Wall clock time and date at job start Mon Mar 30 2020 05:35:19 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 1.31630 * 1 3 3 Si 1.86793 * 120.00293 * 2 1 4 4 H 1.48501 * 109.47222 * 240.00165 * 3 2 1 5 5 H 1.48509 * 109.47182 * 359.97438 * 3 2 1 6 6 H 1.48497 * 109.47436 * 119.99594 * 3 2 1 7 7 C 1.38799 * 119.99894 * 179.97438 * 2 1 3 8 8 H 1.08003 * 120.00025 * 180.02562 * 7 2 1 9 9 S 1.76206 * 120.00061 * 359.97438 * 7 2 1 10 10 C 1.80995 * 99.99829 * 179.97438 * 9 7 2 11 11 C 1.50703 * 109.47109 * 180.02562 * 10 9 7 12 12 O 1.21283 * 119.99776 * 359.97438 * 11 10 9 13 13 N 1.34777 * 120.00431 * 180.02562 * 11 10 9 14 14 C 1.46501 * 120.00094 * 180.02562 * 13 11 10 15 15 C 1.53002 * 109.47057 * 180.02562 * 14 13 11 16 16 C 1.52994 * 109.47118 * 179.97438 * 15 14 13 17 17 H 1.09002 * 110.43519 * 56.08321 * 16 15 14 18 18 C 1.54889 * 110.48592 * 293.54400 * 16 15 14 19 19 C 1.54891 * 102.74891 * 203.37985 * 18 16 15 20 20 C 1.54266 * 104.31343 * 37.87666 * 19 18 16 21 21 H 1.09000 * 117.41374 * 196.48160 * 20 19 18 22 22 C 1.55782 * 118.11191 * 39.94747 * 20 19 18 23 23 C 1.53003 * 59.86518 * 266.78956 * 22 20 19 24 24 H 1.08996 * 119.29698 * 248.36500 * 23 22 20 25 25 H 0.96999 * 119.99497 * 0.02562 * 1 2 3 26 26 H 1.08994 * 109.47419 * 60.00375 * 10 9 7 27 27 H 1.09002 * 109.47301 * 300.00166 * 10 9 7 28 28 H 0.97004 * 119.99561 * 359.97438 * 13 11 10 29 29 H 1.08994 * 109.47063 * 59.99610 * 14 13 11 30 30 H 1.08998 * 109.46732 * 299.99403 * 14 13 11 31 31 H 1.09001 * 109.46994 * 59.99442 * 15 14 13 32 32 H 1.09002 * 109.46915 * 299.99835 * 15 14 13 33 33 H 1.08998 * 110.75807 * 85.06488 * 18 16 15 34 34 H 1.08998 * 110.91370 * 321.76573 * 18 16 15 35 35 H 1.09002 * 110.48740 * 156.62163 * 19 18 16 36 36 H 1.08998 * 110.48604 * 279.13048 * 19 18 16 37 37 H 1.08995 * 117.11858 * 159.22272 * 22 20 19 38 38 H 1.09003 * 118.09207 * 13.91601 * 22 20 19 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 2.2503 1.6176 0.0000 4 1 3.1041 1.6963 -1.2125 5 1 1.2854 2.7465 -0.0006 6 1 3.1040 1.6964 1.2125 7 6 2.0103 -1.2020 0.0005 8 1 3.0903 -1.2021 0.0010 9 16 1.1292 -2.7280 0.0019 10 6 2.5158 -3.8914 0.0013 11 6 1.9873 -5.3028 0.0018 12 8 0.7910 -5.5023 0.0028 13 7 2.8440 -6.3432 0.0020 14 6 2.3302 -7.7152 0.0018 15 6 3.5022 -8.6987 0.0027 16 6 2.9657 -10.1314 0.0032 17 1 2.2988 -10.2884 -0.8446 18 6 2.2323 -10.4352 1.3332 19 6 2.3112 -11.9795 1.4221 20 6 3.7120 -12.3220 0.8742 21 1 3.8976 -13.3555 0.5816 22 6 4.9013 -11.3968 1.2697 23 6 4.1294 -11.1437 -0.0269 24 1 4.6242 -11.3112 -0.9835 25 1 -0.4849 0.8401 -0.0004 26 1 3.1250 -3.7310 0.8908 27 1 3.1237 -3.7317 -0.8892 28 1 3.8008 -6.1836 0.0015 29 1 1.7218 -7.8751 -0.8883 30 1 1.7215 -7.8752 0.8917 31 1 4.1103 -8.5384 0.8931 32 1 4.1115 -8.5387 -0.8869 33 1 1.1950 -10.1034 1.2869 34 1 2.7468 -9.9730 2.1756 35 1 2.2158 -12.3075 2.4572 36 1 1.5378 -12.4371 0.8051 37 1 5.9047 -11.8136 1.1841 38 1 4.7534 -10.6924 2.0883 RHF calculation, no. of doubly occupied orbitals= 48 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 ZINC000927491001.mol2 38 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Mon Mar 30 2020 05:35:19 Heat of formation + Delta-G