Wall clock time and date at job start Sun Mar 29 2020 22:31:03 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 1.30586 * 1 3 3 Si 1.86801 * 119.99505 * 2 1 4 4 H 1.48501 * 109.47023 * 239.99678 * 3 2 1 5 5 H 1.48492 * 109.47485 * 0.02562 * 3 2 1 6 6 H 1.48500 * 109.46960 * 120.00451 * 3 2 1 7 7 C 1.40351 * 120.00029 * 180.02562 * 2 1 3 8 8 H 1.08001 * 119.99595 * 198.09627 * 7 2 1 9 9 C 1.40170 * 120.00454 * 18.08552 * 7 2 1 10 10 C 1.39061 * 119.74777 * 203.04824 * 9 7 2 11 11 C 1.42037 * 118.74309 * 180.29209 * 10 9 7 12 12 N 1.32209 * 120.83253 * 179.70989 * 11 10 9 13 13 C 1.46495 * 119.99870 * 173.53607 * 12 11 10 14 14 C 1.53048 * 113.14893 * 213.44763 * 13 12 11 15 15 S 1.81436 * 89.88818 * 211.85104 * 14 13 12 16 16 C 1.53047 * 113.15457 * 113.07175 * 13 12 11 17 17 C 1.46911 * 118.33248 * 359.43825 * 11 10 9 18 18 C 1.34379 * 119.36861 * 0.26961 * 17 11 10 19 19 N 1.36425 * 121.22200 * 0.02562 * 18 17 11 20 20 H 0.96995 * 119.09177 * 179.97438 * 19 18 17 21 21 H 0.96998 * 120.00186 * 359.97438 * 1 2 3 22 22 H 1.07997 * 120.63503 * 0.02562 * 10 9 7 23 23 H 1.09003 * 112.52896 * 343.25780 * 13 12 11 24 24 H 1.08991 * 113.14682 * 327.10720 * 14 13 12 25 25 H 1.08999 * 113.15024 * 96.59597 * 14 13 12 26 26 H 1.08997 * 113.14640 * 263.40393 * 16 13 12 27 27 H 1.09001 * 113.14256 * 32.84752 * 16 13 12 28 28 H 1.08001 * 120.31980 * 180.29570 * 17 11 10 29 29 H 1.08004 * 119.38981 * 180.02562 * 18 17 11 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 1.3059 0.0000 0.0000 3 14 2.2397 1.6178 0.0000 4 1 3.0935 1.6965 -1.2125 5 1 1.2748 2.7465 0.0006 6 1 3.0935 1.6965 1.2125 7 6 2.0076 -1.2155 -0.0005 8 1 3.0476 -1.2387 0.2900 9 6 1.3588 -2.3993 -0.3779 10 6 1.8508 -3.6248 0.0579 11 6 1.1803 -4.8113 -0.3424 12 7 1.6158 -5.9986 0.0431 13 6 0.8336 -7.1995 -0.2602 14 6 0.9402 -8.2763 0.8222 15 16 0.7546 -9.5625 -0.4439 16 6 1.5274 -8.1346 -1.2536 17 6 -0.0126 -4.6857 -1.1907 18 6 -0.4293 -3.4643 -1.5652 19 7 0.2352 -2.3393 -1.1729 20 1 -0.0925 -1.4732 -1.4616 21 1 -0.4850 0.8400 0.0004 22 1 2.7285 -3.6739 0.6852 23 1 -0.1956 -6.9691 -0.5356 24 1 1.9131 -8.2955 1.3131 25 1 0.1143 -8.2525 1.5331 26 1 1.1932 -7.9920 -2.2812 27 1 2.6136 -8.1259 -1.1632 28 1 -0.5498 -5.5666 -1.5098 29 1 -1.3065 -3.3716 -2.1885 RHF calculation, no. of doubly occupied orbitals= 40 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 ZINC001168364152.mol2 29 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Sun Mar 29 2020 22:31:03 Heat of formation + Delta-G solvation = 38.867885 kcal Electronic energy + Delta-G solvation = -13903.586750 eV Core-core repulsion = 11531.593664 eV Total energy + Delta-G solvation = -2371.993087 eV No. of doubly occupied orbitals = 40 Molecular weight (most abundant/longest-lived isotopes) = 236.068 amu Computer time = 0.24 seconds Orbital eigenvalues (eV) -40.33503 -37.91724 -35.79540 -34.11166 -32.35463 -29.64886 -27.84334 -27.13677 -23.69903 -23.04776 -21.12434 -19.82148 -18.39429 -17.72435 -16.95527 -16.80776 -16.46137 -15.54780 -14.81163 -14.63028 -14.51796 -14.05570 -13.80293 -13.76141 -13.31307 -13.07842 -12.77576 -12.58236 -12.34060 -12.02708 -11.91367 -11.36852 -11.23821 -11.07857 -10.00151 -9.37484 -8.99989 -8.84503 -7.78915 -6.67142 0.71291 0.96060 1.01882 1.11433 1.43341 1.54079 1.63557 2.16092 2.53489 2.89705 3.39399 3.81961 3.96716 4.11824 4.13766 4.45472 4.46589 4.63109 4.68222 4.75870 4.94815 5.01464 5.07301 5.19562 5.63508 5.79742 5.98466 6.09048 6.42398 6.49816 6.98915 7.16547 7.90486 8.01687 Molecular weight = 236.07amu Principal moments of inertia in cm(-1) A = 0.067681 B = 0.004992 C = 0.004803 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 413.604468 B = 5608.024254 C = 5828.022275 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.818 5.818 2 C 0.051 3.949 3 Si 0.993 3.007 4 H -0.256 1.256 5 H -0.262 1.262 6 H -0.264 1.264 7 C -0.492 4.492 8 H 0.098 0.902 9 C 0.322 3.678 10 C -0.397 4.397 11 C 0.275 3.725 12 N -0.691 5.691 13 C 0.084 3.916 14 C -0.050 4.050 15 S -0.337 6.337 16 C -0.060 4.060 17 C -0.320 4.320 18 C 0.141 3.859 19 N -0.601 5.601 20 H 0.418 0.582 21 H 0.307 0.693 22 H 0.090 0.910 23 H 0.073 0.927 24 H 0.098 0.902 25 H 0.091 0.909 26 H 0.091 0.909 27 H 0.095 0.905 28 H 0.135 0.865 29 H 0.185 0.815 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -2.794 1.132 -3.974 4.988 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 -0.445 5.445 2 C -0.168 4.168 3 Si 0.813 3.187 4 H -0.180 1.180 5 H -0.186 1.186 6 H -0.188 1.188 7 C -0.524 4.524 8 H 0.116 0.884 9 C 0.212 3.788 10 C -0.426 4.426 11 C 0.115 3.885 12 N -0.420 5.420 13 C -0.030 4.030 14 C -0.199 4.199 15 S -0.113 6.113 16 C -0.209 4.209 17 C -0.349 4.349 18 C 0.011 3.989 19 N -0.212 5.212 20 H 0.259 0.741 21 H 0.119 0.881 22 H 0.108 0.892 23 H 0.091 0.909 24 H 0.117 0.883 25 H 0.110 0.890 26 H 0.110 0.890 27 H 0.113 0.887 28 H 0.153 0.847 29 H 0.202 0.798 Dipole moment (debyes) X Y Z Total from point charges -2.817 -0.645 -3.747 4.732 hybrid contribution -0.064 1.692 -0.110 1.697 sum -2.881 1.047 -3.858 4.928 Atomic orbital electron populations 1.69337 1.08749 1.32874 1.33504 1.26916 0.95652 1.04791 0.89420 0.85038 0.78794 0.74535 0.80325 1.18019 1.18566 1.18829 1.19742 0.99911 0.90899 1.41806 0.88401 1.17741 0.82462 0.94204 0.84381 1.20223 1.11563 0.89389 1.21451 1.20445 0.88517 0.92512 0.87034 1.73498 1.32232 0.96348 1.39969 1.22512 0.96364 0.92705 0.91454 1.24415 1.05316 0.90741 0.99409 1.88452 1.80454 1.26526 1.15842 1.24678 1.02948 0.90287 1.02989 1.22413 1.03861 0.97184 1.11484 1.21965 0.95582 0.86170 0.95148 1.42110 1.25630 1.09499 1.43956 0.74108 0.88091 0.89168 0.90926 0.88320 0.89025 0.88992 0.88652 0.84726 0.79821 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 16. 