Wall clock time and date at job start Tue Mar 31 2020 18:40:04 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 1.53001 * 1 3 3 H 1.08999 * 110.84197 * 2 1 4 4 S 1.84337 * 110.76430 * 123.54277 * 2 1 3 5 5 C 1.84221 * 93.82541 * 151.92780 * 4 2 1 6 6 C 1.54561 * 101.32680 * 327.58606 * 5 4 2 7 7 H 1.09005 * 108.75232 * 262.13012 * 6 5 4 8 8 C 1.50694 * 108.63092 * 143.97690 * 6 5 4 9 9 O 1.20825 * 119.99951 * 236.44438 * 8 6 5 10 10 O 1.34228 * 120.00073 * 56.43200 * 8 6 5 11 11 N 1.45503 * 113.16519 * 23.09264 * 6 5 4 12 12 S 1.65599 * 122.43432 * 181.07884 * 11 6 5 13 13 O 1.42103 * 104.27321 * 333.93286 * 12 11 6 14 14 O 1.42098 * 104.27760 * 206.07470 * 12 11 6 15 15 C 1.81401 * 104.44766 * 90.00121 * 12 11 6 16 16 C 1.53002 * 109.46960 * 174.66102 * 15 12 11 17 17 C 1.50696 * 115.55242 * 65.22199 * 16 15 12 18 18 H 1.07999 * 120.00039 * 264.78668 * 17 16 15 19 19 C 1.37881 * 119.99947 * 84.77762 * 17 16 15 20 20 N 1.31510 * 120.00014 * 352.22803 * 19 17 16 21 21 Si 1.86798 * 119.99877 * 172.22160 * 19 17 16 22 22 H 1.48500 * 109.47059 * 90.00163 * 21 19 17 23 23 H 1.48492 * 109.47286 * 210.00232 * 21 19 17 24 24 H 1.48503 * 109.47462 * 330.00750 * 21 19 17 25 25 C 1.52997 * 117.49719 * 279.54669 * 16 15 12 26 26 C 1.52998 * 117.49585 * 210.89331 * 16 15 12 27 27 H 1.08994 * 109.47542 * 183.39426 * 1 2 3 28 28 H 1.09003 * 109.46991 * 303.39333 * 1 2 3 29 29 H 1.08998 * 109.47075 * 63.39006 * 1 2 3 30 30 H 1.08994 * 111.05185 * 209.57179 * 5 4 2 31 31 H 1.09001 * 111.04852 * 85.59395 * 5 4 2 32 32 H 0.96697 * 117.00217 * 179.97438 * 10 8 6 33 33 H 1.09000 * 109.47215 * 294.66387 * 15 12 11 34 34 H 1.08999 * 109.46929 * 54.65727 * 15 12 11 35 35 H 0.96997 * 119.99658 * 185.02611 * 20 19 17 36 36 H 1.09002 * 117.50044 * 0.02562 * 25 16 15 37 37 H 1.09002 * 117.49564 * 145.02231 * 25 16 15 38 38 H 1.09000 * 117.49901 * 214.97887 * 26 16 15 39 39 H 1.09005 * 117.50109 * 359.97438 * 26 16 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 1 1.9178 1.0187 0.0000 4 16 2.1835 -0.9524 1.4366 5 6 3.7436 -1.4191 0.5752 6 6 3.2611 -1.5275 -0.8892 7 1 3.0665 -2.5755 -1.1173 8 6 4.3580 -1.0313 -1.7955 9 8 4.1393 -0.1320 -2.5722 10 8 5.5780 -1.5881 -1.7397 11 7 2.0536 -0.7596 -1.1523 12 16 1.3235 -0.7339 -2.6384 13 8 2.3765 -1.0130 -3.5509 14 8 0.6370 0.5098 -2.6702 15 6 0.1440 -2.1111 -2.5871 16 6 -0.6953 -2.1117 -3.8664 17 6 0.0618 -2.3854 -5.1403 18 1 0.4175 -1.5637 -5.7443 19 6 0.3006 -3.6848 -5.5347 20 7 0.0052 -4.6813 -4.7291 21 14 1.0437 -4.0297 -7.2135 22 1 2.5244 -4.0534 -7.1040 23 1 0.5627 -5.3450 -7.7070 24 1 0.6348 -2.9646 -8.1642 25 6 -1.8723 -1.1369 -3.9396 26 6 -2.1293 -2.6363 -3.7702 27 1 -0.3634 -1.0258 0.0608 28 1 -0.3633 0.5656 0.8580 29 1 -0.3633 0.4603 -0.9188 30 1 4.1185 -2.3769 0.9359 31 1 4.4981 -0.6398 0.6821 32 1 6.2490 -1.2365 -2.3407 33 1 0.6877 -3.0525 -2.5088 34 1 -0.5107 -1.9967 -1.7231 35 1 0.2396 -5.5898 -4.9752 36 1 -2.0485 -0.4949 -3.0765 37 1 -2.0992 -0.6938 -4.9093 38 1 -2.5253 -3.1790 -4.6286 39 1 -2.4747 -2.9814 -2.7957 RHF calculation, no. of doubly occupied orbitals= 57 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 ZINC000519163033.mol2 39 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 18:40:04 Heat of formation + Delta-G solvation = -135.410603 kcal Electronic energy + Delta-G