Wall clock time and date at job start Tue Mar 31 2020 18:56:06 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 C 2 2 C 1.53003 * 1 3 3 N 1.46501 * 109.47062 * 2 1 4 4 C 1.36941 * 119.99810 * 275.31085 * 3 2 1 5 5 H 1.08004 * 119.99649 * 37.57145 * 4 3 2 6 6 C 1.38810 * 120.00336 * 217.57889 * 4 3 2 7 7 N 1.31626 * 119.99803 * 21.42681 * 6 4 3 8 8 Si 1.86794 * 120.00219 * 201.43418 * 6 4 3 9 9 H 1.48500 * 109.47281 * 359.97438 * 8 6 4 10 10 H 1.48500 * 109.47511 * 119.99596 * 8 6 4 11 11 H 1.48508 * 109.46825 * 239.99586 * 8 6 4 12 12 C 1.46494 * 120.00422 * 95.30964 * 3 2 1 13 13 C 1.52999 * 109.47048 * 270.00094 * 12 3 2 14 14 C 1.53009 * 109.47114 * 179.97438 * 13 12 3 15 15 N 1.46501 * 109.46989 * 180.02562 * 14 13 12 16 16 C 1.34776 * 119.99330 * 180.27800 * 15 14 13 17 17 O 1.21591 * 120.00582 * 359.72474 * 16 15 14 18 18 C 1.47565 * 119.99661 * 179.72157 * 16 15 14 19 19 C 1.40122 * 120.58944 * 0.02562 * 18 16 15 20 20 N 1.30610 * 121.17380 * 179.97438 * 19 18 16 21 21 C 1.34903 * 122.44503 * 0.02562 * 20 19 18 22 22 C 1.40624 * 128.46041 * 179.97438 * 21 20 19 23 23 C 1.32279 * 115.91318 * 180.02562 * 22 21 20 24 24 S 1.75507 * 110.83669 * 359.97438 * 23 22 21 25 25 C 1.40093 * 119.27768 * 359.97438 * 21 20 19 26 26 C 1.39376 * 119.74734 * 359.74394 * 25 21 20 27 27 H 1.08992 * 109.47086 * 60.00411 * 1 2 3 28 28 H 1.09005 * 109.46877 * 180.02562 * 1 2 3 29 29 H 1.08998 * 109.46781 * 299.99763 * 1 2 3 30 30 H 1.08998 * 109.47228 * 239.99608 * 2 1 3 31 31 H 1.09005 * 109.47285 * 119.99761 * 2 1 3 32 32 H 0.96991 * 119.99936 * 180.02562 * 7 6 4 33 33 H 1.09004 * 109.47549 * 150.00013 * 12 3 2 34 34 H 1.09007 * 109.47059 * 29.99918 * 12 3 2 35 35 H 1.09001 * 109.47294 * 60.00296 * 13 12 3 36 36 H 1.08992 * 109.47402 * 299.99547 * 13 12 3 37 37 H 1.09001 * 109.46608 * 60.00109 * 14 13 12 38 38 H 1.08997 * 109.47092 * 300.00510 * 14 13 12 39 39 H 0.96996 * 119.99758 * 359.97438 * 15 14 13 40 40 H 1.08002 * 119.41265 * 359.95214 * 19 18 16 41 41 H 1.07999 * 122.04069 * 359.97438 * 22 21 20 42 42 H 1.07996 * 124.57944 * 180.02562 * 23 22 21 43 43 H 1.07993 * 120.73164 * 180.25985 * 26 25 21 Note: An asterisk (*) indicates this parameter was or will be optimized. Cartesian coordinates (angstroms) NO. Atom X Y Z 1 6 0.0000 0.0000 0.0000 2 6 1.5300 0.0000 0.0000 3 7 2.0183 1.3812 0.0000 4 6 2.1431 2.0633 -1.1809 5 1 1.4105 1.9277 -1.9628 6 6 3.2111 2.9289 -1.3730 7 7 4.3027 2.7981 -0.6493 8 14 3.0991 4.2796 -2.6585 9 1 1.7773 4.2135 -3.3321 10 1 3.2548 5.6023 -2.0017 11 1 4.1765 4.0963 -3.6641 12 6 2.3732 2.0328 1.2632 13 6 1.1426 2.7383 1.8364 14 6 1.5130 3.4183 3.1561 15 7 0.3345 4.0934 3.7053 16 6 0.4256 4.7686 4.8681 17 8 1.4846 