Wall clock time and date at job start Tue Mar 31 2020 20:47:24 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 1.53000 * 1 3 3 H 1.09000 * 109.47461 * 2 1 4 4 C 1.53001 * 109.47707 * 239.99320 * 2 1 3 5 5 C 1.52994 * 109.47300 * 174.99937 * 4 2 1 6 6 N 1.46498 * 109.47150 * 180.02562 * 5 4 2 7 7 C 1.34777 * 120.00015 * 180.02562 * 6 5 4 8 8 O 1.21283 * 120.00349 * 359.97438 * 7 6 5 9 9 C 1.50702 * 120.00100 * 180.02562 * 7 6 5 10 10 S 1.80992 * 109.47481 * 179.97438 * 9 7 6 11 11 C 1.76203 * 100.00288 * 179.97438 * 10 9 7 12 12 H 1.08000 * 119.99776 * 0.02562 * 11 10 9 13 13 C 1.38794 * 120.00077 * 179.97438 * 11 10 9 14 14 N 1.31634 * 119.99942 * 359.97438 * 13 11 10 15 15 Si 1.86797 * 120.00207 * 180.02562 * 13 11 10 16 16 H 1.48506 * 109.46745 * 359.97438 * 15 13 11 17 17 H 1.48500 * 109.47519 * 119.99962 * 15 13 11 18 18 H 1.48497 * 109.47113 * 240.00366 * 15 13 11 19 19 N 1.46504 * 109.47183 * 119.99175 * 2 1 3 20 20 C 1.34775 * 120.00360 * 275.00866 * 19 2 1 21 21 O 1.21518 * 119.99720 * 359.97438 * 20 19 2 22 22 C 1.48154 * 120.00194 * 179.97438 * 20 19 2 23 23 C 1.39717 * 120.18152 * 179.97438 * 22 20 19 24 24 C 1.38829 * 117.89527 * 180.02562 * 23 22 20 25 25 C 1.38568 * 118.06736 * 0.27849 * 24 23 22 26 26 N 1.32167 * 120.07069 * 359.43036 * 25 24 23 27 27 N 1.28357 * 122.30132 * 0.59212 * 26 25 24 28 28 H 1.08994 * 109.47200 * 300.00252 * 1 2 3 29 29 H 1.08999 * 109.46950 * 60.00745 * 1 2 3 30 30 H 1.09001 * 109.46726 * 180.02562 * 1 2 3 31 31 H 1.09004 * 109.46969 * 295.00383 * 4 2 1 32 32 H 1.09004 * 109.46569 * 55.00352 * 4 2 1 33 33 H 1.09004 * 109.47473 * 300.00137 * 5 4 2 34 34 H 1.08996 * 109.47503 * 60.00294 * 5 4 2 35 35 H 0.97001 * 120.00244 * 0.02562 * 6 5 4 36 36 H 1.09004 * 109.46782 * 300.00130 * 9 7 6 37 37 H 1.09010 * 109.47212 * 59.99961 * 9 7 6 38 38 H 0.97000 * 120.00021 * 179.97438 * 14 13 11 39 39 H 0.97003 * 119.99627 * 94.99929 * 19 2 1 40 40 H 1.07993 * 121.05288 * 0.04003 * 23 22 20 41 41 H 1.08002 * 120.96089 * 179.97438 * 24 23 22 42 42 H 1.08005 * 119.96418 * 179.72296 * 25 24 23 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 1 1.8934 1.0276 0.0000 4 6 2.0402 -0.7214 -1.2491 5 6 3.5649 -0.6134 -1.3135 6 7 4.0533 -1.3036 -2.5098 7 6 5.3742 -1.3397 -2.7750 8 8 6.1586 -0.8004 -2.0234 9 6 5.8766 -2.0492 -4.0060 10 16 7.6804 -1.9215 -4.0821 11 6 7.9875 -2.8104 -5.5722 12 1 7.1638 -3.2326 -6.1286 13 6 9.2879 -2.9670 -6.0314 14 7 10.2917 -2.4511 -5.3540 15 14 9.6134 -3.9087 -7.6115 16 1 8.3258 -4.3839 -8.1787 17 1 10.2867 -3.0170 -8.5895 18 1 10.4864 -5.0746 -7.3219 19 7 2.0184 -0.6905 1.1963 