Wall clock time and date at job start Tue Mar 31 2020 06:33:30 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 1.31512 * 1 3 3 Si 1.86802 * 120.00212 * 2 1 4 4 H 1.48493 * 109.47084 * 275.00121 * 3 2 1 5 5 H 1.48501 * 109.46772 * 35.00093 * 3 2 1 6 6 H 1.48500 * 109.46931 * 154.99864 * 3 2 1 7 7 C 1.37878 * 119.99650 * 179.97438 * 2 1 3 8 8 H 1.08002 * 119.99483 * 175.10238 * 7 2 1 9 9 C 1.50692 * 120.00305 * 355.10872 * 7 2 1 10 10 H 1.09003 * 109.52668 * 305.26380 * 9 7 2 11 11 C 1.53043 * 109.49920 * 185.18334 * 9 7 2 12 12 C 1.53038 * 109.53663 * 178.68499 * 11 9 7 13 13 C 1.52755 * 109.38809 * 61.24124 * 12 11 9 14 14 N 1.46934 * 109.00573 * 305.58576 * 13 12 11 15 15 C 1.34773 * 120.63093 * 233.58761 * 14 13 12 16 16 S 1.71202 * 120.00173 * 174.43281 * 15 14 13 17 17 N 1.34776 * 120.00014 * 354.69881 * 15 14 13 18 18 C 1.46502 * 120.00294 * 184.70444 * 17 15 14 19 19 C 1.53005 * 109.47312 * 180.02562 * 18 17 15 20 20 C 1.53774 * 113.61397 * 272.50016 * 19 18 17 21 21 C 1.53779 * 87.08158 * 220.01887 * 20 19 18 22 22 C 1.53779 * 113.61119 * 175.00012 * 19 18 17 23 23 C 1.46925 * 118.73586 * 53.31114 * 14 13 12 24 24 H 0.97006 * 120.00110 * 359.97438 * 1 2 3 25 25 H 1.08999 * 109.45866 * 298.70144 * 11 9 7 26 26 H 1.08995 * 109.46211 * 58.67532 * 11 9 7 27 27 H 1.09003 * 109.49746 * 181.31787 * 12 11 9 28 28 H 1.09002 * 109.50017 * 301.37657 * 12 11 9 29 29 H 1.08999 * 109.51379 * 185.70831 * 13 12 11 30 30 H 1.08999 * 109.43630 * 65.41797 * 13 12 11 31 31 H 0.96999 * 119.99933 * 4.71233 * 17 15 14 32 32 H 1.08994 * 109.47100 * 300.00649 * 18 17 15 33 33 H 1.09005 * 109.46659 * 60.00627 * 18 17 15 34 34 H 1.09002 * 112.84526 * 43.81064 * 19 18 17 35 35 H 1.08992 * 113.61879 * 334.56847 * 20 19 18 36 36 H 1.09006 * 113.61263 * 105.47137 * 20 19 18 37 37 H 1.09003 * 113.61942 * 270.88942 * 21 20 19 38 38 H 1.09003 * 113.69345 * 139.99446 * 21 20 19 39 39 H 1.08996 * 113.61565 * 254.52828 * 22 19 18 40 40 H 1.08996 * 113.61668 * 25.35621 * 22 19 18 41 41 H 1.08996 * 109.58687 * 66.43230 * 23 14 13 42 42 H 1.09001 * 109.58063 * 186.85581 * 23 14 13 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 1.3151 0.0000 0.0000 3 14 2.2492 1.6177 0.0000 4 1 2.3910 2.1074 -1.3947 5 1 1.5035 2.6198 0.8031 6 1 3.5956 1.4119 0.5917 7 6 2.0044 -1.1941 0.0005 8 1 3.0815 -1.1958 -0.0793 9 6 1.2551 -2.4967 0.1124 10 1 0.6231 -2.4784 1.0003 11 6 2.2527 -3.6524 0.2192 12 6 1.4927 -4.9726 0.3658 13 6 0.6229 -5.1969 -0.8698 14 7 -0.2385 -4.0232 -1.0681 15 6 -1.5739 -4.1632 -1.1838 16 16 -2.5755 -2.7776 -1.2713 17 7 -2.1214 -5.3941 -1.2252 18 6 -3.5601 -5.5486 -1.4543 19 6 -3.9197 -7.0358 -1.4543 20 6 -3.7787 -7.7036 -2.8323 21 6 -5.0735 -8.4670 -2.5075 22 6 -5.4298 -7.3043 -1.5660 23 6 0.3832 -2.6935 -1.1318 24 1 -0.4850 0.8401 0.0004 25 1 2.8678 -3.6854 -0.6800 26 1 2.8906 -3.5022 1.0902 27 1 2.2038 -5.7927 0.4653 28 1 0.8589 -4.9312 1.2517 29 1 0.0051 -6.0831 -0.7241 30 1 1.2612 -5.3333 -1.7427 31 1 -1.5628 -6.1777 -1.1032 32 1 -4.1106 -5.0421 -0.6616 33 1 -3.8238 -5.1107 -2.4170 34 1 -3.4365 -7.5881 -0.6484 35 1 -3.8788 -7.0091 -3.6664 36 1 -2.9027 -8.3465 -2.9183 37 1 -4.9055 -9.4117 -1.9904 38 1 -5.7497 -8.5638 -3.3570 39 1 -5.8866 -7.6250 -0.6298 40 1 -5.9815 -6.5001 -2.0527 41 1 1.0015 -2.6216 -2.0265 42 1 -0.3928 -1.9284 -1.1589 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) 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 ZINC001327016503.mol2 42 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 06:33:30 Heat of formation + Delta-G solvation = 11.653465 kcal Electronic energy + Delta-G solvation = -20457.287978 eV Core-core repulsion = 17562.878971 eV Total energy + Delta-G solvation = -2894.409006 eV No. of doubly occupied orbitals = 51 Molecular weight (most abundant/longest-lived isotopes) = 282.146 amu Computer time = 0.62 seconds Orbital eigenvalues (eV) -40.99146 -39.84356 -37.58764 -35.11393 -33.92269 -31.80002 -29.59973 -27.22352 -26.61787 -26.30731 -24.27192 -23.61141 -22.74369 -20.87961 -20.23624 -19.11225 -18.23039 -18.11659 -16.66466 -16.52928 -16.21481 -15.66072 -15.52517 -15.36069 -15.16122 -14.82799 -14.51515 -14.29233 -13.64469 -13.32199 -13.23984 -12.92103 -12.88277 -12.71861 -12.43306 -12.29269 -12.20661 -11.97075 -11.88489 -11.59185 -11.49436 -11.25348 -11.10622 -10.95057 -10.91118 -10.50309 -9.67153 -8.79810 -8.32699 -8.01098 -6.20665 0.52412 1.07674 1.43195 1.44512 1.54907 1.74361 2.39995 2.47608 3.24606 3.64145 3.67068 3.76534 3.81885 3.96997 4.00218 4.15881 4.27530 4.46342 4.51148 4.57771 4.67962 4.70710 4.75160 4.89146 4.90013 4.93236 5.02353 5.06718 5.12436 5.15738 5.17125 5.25600 5.31329 5.36133 5.57900 5.60899 5.72659 5.82341 5.94184 6.15415 6.37406 6.50954 6.90825 7.49035 8.99066 Molecular weight = 282.15amu Principal moments of inertia in cm(-1) A = 0.028112 B = 0.004214 C = 0.003771 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 995.779653 B = 6642.168426 C = 7423.475735 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.891 5.891 2 C 0.015 3.985 3 Si 0.950 3.050 4 H -0.278 1.278 5 H -0.289 1.289 6 H -0.264 1.264 7 C -0.544 4.544 8 H 0.061 0.939 9 C 0.046 3.954 10 H -0.013 