Wall clock time and date at job start Tue Mar 31 2020 21:06:15 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 1.30879 * 1 3 3 Si 1.86799 * 119.99997 * 2 1 4 4 H 1.48499 * 109.47287 * 180.02562 * 3 2 1 5 5 H 1.48503 * 109.46896 * 300.00269 * 3 2 1 6 6 H 1.48501 * 109.46845 * 59.99898 * 3 2 1 7 7 C 1.39895 * 120.00135 * 180.02562 * 2 1 3 8 8 H 1.08003 * 119.99548 * 197.79672 * 7 2 1 9 9 C 1.41217 * 119.99935 * 17.78648 * 7 2 1 10 10 C 1.40831 * 120.17754 * 24.71470 * 9 7 2 11 11 C 1.36444 * 119.80941 * 180.22537 * 10 9 7 12 12 C 1.39311 * 120.18284 * 359.50037 * 11 10 9 13 13 O 1.35672 * 119.81787 * 180.27547 * 12 11 10 14 14 S 1.52205 * 113.99872 * 89.99507 * 13 12 11 15 15 O 1.42102 * 106.40300 * 188.54012 * 14 13 12 16 16 O 1.42097 * 106.40144 * 321.46393 * 14 13 12 17 17 C 1.76197 * 107.21847 * 75.00288 * 14 13 12 18 18 C 1.39640 * 126.06275 * 269.72034 * 17 14 13 19 19 C 1.38483 * 105.35788 * 179.85039 * 18 17 14 20 20 C 1.47011 * 126.89192 * 180.10168 * 19 18 17 21 21 O 1.21551 * 120.00073 * 0.32862 * 20 19 18 22 22 O 1.34811 * 119.99636 * 180.32927 * 20 19 18 23 23 N 1.36646 * 106.21033 * 0.39413 * 19 18 17 24 24 H 0.97005 * 125.19712 * 179.77245 * 23 19 18 25 25 N 1.28444 * 109.60987 * 359.74345 * 23 19 18 26 26 C 1.39318 * 120.36502 * 0.24918 * 12 11 10 27 27 C 1.36435 * 120.18514 * 0.02562 * 26 12 11 28 28 H 0.97001 * 120.00430 * 0.02562 * 1 2 3 29 29 H 1.07996 * 120.09733 * 0.02562 * 10 9 7 30 30 H 1.07997 * 119.90369 * 179.76915 * 11 10 9 31 31 H 1.08000 * 127.31914 * 359.97438 * 18 17 14 32 32 H 0.96705 * 117.00232 * 179.97438 * 22 20 19 33 33 H 1.07993 * 119.90212 * 180.02562 * 26 12 11 34 34 H 1.07999 * 120.09330 * 180.02562 * 27 26 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 1.3088 0.0000 0.0000 3 14 2.2428 1.6177 0.0000 4 1 3.7028 1.3464 -0.0006 5 1 1.8839 2.3964 -1.2125 6 1 1.8840 2.3964 1.2125 7 6 2.0083 -1.2115 -0.0005 8 1 3.0496 -1.2339 0.2853 9 6 1.3529 -2.4051 -0.3747 10 6 0.2240 -2.3592 -1.2155 11 6 -0.4062 -3.5167 -1.5685 12 6 0.0701 -4.7422 -1.1081 13 8 -0.5590 -5.8890 -1.4682 14 16 -0.0240 -6.5124 -2.7496 15 8 -0.9118 -7.5711 -3.0819 16 8 0.2646 -5.4349 -3.6299 17 6 1.5213 -7.2631 -2.3588 18 6 2.7741 -6.6503 -2.4292 19 6 3.6792 -7.6189 -2.0289 20 6 5.1387 -7.4746 -1.9267 21 8 5.6655 -6.4150 -2.2042 22 8 5.8926 -8.5176 -1.5252 23 7 2.9443 -8.7377 -1.7544 24 1 3.3073 -9.5852 -1.4528 25 7 1.6991 -8.4957 -1.9563 26 6 1.1893 -4.7966 -0.2802 27 6 1.8278 -3.6480 0.0867 28 1 -0.4851 0.8400 -0.0004 29 1 -0.1436 -1.4104 -1.5773 30 1 -1.2742 -3.4831 -2.2103 31 1 2.9908 -5.6359 -2.7298 32 1 6.8477 -8.3749 -1.4737 33 1 1.5525 -5.7507 0.0721 34 1 2.6955 -3.6920 0.7282 RHF calculation, no. of doubly occupied orbitals= 58 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 ZINC001608189740.mol2 34 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 21:06:15 Heat of formation + Delta-G solvation = -126.394013 kcal Electronic energy + Delta-G solvation = -26707.122079 eV Core-core repulsion = 22505.410936 eV Total energy + Delta-G solvation = -4201.711143 eV No. of doubly occupied orbitals = 58 Molecular