20 6 2.1469 -0.0181 2.3572 21 8 1.8582 1.1611 2.4116 22 6 2.6403 -0.7165 3.5671 23 6 2.7755 -0.0229 4.7724 24 6 3.2425 -0.7237 5.8762 25 6 3.5511 -2.0648 5.7142 26 7 3.3878 -2.6445 4.5377 27 7 2.9568 -2.0048 3.5118 28 1 -0.3633 0.5138 0.8899 29 1 -0.3633 0.5137 -0.8901 30 1 -0.3633 -1.0277 0.0005 31 1 1.7518 -1.7717 -1.2054 32 1 1.6056 -0.2619 -2.1369 33 1 3.8533 0.4369 -1.3572 34 1 3.9996 -1.0728 -0.4258 35 1 3.4260 -1.7346 -3.1112 36 1 5.5877 -3.0994 -3.9633 37 1 5.4424 -1.5886 -4.8935 38 1 11.2005 -2.5609 -5.6747 39 1 2.2490 -1.6316 1.1528 40 1 2.5246 1.0250 4.8433 41 1 3.3663 -0.2364 6.8320 42 1 3.9211 -2.6382 6.5514 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 ZINC001580300158.mol2 42 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 20:47:24 Heat of formation + Delta-G solvation = -53.229035 kcal Electronic energy + Delta-G solvation = -25191.624654 eV Core-core repulsion = 21297.045123 eV Total energy + Delta-G solvation = -3894.579531 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 338.120 amu Computer time = 0.68 seconds Orbital eigenvalues (eV) -42.25036 -40.84090 -40.45297 -37.79518 -35.67207 -34.58539 -34.26145 -34.05607 -32.50744 -31.26428 -29.22574 -27.65790 -26.66847 -25.63811 -24.44181 -22.78363 -21.95923 -21.54324 -19.88718 -19.50748 -18.41213 -17.81706 -17.57703 -17.41105 -17.21794 -16.88167 -16.69647 -16.56189 -15.92619 -15.75002 -15.41839 -15.21403 -14.85308 -14.76211 -14.47128 -14.44234 -14.19393 -13.64313 -13.56361 -13.16124 -13.02782 -12.91580 -12.67229 -12.63033 -12.44937 -12.41223 -11.95782 -11.70502 -11.35163 -11.27582 -11.23181 -11.16009 -10.98009 -10.89053 -10.28643 -10.26728 -10.10714 -8.67424 -8.34843 -6.13202 -0.63069 -0.29319 1.27115 1.41766 1.47436 1.52032 1.58593 1.60602 1.87438 2.24989 2.28849 2.56009 2.77416 2.99389 3.31727 3.39434 3.57527 3.70458 3.75431 3.79867 3.90726 4.02065 4.07125 4.12569 4.30678 4.40467 4.44396 4.51307 4.59973 4.72102 4.78765 4.82502 4.87528 4.99280 5.09823 5.12229 5.30164 5.40035 5.41939 5.42582 6.20164 6.27846 6.51797 6.92208 7.06462 7.25345 7.44863 8.74738 Molecular weight = 338.12amu Principal moments of inertia in cm(-1) A = 0.015205 B = 0.001970 C = 0.001812 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1841.063407 B =14209.306273 C =15449.573197 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.155 4.155 2 C 0.142 3.858 3 H 0.079 0.921 4 C -0.123 4.123 5 C 0.119 3.881 6 N -0.709 5.709 7 C 0.530 3.470 8 O -0.570 6.570 9 C -0.128 4.128 10 S -0.158 6.158 11 C -0.543 4.543 12 H 0.084 0.916 13 C 0.011 3.989 14 N -0.912 5.912 15 Si 1.001 2.999 