4.8133 5.4639 18 6 -0.7599 5.4537 5.4182 19 6 -1.9865 5.4099 4.7422 20 7 -3.0431 6.0117 5.2190 21 6 -3.0209 6.7046 6.3762 22 6 -4.0735 7.3960 7.0020 23 6 -3.7737 7.9965 8.1419 24 16 -2.0867 7.7445 8.5554 25 6 -1.8256 6.7879 7.1021 26 6 -0.6808 6.1522 6.6246 27 1 -0.3633 0.5137 -0.8900 28 1 -0.3633 -1.0277 0.0005 29 1 -0.3633 0.5138 0.8900 30 1 1.8934 -0.5139 -0.8899 31 1 1.8934 -0.5138 0.8900 32 1 5.0488 3.4031 -0.7832 33 1 3.1617 2.7642 1.0859 34 1 2.7255 1.2834 1.9721 35 1 0.3541 2.0069 2.0139 36 1 0.7903 3.4876 1.1276 37 1 2.3016 4.1497 2.9790 38 1 1.8652 2.6687 3.8647 39 1 -0.5102 4.0580 3.2297 40 1 -2.0594 4.8691 3.8102 41 1 -5.0658 7.4350 6.5775 42 1 -4.4727 8.5643 8.7379 43 1 0.2479 6.2026 7.1733 RHF calculation, no. of doubly occupied orbitals= 59 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 ZINC001689947205.mol2 43 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 18:56:06 Heat of formation + Delta-G solvation = 17.020375 kcal Electronic energy + Delta-G solvation = -24935.613853 eV Core-core repulsion = 21299.962527 eV Total energy + Delta-G solvation = -3635.651326 eV No. of doubly occupied orbitals = 59 Molecular weight (most abundant/longest-lived isotopes) = 333.125 amu Computer time = 0.93 seconds Orbital eigenvalues (eV) -41.85924 -40.39857 -38.17897 -36.76140 -36.29676 -33.80192 -33.71689 -32.94995 -31.07192 -30.06770 -27.28923 -26.13420 -25.31672 -24.56309 -22.83835 -22.55517 -22.00070 -21.48138 -19.61500 -18.63749 -18.14792 -17.82280 -17.22016 -17.05686 -16.67507 -16.60993 -15.92719 -15.67393 -15.51741 -15.12297 -14.97284 -14.88307 -14.32679 -14.25582 -14.06301 -14.00780 -13.65443 -13.23627 -13.17381 -12.85743 -12.74502 -12.70595 -12.56817 -12.30192 -12.13210 -12.10475 -11.91582 -11.65101 -11.48596 -11.36443 -11.21165 -10.62074 -10.48565 -10.26207 -9.85452 -9.09557 -8.52763 -7.79178 -5.43138 -0.99434 -0.15672 0.26839 0.79405 0.81468 1.44779 1.49180 1.58163 1.78903 1.99403 2.52257 2.62628 2.92591 3.25659 3.44822 3.51038 3.62027 3.69349 3.89996 4.00958 4.18489 4.29786 4.40353 4.47728 4.56470 4.62814 4.71262 4.76350 4.80373 4.88910 4.91366 5.00096 5.03168 5.06909 5.18900 5.24332 5.34624 5.36891 5.49191 5.63182 5.72329 5.87457 6.39569 6.50412 6.58119 7.04049 7.21115 7.91106 8.43254 9.15401 Molecular weight = 333.13amu Principal moments of inertia in cm(-1) A = 0.017618 B = 0.002188 C = 0.002144 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1588.917492 B =12794.082411 C =13058.122696 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 C -0.151 4.151 2 C 0.134 3.866 3 N -0.601 5.601 4 C -0.260 4.260 5 H 0.055 0.945 6 C -0.037 4.037 7 N -0.918 5.918 8 Si 0.952 3.048 9 H -0.266 1.266 10 H -0.291 1.291 11 