1.013 11 C -0.109 4.109 12 C -0.124 4.124 13 C 0.090 3.910 14 N -0.555 5.555 15 C 0.577 3.423 16 S -0.758 6.758 17 N -0.669 5.669 18 C 0.141 3.859 19 C -0.120 4.120 20 C -0.137 4.137 21 C -0.134 4.134 22 C -0.131 4.131 23 C 0.105 3.895 24 H 0.258 0.742 25 H 0.060 0.940 26 H 0.054 0.946 27 H 0.113 0.887 28 H 0.050 0.950 29 H 0.106 0.894 30 H 0.099 0.901 31 H 0.410 0.590 32 H 0.063 0.937 33 H 0.066 0.934 34 H 0.110 0.890 35 H 0.074 0.926 36 H 0.078 0.922 37 H 0.093 0.907 38 H 0.072 0.928 39 H 0.077 0.923 40 H 0.079 0.921 41 H 0.046 0.954 42 H 0.122 0.878 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -3.259 -22.262 -3.647 22.792 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 -0.527 5.527 2 C -0.186 4.186 3 Si 0.776 3.224 4 H -0.204 1.204 5 H -0.215 1.215 6 H -0.188 1.188 7 C -0.582 4.582 8 H 0.079 0.921 9 C 0.026 3.974 10 H 0.006 0.994 11 C -0.147 4.147 12 C -0.162 4.162 13 C -0.033 4.033 14 N -0.261 5.261 15 C 0.213 3.787 16 S -0.631 6.631 17 N -0.304 5.304 18 C 0.017 3.983 19 C -0.139 4.139 20 C -0.174 4.174 21 C -0.171 4.171 22 C -0.170 4.170 23 C -0.018 4.018 24 H 0.067 0.933 25 H 0.079 0.921 26 H 0.073 0.927 27 H 0.132 0.868 28 H 0.069 0.931 29 H 0.124 0.876 30 H 0.117 0.883 31 H 0.252 0.748 32 H 0.081 0.919 33 H 0.085 0.915 34 H 0.128 0.872 35 H 0.092 0.908 36 H 0.097 0.903 37 H 0.111 0.889 38 H 0.091 0.909 39 H 0.096 0.904 40 H 0.097 0.903 41 H 0.064 0.936 42 H 0.140 0.860 Dipole moment (debyes) X Y Z Total from point charges -4.036 -21.318 -3.725 22.014 hybrid contribution 0.892 0.742 0.237 1.184 sum -3.144 -20.576 -3.488 21.105 Atomic orbital electron populations 1.70152 1.06874 1.27033 1.48668 1.25860 0.95530 1.02544 0.94710 0.85666 0.78920 0.79883 0.77907 1.20404 1.21541 1.18784 1.21365 0.93338 0.91308 1.52205 0.92114 1.18841 0.92707 0.93791 0.92050 0.99437 1.21576 0.97852 0.94041 1.01244 1.21830 0.99031 0.98868 0.96485 1.22230 0.93905 0.86619 1.00589 1.47891 1.02524 1.11460 1.64184 1.21716 0.86055 0.90181 0.80721 1.93594 1.58839 1.31554 1.79135 1.45004 1.11342 1.03681 1.70355 1.21698 0.77175 0.97423 1.01974 1.22895 0.98931 0.92148 0.99898 1.23017 0.99252 0.99355 0.95811 1.22788 0.97127 0.97565 0.99642 1.22891 0.94129 0.99023 1.00911 1.22659 0.98804 0.81579 0.98713 0.93298 0.92088 0.92724 0.86844 0.93114 0.87638 0.88277 0.74780 0.91912 0.91546 0.87163 0.90760 0.90281 0.88860 0.90916 0.90386 0.90285 0.93598 0.85987 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 -0.89 -54.61 11.60 21.45 0.25 -54.37 16 2 C 0.02 0.87 5.36 84.66 0.45 1.33 16 3 Si 0.95 44.72 29.54 68.60 2.03 46.75 16 4 H -0.28 -12.86 7.11 99.48 0.71 -12.15 16 5 H -0.29 -13.69 7.11 99.48 0.71 -12.98 16 6 H -0.26 -11.77 7.11 99.48 0.71 -11.07 16 7 C -0.54 -29.65 8.49 25.60 0.22 -29.43 16 8 H 0.06 3.19 7.75 -2.91 -0.02 3.17 16 9 C 0.05 2.24 2.20 -11.46 -0.03 2.22 16 10 H -0.01 -0.73 8.14 -2.39 -0.02 -0.75 16 11 C -0.11 -3.97 5.11 30.62 0.16 -3.81 16 12 C -0.12 -3.25 6.06 30.53 0.19 -3.06 16 13 C 0.09 2.20 6.36 86.22 0.55 2.75 16 14 N -0.55 -20.68 2.98 -707.74 -2.11 -22.79 16 15 C 0.58 22.17 7.71 179.06 1.38 23.55 16 16 S -0.76 -38.89 27.01 -56.49 -1.53 -40.42 16 17 N -0.67 -17.48 5.46 -350.16 -1.91 -19.39 16 18 C 0.14 3.41 4.98 86.38 0.43 3.84 16 19 C -0.12 -1.78 3.75 -10.27 -0.04 -1.82 16 20 C -0.14 -1.76 7.63 31.12 0.24 -1.53 16 21 C -0.13 -1.46 8.08 31.12 0.25 -1.21 16 22 C -0.13 -1.80 7.64 31.12 0.24 -1.56 16 23 C 0.10 5.04 5.38 86.36 0.46 5.51 16 24 H 0.26 15.51 8.31 -92.70 -0.77 14.74 16 25 H 0.06 2.09 8.14 -2.39 -0.02 2.07 16 26 H 0.05 1.98 8.14 -2.39 -0.02 1.96 16 27 H 0.11 2.01 8.14 -2.39 -0.02 1.99 16 28 H 0.05 1.47 8.14 -2.39 -0.02 1.46 16 29 H 0.11 1.70 5.65 -2.39 -0.01 1.69 16 30 H 0.10 2.06 8.14 -2.39 -0.02 2.04 16 31 H 0.41 7.40 5.96 -92.71 -0.55 6.84 16 32 H 0.06 1.84 7.89 -2.39 -0.02 1.82 16 33 H 0.07 1.85 7.79 -2.38 -0.02 1.83 16 34 H 0.11 1.32 8.14 -2.39 -0.02 1.30 16 35 H 0.07 1.14 7.90 -2.39 -0.02 1.13 16 36 H 0.08 0.83 8.14 -2.38 -0.02 0.81 16 37 H 0.09 0.79 8.14 -2.39 -0.02 0.77 16 38 H 0.07 0.76 8.14 -2.39 -0.02 0.74 16 39 H 0.08 0.96 8.14 -2.39 -0.02 0.94 16 40 H 0.08 1.23 8.10 -2.39 -0.02 1.21 16 41 H 0.05 2.20 8.14 -2.39 -0.02 2.18 16 42 H 0.12 7.03 4.27 -3.86 -0.02 7.02 16 Total: -1.00 -76.37 338.01 1.66 -74.71 By element: Atomic # 1 Polarization: 18.31 SS G_CDS: 0.44 Total: 18.74 kcal Atomic # 6 Polarization: -7.74 SS G_CDS: 4.50 Total: -3.24 kcal Atomic # 7 Polarization: -92.77 SS G_CDS: -3.77 Total: -96.54 kcal Atomic # 14 Polarization: 44.72 SS G_CDS: 2.03 Total: 46.75 kcal Atomic # 16 Polarization: -38.89 SS G_CDS: -1.53 Total: -40.42 kcal Total: -76.37 1.66 -74.71 kcal The number of atoms in the molecule is 42 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. ZINC001327016503.mol2 42 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 86.365 kcal (2) G-P(sol) polarization free energy of solvation -76.374 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 9.990 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 1.663 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -74.711 kcal (6) G-S(sol) free energy of system = (1) + (5) 11.653 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.62 seconds