solvation = -26830.335153 eV Core-core repulsion = 22992.247456 eV Total energy + Delta-G solvation = -3838.087696 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 335.074 amu Computer time = 0.83 seconds Orbital eigenvalues (eV) -41.50951 -38.62112 -38.50525 -38.08404 -37.01265 -36.71799 -34.11667 -33.51669 -30.16481 -29.93278 -27.54780 -26.55298 -24.12626 -23.01015 -22.66172 -21.29430 -19.90186 -19.25140 -18.92168 -18.37678 -18.06397 -17.76479 -16.91836 -16.73840 -16.63546 -16.33118 -16.08932 -15.66081 -15.24668 -15.04000 -14.87996 -14.27412 -13.91166 -13.82298 -13.74574 -13.38146 -13.30475 -13.14636 -13.03045 -12.99211 -12.90116 -12.76280 -12.46382 -12.38673 -12.32015 -12.15567 -11.96713 -11.83058 -11.55869 -11.16902 -10.89748 -10.58456 -10.47742 -9.90650 -8.91970 -8.22327 -6.36627 -0.76104 0.55512 0.87842 1.19573 1.35061 1.37450 1.46303 1.51681 2.01058 2.36730 2.90697 3.00680 3.05487 3.32390 3.37297 3.59634 3.72816 3.87120 3.95755 4.12563 4.17745 4.24013 4.42666 4.44504 4.48666 4.58100 4.65217 4.73932 4.83128 4.96122 5.08966 5.17286 5.21297 5.43476 5.58024 5.61509 5.68761 6.19729 6.68792 6.94540 7.35441 8.84543 Molecular weight = 335.07amu Principal moments of inertia in cm(-1) A = 0.013970 B = 0.005745 C = 0.004747 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2003.808156 B = 4872.403141 C = 5896.561550 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.197 4.197 2 C 0.198 3.802 3 H 0.107 0.893 4 S -0.248 6.248 5 C -0.045 4.045 6 C 0.146 3.854 7 H 0.137 0.863 8 C 0.456 3.544 9 O -0.515 6.515 10 O -0.501 6.501 11 N -0.994 5.994 12 S 2.622 3.378 13 O -0.966 6.966 14 O -0.978 6.978 15 C -0.547 4.547 16 C 0.010 3.990 17 C -0.536 4.536 18 H 0.044 0.956 19 C 0.046 3.954 20 N -0.888 5.888 21 Si 0.931 3.069 22 H -0.278 1.278 23 H -0.270 1.270 24 H -0.272 1.272 25 C -0.198 4.198 26 C -0.134 4.134 27 H 0.085 0.915 28 H 0.115 0.885 29 H 0.089 0.911 30 H 0.167 0.833 31 H 0.119 0.881 32 H 0.428 0.572 33 H 0.123 0.877 34 H 0.135 0.865 35 H 0.267 0.733 36 H 0.102 0.898 37 H 0.081 0.919 38 H 0.067 0.933 39 H 0.092 0.908 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 6.439 3.686 15.207 16.920 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 -0.255 4.255 2 C -0.016 4.016 3 H 0.125 0.875 4 S -0.023 6.023 5 C -0.195 4.195 6 C 0.035 3.965 7 H 0.154 0.846 8 C 0.294 3.706 9 O -0.402 6.402 10 O -0.314 6.314 11 N -0.831 5.831 12 S 2.721 3.279 13 O -0.956 6.956 14 O -0.968 6.968 15 C -0.680 4.680 16 C 0.007 3.993 17 C -0.574 4.574 18 H 0.062 0.938 19 C -0.157 4.157 20 N -0.524 5.524 21 Si 0.756 3.244 22 H -0.204 1.204 23 H -0.194 1.194 24 H -0.196 1.196 25 C -0.235 4.235 26 C -0.173 4.173 27 H 0.104 0.896 28 H 0.134 0.866 29 H 0.108 0.892 30 H 0.185 0.815 31 H 0.138 0.862 32 H 0.290 0.710 33 H 0.142 0.858 34 H 0.153 0.847 35 H 0.076 0.924 36 H 0.120 0.880 37 H 0.099 0.901 38 H 0.086 0.914 39 H 0.110 0.890 Dipole moment (debyes) X Y Z Total from point charges 5.804 3.983 15.683 17.190 hybrid contribution 1.078 -0.296 -2.581 2.813 sum 6.882 3.687 13.102 15.252 Atomic orbital electron populations 1.22640 0.90427 1.05549 1.06915 1.23915 0.98748 0.96313 0.82669 0.87525 1.88234 1.22689 1.68673 1.22670 1.24554 0.96905 1.09828 0.88186 1.20845 0.81632 0.98071 0.95903 0.84564 1.23921 0.84115 0.80411 0.82166 1.90793 1.81814 1.30560 