H -0.293 1.293 12 C 0.150 3.850 13 C -0.125 4.125 14 C 0.133 3.867 15 N -0.704 5.704 16 C 0.564 3.436 17 O -0.577 6.577 18 C -0.190 4.190 19 C 0.164 3.836 20 N -0.478 5.478 21 C 0.133 3.867 22 C -0.142 4.142 23 C -0.138 4.138 24 S 0.146 5.854 25 C -0.235 4.235 26 C 0.026 3.974 27 H 0.036 0.964 28 H 0.064 0.936 29 H 0.053 0.947 30 H 0.028 0.972 31 H 0.045 0.955 32 H 0.250 0.750 33 H 0.060 0.940 34 H 0.029 0.971 35 H 0.073 0.927 36 H 0.054 0.946 37 H 0.048 0.952 38 H 0.066 0.934 39 H 0.414 0.586 40 H 0.191 0.809 41 H 0.172 0.828 42 H 0.219 0.781 43 H 0.151 0.849 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -18.791 9.019 18.967 28.182 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 C -0.211 4.211 2 C 0.008 3.992 3 N -0.323 5.323 4 C -0.390 4.390 5 H 0.073 0.927 6 C -0.234 4.234 7 N -0.562 5.562 8 Si 0.781 3.219 9 H -0.190 1.190 10 H -0.217 1.217 11 H -0.221 1.221 12 C 0.023 3.977 13 C -0.165 4.165 14 C 0.009 3.991 15 N -0.356 5.356 16 C 0.351 3.649 17 O -0.458 6.458 18 C -0.199 4.199 19 C -0.009 4.009 20 N -0.187 5.187 21 C -0.001 4.001 22 C -0.172 4.172 23 C -0.275 4.275 24 S 0.409 5.591 25 C -0.352 4.352 26 C -0.004 4.004 27 H 0.055 0.945 28 H 0.082 0.918 29 H 0.072 0.928 30 H 0.046 0.954 31 H 0.063 0.937 32 H 0.059 0.941 33 H 0.077 0.923 34 H 0.047 0.953 35 H 0.091 0.909 36 H 0.073 0.927 37 H 0.067 0.933 38 H 0.084 0.916 39 H 0.252 0.748 40 H 0.207 0.793 41 H 0.190 0.810 42 H 0.235 0.765 43 H 0.169 0.831 Dipole moment (debyes) X Y Z Total from point charges -17.855 9.578 20.184 28.599 hybrid contribution 0.243 0.157 -1.837 1.860 sum -17.611 9.735 18.347 27.231 Atomic orbital electron populations 1.22171 0.97204 1.00759 1.00919 1.21001 0.93877 0.85698 0.98593 1.43997 1.76433 1.09561 1.02291 1.19199 1.03976 1.21016 0.94828 0.92714 1.25837 0.94080 1.03381 1.00122 1.70135 1.03818 1.38071 1.44210 0.85457 0.77725 0.79652 0.79100 1.19028 1.21744 1.22060 1.20701 0.95304 0.96147 0.85544 1.22195 1.00796 0.99688 0.93815 1.21228 0.87098 0.95701 0.95103 1.45860 1.14749 1.52359 1.22629 1.18108 0.87438 0.78379 0.80943 1.90778 1.31057 1.63039 1.60922 1.20740 0.95695 1.04944 0.98524 1.23198 0.85814 0.93199 0.98685 1.67640 1.30710 1.08552 1.11763 1.19812 0.92521 0.96203 0.91563 1.19874 1.00415 1.00354 0.96530 1.25965 0.99080 1.02758 0.99665 1.84374 1.06373 1.49744 1.18578 1.23768 0.98644 1.08718 1.04047 1.21088 0.97153 0.89276 0.92862 0.94503 0.91753 0.92841 0.95383 0.93681 0.94059 0.92253 0.95300 0.90865 0.92680 0.93322 0.91591 0.74812 0.79274 0.81020 0.76464 0.83128 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 C -0.15 -4.92 10.21 71.98 0.73 -4.19 16 2 C 0.13 5.37 6.44 86.38 0.56 5.93 16 3 N -0.60 -28.68 2.43 -701.99 -1.71 -30.39 