Wall clock time and date at job start Tue Mar 31 2020 05:14:32 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 1.31514 * 1 3 3 Si 1.86801 * 120.00171 * 2 1 4 4 H 1.48500 * 109.46986 * 269.99310 * 3 2 1 5 5 H 1.48491 * 109.47170 * 29.99731 * 3 2 1 6 6 H 1.48504 * 109.47135 * 149.99985 * 3 2 1 7 7 C 1.37883 * 119.99866 * 179.97438 * 2 1 3 8 8 H 1.07996 * 119.99820 * 359.97438 * 7 2 1 9 9 C 1.50703 * 120.00087 * 180.02562 * 7 2 1 10 10 H 1.08994 * 109.46868 * 299.99998 * 9 7 2 11 11 O 1.42898 * 109.47048 * 59.99994 * 9 7 2 12 12 C 1.52995 * 109.46975 * 179.97438 * 9 7 2 13 13 N 1.46902 * 109.46851 * 179.97438 * 12 9 7 14 14 C 1.46856 * 110.99619 * 170.00352 * 13 12 9 15 15 C 1.53039 * 109.51787 * 185.84053 * 14 13 12 16 16 C 1.53123 * 109.31189 * 300.79882 * 15 14 13 17 17 C 1.50697 * 109.52128 * 177.58251 * 16 15 14 18 18 C 1.38424 * 122.53881 * 119.73797 * 17 16 15 19 19 C 1.33388 * 114.92159 * 179.75760 * 18 17 16 20 20 S 1.75884 * 109.59260 * 0.47792 * 19 18 17 21 21 C 1.33392 * 122.54126 * 300.02078 * 17 16 15 22 22 C 1.53203 * 109.11533 * 57.63615 * 16 15 14 23 23 C 1.46846 * 111.00121 * 294.21235 * 13 12 9 24 24 H 0.97003 * 119.99254 * 0.02562 * 1 2 3 25 25 H 0.96703 * 114.00009 * 59.99486 * 11 9 7 26 26 H 1.08998 * 109.46811 * 60.00499 * 12 9 7 27 27 H 1.08994 * 109.47485 * 299.99820 * 12 9 7 28 28 H 1.09000 * 109.46462 * 65.82793 * 14 13 12 29 29 H 1.09001 * 109.45242 * 305.84772 * 14 13 12 30 30 H 1.09002 * 109.50563 * 60.76214 * 15 14 13 31 31 H 1.09003 * 109.50107 * 180.84195 * 15 14 13 32 32 H 1.08997 * 109.52263 * 297.77214 * 16 15 14 33 33 H 1.08007 * 122.53834 * 359.97438 * 18 17 16 34 34 H 1.07994 * 125.20563 * 180.21057 * 19 18 17 35 35 H 1.08000 * 125.19930 * 0.02863 * 21 17 16 36 36 H 1.08997 * 109.49417 * 182.41991 * 22 16 15 37 37 H 1.09007 * 109.52297 * 62.34418 * 22 16 15 38 38 H 1.09004 * 109.46012 * 294.17710 * 23 13 12 39 39 H 1.08997 * 109.46257 * 54.15030 * 23 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 2.4968 2.0463 -1.4001 5 1 1.4467 2.6526 0.6999 6 1 3.5468 1.4401 0.7001 7 6 2.0045 -1.1941 0.0005 8 1 1.4645 -2.1294 0.0014 9 6 3.5116 -1.1942 0.0011 10 1 3.8752 -0.6806 -0.8888 11 8 3.9874 -0.5203 1.1679 12 6 4.0214 -2.6367 0.0023 13 7 5.4905 -2.6367 0.0022 14 6 6.0166 -3.9867 0.2413 15 6 7.5395 -3.9249 0.3794 16 6 8.1411 -3.3430 -0.9029 17 6 9.6355 -3.2247 -0.7495 18 6 10.5239 -3.8848 -1.5809 19 6 11.8123 -3.6682 -1.3121 20 16 11.9531 -2.5869 0.0680 21 6 10.2026 -2.4804 0.2012 22 6 7.5395 -1.9567 -1.1550 23 6 6.0167 -2.0755 -1.2486 24 1 -0.4849 0.8401 -0.0004 25 1 3.7017 -0.9236 1.9991 26 1 3.6585 -3.1510 -0.8875 27 1 3.6578 -3.1499 0.8924 28 1 5.7539 -4.6326 -0.5965 29 1 5.5848 -4.3875 1.1584 30 1 7.8028 -3.2902 1.2255 31 1 7.9312 -4.9291 0.5419 32 1 7.9109 -3.9980 -1.7431 33 1 10.1984 -4.5239 -2.3885 34 1 12.6421 -4.0951 -1.8556 35 1 9.6684 -1.9014 0.9399 36 1 7.9313 -1.5547 -2.0893 37 1 7.8029 -1.2904 -0.3335 38 1 5.7538 -2.7304 -2.0793 39 1 5.5850 -1.0884 -1.4137 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) 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 ZINC001334093034.