1.37080 1.84389 1.21019 1.62690 1.63307 1.58738 1.35094 1.60325 1.28979 1.04839 0.75000 0.76520 0.71492 1.93546 1.54287 1.86387 1.61392 1.93420 1.76349 1.41656 1.85412 1.29983 1.14655 1.17617 1.05700 1.18383 0.87674 1.02216 0.90991 1.20664 1.37699 0.92340 1.06658 0.93822 1.25459 0.94676 0.95948 0.99621 1.70001 1.45510 0.99696 1.37177 0.85966 0.78898 0.78048 0.81454 1.20420 1.19438 1.19645 1.23268 1.05037 0.92824 1.02360 1.22529 0.99417 0.94410 1.00969 0.89594 0.86645 0.89208 0.81538 0.86215 0.71046 0.85833 0.84674 0.92400 0.87990 0.90083 0.91448 0.88998 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 18. 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 -0.20 -4.53 8.46 71.98 0.61 -3.92 16 2 C 0.20 4.93 4.05 86.17 0.35 5.28 16 3 H 0.11 2.59 8.14 -2.39 -0.02 2.57 16 4 S -0.25 -4.88 22.92 -56.49 -1.29 -6.17 16 5 C -0.05 -0.73 6.91 72.51 0.50 -0.23 16 6 C 0.15 3.71 3.18 44.96 0.14 3.85 16 7 H 0.14 3.15 8.14 -2.38 -0.02 3.13 16 8 C 0.46 13.56 6.71 71.23 0.48 14.03 16 9 O -0.52 -20.61 13.96 29.80 0.42 -20.19 16 10 O -0.50 -10.42 13.27 -51.39 -0.68 -11.10 16 11 N -0.99 -30.44 2.85 -479.61 -1.37 -31.81 16 12 S 2.62 108.64 4.28 -56.49 -0.24 108.40 16 13 O -0.97 -48.33 13.51 -118.26 -1.60 -49.93 16 14 O -0.98 -42.79 15.12 -127.65 -1.93 -44.72 16 15 C -0.55 -22.23 5.96 71.98 0.43 -21.80 16 16 C 0.01 0.47 1.32 -52.93 -0.07 0.40 16 17 C -0.54 -29.82 8.15 25.60 0.21 -29.62 16 18 H 0.04 2.56 7.83 -2.91 -0.02 2.54 16 19 C 0.05 2.53 5.38 84.66 0.46 2.99 16 20 N -0.89 -48.09 12.98 21.45 0.28 -47.81 16 21 Si 0.93 44.02 29.55 68.60 2.03 46.05 16 22 H -0.28 -13.20 7.11 99.48 0.71 -12.50 16 23 H -0.27 -12.02 7.11 99.48 0.71 -11.31 16 24 H -0.27 -12.82 7.11 99.48 0.71 -12.11 16 25 C -0.20 -8.36 9.96 30.61 0.30 -8.05 16 26 C -0.13 -5.86 9.49 30.61 0.29 -5.57 16 27 H 0.09 1.84 6.97 -2.39 -0.02 1.82 16 28 H 0.11 1.98 8.14 -2.39 -0.02 1.96 16 29 H 0.09 2.50 5.54 -2.39 -0.01 2.49 16 30 H 0.17 1.61 8.14 -2.39 -0.02 1.59 16 31 H 0.12 1.63 7.84 -2.39 -0.02 1.61 16 32 H 0.43 5.91 9.10 -74.06 -0.67 5.23 16 33 H 0.12 5.26 8.14 -2.39 -0.02 5.24 16 34 H 0.14 4.41 6.43 -2.39 -0.02 4.40 16 35 H 0.27 13.69 8.32 -92.71 -0.77 12.92 16 36 H 0.10 3.72 8.14 -2.39 -0.02 3.71 16 37 H 0.08 3.48 8.14 -2.39 -0.02 3.46 16 38 H 0.07 3.18 8.14 -2.39 -0.02 3.16 16 39 H 0.09 3.52 8.14 -2.38 -0.02 3.50 16 Total: -1.00 -76.24 344.63 -0.28 -76.52 By element: Atomic # 1 Polarization: 22.99 SS G_CDS: 0.41 Total: 23.41 kcal Atomic # 6 Polarization: -46.35 SS G_CDS: 3.70 Total: -42.65 kcal Atomic # 7 Polarization: -78.52 SS G_CDS: -1.09 Total: -79.61 kcal Atomic # 8 Polarization: -122.15 SS G_CDS: -3.79 Total: -125.94 kcal Atomic # 14 Polarization: 44.02 SS G_CDS: 2.03 Total: 46.05 kcal Atomic # 16 Polarization: 103.76 SS G_CDS: -1.54 Total: 102.23 kcal Total: -76.24 -0.28 -76.52 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. ZINC000519163033.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 -58.886 kcal (2) G-P(sol) polarization free energy of solvation -76.243 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -135.130 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.281 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -76.524 kcal (6) G-S(sol) free energy of system = (1) + (5) -135.411 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.83 seconds