Wall clock time and date at job start Tue Mar 31 2020 05:42:13 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 1.31410 * 1 3 3 Si 1.86795 * 119.99914 * 2 1 4 4 H 1.48504 * 109.46825 * 239.99727 * 3 2 1 5 5 H 1.48503 * 109.47363 * 359.97438 * 3 2 1 6 6 H 1.48503 * 109.47161 * 119.99797 * 3 2 1 7 7 C 1.38950 * 119.99921 * 179.97438 * 2 1 3 8 8 H 1.08003 * 120.00029 * 179.97438 * 7 2 1 9 9 N 1.37094 * 119.99988 * 0.02562 * 7 2 1 10 10 C 1.34785 * 120.00244 * 179.97438 * 9 7 2 11 11 O 1.21296 * 119.99403 * 359.97438 * 10 9 7 12 12 C 1.50694 * 120.00245 * 180.02562 * 10 9 7 13 13 N 1.46897 * 109.46859 * 179.97438 * 12 10 9 14 14 C 1.46907 * 110.99907 * 177.89958 * 13 12 10 15 15 C 1.53001 * 115.55084 * 294.31196 * 14 13 12 16 16 N 1.46498 * 109.47036 * 272.74373 * 15 14 13 17 17 C 1.34774 * 119.99805 * 174.95658 * 16 15 14 18 18 O 1.21582 * 120.00130 * 359.97438 * 17 16 15 19 19 C 1.47686 * 120.00092 * 180.02562 * 17 16 15 20 20 C 1.39486 * 122.10590 * 179.97438 * 19 17 16 21 21 C 1.35004 * 111.68691 * 180.02562 * 20 19 17 22 22 S 1.71761 * 105.44852 * 0.02562 * 21 20 19 23 23 N 1.30610 * 122.10149 * 359.71582 * 19 17 16 24 24 C 1.53005 * 117.49683 * 79.98099 * 14 13 12 25 25 C 1.52997 * 117.49845 * 148.63913 * 14 13 12 26 26 H 0.97000 * 120.00364 * 0.02562 * 1 2 3 27 27 H 0.97007 * 120.00371 * 359.97438 * 9 7 2 28 28 H 1.08996 * 109.47678 * 59.99750 * 12 10 9 29 29 H 1.09002 * 109.46893 * 299.99396 * 12 10 9 30 30 H 1.00897 * 111.00329 * 301.85071 * 13 12 10 31 31 H 1.09004 * 109.46788 * 152.74362 * 15 14 13 32 32 H 1.09003 * 109.46828 * 32.74507 * 15 14 13 33 33 H 0.96991 * 119.99988 * 354.95512 * 16 15 14 34 34 H 1.07995 * 124.15875 * 359.97438 * 20 19 17 35 35 H 1.07998 * 127.27362 * 180.02562 * 21 20 19 36 36 H 1.08999 * 117.49960 * 215.00209 * 24 14 13 37 37 H 1.09002 * 117.49535 * 0.02562 * 24 14 13 38 38 H 1.09006 * 117.49894 * 359.97438 * 25 14 13 39 39 H 1.08999 * 117.50193 * 144.97694 * 25 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 1.3141 0.0000 0.0000 3 14 2.2480 1.6177 0.0000 4 1 3.1018 1.6963 -1.2125 5 1 1.2831 2.7465 -0.0006 6 1 3.1018 1.6964 1.2125 7 6 2.0088 -1.2034 0.0005 8 1 3.0889 -1.2034 0.0001 9 7 1.3233 -2.3906 0.0005 10 6 1.9972 -3.5579 0.0005 11 8 3.2102 -3.5579 0.0001 12 6 1.2437 -4.8630 0.0000 13 7 2.1983 -5.9795 -0.0005 14 6 1.4987 -7.2703 0.0491 15 6 0.7200 -7.5497 1.3362 16 7 1.6111 -8.1666 2.3219 17 6 1.1685 -8.4095 3.5715 18 8 0.0298 -8.1163 3.8808 19 6 2.0669 -9.0308 4.5654 20 6 1.6550 -9.3011 5.8703 21 6 2.6413 -9.8678 6.5975 22 16 3.9828 -9.9902 5.5320 23 7 3.2957 -9.3662 4.2763 24 6 0.9175 -7.8097 -1.2594 25 6 2.1611 -8.4601 -0.6482 26 1 -0.4851 0.8400 -0.0004 27 1 0.3533 -2.3907 0.0005 28 1 0.6173 -4.9206 -0.8902 29 1 0.6168 -4.9209 0.8898 30 1 2.8111 -5.9310 -0.8006 31 1 -0.1072 -8.2261 1.1207 32 1 0.3295 -6.6135 1.7350 33 1 2.5196 -8.4001 2.0752 34 1 0.6687 -9.0831 6.2523 35 1 2.5962 -10.1785 7.6309 36 1 -0.0195 -8.3636 -1.2034 37 1 1.0547 -7.2069 -2.1572 38 1 3.1158 -8.2851 -1.1443 39 1 2.0425 -9.4420 -0.1900 RHF calculation, no. of doubly occupied orbitals= 57 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 ZINC001670802618.mol2 39 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 05:42:13 Heat of formation + Delta-G solvation = -22.862082 kcal Electronic energy + Delta-G solvation = -24076.960059 