solvation = -52.948187 kcal Electronic energy + Delta-G solvation = -17477.377280 eV Core-core repulsion = 14637.985893 eV Total energy + Delta-G solvation = -2839.391387 eV No. of doubly occupied orbitals = 48 Molecular weight (most abundant/longest-lived isotopes) = 269.119 amu Computer time = 0.39 seconds Orbital eigenvalues (eV) -40.86493 -40.32541 -36.40919 -34.58398 -33.46767 -31.50899 -30.59713 -27.76811 -27.17937 -24.58000 -23.22203 -21.85001 -20.52223 -19.99199 -19.64490 -17.75505 -17.60929 -16.94410 -16.87027 -16.72309 -15.79731 -15.58342 -15.37001 -14.73249 -14.52806 -14.21294 -13.98001 -13.52304 -13.37876 -13.16952 -13.01205 -12.86114 -12.63548 -12.38615 -12.13186 -11.83784 -11.78197 -11.68499 -11.46121 -11.12659 -10.97199 -10.84769 -10.37457 -10.27896 -10.09975 -8.67100 -8.34292 -6.12826 1.27312 1.44476 1.47348 1.57262 1.61621 2.26919 2.31624 2.80237 2.99664 3.32666 3.49364 3.71290 3.84768 3.97400 4.13357 4.16815 4.24217 4.29998 4.35327 4.47571 4.51231 4.55318 4.70215 4.72671 4.80912 4.91464 4.92841 5.12716 5.15576 5.16683 5.30345 5.34779 5.39567 5.41694 5.47420 5.50016 6.19887 6.52559 7.06668 7.25682 8.74803 Molecular weight = 269.12amu Principal moments of inertia in cm(-1) A = 0.057730 B = 0.002745 C = 0.002669 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 484.901404 B =10198.750313 C =10488.581688 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.912 5.912 2 C 0.012 3.988 3 Si 1.000 3.000 4 H -0.262 1.262 5 H -0.279 1.279 6 H -0.262 1.262 7 C -0.547 4.547 8 H 0.083 0.917 9 S -0.154 6.154 10 C -0.129 4.129 11 C 0.531 3.469 12 O -0.568 6.568 13 N -0.713 5.713 14 C 0.120 3.880 15 C -0.107 4.107 16 C -0.059 4.059 17 H 0.081 0.919 18 C -0.132 4.132 19 C -0.097 4.097 20 C -0.175 4.175 21 H 0.117 0.883 22 C -0.152 4.152 23 C -0.160 4.160 24 H 0.114 0.886 25 H 0.271 0.729 26 H 0.110 0.890 27 H 0.110 0.890 28 H 0.417 0.583 29 H 0.053 0.947 30 H 0.055 0.945 31 H 0.079 0.921 32 H 0.082 0.918 33 H 0.064 0.936 34 H 0.069 0.931 35 H 0.068 0.932 36 H 0.074 0.926 37 H 0.108 0.892 38 H 0.091 0.909 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 13.112 -23.337 1.231 26.797 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 -0.548 5.548 2 C -0.193 4.193 3 Si 0.821 3.179 4 H -0.186 1.186 5 H -0.204 1.204 6 H -0.186 1.186 7 C -0.695 4.695 8 H 0.102 0.898 9 S 0.073 5.927 10 C -0.280 4.280 11 C 0.316 3.684 12 O -0.447 6.447 13 N -0.367 5.367 14 C -0.004 4.004 15 C -0.145 4.145 16 C -0.077 4.077 17 H 0.099 0.901 18 C -0.169 4.169 19 C -0.134 4.134 20 C -0.193 4.193 21 H 0.135 0.865 22 C -0.189 4.189 23 C -0.178 4.178 24 H 0.132 0.868 25 H 0.080 0.920 26 H 0.129 0.871 27 H 0.129 0.871 28 H 0.254 0.746 29 H 0.072 0.928 30 H 0.074 0.926 31 H 0.097 0.903 32 H 0.100 0.900 33 H 0.083 0.917 34 H 0.087 0.913 35 H 0.087 0.913 36 H 0.092 0.908 37 H 0.126 0.874 38 H 0.109 0.891 Dipole moment (debyes) X Y Z Total from point charges 10.968 -23.607 1.225 26.059 hybrid contribution 1.679 1.289 -0.066 2.117 sum 12.647 -22.318 1.159 25.678 Atomic orbital electron populations 1.70183 1.08010 1.28689 1.47951 1.26155 0.95989 1.03396 0.93722 0.84986 0.77781 0.75587 0.79524 1.18617 1.20412 1.18611 1.23178 0.95362 0.91952 