Wall clock time and date at job start Tue Mar 31 2020 05:08:43 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 1.31515 * 1 3 3 Si 1.86796 * 120.00088 * 2 1 4 4 H 1.48501 * 109.46826 * 239.99477 * 3 2 1 5 5 H 1.48497 * 109.47060 * 359.97438 * 3 2 1 6 6 H 1.48501 * 109.47306 * 119.99721 * 3 2 1 7 7 C 1.37882 * 119.99674 * 179.97438 * 2 1 3 8 8 H 1.08001 * 119.99420 * 180.02562 * 7 2 1 9 9 C 1.50694 * 120.00258 * 0.02562 * 7 2 1 10 10 O 1.42904 * 110.64072 * 298.31370 * 9 7 2 11 11 C 1.55158 * 110.71883 * 61.45003 * 9 7 2 12 12 C 1.54917 * 101.57978 * 153.86614 * 11 9 7 13 13 N 1.47422 * 104.83074 * 322.98980 * 12 11 9 14 14 C 1.34776 * 125.64527 * 204.09182 * 13 12 11 15 15 O 1.21285 * 119.99841 * 180.02562 * 14 13 12 16 16 C 1.50699 * 120.00365 * 0.03003 * 14 13 12 17 17 C 1.50699 * 109.47121 * 180.02562 * 16 14 13 18 18 C 1.38423 * 122.54351 * 89.99935 * 17 16 14 19 19 C 1.33389 * 114.92045 * 179.97438 * 18 17 16 20 20 S 1.75886 * 109.59456 * 359.97438 * 19 18 17 21 21 C 1.33388 * 122.53370 * 269.70110 * 17 16 14 22 22 C 1.47020 * 108.70191 * 24.12901 * 13 12 11 23 23 H 0.97005 * 120.00230 * 0.02562 * 1 2 3 24 24 H 0.96698 * 113.99913 * 61.68644 * 10 9 7 25 25 H 1.08998 * 111.00511 * 35.79146 * 11 9 7 26 26 H 1.08996 * 111.04098 * 271.95479 * 11 9 7 27 27 H 1.08998 * 110.36726 * 81.82993 * 12 11 9 28 28 H 1.09005 * 110.36534 * 204.15515 * 12 11 9 29 29 H 1.09004 * 109.47135 * 299.99842 * 16 14 13 30 30 H 1.08993 * 109.47035 * 59.99497 * 16 14 13 31 31 H 1.07998 * 122.53354 * 359.97438 * 18 17 16 32 32 H 1.07995 * 125.19931 * 180.02562 * 19 18 17 33 33 H 1.08000 * 125.20957 * 0.02992 * 21 17 16 34 34 H 1.09000 * 109.88493 * 239.51822 * 22 13 12 35 35 H 1.09003 * 109.87996 * 118.35911 * 22 13 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 1.3151 0.0000 0.0000 3 14 2.2492 1.6177 0.0000 4 1 3.1030 1.6962 -1.2125 5 1 1.2842 2.7464 -0.0006 6 1 3.1029 1.6964 1.2125 7 6 2.0045 -1.1941 0.0005 8 1 3.0845 -1.1941 0.0010 9 6 1.2510 -2.4992 0.0005 10 8 0.4494 -2.6180 1.1776 11 6 0.3764 -2.6280 -1.2745 12 6 0.2719 -4.1663 -1.4258 13 7 1.5929 -4.6763 -1.0160 14 6 2.1330 -5.8517 -1.3946 15 8 3.2322 -6.1711 -0.9937 16 6 1.3712 -6.7691 -2.3160 17 6 2.1892 -8.0065 -2.5819 18 6 2.1049 -9.1391 -1.7905 19 6 2.8962 -10.1459 -2.1640 20 16 3.8136 -9.6775 -3.5896 21 6 3.0451 -8.0954 -3.6011 22 6 2.2232 -3.6910 -0.1253 23 1 -0.4851 0.8401 -0.0004 24 1 -0.2287 -1.9339 1.2623 25 1 0.8742 -2.1836 -2.1364 26 1 -0.6067 -2.1829 -1.1214 27 1 -0.5063 -4.5597 -0.7718 28 1 0.0675 -4.4324 -2.4629 29 1 0.4275 -7.0512 -1.8492 30 1 1.1720 -6.2557 -3.2566 31 1 1.4481 -9.2027 -0.9355 32 1 2.9627 -11.1026 -1.6674 33 1 3.2381 -7.3148 -4.3221 34 1 3.1678 -3.3552 -0.5532 35 1 2.3950 -4.1344 0.8555 RHF calculation, no. of doubly occupied orbitals= 49 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 ZINC000592843954.mol2 35 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 05:08:43 Heat of formation + Delta-G solvation = -69.397335 kcal Electronic energy + Delta-G solvation = -19643.007629 eV Core-core