Wall clock time and date at job start Tue Mar 31 2020 06:38:03 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 1.31631 * 1 3 3 Si 1.86806 * 120.00146 * 2 1 4 4 H 1.48505 * 109.46871 * 269.99680 * 3 2 1 5 5 H 1.48502 * 109.47150 * 29.99695 * 3 2 1 6 6 H 1.48500 * 109.47114 * 150.00161 * 3 2 1 7 7 C 1.38802 * 120.00139 * 180.02562 * 2 1 3 8 8 H 1.08002 * 119.99639 * 359.97438 * 7 2 1 9 9 S 1.76197 * 120.00099 * 180.02562 * 7 2 1 10 10 C 1.81001 * 99.99983 * 179.97438 * 9 7 2 11 11 C 1.53002 * 109.47129 * 179.97438 * 10 9 7 12 12 C 1.53003 * 109.46945 * 180.02562 * 11 10 9 13 13 O 1.45205 * 109.46797 * 179.97438 * 12 11 10 14 14 C 1.34230 * 116.99605 * 180.02562 * 13 12 11 15 15 O 1.20825 * 120.00357 * 359.97438 * 14 13 12 16 16 C 1.50701 * 119.99752 * 180.02562 * 14 13 12 17 17 H 1.09002 * 115.56732 * 34.41315 * 16 14 13 18 18 C 1.53192 * 117.56224 * 248.56235 * 16 14 13 19 19 C 1.52099 * 59.76943 * 252.59678 * 18 16 14 20 20 C 1.53711 * 121.74463 * 111.08276 * 19 18 16 21 21 C 1.54706 * 103.69204 * 143.51927 * 20 19 18 22 22 O 1.44491 * 104.87330 * 23.82986 * 21 20 19 23 23 C 1.44641 * 105.46328 * 320.02700 * 22 21 20 24 24 H 0.96999 * 119.99664 * 0.02562 * 1 2 3 25 25 H 1.09003 * 109.46933 * 59.99939 * 10 9 7 26 26 H 1.08995 * 109.47261 * 300.00202 * 10 9 7 27 27 H 1.08994 * 109.47172 * 60.00355 * 11 10 9 28 28 H 1.09005 * 109.47323 * 300.00119 * 11 10 9 29 29 H 1.08994 * 109.47051 * 60.00091 * 12 11 10 30 30 H 1.08995 * 109.47198 * 300.00053 * 12 11 10 31 31 H 1.08997 * 117.51998 * 0.02562 * 18 16 14 32 32 H 1.09006 * 117.51677 * 145.17267 * 18 16 14 33 33 H 1.09002 * 110.58119 * 262.06200 * 20 19 18 34 34 H 1.08996 * 110.58276 * 24.96757 * 20 19 18 35 35 H 1.08999 * 110.35901 * 142.68370 * 21 20 19 36 36 H 1.09003 * 110.35469 * 264.98270 * 21 20 19 37 37 H 1.08995 * 110.41943 * 280.89021 * 23 22 21 38 38 H 1.08995 * 110.42003 * 158.42603 * 23 22 21 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 1.3163 0.0000 0.0000 3 14 2.2504 1.6178 0.0000 4 1 2.4979 2.0464 -1.4001 5 1 1.4478 2.6527 0.7000 6 1 3.5479 1.4402 0.7000 7 6 2.0103 -1.2020 -0.0005 8 1 1.4703 -2.1373 -0.0005 9 16 3.7723 -1.2020 0.0001 10 6 4.0866 -2.9845 -0.0001 11 6 5.5958 -3.2363 -0.0002 12 6 5.8614 -4.7431 -0.0011 13 8 7.2937 -4.9820 -0.0019 14 6 7.6979 -6.2620 -0.0032 15 8 6.8821 -7.1532 -0.0033 16 6 9.1694 -6.5874 -0.0034 17 1 9.8038 -5.8975 0.5531 18 6 9.7544 -7.2238 -1.2682 19 6 9.5644 -8.0564 -0.0096 20 6 8.5138 -9.1757 0.0687 21 6 9.2010 -10.2635 0.9277 22 8 10.1887 -9.5522 1.7063 23 6 10.7596 -8.5753 0.8054 24 1 -0.4849 0.8401 -0.0004 25 1 3.6440 -3.4314 -0.8904 26 1 3.6434 -3.4318 0.8895 27 1 6.0388 -2.7895 0.8898 28 1 6.0387 -2.7891 -0.8902 29 1 5.4185 -5.1896 -0.8913 30 1 5.4185 -5.1906 0.8885 31 1 9.0748 -7.4067 -2.1005 32 1 10.7736 -6.9522 -1.5434 33 1 7.6078 -8.8173 0.5575 34 1 8.2877 -9.5592 -0.9262 35 1 8.4748 -10.7436 1.5836 36 1 9.6830 -11.0031 0.2883 37 1 11.4919 -9.0455 0.1491 38 1 11.2184 -7.7619 1.3675 RHF calculation, no. of doubly occupied orbitals= 51 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 ZINC000805530664.mol2 38 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 06:38:03 Heat of formation + Delta-G solvation = -135.875830 kcal