.29152 1.15655 1.05241 1.16254 1.06579 0.75992 0.73104 0.77011 1.93523 1.80227 1.80537 1.43689 1.93518 1.55434 1.61331 1.87679 1.85751 1.59945 1.31208 1.86286 1.18561 0.95984 0.88139 0.98103 1.21816 0.94898 1.00028 0.98911 1.21523 0.98243 0.92873 0.98474 1.21705 0.96600 1.00222 0.92447 1.19957 0.95647 0.94408 0.97876 1.20719 0.95303 0.93751 0.93249 1.58622 1.49935 1.19264 1.11111 1.21287 0.99604 0.95672 0.95602 1.20947 0.98505 0.92653 0.99111 1.21340 1.00460 0.97094 1.02528 0.89668 0.87310 0.85460 0.81943 0.82251 0.81838 0.80366 0.81392 0.91404 0.90919 0.83590 0.82882 0.86382 0.86957 0.87479 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 19. 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 -0.82 -43.24 10.95 21.82 0.24 -43.00 16 2 C 0.03 1.56 5.14 85.26 0.44 2.00 16 3 Si 0.99 37.47 29.60 68.60 2.03 39.50 16 4 H -0.26 -9.39 7.11 99.48 0.71 -8.69 16 5 H -0.27 -9.69 7.11 99.48 0.71 -8.98 16 6 H -0.26 -9.35 7.11 99.48 0.71 -8.65 16 7 C -0.48 -25.81 9.05 23.46 0.21 -25.60 16 8 H 0.09 4.31 7.91 -2.91 -0.02 4.29 16 9 C 0.09 4.68 5.57 -21.29 -0.12 4.56 16 10 C -0.24 -11.91 9.80 22.73 0.22 -11.68 16 11 C -0.07 -3.08 9.67 22.22 0.21 -2.87 16 12 C -0.23 -9.91 5.16 -19.68 -0.10 -10.01 16 13 C -0.53 -16.77 5.59 71.23 0.40 -16.37 16 14 S 2.57 96.91 5.15 -56.49 -0.29 96.62 16 15 O -0.98 -40.82 16.26 -118.57 -1.93 -42.75 16 16 O -0.98 -45.59 18.09 -118.57 -2.15 -47.73 16 17 O -0.67 -21.78 10.05 -61.55 -0.62 -22.40 16 18 C 0.03 0.91 4.79 22.51 0.11 1.02 16 19 C -0.14 -2.55 8.47 22.37 0.19 -2.36 16 20 C -0.09 -1.17 10.04 22.25 0.22 -0.94 16 21 C -0.09 -1.14 9.70 22.28 0.22 -0.92 16 22 C -0.08 -1.47 5.39 -19.88 -0.11 -1.57 16 23 C 0.10 1.44 6.91 85.56 0.59 2.03 16 24 N -0.86 -10.53 9.61 -190.01 -1.83 -12.36 16 25 C -0.10 -2.69 8.70 22.36 0.19 -2.50 16 26 C -0.09 -4.42 9.67 22.22 0.21 -4.21 16 27 C -0.19 -10.45 8.70 22.73 0.20 -10.26 16 28 H 0.29 13.97 8.30 -92.70 -0.77 13.20 16 29 H 0.11 4.93 8.06 -2.91 -0.02 4.91 16 30 H 0.13 4.64 8.06 -2.91 -0.02 4.61 16 31 H 0.16 3.82 6.57 -2.39 -0.02 3.80 16 32 H 0.16 4.01 8.08 -2.39 -0.02 3.99 16 33 H 0.16 2.19 7.53 -2.91 -0.02 2.17 16 34 H 0.18 0.82 8.06 -2.91 -0.02 0.79 16 35 H 0.17 0.81 8.06 -2.91 -0.02 0.78 16 36 H 0.07 0.63 8.09 -2.39 -0.02 0.61 16 37 H 0.07 1.25 8.08 -2.38 -0.02 1.23 16 38 H 0.35 3.15 8.99 -89.69 -0.81 2.34 16 39 H 0.36 2.94 9.08 -89.69 -0.81 2.13 16 40 H 0.12 3.46 8.06 -2.91 -0.02 3.44 16 41 H 0.11 4.82 8.06 -2.91 -0.02 4.80 16 42 H 0.11 5.96 6.16 -2.91 -0.02 5.95 16 Total: -1.00 -77.09 370.51 -1.99 -79.09 By element: Atomic # 1 Polarization: 33.28 SS G_CDS: -0.55 Total: 32.73 kcal Atomic # 6 Polarization: -82.79 SS G_CDS: 3.09 Total: -79.69 kcal Atomic # 7 Polarization: -53.77 SS G_CDS: -1.59 Total: -55.36 kcal Atomic # 8 Polarization: -108.19 SS G_CDS: -4.69 Total: -112.89 kcal Atomic # 14 Polarization: 37.47 SS G_CDS: 2.03 Total: 39.50 kcal Atomic # 16 Polarization: 96.91 SS G_CDS: -0.29 Total: 96.62 kcal Total: -77.09 -1.99 -79.09 kcal The number of atoms in the molecule is 42 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. ZINC001580055460.mol2 42 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 -8.613 kcal (2) G-P(sol) polarization free energy of solvation -77.094 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -85.707 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.992 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -79.085 kcal (6) G-S(sol) free energy of system = (1) + (5) -87.699 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.89 seconds