16 H -0.255 1.255 17 H -0.274 1.274 18 H -0.274 1.274 19 N -0.698 5.698 20 C 0.575 3.425 21 O -0.556 6.556 22 C 0.002 3.998 23 C -0.078 4.078 24 C -0.100 4.100 25 C 0.058 3.942 26 N -0.277 5.277 27 N -0.235 5.235 28 H 0.045 0.955 29 H 0.088 0.912 30 H 0.072 0.928 31 H 0.101 0.899 32 H 0.116 0.884 33 H 0.050 0.950 34 H 0.049 0.951 35 H 0.420 0.580 36 H 0.112 0.888 37 H 0.112 0.888 38 H 0.271 0.729 39 H 0.416 0.584 40 H 0.172 0.828 41 H 0.205 0.795 42 H 0.217 0.783 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -24.935 2.093 19.548 31.753 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 -0.213 4.213 2 C 0.038 3.962 3 H 0.097 0.903 4 C -0.161 4.161 5 C -0.005 4.005 6 N -0.364 5.364 7 C 0.316 3.684 8 O -0.449 6.449 9 C -0.279 4.279 10 S 0.069 5.931 11 C -0.691 4.691 12 H 0.103 0.897 13 C -0.194 4.194 14 N -0.549 5.549 15 Si 0.823 3.177 16 H -0.179 1.179 17 H -0.200 1.200 18 H -0.200 1.200 19 N -0.349 5.349 20 C 0.359 3.641 21 O -0.434 6.434 22 C -0.144 4.144 23 C -0.107 4.107 24 C -0.129 4.129 25 C -0.104 4.104 26 N -0.120 5.120 27 N -0.082 5.082 28 H 0.064 0.936 29 H 0.107 0.893 30 H 0.091 0.909 31 H 0.119 0.881 32 H 0.134 0.866 33 H 0.069 0.931 34 H 0.068 0.932 35 H 0.257 0.743 36 H 0.130 0.870 37 H 0.131 0.869 38 H 0.080 0.920 39 H 0.253 0.747 40 H 0.190 0.810 41 H 0.222 0.778 42 H 0.233 0.767 Dipole moment (debyes) X Y Z Total from point charges -23.604 2.484 19.880 30.960 hybrid contribution -0.306 -0.250 -0.924 1.005 sum -23.910 2.234 18.956 30.594 Atomic orbital electron populations 1.22103 0.92865 1.03301 1.03013 1.21091 0.95507 0.96959 0.82680 0.90281 1.22068 0.91788 1.03736 0.98525 1.21369 0.95581 0.96565 0.86982 1.45679 1.06030 1.57252 1.27425 1.20145 0.82999 0.79280 0.85959 1.90700 1.56772 1.46804 1.50592 1.23367 1.00847 1.04456 0.99240 1.85640 0.99928 1.73396 1.34123 1.23235 0.96224 1.39964 1.09688 0.89741 1.26169 0.94710 0.96585 1.01932 1.70201 0.99939 1.44269 1.40504 0.84875 0.78828 0.77554 0.76493 1.17869 1.19966 1.19975 1.46050 1.64851 1.15032 1.08954 1.17777 0.77534 0.85718 0.83120 1.90782 1.51705 1.15810 1.85080 1.22878 1.01433 0.93758 0.96364 1.22729 0.93406 1.03182 0.91337 1.22994 0.93958 0.94548 1.01352 1.25226 0.92918 0.94918 0.97361 1.73068 1.09970 1.30957 0.97970 1.73137 1.06127 1.06240 1.22694 0.93556 0.89289 0.90946 0.88085 0.86606 0.93123 0.93239 0.74255 0.87008 0.86949 0.92025 0.74689 0.81026 0.77841 0.76657 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 C -0.15 -1.74 9.48 71.98 0.68 -1.06 16 2 C 0.14 2.08 2.57 44.99 0.12 2.19 16 3 H 0.08 1.47 7.58 -2.39 -0.02 1.45 16 4 C -0.12 -1.43 4.87 30.59 