Wall clock time and date at job start Tue Mar 31 2020 00:55:20 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 1.53006 * 1 3 3 C 1.53006 * 109.47000 * 2 1 4 4 H 1.08998 * 109.47107 * 54.17862 * 3 2 1 5 5 S 1.81402 * 109.46868 * 294.17957 * 3 2 1 6 6 C 1.81403 * 103.00075 * 172.89994 * 5 3 2 7 7 C 1.52991 * 109.47194 * 175.63108 * 6 5 3 8 8 C 1.53002 * 109.47337 * 299.99908 * 7 6 5 9 9 C 1.53003 * 109.47186 * 59.99838 * 7 6 5 10 10 C 1.50700 * 109.47074 * 179.97438 * 7 6 5 11 11 H 1.07996 * 120.00343 * 3.74300 * 10 7 6 12 12 C 1.37886 * 120.00076 * 183.74907 * 10 7 6 13 13 N 1.31510 * 119.99590 * 191.72503 * 12 10 7 14 14 Si 1.86801 * 119.99983 * 11.71981 * 12 10 7 15 15 H 1.48497 * 109.47064 * 84.79273 * 14 12 10 16 16 H 1.48492 * 109.46894 * 204.79354 * 14 12 10 17 17 H 1.48503 * 109.47057 * 324.79529 * 14 12 10 18 18 C 1.50693 * 109.46918 * 174.18063 * 3 2 1 19 19 C 1.38234 * 120.00434 * 59.72398 * 18 3 2 20 20 C 1.38230 * 120.00242 * 179.78705 * 19 18 3 21 21 C 1.38235 * 120.00250 * 0.43935 * 20 19 18 22 22 C 1.38239 * 119.99386 * 359.81539 * 21 20 19 23 23 C 1.38232 * 120.00241 * 359.97438 * 22 21 20 24 24 H 1.08993 * 109.47013 * 185.71648 * 1 2 3 25 25 H 1.09000 * 109.47154 * 305.71838 * 1 2 3 26 26 H 1.09002 * 109.46873 * 65.71617 * 1 2 3 27 27 H 1.08996 * 109.47305 * 240.00065 * 2 1 3 28 28 H 1.08997 * 109.47123 * 119.99491 * 2 1 3 29 29 H 1.08994 * 109.46782 * 295.63508 * 6 5 3 30 30 H 1.09001 * 109.46704 * 55.62882 * 6 5 3 31 31 H 1.08995 * 109.46945 * 69.77657 * 8 7 6 32 32 H 1.09003 * 109.47076 * 189.78064 * 8 7 6 33 33 H 1.09000 * 109.47223 * 309.77827 * 8 7 6 34 34 H 1.08998 * 109.46788 * 60.00338 * 9 7 6 35 35 H 1.09003 * 109.47129 * 179.97438 * 9 7 6 36 36 H 1.08990 * 109.47202 * 299.99835 * 9 7 6 37 37 H 0.97006 * 120.00037 * 180.02562 * 13 12 10 38 38 H 1.08005 * 119.99896 * 359.97438 * 19 18 3 39 39 H 1.08005 * 120.00077 * 180.27325 * 20 19 18 40 40 H 1.08003 * 120.00374 * 179.83234 * 21 20 19 41 41 H 1.08004 * 119.99875 * 179.97438 * 22 21 20 42 42 H 1.08001 * 119.99585 * 180.02562 * 23 22 21 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 1.5301 0.0000 0.0000 3 6 2.0400 1.4426 0.0000 4 1 1.5941 1.9856 0.8333 5 16 1.5811 2.2461 -1.5602 6 6 2.0669 3.9726 -1.2885 7 6 1.8409 4.7741 -2.5719 8 6 2.6849 4.1784 -3.7005 9 6 0.3611 4.7150 -2.9561 10 6 2.2439 6.2085 -2.3459 11 1 2.6795 6.5049 -1.4032 12 6 2.0563 7.1426 -3.3427 13 7 2.6098 8.3313 -3.2424 14 14 1.0160 6.7194 -4.8354 15 1 -0.4157 6.9644 -4.5265 16 1 1.4273 7.5685 -5.9821 17 1 1.2094 5.2890 -5.1842 18 6 