Wall clock time and date at job start Tue Mar 31 2020 15:51:07 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 1.31513 * 1 3 3 Si 1.86796 * 120.00156 * 2 1 4 4 H 1.48503 * 109.47130 * 179.97438 * 3 2 1 5 5 H 1.48495 * 109.46970 * 299.99446 * 3 2 1 6 6 H 1.48499 * 109.47302 * 59.99573 * 3 2 1 7 7 C 1.37876 * 119.99817 * 179.97438 * 2 1 3 8 8 H 1.07999 * 120.00237 * 188.46157 * 7 2 1 9 9 C 1.50705 * 119.99887 * 8.46395 * 7 2 1 10 10 H 1.09002 * 109.47140 * 185.45848 * 9 7 2 11 11 O 1.42906 * 109.47168 * 305.45602 * 9 7 2 12 12 C 1.35441 * 117.00059 * 270.00157 * 11 9 7 13 13 N 1.32242 * 120.45979 * 0.02562 * 12 11 9 14 14 C 1.32583 * 121.16292 * 179.97438 * 13 12 11 15 15 O 1.35501 * 118.99177 * 180.02562 * 14 13 12 16 16 N 1.31788 * 122.00950 * 0.02877 * 14 13 12 17 17 C 1.33874 * 120.94513 * 359.94752 * 16 14 13 18 18 S 1.75756 * 131.24481 * 180.02562 * 17 16 14 19 19 C 1.75340 * 92.19972 * 180.02562 * 18 17 16 20 20 C 1.31805 * 111.42118 * 359.75510 * 19 18 17 21 21 C 1.39798 * 119.14974 * 0.04827 * 17 16 14 22 22 C 1.50694 * 109.47073 * 65.45766 * 9 7 2 23 23 C 1.38230 * 120.00225 * 269.27054 * 22 9 7 24 24 C 1.38233 * 120.00350 * 179.81003 * 23 22 9 25 25 C 1.38237 * 119.99725 * 0.39863 * 24 23 22 26 26 C 1.38234 * 119.99929 * 359.85983 * 25 24 23 27 27 C 1.38230 * 120.00108 * 359.94839 * 26 25 24 28 28 H 0.97002 * 119.99999 * 0.02562 * 1 2 3 29 29 H 0.96691 * 114.00257 * 90.00415 * 15 14 13 30 30 H 1.08000 * 124.29494 * 179.97438 * 19 18 17 31 31 H 1.07999 * 122.59174 * 180.25749 * 20 19 18 32 32 H 1.08002 * 119.99878 * 359.97438 * 23 22 9 33 33 H 1.08004 * 120.00569 * 180.23192 * 24 23 22 34 34 H 1.08007 * 119.99927 * 179.83064 * 25 24 23 35 35 H 1.08008 * 119.99583 * 179.97438 * 26 25 24 36 36 H 1.08005 * 119.99939 * 179.97438 * 27 26 25 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 1.3151 0.0000 0.0000 3 14 2.2492 1.6177 0.0000 4 1 3.7092 1.3463 0.0006 5 1 1.8905 2.3963 -1.2125 6 1 1.8904 2.3965 1.2124 7 6 2.0045 -1.1941 0.0005 8 1 3.0757 -1.1992 0.1382 9 6 1.2632 -2.4921 -0.1910 10 1 1.9531 -3.3266 -0.0650 11 8 0.2158 -2.5898 0.7763 12 6 0.5226 -3.1772 1.9576 13 7 1.7437 -3.6319 2.1830 14 6 2.0594 -4.2088 3.3343 15 8 3.3243 -4.6585 3.5185 16 7 1.1805 -4.3582 4.3049 17 6 -0.0793 -3.9275 4.1651 18 16 -1.4515 -3.9837 5.2618 19 6 -2.4978 -3.1878 4.1015 20 6 -1.8530 -2.9039 2.9875 21 6 -0.4599 -3.3125 2.9687 22 6 0.6726 -2.5336 -1.5767 23 6 -0.6053 -2.0553 -1.7981 24 6 -1.1456 -2.0897 -3.0699 25 6 -0.4110 -2.6100 -4.1191 26 6 0.8649 -3.0932 -3.8968 27 6 1.4066 -3.0551 -2.6256 28 1 -0.4850 0.8401 -0.0004 29 1 3.9227 -4.0032 3.9023 30 1 -3.5376 -2.9560 4.2785 31 1 -2.3253 -2.4081 2.1523 32 1 -1.1807 -1.6523 -0.9777 33 1 -2.1427 -1.7126 -3.2436 34 1 -0.8342 -2.6394 -5.1124 35 1 1.4386 -3.5000 -4.7165 36 1 2.4034 -3.4330 -2.4519 RHF calculation, no. of doubly occupied orbitals= 56 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 ZINC001227843751.mol2 36 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 15:51:07 Heat of formation + Delta-G solvation = 9.324719 kcal Electronic energy + Delta-G solvation = -25108.647933 eV Core-core repulsion = 21456.878672 eV Total energy + Delta-G solvation = -3651.769261 eV No. of doubly occupied orbitals = 56 Molecular weight (most abundant/longest-lived isotopes) = 328.067 amu Computer time = 0.59 seconds Orbital eigenvalues (eV) -42.22097 -40.27174 -39.13319 -38.39369 -36.37435 -35.10689 -33.86822 -32.46248 -31.46495 -30.20703 -28.81315 -26.24608 -25.12261 -24.62662 -23.14841 -22.28996 -21.92966 -20.62883 -19.76874 -19.11579 -18.11473 -17.41729 -17.33075 -17.07150 -16.61531 -16.37050 -15.80887 -15.71121 -15.30757 -14.95372 -14.89352 -14.64012 -14.04194 -13.97184 -13.75024 -13.60982 -13.37736 -13.06129 -12.89501 -12.85875 -12.57300 -12.36446 -12.15522 -11.97960 -11.85764 -11.61589 -11.34624 -10.89056 -10.67624 -10.29000 -9.73816 -9.54775 -9.31185 -9.00201 -8.17994 -6.41391 -0.61841 0.00187 0.06498 0.69997 0.82130 0.87132 1.17878 1.32550 1.37018 1.45810 2.03370 2.27587 2.32949 2.62285 3.04099 3.20339 3.34558 3.62695 3.74847 4.12197 4.26110 4.30551 4.40350 4.54475 4.62181 4.77376 4.85864 4.97212 5.02345 5.07380 5.18530 5.32061 5.49481 5.59713 5.68375 5.78377 5.89816 5.94069 6.10046 6.34735 6.40788 6.50896 6.76836 6.95587 7.31514 8.78051 Molecular weight = 328.07amu Principal moments of inertia in cm(-1) A = 0.011390 B = 0.004701 C = 0.004449 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2457.670622 B = 5955.338963 C = 6291.713881 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.852 5.852 2 C 0.047 3.953 3 Si 0.943 3.057 4 H -0.273 1.273 5 H -0.275 1.275 6 H -0.280 1.280 7 C -0.556 4.556 8 H 0.054 0.946 9 C 0.243 3.757 10 H 0.042 0.958 11 O -0.265 6.265 12 C 0.438 3.562 13 N -0.605 5.605 14 C 0.537 3.463 15 O -0.458 6.458 16 N -0.547 5.547 17 C 0.098 3.902 18 S 0.212 5.788 19 C -0.196 4.196 20 C -0.089 4.089 21 C -0.233 4.233 22 C -0.068 4.068 23 C -0.090 4.090 24 C -0.143 4.143 25 C -0.137 4.137 26 C -0.131 4.131 27 C -0.138 4.138 28 H 0.266 0.734 29 H 0.430 0.570 30 H 0.218 0.782 31 H 0.152 0.848 32 H 0.125 0.875 33 H 0.130 0.870 34 H 0.145 0.855 35 H 0.144 0.856 36 H 0.115 0.885 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -5.573 -4.701 3.713 8.182 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 -0.486 5.486 2 C -0.159 4.159 3 Si 0.769 3.231 4 H -0.197 1.197 5 H -0.200 1.200 6 H -0.206 1.206 7 C -0.592 4.592 8 H 0.072 0.928 9 C 0.189 3.811 10 H 0.060 0.940 11 O -0.164 6.164 12 C 0.244 3.756 13 N -0.352 5.352 14 C 0.228 3.772 15 O -0.264 6.264 16 N -0.282 5.282 17 C -0.150 4.150 18 S 0.469 5.531 19 C -0.329 4.329 20 C -0.119 4.119 21 C -0.248 4.248 22 C -0.069 4.069 23 C -0.109 4.109 24 C -0.161 4.161 25 C -0.155 4.155 26 C -0.149 4.149 27 C -0.156 4.156 28 H 0.075 0.925 29 H 0.293 0.707 30 H 0.235 0.765 31 H 0.170 0.830 32 H 0.142 0.858 33 H 0.148 0.852 34 H 0.163 0.837 35 H 0.162 0.838 36 H 0.133 0.867 Dipole moment (debyes) X Y Z Total from point charges -5.485 -5.822 4.899 9.380 hybrid contribution 0.938 2.287 -1.420 2.851 sum -4.547 -3.535 3.479 6.729 Atomic orbital electron populations 1.70048 1.06370 1.27267 1.44963 1.25563 0.95690 1.01523 0.93161 0.85736 0.79305 0.80229 0.77816 1.19745 1.20041 1.20616 1.21340 0.93787 0.91109 1.52999 0.92823 1.18963 0.83902 0.96338 0.81859 0.94050 1.86477 1.41763 1.67789 1.20376 1.20200 