Electronic energy + Delta-G solvation = -19528.933015 eV Core-core repulsion = 16269.544761 eV Total energy + Delta-G solvation = -3259.388254 eV No. of doubly occupied orbitals = 51 Molecular weight (most abundant/longest-lived isotopes) = 286.107 amu Computer time = 0.44 seconds Orbital eigenvalues (eV) -42.00088 -40.44044 -38.08859 -36.78171 -34.95990 -34.69729 -31.34878 -28.97722 -28.15301 -27.68170 -25.41904 -23.74021 -22.80852 -21.95827 -20.49598 -19.64707 -18.82063 -17.80875 -17.59698 -17.12043 -16.91403 -16.85422 -16.25598 -16.09779 -15.86425 -15.01992 -14.91145 -14.41373 -14.33754 -14.05105 -13.79938 -13.46322 -13.38365 -13.25482 -13.05599 -12.64749 -12.49913 -12.43372 -12.25098 -11.95726 -11.80143 -11.63129 -11.53499 -11.46583 -11.17907 -10.75379 -10.71065 -10.62314 -9.02620 -8.53413 -6.25907 0.97227 1.04209 1.32148 1.40524 1.49399 1.80121 2.23714 2.52836 2.64103 2.84581 2.98413 3.32920 3.45463 3.64183 3.78814 3.81324 3.92096 3.97087 4.08026 4.23512 4.25310 4.41034 4.43996 4.49847 4.61677 4.66562 4.71694 4.80909 4.81186 4.89957 4.95659 4.97594 5.05236 5.17770 5.52084 5.67966 5.79970 6.08805 6.65713 6.90031 8.59658 Molecular weight = 286.11amu Principal moments of inertia in cm(-1) A = 0.049759 B = 0.002382 C = 0.002327 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 562.571695 B =11752.560722 C =12029.161259 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.922 5.922 2 C 0.036 3.964 3 Si 0.927 3.073 4 H -0.260 1.260 5 H -0.263 1.263 6 H -0.227 1.227 7 C -0.526 4.526 8 H 0.051 0.949 9 S -0.205 6.205 10 C -0.074 4.074 11 C -0.087 4.087 12 C 0.079 3.921 13 O -0.354 6.354 14 C 0.486 3.514 15 O -0.529 6.529 16 C -0.164 4.164 17 H 0.159 0.841 18 C -0.105 4.105 19 C -0.136 4.136 20 C -0.135 4.135 21 C 0.045 3.955 22 O -0.401 6.401 23 C 0.082 3.918 24 H 0.277 0.723 25 H 0.071 0.929 26 H 0.070 0.930 27 H 0.085 0.915 28 H 0.087 0.913 29 H 0.073 0.927 30 H 0.070 0.930 31 H 0.102 0.898 32 H 0.149 0.851 33 H 0.082 0.918 34 H 0.085 0.915 35 H 0.091 0.909 36 H 0.079 0.921 37 H 0.095 0.905 38 H 0.108 0.892 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 25.750 -16.743 -1.818 30.768 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 -0.560 5.560 2 C -0.168 4.168 3 Si 0.748 3.252 4 H -0.185 1.185 5 H -0.188 1.188 6 H -0.150 1.150 7 C -0.673 4.673 8 H 0.069 0.931 9 S 0.023 5.977 10 C -0.223 4.223 11 C -0.126 4.126 12 C 0.004 3.996 13 O -0.270 6.270 14 C 0.331 3.669 15 O -0.419 6.419 16 C -0.183 4.183 17 H 0.177 0.823 18 C -0.141 4.141 19 C -0.136 4.136 20 C -0.172 4.172 21 C -0.031 4.031 22 O -0.320 6.320 23 C 0.005 3.995 24 H 0.087 0.913 25 H 0.089 0.911 26 H 0.089 0.911 27 H 0.103 0.897 28 H 0.105 0.895 29 H 0.092 0.908 30 H 0.089 0.911 31 H 0.121 0.879 32 H 0.167 0.833 33 H 0.100 0.900 34 H 0.103 0.897 35 H 0.109 0.891 36 H 0.097 0.903 37 H 0.113 0.887 38 H 0.126 0.874 Dipole moment (debyes) X Y Z Total from point charges 26.063 -16.044 -1.584 30.646 hybrid contribution -2.059 -0.360 -0.118 2.093 sum 24.004 -16.404 -1.702 29.123 Atomic orbital electron populations 1.70041 1.07717 1.29193 1.49039 1.25815 0.95452 1.02904 0.92665 0.85698 0.80791 0.78442 0.80319 1.18462 1.18772 1.14994 1.22348 0.90084 0.96329 1.58587 0.93103 1.83803 1.07491 1.08859 