3.5401 1.4450 0.1441 19 6 4.3260 0.8080 -0.7980 20 6 5.7022 0.8140 -0.6681 21 6 6.2922 1.4492 0.4086 22 6 5.5059 2.0817 1.3534 23 6 4.1299 2.0795 1.2213 24 1 -0.3633 -1.0225 0.1024 25 1 -0.3633 0.5999 0.8344 26 1 -0.3633 0.4226 -0.9368 27 1 1.8934 -0.5138 -0.8899 28 1 1.8934 -0.5137 0.8900 29 1 1.4656 4.3969 -0.4845 30 1 3.1211 4.0145 -1.0147 31 1 2.2811 3.2059 -3.9818 32 1 2.6612 4.8450 -4.5626 33 1 3.7140 4.0601 -3.3611 34 1 -0.2402 5.1395 -2.1522 35 1 0.2000 5.2865 -3.8703 36 1 0.0692 3.6777 -3.1195 37 1 2.4776 8.9886 -3.9434 38 1 3.8649 0.3081 -1.6371 39 1 6.3164 0.3200 -1.4065 40 1 7.3673 1.4516 0.5114 41 1 5.9668 2.5777 2.1949 42 1 3.5158 2.5740 1.9593 RHF calculation, no. of doubly occupied orbitals= 50 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) 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 ZINC001640985227.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 00:55:20 Heat of formation + Delta-G solvation = 4.178559 kcal Electronic energy + Delta-G solvation = -19804.165553 eV Core-core repulsion = 17067.595711 eV Total energy + Delta-G solvation = -2736.569842 eV No. of doubly occupied orbitals = 50 Molecular weight (most abundant/longest-lived isotopes) = 278.140 amu Computer time = 0.61 seconds Orbital eigenvalues (eV) -40.21847 -38.22521 -36.07719 -33.97832 -32.03765 -31.72590 -28.65970 -28.02512 -27.28849 -27.00728 -23.71081 -22.95055 -21.92331 -20.91807 -18.16061 -17.84610 -17.44177 -17.16725 -16.26521 -16.02891 -15.37705 -15.35173 -14.97588 -14.84564 -14.67535 -14.42101 -14.22625 -13.94907 -13.78894 -13.57882 -13.06841 -12.88876 -12.75591 -12.57508 -12.39864 -12.07014 -11.97031 -11.91776 -11.84716 -11.75063 -11.69137 -11.16485 -10.71402 -10.48514 -10.43145 -9.79166 -9.56003 -8.41352 -8.32684 -6.33944 0.31804 0.54042 0.95487 1.32557 1.35890 1.46789 1.81307 2.31637 2.95866 3.03961 3.59389 3.83717 4.03502 4.08286 4.17858 4.20513 4.22548 4.31132 4.46636 4.47223 4.58384 4.69275 4.71199 4.75421 4.80106 4.87111 4.91090 4.95573 5.06713 5.08116 5.14276 5.18570 5.21124 5.22978 5.45206 5.46337 5.59195 5.65161 5.67534 5.70466 5.74389 6.14065 6.28358 6.69386 7.31249 8.84203 Molecular weight = 278.14amu Principal moments of inertia in cm(-1) A = 0.018531 B = 0.005784 C = 0.004890 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1510.602486 B = 4839.607237 C = 5724.278269 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.151 4.151 2 C -0.090 4.090 3 C -0.017 4.017 4 H 0.088 0.912 5 S -0.247 6.247 6 C -0.041 4.041 7 C 0.050 3.950 8 C -0.133 4.133 9 C -0.145 4.145 