repulsion = 16538.843718 eV Total energy + Delta-G solvation = -3104.163911 eV No. of doubly occupied orbitals = 49 Molecular weight (most abundant/longest-lived isotopes) = 281.087 amu Computer time = 0.38 seconds Orbital eigenvalues (eV) -41.16367 -39.43712 -38.29610 -36.06269 -34.20593 -32.50030 -31.20432 -30.10279 -28.90161 -26.83147 -24.40640 -23.60502 -21.62844 -20.47407 -19.51271 -19.15224 -18.44741 -18.06950 -17.10568 -16.90647 -16.32955 -16.05034 -15.94332 -15.24733 -14.79026 -14.21833 -13.93769 -13.86949 -13.76541 -13.49882 -13.28966 -13.23767 -13.09176 -13.00303 -12.66186 -12.58538 -12.40508 -12.28003 -11.96313 -11.69197 -11.25917 -10.92874 -10.62166 -10.14044 -9.68136 -9.59583 -9.26190 -8.24567 -6.38862 0.11841 0.79826 1.08250 1.42474 1.44403 1.51217 1.65597 1.66430 2.23850 2.40945 3.00822 3.66116 3.86543 3.96413 4.02015 4.08131 4.32658 4.36948 4.45075 4.54574 4.58331 4.61278 4.71916 4.77669 4.94122 5.12682 5.19370 5.27704 5.47735 5.48763 5.55026 5.55719 5.76955 6.09092 6.60729 6.67874 7.18656 7.31354 7.41182 8.81021 Molecular weight = 281.09amu Principal moments of inertia in cm(-1) A = 0.040397 B = 0.003567 C = 0.003469 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 692.951133 B = 7848.745350 C = 8068.591303 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.903 5.903 2 C 0.040 3.960 3 Si 0.956 3.044 4 H -0.274 1.274 5 H -0.276 1.276 6 H -0.279 1.279 7 C -0.567 4.567 8 H 0.048 0.952 9 C 0.234 3.766 10 O -0.593 6.593 11 C -0.126 4.126 12 C 0.103 3.897 13 N -0.613 5.613 14 C 0.519 3.481 15 O -0.589 6.589 16 C -0.067 4.067 17 C -0.097 4.097 18 C -0.140 4.140 19 C -0.215 4.215 20 S 0.100 5.900 21 C -0.214 4.214 22 C 0.130 3.870 23 H 0.272 0.728 24 H 0.380 0.620 25 H 0.056 0.944 26 H 0.080 0.920 27 H 0.075 0.925 28 H 0.105 0.895 29 H 0.126 0.874 30 H 0.127 0.873 31 H 0.147 0.853 32 H 0.187 0.813 33 H 0.171 0.829 34 H 0.055 0.945 35 H 0.039 0.961 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -1.624 -14.831 -8.614 17.227 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 -0.542 5.542 2 C -0.162 4.162 3 Si 0.782 3.218 4 H -0.199 1.199 5 H -0.201 1.201 6 H -0.205 1.205 7 C -0.605 4.605 8 H 0.067 0.933 9 C 0.195 3.805 10 O -0.402 6.402 11 C -0.165 4.165 12 C -0.019 4.019 13 N -0.346 5.346 14 C 0.310 3.690 15 O -0.470 6.470 16 C -0.109 4.109 17 C -0.110 4.110 18 C -0.170 4.170 19 C -0.350 4.350 20 S 0.364 5.636 21 C -0.350 4.350 22 C 0.007 3.993 23 H 0.082 0.918 24 H 0.230 0.770 25 H 0.075 0.925 26 H 0.099 0.901 27 H 0.093 0.907 28 H 0.123 0.877 29 H 0.144 0.856 30 H 0.145 0.855 31 H 0.165 0.835 32 H 0.204 0.796 33 H 0.189 0.811 34 H 0.073 0.927 35 H 0.057 0.943 Dipole moment (debyes) X Y Z Total from point charges 0.295 -16.219 -9.250 18.674 hybrid contribution -0.704 2.433 1.183 2.795 sum -0.409 -13.786 -8.068 15.979 Atomic orbital electron populations 1.69733 1.06417 1.28459 1.49571 1.25547 0.95886 1.01763 0.92991 0.85640 0.78564 0.79055 0.78518 1.19901 1.20105 1.20476 1.21710 0.93338 0.92008 1.53421 0.93347 1.19583 0.87561 0.90279 0.83115 1.86116 1.51819 1.56302 