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 05:14:32 Heat of formation + Delta-G solvation = -38.682499 kcal Electronic energy + Delta-G solvation = -19968.669834 eV Core-core repulsion = 17001.670912 eV Total energy + Delta-G solvation = -2966.998921 eV No. of doubly occupied orbitals = 50 Molecular weight (most abundant/longest-lived isotopes) = 281.119 amu Computer time = 0.44 seconds Orbital eigenvalues (eV) -40.63160 -38.88868 -37.37570 -34.41661 -34.19982 -31.79565 -30.74298 -29.55880 -27.17873 -25.31550 -24.19958 -23.30736 -21.84601 -20.60534 -19.49437 -19.33718 -18.50346 -16.96325 -16.65749 -16.50335 -16.25100 -15.71987 -15.31595 -15.03338 -14.86917 -14.67983 -14.45462 -13.98487 -13.67912 -13.56666 -13.32689 -13.16537 -13.04888 -12.87642 -12.63506 -12.44892 -12.10612 -11.99879 -11.85190 -11.47574 -11.38313 -11.20272 -10.94147 -10.79249 -10.08787 -9.63544 -9.21792 -9.09863 -8.35424 -6.49638 0.16168 0.83008 1.14517 1.39604 1.45379 1.76505 1.84078 2.44585 3.01029 3.04771 3.77467 3.86438 3.95314 4.13391 4.24997 4.26375 4.37774 4.41301 4.47803 4.54076 4.58899 4.66216 4.72868 4.85464 4.91314 4.97808 4.99860 5.05795 5.08252 5.22675 5.24249 5.41226 5.47960 5.51591 5.58022 5.70712 6.08983 6.20195 6.34042 6.63414 7.23872 7.39767 8.78914 Molecular weight = 281.12amu Principal moments of inertia in cm(-1) A = 0.034029 B = 0.003631 C = 0.003456 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 822.636679 B = 7709.490545 C = 8100.487783 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.941 5.941 2 C 0.028 3.972 3 Si 0.938 3.062 4 H -0.286 1.286 5 H -0.297 1.297 6 H -0.205 1.205 7 C -0.566 4.566 8 H 0.036 0.964 9 C 0.210 3.790 10 H 0.047 0.953 11 O -0.572 6.572 12 C 0.053 3.947 13 N -0.534 5.534 14 C 0.054 3.946 15 C -0.095 4.095 16 C -0.023 4.023 17 C -0.096 4.096 18 C -0.141 4.141 19 C -0.212 4.212 20 S 0.086 5.914 21 C -0.217 4.217 22 C -0.096 4.096 23 C 0.052 3.948 24 H 0.267 0.733 25 H 0.365 0.635 26 H 0.022 0.978 27 H 0.069 0.931 28 H 0.030 0.970 29 H 0.075 0.925 30 H 0.065 0.935 31 H 0.079 0.921 32 H 0.080 0.920 33 H 0.153 0.847 34 H 0.185 0.815 35 H 0.162 0.838 36 H 0.072 0.928 37 H 0.063 0.937 38 H 0.030 0.970 39 H 0.059 0.941 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 25.198 -8.483 -1.685 26.641 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 -0.580 5.580 2 C -0.171 4.171 3 Si 0.762 3.238 4 H -0.212 1.212 5 H -0.224 1.224 6 H -0.127 1.127 7 C -0.605 4.605 8 H 0.054 0.946 9 C 0.152 3.848 10 H 0.065 0.935 11 O -0.378 6.378 12 C -0.075 4.075 13 N -0.259 5.259 14 C -0.074 4.074 15 C -0.133 4.133 16 C -0.044 4.044 17 C -0.109 4.109 18 C -0.172 4.172 19 C -0.347 4.347 20 S 0.349 5.651 21 C -0.353 4.353 22 C -0.134 4.134 23 C -0.076 4.076 24 H 0.075 0.925 25 H 0.212 0.788 26 H 0.040 0.960 27 H 0.087 0.913 28 H 0.049 0.951 29 H 0.093 0.907 30 H 0.084 0.916 31 H 0.098 0.902 32 H 0.099 0.901 33 H 0.170 0.830 34 H 0.202 0.798 35 H 0.180 0.820 36 H 0.091 0.909 37 H 0.082 0.918 38 H 0.048 0.952 39 H 0.078 0.922 Dipole moment (debyes) X Y Z Total from point charges 26.757 -7.095 -0.934 27.697 hybrid contribution -2.407 -0.723 -1.159 2.768 sum 24.350 -7.817 -2.093 25.659 Atomic orbital electron populations 1.70087 1.08493 1.28382 1.51053 1.25847 0.95245 1.03606 0.92418 0.86001 0.82030 0.77431 0.78350 1.21212 1.22394 1.12669 1.21881 0.92538 0.93279 1.52759 0.94574 