10 C -0.511 4.511 11 H 0.031 0.969 12 C 0.021 3.979 13 N -0.945 5.945 14 Si 0.942 3.058 15 H -0.280 1.280 16 H -0.312 1.312 17 H -0.219 1.219 18 C -0.091 4.091 19 C -0.107 4.107 20 C -0.128 4.128 21 C -0.128 4.128 22 C -0.129 4.129 23 C -0.130 4.130 24 H 0.071 0.929 25 H 0.055 0.945 26 H 0.054 0.946 27 H 0.071 0.929 28 H 0.085 0.915 29 H 0.062 0.938 30 H 0.056 0.944 31 H 0.057 0.943 32 H 0.040 0.960 33 H 0.038 0.962 34 H 0.049 0.951 35 H 0.031 0.969 36 H 0.068 0.932 37 H 0.265 0.735 38 H 0.127 0.873 39 H 0.140 0.860 40 H 0.141 0.859 41 H 0.137 0.863 42 H 0.123 0.877 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 0.983 -19.679 6.962 20.897 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 -0.209 4.209 2 C -0.128 4.128 3 C -0.145 4.145 4 H 0.106 0.894 5 S -0.016 6.016 6 C -0.189 4.189 7 C 0.048 3.952 8 C -0.190 4.190 9 C -0.202 4.202 10 C -0.550 4.550 11 H 0.050 0.950 12 C -0.176 4.176 13 N -0.585 5.585 14 Si 0.772 3.228 15 H -0.208 1.208 16 H -0.242 1.242 17 H -0.143 1.143 18 C -0.093 4.093 19 C -0.126 4.126 20 C -0.146 4.146 21 C -0.147 4.147 22 C -0.147 4.147 23 C -0.150 4.150 24 H 0.090 0.910 25 H 0.074 0.926 26 H 0.073 0.927 27 H 0.090 0.910 28 H 0.104 0.896 29 H 0.081 0.919 30 H 0.074 0.926 31 H 0.076 0.924 32 H 0.059 0.941 33 H 0.058 0.942 34 H 0.068 0.932 35 H 0.049 0.951 36 H 0.086 0.914 37 H 0.074 0.926 38 H 0.145 0.855 39 H 0.158 0.842 40 H 0.159 0.841 41 H 0.155 0.845 42 H 0.141 0.859 Dipole moment (debyes) X Y Z Total from point charges 0.479 -19.986 5.986 20.869 hybrid contribution 0.313 1.539 0.593 1.679 sum 0.792 -18.447 6.579 19.602 Atomic orbital electron populations 1.21810 0.94368 1.02369 1.02317 1.21331 0.96878 0.91361 1.03252 1.22315 0.93891 1.00733 0.97559 0.89362 1.86417 1.82434 1.07728 1.24972 1.23223 1.01879 0.92559 1.01225 1.18249 0.92904 0.92675 0.91345 1.22157 0.99344 0.99152 0.98384 1.22309 0.97641 1.00569 0.99633 1.21091 1.40669 0.92742 1.00488 0.95032 1.25756 0.96234 0.94650 1.01005 1.70074 1.44810 1.07462 1.36109 0.86328 0.78541 0.79457 0.78497 1.20756 1.24158 1.14297 1.19937 0.94472 0.98991 0.95855 1.21126 0.94045 0.99018 0.98390 1.21430 0.94735 0.99859 0.98535 1.21467 1.00933 0.97733 0.94552 1.21383 0.93527 0.99635 1.00158 1.21244 0.95810 0.99872 0.98088 0.91045 0.92593 0.92682 0.91036 0.89636 0.91948 0.92570 0.92422 0.94119 0.94249 0.93194 0.95093 0.91351 0.92628 0.85465 0.84198 0.84078 0.84507 0.85887 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 -2.83 9.65 71.98 0.69 -2.14 16 2 C -0.09 -1.79 5.12 30.60 0.16 -1.63 16 3 C -0.02 -0.42 