weight (most abundant/longest-lived isotopes) = 338.050 amu Computer time = 0.88 seconds Orbital eigenvalues (eV) -44.05875 -41.52854 -41.06909 -38.74184 -38.29767 -37.31419 -37.05567 -35.49944 -33.49199 -32.56727 -31.71278 -31.28070 -27.25667 -26.02452 -24.76937 -23.63217 -23.15801 -22.47759 -21.18756 -20.51529 -19.45069 -19.19995 -18.86388 -18.47247 -18.32351 -17.44249 -17.19546 -16.95537 -16.32383 -16.14264 -15.92351 -15.77684 -15.11357 -14.74045 -14.69092 -14.20047 -14.03110 -13.83827 -13.78974 -13.29954 -13.18339 -13.12711 -13.06366 -12.80978 -12.80587 -12.61209 -12.52784 -12.31312 -12.04897 -11.75992 -11.41682 -11.29149 -11.09326 -10.72089 -9.67463 -9.44790 -8.81210 -6.47969 -0.77659 -0.35156 0.36544 0.69141 1.03521 1.26844 1.43256 1.49429 1.57150 1.59552 1.66713 1.88988 2.17960 2.55103 2.55956 2.89391 3.49587 3.56134 3.64903 3.99964 4.20553 4.25050 4.26345 4.47311 4.73299 4.93801 4.98210 5.08809 5.18965 5.31443 5.49159 5.52832 5.73829 5.88432 5.94366 6.11931 6.20040 6.49390 6.72587 6.73142 6.80961 8.14376 Molecular weight = 338.05amu Principal moments of inertia in cm(-1) A = 0.012037 B = 0.004199 C = 0.003296 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2325.611469 B = 6666.358113 C = 8494.215137 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.796 5.796 2 C 0.035 3.965 3 Si 0.988 3.012 4 H -0.253 1.253 5 H -0.265 1.265 6 H -0.264 1.264 7 C -0.453 4.453 8 H 0.096 0.904 9 C 0.097 3.903 10 C -0.179 4.179 11 C -0.070 4.070 12 C -0.115 4.115 13 O -0.633 6.633 14 S 2.696 3.304 15 O -0.965 6.965 16 O -0.967 6.967 17 C -0.558 4.558 18 C -0.061 4.061 19 C -0.029 4.029 20 C 0.576 3.424 21 O -0.517 6.517 22 O -0.496 6.496 23 N -0.310 5.310 24 H 0.476 0.524 25 N -0.154 5.154 26 C -0.064 4.064 27 C -0.219 4.219 28 H 0.298 0.702 29 H 0.118 0.882 30 H 0.112 0.888 31 H 0.181 0.819 32 H 0.447 0.553 33 H 0.124 0.876 34 H 0.124 0.876 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 10.303 -11.291 -0.225 15.287 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 -0.419 5.419 2 C -0.184 4.184 3 Si 0.807 3.193 4 H -0.176 1.176 5 H -0.189 1.189 6 H -0.188 1.188 7 C -0.481 4.481 8 H 0.114 0.886 9 C 0.093 3.907 10 C -0.199 4.199 11 C -0.091 4.091 12 C -0.160 4.160 13 O -0.592 6.592 14 S 2.787 3.213 15 O -0.963 6.963 16 O -0.964 6.964 17 C -0.791 4.791 18 C -0.089 4.089 19 C -0.155 4.155 20 C 0.417 3.583 21 O -0.404 6.404 22 O -0.311 6.311 23 N -0.037 5.037 24 H 0.328 0.672 25 N 0.003 4.997 26 C -0.084 4.084 27 C -0.239 4.239 28 H 0.109 0.891 29 H 0.136 0.864 30 H 0.130 0.870 31 H 0.198 0.802 32 H 0.312 0.688 33 H 0.142 0.858 34 H 0.142 0.858 Dipole moment (debyes) X Y Z Total from point charges 8.619 -11.857 -0.383 14.663 hybrid contribution 1.652 0.624 0.078 1.768 sum 10.271 -11.233 -0.305 15.223 Atomic orbital electron populations 1.69862 1.09292 1.31798 1.30974 1.26951 0.95511 1.05089 0.90878 0.85054 0.79649 0.75477 0.79082 1.17589 1.18935 1.18847 1.20181 0.99006 0.91815 1.37090 0.88581 1.18152 0.91022 0.93542 0.87993 1.20931 1.00097 0.96614 1.02263 1.20658 0.98772 0.91618 0.98039 1.17665 1.02330 0.80158 1.15814 1.85628 1.66962 