0.86188 0.82203 0.87031 1.67527 1.20881 1.20629 1.26159 1.19798 0.87432 0.86586 0.83359 1.84618 1.15217 1.41693 1.84915 1.67519 1.01583 1.26501 1.32645 1.24048 0.96656 0.97265 0.97039 1.83719 0.94147 1.61021 1.14254 1.25546 1.05521 1.05759 0.96070 1.20662 0.89890 1.00847 1.00485 1.20151 0.97525 1.11595 0.95554 1.20024 0.94720 0.97072 0.95071 1.21319 0.95405 0.96332 0.97834 1.21405 1.00683 1.01070 0.92985 1.21331 0.94887 0.99858 0.99419 1.21228 0.96365 1.01185 0.96145 1.20989 0.99766 1.01421 0.93438 0.92490 0.70743 0.76515 0.83024 0.85760 0.85210 0.83705 0.83796 0.86718 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 -0.85 -44.27 9.55 21.45 0.20 -44.06 16 2 C 0.05 2.47 5.22 84.65 0.44 2.91 16 3 Si 0.94 42.12 29.55 68.60 2.03 44.15 16 4 H -0.27 -12.18 7.11 99.48 0.71 -11.48 16 5 H -0.27 -12.00 7.11 99.48 0.71 -11.29 16 6 H -0.28 -12.33 7.11 99.48 0.71 -11.62 16 7 C -0.56 -29.91 8.85 25.60 0.23 -29.68 16 8 H 0.05 2.97 7.83 -2.91 -0.02 2.94 16 9 C 0.24 12.29 2.34 29.10 0.07 12.36 16 10 H 0.04 2.15 6.96 -2.39 -0.02 2.13 16 11 O -0.27 -13.25 7.57 -87.37 -0.66 -13.91 16 12 C 0.44 20.40 7.55 85.47 0.65 21.04 16 13 N -0.61 -27.74 8.78 -425.20 -3.73 -31.47 16 14 C 0.54 21.59 8.70 180.65 1.57 23.16 16 15 O -0.46 -15.13 13.64 -88.02 -1.20 -16.33 16 16 N -0.55 -21.10 10.49 -309.67 -3.25 -24.35 16 17 C 0.10 3.56 7.69 84.76 0.65 4.21 16 18 S 0.21 5.28 23.23 -56.49 -1.31 3.97 16 19 C -0.20 -4.52 11.02 67.05 0.74 -3.79 16 20 C -0.09 -2.87 10.33 23.29 0.24 -2.62 16 21 C -0.23 -9.29 6.08 -20.28 -0.12 -9.41 16 22 C -0.07 -3.19 4.82 -19.87 -0.10 -3.28 16 23 C -0.09 -4.04 8.07 22.27 0.18 -3.86 16 24 C -0.14 -5.27 10.05 22.27 0.22 -5.05 16 25 C -0.14 -4.41 10.05 22.27 0.22 -4.19 16 26 C -0.13 -4.41 10.05 22.27 0.22 -4.19 16 27 C -0.14 -5.61 9.70 22.27 0.22 -5.40 16 28 H 0.27 13.13 8.31 -92.71 -0.77 12.36 16 29 H 0.43 9.50 9.06 -74.06 -0.67 8.83 16 30 H 0.22 3.00 8.06 -2.91 -0.02 2.98 16 31 H 0.15 4.89 8.06 -2.91 -0.02 4.87 16 32 H 0.12 6.05 5.99 -2.91 -0.02 6.03 16 33 H 0.13 4.05 8.06 -2.91 -0.02 4.03 16 34 H 0.15 3.51 8.06 -2.91 -0.02 3.49 16 35 H 0.14 3.75 8.06 -2.91 -0.02 3.73 16 36 H 0.11 4.43 8.06 -2.91 -0.02 4.40 16 Total: -1.00 -66.38 331.17 -2.01 -68.40 By element: Atomic # 1 Polarization: 20.92 SS G_CDS: 0.48 Total: 21.40 kcal Atomic # 6 Polarization: -13.21 SS G_CDS: 5.43 Total: -7.78 kcal Atomic # 7 Polarization: -93.11 SS G_CDS: -6.78 Total: -99.88 kcal Atomic # 8 Polarization: -28.38 SS G_CDS: -1.86 Total: -30.24 kcal Atomic # 14 Polarization: 42.12 SS G_CDS: 2.03 Total: 44.15 kcal Atomic # 16 Polarization: 5.28 SS G_CDS: -1.31 Total: 3.97 kcal Total: -66.38 -2.01 -68.40 kcal The number of atoms in the molecule is 36 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. ZINC001227843751.mol2 36 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 77.720 kcal (2) G-P(sol) polarization free energy of solvation -66.383 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 11.336 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.012 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -68.395 kcal (6) G-S(sol) free energy of system = (1) + (5) 9.325 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.59 seconds