1.58969 0.89842 1.85591 1.10722 0.99329 1.97064 1.23376 1.03498 0.94323 1.06851 1.20113 0.86272 0.86810 0.75168 1.90687 1.17519 1.86184 1.50320 1.45790 1.10310 1.05264 1.75333 1.21446 0.97618 0.79952 1.01366 1.21663 0.96236 0.92703 1.03872 1.21485 0.95387 0.92600 0.98276 0.90084 1.22646 1.00551 0.96312 0.97400 1.21915 0.95068 0.95205 1.01231 1.23703 0.94523 0.95926 1.05194 0.86532 1.23376 0.95819 1.01766 0.97926 1.23166 1.00404 0.98261 0.95996 0.86804 0.91983 0.87145 0.87141 0.74644 0.92815 0.92647 0.90286 0.89952 0.91715 0.91256 0.91309 0.90785 0.87414 0.89063 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 -0.91 -56.45 13.22 21.65 0.29 -56.16 16 2 C 0.01 0.69 5.49 84.86 0.47 1.16 16 3 Si 1.00 43.67 29.55 68.60 2.03 45.70 16 4 H -0.26 -10.81 7.11 99.48 0.71 -10.11 16 5 H -0.28 -11.89 7.11 99.48 0.71 -11.18 16 6 H -0.26 -10.81 7.11 99.48 0.71 -10.10 16 7 C -0.55 -31.41 9.50 67.95 0.65 -30.76 16 8 H 0.08 4.42 7.80 -2.91 -0.02 4.40 16 9 S -0.15 -8.67 20.57 -56.49 -1.16 -9.83 16 10 C -0.13 -5.16 6.16 71.24 0.44 -4.72 16 11 C 0.53 19.94 7.85 87.66 0.69 20.62 16 12 O -0.57 -27.00 15.86 -3.04 -0.05 -27.05 16 13 N -0.71 -18.12 5.56 -463.06 -2.57 -20.69 16 14 C 0.12 2.68 5.52 86.38 0.48 3.16 16 15 C -0.11 -1.55 4.87 30.59 0.15 -1.40 16 16 C -0.06 -0.83 2.83 -9.72 -0.03 -0.85 16 17 H 0.08 1.21 8.14 -2.39 -0.02 1.19 16 18 C -0.13 -1.98 5.03 31.89 0.16 -1.82 16 19 C -0.10 -1.28 6.77 31.67 0.21 -1.07 16 20 C -0.18 -2.15 7.19 -9.03 -0.06 -2.22 16 21 H 0.12 1.24 8.14 -2.39 -0.02 1.22 16 22 C -0.15 -1.75 9.95 31.56 0.31 -1.43 16 23 C -0.16 -1.98 6.33 -9.99 -0.06 -2.04 16 24 H 0.11 1.27 8.14 -2.39 -0.02 1.25 16 25 H 0.27 15.59 8.31 -92.71 -0.77 14.82 16 26 H 0.11 3.94 8.14 -2.40 -0.02 3.92 16 27 H 0.11 3.94 8.14 -2.39 -0.02 3.92 16 28 H 0.42 7.51 8.47 -92.71 -0.79 6.72 16 29 H 0.05 1.35 8.14 -2.39 -0.02 1.33 16 30 H 0.06 1.39 7.38 -2.39 -0.02 1.37 16 31 H 0.08 1.04 8.10 -2.39 -0.02 1.03 16 32 H 0.08 1.04 8.14 -2.39 -0.02 1.02 16 33 H 0.06 1.08 8.01 -2.39 -0.02 1.06 16 34 H 0.07 1.06 7.31 -2.39 -0.02 1.04 16 35 H 0.07 0.87 8.14 -2.39 -0.02 0.85 16 36 H 0.07 0.94 8.14 -2.39 -0.02 0.92 16 37 H 0.11 0.99 8.14 -2.39 -0.02 0.97 16 38 H 0.09 1.11 7.27 -2.39 -0.02 1.09 16 Total: -1.00 -74.84 327.64 2.18 -72.66 By element: Atomic # 1 Polarization: 16.50 SS G_CDS: 0.26 Total: 16.75 kcal Atomic # 6 Polarization: -24.78 SS G_CDS: 3.40 Total: -21.38 kcal Atomic # 7 Polarization: -74.57 SS G_CDS: -2.29 Total: -76.85 kcal Atomic # 8 Polarization: -27.00 SS G_CDS: -0.05 Total: -27.05 kcal Atomic # 14 Polarization: 43.67 SS G_CDS: 2.03 Total: 45.70 kcal Atomic # 16 Polarization: -8.67 SS G_CDS: -1.16 Total: -9.83 kcal Total: -74.84 2.18 -72.66 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. ZINC000927491001.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 19.713 kcal (2) G-P(sol) polarization free energy of solvation -74.845 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -55.132 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 2.184 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -72.661 kcal (6) G-S(sol) free energy of system = (1) + (5) -52.948 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.39 seconds