0.15 -1.28 16 5 C 0.12 2.60 5.56 86.38 0.48 3.09 16 6 N -0.71 -17.17 5.56 -463.07 -2.57 -19.74 16 7 C 0.53 19.80 7.85 87.66 0.69 20.48 16 8 O -0.57 -27.39 15.86 -3.04 -0.05 -27.44 16 9 C -0.13 -5.06 6.16 71.24 0.44 -4.62 16 10 S -0.16 -8.90 20.57 -56.49 -1.16 -10.06 16 11 C -0.54 -31.19 9.50 67.95 0.65 -30.54 16 12 H 0.08 4.48 7.80 -2.91 -0.02 4.46 16 13 C 0.01 0.60 5.49 84.86 0.47 1.07 16 14 N -0.91 -56.66 13.22 21.65 0.29 -56.37 16 15 Si 1.00 43.82 29.55 68.60 2.03 45.85 16 16 H -0.26 -10.37 7.11 99.48 0.71 -9.66 16 17 H -0.27 -11.66 7.11 99.48 0.71 -10.95 16 18 H -0.27 -11.67 7.11 99.48 0.71 -10.96 16 19 N -0.70 -12.47 4.52 -445.10 -2.01 -14.48 16 20 C 0.58 12.65 7.78 86.88 0.68 13.33 16 21 O -0.56 -14.67 16.06 -3.77 -0.06 -14.73 16 22 C 0.00 0.05 6.83 41.99 0.29 0.34 16 23 C -0.08 -1.07 9.73 22.77 0.22 -0.85 16 24 C -0.10 -0.73 10.20 22.49 0.23 -0.51 16 25 C 0.06 0.61 11.31 84.72 0.96 1.57 16 26 N -0.28 -5.54 11.51 -57.15 -0.66 -6.19 16 27 N -0.24 -5.22 10.75 -48.49 -0.52 -5.74 16 28 H 0.05 0.70 8.14 -2.39 -0.02 0.68 16 29 H 0.09 0.70 8.14 -2.39 -0.02 0.68 16 30 H 0.07 0.66 8.14 -2.39 -0.02 0.64 16 31 H 0.10 0.83 8.14 -2.38 -0.02 0.81 16 32 H 0.12 0.86 8.14 -2.39 -0.02 0.84 16 33 H 0.05 1.30 8.14 -2.38 -0.02 1.29 16 34 H 0.05 1.29 7.75 -2.39 -0.02 1.27 16 35 H 0.42 6.64 8.47 -92.71 -0.79 5.85 16 36 H 0.11 3.94 8.14 -2.39 -0.02 3.92 16 37 H 0.11 3.94 8.14 -2.39 -0.02 3.92 16 38 H 0.27 15.55 8.31 -92.71 -0.77 14.78 16 39 H 0.42 6.92 7.96 -92.71 -0.74 6.18 16 40 H 0.17 1.95 7.72 -2.91 -0.02 1.93 16 41 H 0.20 -0.41 8.06 -2.91 -0.02 -0.43 16 42 H 0.22 0.41 8.06 -2.91 -0.02 0.39 16 Total: -1.00 -89.50 383.10 0.86 -88.64 By element: Atomic # 1 Polarization: 17.53 SS G_CDS: -0.46 Total: 17.07 kcal Atomic # 6 Polarization: -2.84 SS G_CDS: 6.04 Total: 3.20 kcal Atomic # 7 Polarization: -97.05 SS G_CDS: -5.48 Total: -102.52 kcal Atomic # 8 Polarization: -42.06 SS G_CDS: -0.11 Total: -42.17 kcal Atomic # 14 Polarization: 43.82 SS G_CDS: 2.03 Total: 45.85 kcal Atomic # 16 Polarization: -8.90 SS G_CDS: -1.16 Total: -10.06 kcal Total: -89.50 0.86 -88.64 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. ZINC001580300158.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 35.413 kcal (2) G-P(sol) polarization free energy of solvation -89.501 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -54.088 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.859 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -88.642 kcal (6) G-S(sol) free energy of system = (1) + (5) -53.229 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.68 seconds