eV Core-core repulsion = 20339.234957 eV Total energy + Delta-G solvation = -3737.725102 eV No. of doubly occupied orbitals = 57 Molecular weight (most abundant/longest-lived isotopes) = 324.104 amu Computer time = 0.73 seconds Orbital eigenvalues (eV) -41.53278 -40.45824 -39.65143 -38.91184 -36.05152 -35.37535 -33.95528 -33.22036 -32.52186 -29.16971 -28.26868 -26.67067 -25.89801 -23.53171 -22.60520 -21.30939 -21.11926 -20.64992 -19.93327 -19.27082 -18.78870 -17.93265 -17.15087 -17.03470 -16.64434 -16.49770 -16.33365 -15.84073 -15.68059 -15.31014 -15.12586 -14.67266 -14.46820 -14.22856 -14.17309 -13.80394 -13.56899 -13.48215 -12.99123 -12.87594 -12.45844 -12.45092 -12.32970 -12.21580 -12.13938 -11.89253 -11.52434 -11.29715 -11.07476 -10.85566 -10.35979 -10.24888 -10.04602 -9.73774 -9.29142 -8.48572 -5.97982 -0.43151 0.54212 0.73156 0.80474 1.38186 1.39939 1.51339 1.97721 2.01308 2.14903 2.26270 2.61898 2.99392 3.18239 3.39611 3.56127 3.65536 3.75759 3.86591 3.99193 4.24427 4.41144 4.41796 4.48122 4.52612 4.55517 4.63076 4.72987 4.75760 4.86231 4.96447 5.17512 5.21722 5.35662 5.38204 5.82478 6.03763 6.30821 6.42223 6.56741 7.02280 7.09431 7.52438 8.07369 8.68712 Molecular weight = 324.10amu Principal moments of inertia in cm(-1) A = 0.013573 B = 0.002615 C = 0.002397 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 2062.361401 B =10705.510788 C =11677.432664 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.920 5.920 2 C -0.013 4.013 3 Si 0.994 3.006 4 H -0.270 1.270 5 H -0.269 1.269 6 H -0.272 1.272 7 C -0.336 4.336 8 H 0.079 0.921 9 N -0.572 5.572 10 C 0.438 3.562 11 O -0.622 6.622 12 C 0.067 3.933 13 N -0.640 5.640 14 C 0.019 3.981 15 C 0.167 3.833 16 N -0.693 5.693 17 C 0.582 3.418 18 O -0.569 6.569 19 C 0.024 3.976 20 C -0.157 4.157 21 C -0.266 4.266 22 S 0.536 5.464 23 N -0.552 5.552 24 C -0.189 4.189 25 C -0.149 4.149 26 H 0.278 0.722 27 H 0.396 0.604 28 H 0.071 0.929 29 H 0.094 0.906 30 H 0.351 0.649 31 H 0.090 0.910 32 H 0.059 0.941 33 H 0.415 0.585 34 H 0.170 0.830 35 H 0.224 0.776 36 H 0.116 0.884 37 H 0.098 0.902 38 H 0.104 0.896 39 H 0.116 0.884 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 2.809 -24.899 8.398 26.427 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 -0.561 5.561 2 C -0.213 4.213 3 Si 0.817 3.183 4 H -0.195 1.195 5 H -0.194 1.194 6 H -0.198 1.198 7 C -0.466 4.466 8 H 0.097 0.903 9 N -0.209 5.209 10 C 0.226 3.774 11 O -0.509 6.509 12 C -0.065 4.065 13 N -0.271 5.271 14 C -0.074 4.074 15 C 0.043 3.957 16 N -0.343 5.343 17 C 0.365 3.635 18 O -0.448 6.448 19 C -0.148 4.148 20 C -0.189 4.189 21 C -0.415 4.415 22 S 0.691 5.309 23 N -0.389 5.389 24 C -0.230 4.230 25 C -0.186 4.186 26 H 0.088 0.912 27 H 0.230 0.770 28 H 0.089 0.911 29 H 0.112 0.888 30 H 0.172 0.828 31 H 0.108 0.892 32 H 0.077 0.923 33 H 0.252 0.748 34 H 0.188 0.812 35 H 0.240 0.760 36 H 0.134 0.866 37 H 0.116 0.884 38 H 0.123 0.877 39 H 0.135 0.865 Dipole moment (debyes) X Y Z Total from point charges 4.692 -24.865 8.450 26.677 hybrid contribution -2.027 1.562 -0.573 2.622 sum 2.665 -23.303 7.877 24.742 Atomic orbital electron populations 1.69670 1.06896 1.29455 1.50091 1.26075 0.96561 1.02505 0.96144 0.84975 0.77769 0.76505 0.79004 1.19476 1.19382 1.19775 1.19642 0.92721 0.83994 1.50196 0.90261 1.41928 1.09325 1.04741 1.64924 1.20791 0.88231 