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 -0.82 -32.84 11.18 21.89 0.24 -32.59 15 2 C 0.05 2.06 5.16 85.39 0.44 2.50 15 3 Si 0.99 30.74 29.60 68.60 2.03 32.77 15 4 H -0.26 -7.81 7.11 99.48 0.71 -7.11 15 5 H -0.26 -7.49 7.11 99.48 0.71 -6.79 15 6 H -0.26 -8.38 7.11 99.48 0.71 -7.67 15 7 C -0.49 -22.58 9.02 23.25 0.21 -22.37 15 8 H 0.10 4.47 7.91 -2.91 -0.02 4.45 15 9 C 0.32 15.27 6.36 38.88 0.25 15.52 15 10 C -0.40 -20.23 9.83 23.41 0.23 -20.00 15 11 C 0.27 13.10 6.80 42.30 0.29 13.39 15 12 N -0.69 -32.35 10.56 -346.62 -3.66 -36.01 15 13 C 0.08 3.26 3.73 45.02 0.17 3.42 15 14 C -0.05 -1.75 7.75 72.00 0.56 -1.19 15 15 S -0.34 -11.31 24.80 -56.49 -1.40 -12.71 15 16 C -0.06 -2.08 7.75 72.00 0.56 -1.52 15 17 C -0.32 -12.71 9.31 23.66 0.22 -12.49 15 18 C 0.14 4.96 11.15 83.10 0.93 5.88 15 19 N -0.60 -24.39 4.89 -188.19 -0.92 -25.30 15 20 H 0.42 15.86 6.39 -92.71 -0.59 15.27 15 21 H 0.31 10.84 8.29 -92.71 -0.77 10.07 15 22 H 0.09 4.85 8.06 -2.91 -0.02 4.82 15 23 H 0.07 2.77 5.94 -2.39 -0.01 2.76 15 24 H 0.10 3.52 8.14 -2.39 -0.02 3.50 15 25 H 0.09 2.98 8.14 -2.39 -0.02 2.96 15 26 H 0.09 2.94 8.14 -2.39 -0.02 2.92 15 27 H 0.09 3.41 8.14 -2.39 -0.02 3.39 15 28 H 0.14 4.76 6.21 -2.91 -0.02 4.74 15 29 H 0.18 4.48 8.06 -2.91 -0.02 4.45 15 Total: -1.00 -53.65 262.63 0.72 -52.93 By element: Atomic # 1 Polarization: 37.19 SS G_CDS: 0.58 Total: 37.77 kcal Atomic # 6 Polarization: -20.69 SS G_CDS: 3.85 Total: -16.85 kcal Atomic # 7 Polarization: -89.57 SS G_CDS: -4.33 Total: -93.91 kcal Atomic # 14 Polarization: 30.74 SS G_CDS: 2.03 Total: 32.77 kcal Atomic # 16 Polarization: -11.31 SS G_CDS: -1.40 Total: -12.71 kcal Total: -53.65 0.72 -52.93 kcal The number of atoms in the molecule is 29 The average number of expansion shells was 15.00 The maximum number of expansion shells was 15 The minimum number of expansion shells was 15 **** 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. ZINC001168364152.mol2 29 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 91.797 kcal (2) G-P(sol) polarization free energy of solvation -53.651 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 38.146 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.722 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -52.929 kcal (6) G-S(sol) free energy of system = (1) + (5) 38.868 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.24 seconds