1.19487 0.89998 0.89375 0.85956 0.93524 1.86588 1.77598 1.57202 1.16415 1.22479 0.86839 0.98243 0.99916 1.61896 1.06739 1.22215 1.35044 1.22160 0.96039 0.88622 1.00592 1.21572 0.92993 1.01468 0.97283 1.19897 0.88954 0.96840 0.98678 1.18967 0.96444 0.98997 0.96452 1.20321 0.92124 1.02710 1.02004 1.25878 1.01186 1.05165 1.02459 1.84241 1.04431 1.46638 1.29757 1.25568 0.96758 1.07502 1.05443 1.21574 0.92785 0.96847 1.02146 1.22117 0.96083 0.99399 0.89957 0.92460 0.78819 0.95969 0.91262 0.95146 0.90698 0.91608 0.90230 0.90125 0.82978 0.79800 0.81999 0.90894 0.91819 0.95163 0.92218 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 -0.94 -58.84 13.96 21.45 0.30 -58.54 16 2 C 0.03 1.65 5.47 84.66 0.46 2.12 16 3 Si 0.94 45.64 26.99 68.60 1.85 47.49 16 4 H -0.29 -13.68 7.11 99.48 0.71 -12.98 16 5 H -0.30 -14.41 7.11 99.48 0.71 -13.70 16 6 H -0.20 -9.57 5.31 99.48 0.53 -9.04 16 7 C -0.57 -31.91 9.34 25.60 0.24 -31.67 16 8 H 0.04 2.23 7.99 -2.91 -0.02 2.21 16 9 C 0.21 9.68 2.19 29.85 0.07 9.75 16 10 H 0.05 2.23 5.86 -2.39 -0.01 2.21 16 11 O -0.57 -25.40 10.01 -148.98 -1.49 -26.89 16 12 C 0.05 2.06 4.56 86.30 0.39 2.46 16 13 N -0.53 -17.23 4.52 -896.36 -4.05 -21.29 16 14 C 0.05 1.38 5.46 86.32 0.47 1.85 16 15 C -0.10 -2.03 5.24 30.65 0.16 -1.87 16 16 C -0.02 -0.47 2.51 -11.43 -0.03 -0.49 16 17 C -0.10 -1.86 4.68 -20.92 -0.10 -1.95 16 18 C -0.14 -2.35 9.92 21.22 0.21 -2.14 16 19 C -0.21 -3.14 11.23 66.72 0.75 -2.39 16 20 S 0.09 1.42 23.34 -56.49 -1.32 0.10 16 21 C -0.22 -4.23 9.89 66.72 0.66 -3.57 16 22 C -0.10 -2.33 5.24 30.67 0.16 -2.17 16 23 C 0.05 1.59 5.29 86.32 0.46 2.04 16 24 H 0.27 15.67 8.31 -92.71 -0.77 14.90 16 25 H 0.36 14.58 9.04 -74.06 -0.67 13.91 16 26 H 0.02 0.89 8.12 -2.39 -0.02 0.87 16 27 H 0.07 2.65 7.99 -2.39 -0.02 2.63 16 28 H 0.03 0.77 8.14 -2.39 -0.02 0.75 16 29 H 0.07 1.89 8.02 -2.39 -0.02 1.87 16 30 H 0.07 1.51 7.67 -2.39 -0.02 1.49 16 31 H 0.08 1.45 8.14 -2.39 -0.02 1.43 16 32 H 0.08 1.56 8.04 -2.39 -0.02 1.54 16 33 H 0.15 2.01 8.06 -2.91 -0.02 1.99 16 34 H 0.18 1.76 8.06 -2.91 -0.02 1.73 16 35 H 0.16 3.16 7.77 -2.91 -0.02 3.14 16 36 H 0.07 1.63 8.14 -2.39 -0.02 1.61 16 37 H 0.06 1.68 7.66 -2.38 -0.02 1.66 16 38 H 0.03 0.88 8.14 -2.38 -0.02 0.87 16 39 H 0.06 2.07 6.21 -2.39 -0.01 2.05 16 Total: -1.00 -65.40 320.70 -0.62 -66.02 By element: Atomic # 1 Polarization: 20.96 SS G_CDS: 0.19 Total: 21.14 kcal Atomic # 6 Polarization: -31.94 SS G_CDS: 3.90 Total: -28.04 kcal Atomic # 7 Polarization: -76.07 SS G_CDS: -3.76 Total: -79.83 kcal Atomic # 8 Polarization: -25.40 SS G_CDS: -1.49 Total: -26.89 kcal Atomic # 14 Polarization: 45.64 SS G_CDS: 1.85 Total: 47.49 kcal Atomic # 16 Polarization: 1.42 SS G_CDS: -1.32 Total: 0.10 kcal Total: -65.40 -0.62 -66.02 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. ZINC001334093034.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 27.342 kcal (2) G-P(sol) polarization free energy of solvation -65.404 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -38.062 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.621 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -66.025 kcal (6) G-S(sol) free energy of system = (1) + (5) -38.682 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.44 seconds