1.45930 1.23075 1.01425 0.93152 0.98806 1.22582 0.83433 0.94612 1.01276 1.48742 1.20019 1.18204 1.47636 1.21015 0.86042 0.80472 0.81519 1.90659 1.22847 1.74830 1.58622 1.20381 0.98503 0.91510 1.00474 1.18571 1.00231 0.96011 0.96199 1.20254 1.02415 0.92715 1.01578 1.25851 1.02414 1.04692 1.02005 1.84020 1.43683 1.08385 1.27523 1.25671 1.02632 1.01785 1.04878 1.21731 0.96210 0.88994 0.92403 0.91846 0.77035 0.92501 0.90134 0.90689 0.87653 0.85565 0.85542 0.83510 0.79622 0.81107 0.92687 0.94265 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 -0.90 -45.25 10.67 21.45 0.23 -45.02 16 2 C 0.04 2.03 5.28 84.66 0.45 2.47 16 3 Si 0.96 41.10 29.54 68.60 2.03 43.12 16 4 H -0.27 -11.63 7.11 99.48 0.71 -10.92 16 5 H -0.28 -11.38 7.11 99.48 0.71 -10.67 16 6 H -0.28 -12.14 7.11 99.48 0.71 -11.44 16 7 C -0.57 -30.00 8.21 25.60 0.21 -29.79 16 8 H 0.05 2.62 7.57 -2.91 -0.02 2.60 16 9 C 0.23 11.28 0.85 -10.36 -0.01 11.27 16 10 O -0.59 -29.64 13.08 -148.98 -1.95 -31.59 16 11 C -0.13 -5.16 5.47 31.99 0.17 -4.99 16 12 C 0.10 3.28 6.68 86.86 0.58 3.86 16 13 N -0.61 -23.10 3.33 -811.80 -2.70 -25.80 16 14 C 0.52 18.40 7.84 87.66 0.69 19.09 16 15 O -0.59 -25.87 16.36 -3.05 -0.05 -25.92 16 16 C -0.07 -1.60 4.96 29.10 0.14 -1.45 16 17 C -0.10 -2.44 4.29 -20.92 -0.09 -2.53 16 18 C -0.14 -3.27 9.98 21.22 0.21 -3.06 16 19 C -0.21 -4.39 11.23 66.72 0.75 -3.65 16 20 S 0.10 2.08 23.34 -56.49 -1.32 0.76 16 21 C -0.21 -5.08 10.98 66.72 0.73 -4.35 16 22 C 0.13 5.98 6.22 86.73 0.54 6.51 16 23 H 0.27 13.00 8.31 -92.70 -0.77 12.22 16 24 H 0.38 18.88 7.46 -74.06 -0.55 18.32 16 25 H 0.06 2.42 8.04 -2.39 -0.02 2.40 16 26 H 0.08 3.42 7.54 -2.39 -0.02 3.40 16 27 H 0.07 2.27 8.14 -2.39 -0.02 2.25 16 28 H 0.11 2.48 7.48 -2.38 -0.02 2.47 16 29 H 0.13 2.38 8.13 -2.38 -0.02 2.36 16 30 H 0.13 2.35 7.82 -2.39 -0.02 2.33 16 31 H 0.15 3.05 8.06 -2.91 -0.02 3.03 16 32 H 0.19 2.72 8.06 -2.91 -0.02 2.70 16 33 H 0.17 3.55 8.06 -2.91 -0.02 3.53 16 34 H 0.05 2.65 7.66 -2.39 -0.02 2.63 16 35 H 0.04 1.92 8.07 -2.39 -0.02 1.90 16 Total: -1.00 -63.09 310.03 1.17 -61.92 By element: Atomic # 1 Polarization: 28.56 SS G_CDS: 0.56 Total: 29.11 kcal Atomic # 6 Polarization: -10.97 SS G_CDS: 4.38 Total: -6.59 kcal Atomic # 7 Polarization: -68.34 SS G_CDS: -2.47 Total: -70.82 kcal Atomic # 8 Polarization: -55.50 SS G_CDS: -2.00 Total: -57.50 kcal Atomic # 14 Polarization: 41.10 SS G_CDS: 2.03 Total: 43.12 kcal Atomic # 16 Polarization: 2.08 SS G_CDS: -1.32 Total: 0.76 kcal Total: -63.09 1.17 -61.92 kcal The number of atoms in the molecule is 35 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. ZINC000592843954.mol2 35 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 -7.480 kcal (2) G-P(sol) polarization free energy of solvation -63.088 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -70.569 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.171 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -61.917 kcal (6) G-S(sol) free energy of system = (1) + (5) -69.397 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.38 seconds