1.45207 1.61406 1.02789 0.71936 0.72820 0.73785 1.93512 1.62693 1.57772 1.82357 1.93578 1.85097 1.52553 1.65214 1.34835 1.21914 1.00841 1.21549 1.22117 0.88570 1.00866 0.97320 1.20648 0.90979 0.89984 1.13863 1.18796 0.84721 0.81561 0.73193 1.91035 1.73030 1.29450 1.46882 1.84452 1.27984 1.39469 1.79229 1.44152 1.02786 1.13425 1.43361 0.67239 1.73272 1.00317 1.15613 1.10498 1.20512 0.93236 0.98989 0.95702 1.20787 1.04402 0.91574 1.07158 0.89064 0.86397 0.86976 0.80151 0.68849 0.85806 0.85807 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 20. 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 -0.80 -37.16 10.96 21.82 0.24 -36.92 16 2 C 0.04 1.57 5.14 85.24 0.44 2.00 16 3 Si 0.99 33.49 29.59 68.60 2.03 35.52 16 4 H -0.25 -8.34 7.11 99.48 0.71 -7.64 16 5 H -0.26 -8.81 7.11 99.48 0.71 -8.10 16 6 H -0.26 -8.58 7.11 99.48 0.71 -7.88 16 7 C -0.45 -21.41 9.04 23.40 0.21 -21.20 16 8 H 0.10 4.25 7.91 -2.91 -0.02 4.22 16 9 C 0.10 4.74 5.57 -21.28 -0.12 4.62 16 10 C -0.18 -8.90 8.64 22.49 0.19 -8.71 16 11 C -0.07 -3.32 9.12 22.11 0.20 -3.12 16 12 C -0.11 -5.10 4.82 22.79 0.11 -4.99 16 13 O -0.63 -26.18 10.14 -59.17 -0.60 -26.78 16 14 S 2.70 104.76 5.59 -56.49 -0.32 104.44 16 15 O -0.97 -40.27 18.01 -118.78 -2.14 -42.41 16 16 O -0.97 -41.33 16.18 -118.78 -1.92 -43.25 16 17 C -0.56 -18.36 6.45 85.17 0.55 -17.81 16 18 C -0.06 -1.85 9.92 22.67 0.22 -1.63 16 19 C -0.03 -0.69 7.21 40.75 0.29 -0.40 16 20 C 0.58 11.47 8.32 70.12 0.58 12.05 16 21 O -0.52 -14.13 17.71 19.67 0.35 -13.79 16 22 O -0.50 -4.80 13.44 -57.23 -0.77 -5.57 16 23 N -0.31 -6.17 6.94 -48.03 -0.33 -6.50 16 24 H 0.48 4.87 8.96 -220.00 -1.97 2.90 16 25 N -0.15 -4.34 12.14 -55.11 -0.67 -5.01 16 26 C -0.06 -2.64 8.60 22.11 0.19 -2.45 16 27 C -0.22 -9.59 9.74 22.48 0.22 -9.37 16 28 H 0.30 12.39 8.30 -92.71 -0.77 11.62 16 29 H 0.12 6.00 6.17 -2.91 -0.02 5.98 16 30 H 0.11 4.95 8.06 -2.91 -0.02 4.92 16 31 H 0.18 5.77 8.06 -2.91 -0.02 5.74 16 32 H 0.45 0.20 9.11 -74.05 -0.67 -0.47 16 33 H 0.12 4.38 7.93 -2.91 -0.02 4.36 16 34 H 0.12 4.85 8.06 -2.91 -0.02 4.83 16 Total: -1.00 -68.29 327.15 -2.46 -70.75 By element: Atomic # 1 Polarization: 21.93 SS G_CDS: -1.43 Total: 20.50 kcal Atomic # 6 Polarization: -54.08 SS G_CDS: 3.10 Total: -50.98 kcal Atomic # 7 Polarization: -47.67 SS G_CDS: -0.76 Total: -48.43 kcal Atomic # 8 Polarization: -126.70 SS G_CDS: -5.08 Total: -131.79 kcal Atomic # 14 Polarization: 33.49 SS G_CDS: 2.03 Total: 35.52 kcal Atomic # 16 Polarization: 104.76 SS G_CDS: -0.32 Total: 104.44 kcal Total: -68.29 -2.46 -70.75 kcal The number of atoms in the molecule is 34 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. ZINC001608189740.mol2 34 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 -55.644 kcal (2) G-P(sol) polarization free energy of solvation -68.287 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -123.931 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.463 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -70.750 kcal (6) G-S(sol) free energy of system = (1) + (5) -126.394 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.88 seconds