16 4 C -0.26 -13.79 9.45 84.03 0.79 -12.99 16 5 H 0.06 2.91 7.92 -2.91 -0.02 2.89 16 6 C -0.04 -2.01 4.95 84.86 0.42 -1.59 16 7 N -0.92 -53.24 11.47 21.65 0.25 -52.99 16 8 Si 0.95 44.06 29.60 68.60 2.03 46.09 16 9 H -0.27 -11.74 7.11 99.48 0.71 -11.03 16 10 H -0.29 -13.48 7.11 99.48 0.71 -12.77 16 11 H -0.29 -13.67 7.11 99.48 0.71 -12.96 16 12 C 0.15 6.66 5.33 86.38 0.46 7.12 16 13 C -0.12 -4.33 5.65 30.60 0.17 -4.15 16 14 C 0.13 4.25 5.67 86.38 0.49 4.74 16 15 N -0.70 -18.41 5.51 -466.22 -2.57 -20.97 16 16 C 0.56 16.29 7.77 86.70 0.67 16.97 16 17 O -0.58 -21.13 16.41 -4.00 -0.07 -21.19 16 18 C -0.19 -4.55 5.89 -20.03 -0.12 -4.67 16 19 C 0.16 3.37 10.69 85.33 0.91 4.29 16 20 N -0.48 -10.68 10.39 -188.73 -1.96 -12.64 16 21 C 0.13 2.71 6.97 39.70 0.28 2.98 16 22 C -0.14 -1.91 10.16 21.79 0.22 -1.69 16 23 C -0.14 -1.21 11.08 66.76 0.74 -0.47 16 24 S 0.15 1.89 23.29 -56.49 -1.32 0.58 16 25 C -0.23 -4.70 6.49 22.99 0.15 -4.55 16 26 C 0.03 0.60 9.73 22.88 0.22 0.82 16 27 H 0.04 1.28 8.14 -2.39 -0.02 1.26 16 28 H 0.06 1.72 8.14 -2.38 -0.02 1.70 16 29 H 0.05 1.63 6.64 -2.39 -0.02 1.61 16 30 H 0.03 1.18 8.08 -2.39 -0.02 1.17 16 31 H 0.04 1.69 7.83 -2.38 -0.02 1.67 16 32 H 0.25 14.09 8.31 -92.72 -0.77 13.32 16 33 H 0.06 3.12 5.52 -2.38 -0.01 3.10 16 34 H 0.03 1.23 7.86 -2.38 -0.02 1.21 16 35 H 0.07 2.25 6.64 -2.39 -0.02 2.23 16 36 H 0.05 2.04 8.14 -2.39 -0.02 2.02 16 37 H 0.05 1.78 8.14 -2.39 -0.02 1.76 16 38 H 0.07 2.13 8.14 -2.39 -0.02 2.11 16 39 H 0.41 8.18 6.53 -92.71 -0.61 7.57 16 40 H 0.19 2.76 6.41 -2.91 -0.02 2.74 16 41 H 0.17 1.67 8.06 -2.91 -0.02 1.64 16 42 H 0.22 0.10 8.06 -2.91 -0.02 0.08 16 43 H 0.15 3.39 7.72 -2.91 -0.02 3.37 16 Total: -1.00 -70.07 373.20 1.80 -68.27 By element: Atomic # 1 Polarization: 14.26 SS G_CDS: 0.43 Total: 14.69 kcal Atomic # 6 Polarization: 1.84 SS G_CDS: 6.71 Total: 8.55 kcal Atomic # 7 Polarization: -111.00 SS G_CDS: -5.99 Total: -116.99 kcal Atomic # 8 Polarization: -21.13 SS G_CDS: -0.07 Total: -21.19 kcal Atomic # 14 Polarization: 44.06 SS G_CDS: 2.03 Total: 46.09 kcal Atomic # 16 Polarization: 1.89 SS G_CDS: -1.32 Total: 0.58 kcal Total: -70.07 1.80 -68.27 kcal The number of atoms in the molecule is 43 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. ZINC001689947205.mol2 43 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 85.289 kcal (2) G-P(sol) polarization free energy of solvation -70.070 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 15.219 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.801 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -68.269 kcal (6) G-S(sol) free energy of system = (1) + (5) 17.020 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.93 seconds