2.43 29.85 0.07 -0.35 16 4 H 0.09 2.23 7.88 -2.39 -0.02 2.21 16 5 S -0.25 -7.82 16.98 -56.49 -0.96 -8.78 16 6 C -0.04 -1.62 4.71 71.98 0.34 -1.28 16 7 C 0.05 2.29 0.52 -52.93 -0.03 2.26 16 8 C -0.13 -5.76 7.42 71.98 0.53 -5.22 16 9 C -0.14 -6.14 7.40 71.98 0.53 -5.61 16 10 C -0.51 -28.96 8.62 25.60 0.22 -28.74 16 11 H 0.03 1.99 7.99 -2.91 -0.02 1.97 16 12 C 0.02 1.23 5.35 84.66 0.45 1.69 16 13 N -0.94 -59.48 13.96 21.45 0.30 -59.18 16 14 Si 0.94 45.40 22.76 68.60 1.56 46.96 16 15 H -0.28 -13.16 7.09 99.48 0.71 -12.45 16 16 H -0.31 -15.25 7.11 99.48 0.71 -14.54 16 17 H -0.22 -9.48 4.67 99.48 0.46 -9.01 16 18 C -0.09 -2.36 4.44 -19.87 -0.09 -2.45 16 19 C -0.11 -2.68 8.84 22.27 0.20 -2.48 16 20 C -0.13 -2.89 10.05 22.27 0.22 -2.67 16 21 C -0.13 -2.80 10.05 22.27 0.22 -2.58 16 22 C -0.13 -2.99 10.05 22.27 0.22 -2.76 16 23 C -0.13 -3.32 9.67 22.27 0.22 -3.10 16 24 H 0.07 1.07 8.14 -2.39 -0.02 1.06 16 25 H 0.05 1.03 8.14 -2.39 -0.02 1.01 16 26 H 0.05 1.19 7.38 -2.39 -0.02 1.17 16 27 H 0.07 1.43 7.59 -2.39 -0.02 1.41 16 28 H 0.09 1.49 8.14 -2.39 -0.02 1.47 16 29 H 0.06 2.53 8.14 -2.39 -0.02 2.51 16 30 H 0.06 2.39 7.96 -2.39 -0.02 2.37 16 31 H 0.06 2.22 7.30 -2.39 -0.02 2.20 16 32 H 0.04 1.83 4.44 -2.39 -0.01 1.82 16 33 H 0.04 1.70 8.12 -2.39 -0.02 1.68 16 34 H 0.05 2.09 8.14 -2.39 -0.02 2.07 16 35 H 0.03 1.36 2.10 -2.39 -0.01 1.35 16 36 H 0.07 2.55 6.91 -2.39 -0.02 2.54 16 37 H 0.26 15.71 8.31 -92.70 -0.77 14.94 16 38 H 0.13 3.04 7.64 -2.91 -0.02 3.02 16 39 H 0.14 2.50 8.06 -2.91 -0.02 2.48 16 40 H 0.14 2.34 8.06 -2.91 -0.02 2.32 16 41 H 0.14 2.57 8.06 -2.91 -0.02 2.54 16 42 H 0.12 2.88 7.95 -2.91 -0.02 2.85 16 Total: -1.00 -64.69 333.31 5.60 -59.09 By element: Atomic # 1 Polarization: 18.26 SS G_CDS: 0.73 Total: 18.98 kcal Atomic # 6 Polarization: -61.04 SS G_CDS: 3.97 Total: -57.07 kcal Atomic # 7 Polarization: -59.48 SS G_CDS: 0.30 Total: -59.18 kcal Atomic # 14 Polarization: 45.40 SS G_CDS: 1.56 Total: 46.96 kcal Atomic # 16 Polarization: -7.82 SS G_CDS: -0.96 Total: -8.78 kcal Total: -64.69 5.60 -59.09 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. ZINC001640985227.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 63.271 kcal (2) G-P(sol) polarization free energy of solvation -64.693 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -1.422 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 5.601 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -59.092 kcal (6) G-S(sol) free energy of system = (1) + (5) 4.179 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.61 seconds