1.97592 1.22971 0.98883 0.96209 1.04190 1.21145 0.92864 0.93495 1.05074 1.23008 0.76983 0.96770 1.02886 1.86457 1.27955 1.29175 1.83430 1.23287 0.92115 0.80195 0.71285 1.90586 1.56561 1.47900 1.46875 1.21946 0.89117 0.98682 1.08512 0.82313 1.23182 1.04180 0.97393 0.89371 1.22380 0.99041 0.90084 1.02144 1.22703 0.98627 0.94088 1.01801 1.23580 0.90684 0.94443 0.94398 1.89147 1.55511 1.51219 1.36126 1.23029 0.92707 0.91934 0.91783 0.91345 0.91053 0.91141 0.89673 0.89486 0.90845 0.91119 0.87926 0.83328 0.89955 0.89659 0.89081 0.90333 0.88721 0.87406 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 -0.92 -56.78 13.97 21.65 0.30 -56.48 16 2 C 0.04 2.13 5.50 84.86 0.47 2.60 16 3 Si 0.93 43.65 27.74 68.60 1.90 45.56 16 4 H -0.26 -11.85 7.11 99.48 0.71 -11.14 16 5 H -0.26 -11.77 7.11 99.48 0.71 -11.06 16 6 H -0.23 -10.20 6.74 99.48 0.67 -9.53 16 7 C -0.53 -30.91 10.04 67.96 0.68 -30.23 16 8 H 0.05 3.26 8.03 -2.91 -0.02 3.23 16 9 S -0.21 -9.72 19.41 -56.49 -1.10 -10.81 16 10 C -0.07 -2.76 5.67 71.98 0.41 -2.35 16 11 C -0.09 -2.51 5.60 30.60 0.17 -2.34 16 12 C 0.08 2.08 5.47 71.98 0.39 2.47 16 13 O -0.35 -8.81 10.22 -51.41 -0.53 -9.33 16 14 C 0.49 11.37 7.74 71.24 0.55 11.92 16 15 O -0.53 -15.00 13.10 21.97 0.29 -14.71 16 16 C -0.16 -2.47 6.18 -11.77 -0.07 -2.54 16 17 H 0.16 1.71 8.14 -2.39 -0.02 1.69 16 18 C -0.10 -1.02 10.02 30.36 0.30 -0.71 16 19 C -0.14 -1.86 2.50 -52.30 -0.13 -1.99 16 20 C -0.13 -2.31 5.96 31.42 0.19 -2.13 16 21 C 0.05 0.68 7.65 72.56 0.56 1.24 16 22 O -0.40 -7.39 11.65 -148.98 -1.74 -9.12 16 23 C 0.08 0.94 7.44 72.21 0.54 1.48 16 24 H 0.28 15.70 8.31 -92.71 -0.77 14.93 16 25 H 0.07 2.67 8.14 -2.39 -0.02 2.65 16 26 H 0.07 2.66 8.14 -2.40 -0.02 2.64 16 27 H 0.08 2.39 8.14 -2.39 -0.02 2.37 16 28 H 0.09 2.41 8.14 -2.38 -0.02 2.39 16 29 H 0.07 1.91 8.13 -2.39 -0.02 1.89 16 30 H 0.07 1.89 8.13 -2.39 -0.02 1.87 16 31 H 0.10 1.14 8.14 -2.39 -0.02 1.12 16 32 H 0.15 0.49 8.14 -2.38 -0.02 0.47 16 33 H 0.08 1.94 5.48 -2.39 -0.01 1.92 16 34 H 0.08 1.31 8.14 -2.39 -0.02 1.29 16 35 H 0.09 1.34 8.14 -2.39 -0.02 1.32 16 36 H 0.08 0.86 8.14 -2.39 -0.02 0.84 16 37 H 0.09 0.66 8.14 -2.39 -0.02 0.64 16 38 H 0.11 0.94 8.12 -2.39 -0.02 0.92 16 Total: -1.00 -71.25 332.58 4.19 -67.05 By element: Atomic # 1 Polarization: 9.43 SS G_CDS: 1.00 Total: 10.44 kcal Atomic # 6 Polarization: -26.64 SS G_CDS: 4.05 Total: -22.59 kcal Atomic # 7 Polarization: -56.78 SS G_CDS: 0.30 Total: -56.48 kcal Atomic # 8 Polarization: -31.19 SS G_CDS: -1.97 Total: -33.16 kcal Atomic # 14 Polarization: 43.65 SS G_CDS: 1.90 Total: 45.56 kcal Atomic # 16 Polarization: -9.72 SS G_CDS: -1.10 Total: -10.81 kcal Total: -71.25 4.19 -67.05 kcal The number of atoms in the molecule is 38 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. ZINC000805530664.mol2 38 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 -68.824 kcal (2) G-P(sol) polarization free energy of solvation -71.246 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -140.070 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 4.194 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -67.051 kcal (6) G-S(sol) free energy of system = (1) + (5) -135.876 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.44 seconds