0.86062 0.82366 1.90487 1.15713 1.87951 1.56704 1.21476 0.94103 0.88062 1.02893 1.59760 1.18869 0.99022 1.49465 1.21777 1.02475 0.90216 0.92929 1.20785 0.91318 0.97988 0.85616 1.45746 1.17557 1.60740 1.10266 1.17634 0.85810 0.78097 0.81958 1.90778 1.19936 1.54401 1.79713 1.21034 0.91026 1.06704 0.96073 1.21487 1.03675 1.02268 0.91501 1.27638 0.99462 1.05547 1.08820 1.80265 1.14768 1.44902 0.90997 1.71997 1.12700 1.20978 1.33186 1.23712 0.98957 1.04141 0.96141 1.23244 0.97702 0.95948 1.01729 0.91220 0.77031 0.91083 0.88793 0.82843 0.89208 0.92303 0.74762 0.81240 0.75963 0.86612 0.88353 0.87736 0.86542 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 -50.79 13.05 21.66 0.28 -50.51 16 2 C -0.01 -0.71 5.50 84.93 0.47 -0.24 16 3 Si 0.99 43.70 29.55 68.60 2.03 45.73 16 4 H -0.27 -11.62 7.11 99.48 0.71 -10.91 16 5 H -0.27 -11.12 7.11 99.48 0.71 -10.41 16 6 H -0.27 -11.88 7.11 99.48 0.71 -11.18 16 7 C -0.34 -19.55 9.68 84.04 0.81 -18.74 16 8 H 0.08 4.89 7.16 -2.91 -0.02 4.87 16 9 N -0.57 -30.33 5.29 -306.98 -1.62 -31.95 16 10 C 0.44 21.54 7.82 87.65 0.69 22.23 16 11 O -0.62 -35.25 15.82 -3.08 -0.05 -35.30 16 12 C 0.07 2.40 6.03 85.56 0.52 2.92 16 13 N -0.64 -20.52 6.26 -474.14 -2.97 -23.49 16 14 C 0.02 0.44 1.90 3.53 0.01 0.45 16 15 C 0.17 4.27 5.75 86.38 0.50 4.76 16 16 N -0.69 -18.18 5.46 -466.11 -2.55 -20.72 16 17 C 0.58 17.04 7.81 86.74 0.68 17.71 16 18 O -0.57 -19.85 16.65 -3.97 -0.07 -19.91 16 19 C 0.02 0.59 6.66 42.12 0.28 0.87 16 20 C -0.16 -3.00 9.98 21.83 0.22 -2.78 16 21 C -0.27 -3.00 11.41 67.08 0.77 -2.24 16 22 S 0.54 6.57 23.20 -56.49 -1.31 5.26 16 23 N -0.55 -11.76 10.71 -75.30 -0.81 -12.57 16 24 C -0.19 -3.46 10.07 30.62 0.31 -3.16 16 25 C -0.15 -2.65 9.56 30.62 0.29 -2.36 16 26 H 0.28 14.38 8.31 -92.71 -0.77 13.61 16 27 H 0.40 20.04 7.90 -92.70 -0.73 19.31 16 28 H 0.07 2.23 8.14 -2.39 -0.02 2.21 16 29 H 0.09 3.30 6.55 -2.39 -0.02 3.28 16 30 H 0.35 11.44 8.38 -89.70 -0.75 10.69 16 31 H 0.09 2.01 7.89 -2.39 -0.02 1.99 16 32 H 0.06 1.80 6.46 -2.39 -0.02 1.79 16 33 H 0.42 10.22 7.63 -92.71 -0.71 9.51 16 34 H 0.17 3.18 7.99 -2.91 -0.02 3.16 16 35 H 0.22 0.73 8.06 -2.91 -0.02 0.71 16 36 H 0.12 1.75 8.04 -2.39 -0.02 1.73 16 37 H 0.10 1.85 8.14 -2.39 -0.02 1.83 16 38 H 0.10 1.84 8.14 -2.38 -0.02 1.82 16 39 H 0.12 1.74 8.14 -2.39 -0.02 1.72 16 Total: -1.00 -75.74 356.42 -2.59 -78.32 By element: Atomic # 1 Polarization: 46.79 SS G_CDS: -1.06 Total: 45.74 kcal Atomic # 6 Polarization: 13.89 SS G_CDS: 5.53 Total: 19.42 kcal Atomic # 7 Polarization: -131.59 SS G_CDS: -7.66 Total: -139.25 kcal Atomic # 8 Polarization: -55.10 SS G_CDS: -0.11 Total: -55.21 kcal Atomic # 14 Polarization: 43.70 SS G_CDS: 2.03 Total: 45.73 kcal Atomic # 16 Polarization: 6.57 SS G_CDS: -1.31 Total: 5.26 kcal Total: -75.74 -2.59 -78.32 kcal The number of atoms in the molecule is 39 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. ZINC001670802618.mol2 39 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 55.463 kcal (2) G-P(sol) polarization free energy of solvation -75.739 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -20.276 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -2.586 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -78.325 kcal (6) G-S(sol) free energy of system = (1) + (5) -22.862 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.73 seconds