Wall clock time and date at job start Wed Apr 1 2020 04:57:21 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 1.30823 * 1 3 3 Si 1.86796 * 120.00333 * 2 1 4 4 H 1.48500 * 109.47580 * 240.00230 * 3 2 1 5 5 H 1.48504 * 109.46743 * 0.02562 * 3 2 1 6 6 H 1.48496 * 109.47269 * 119.99683 * 3 2 1 7 7 C 1.39950 * 119.99970 * 180.02562 * 2 1 3 8 8 H 1.07996 * 120.00140 * 162.22513 * 7 2 1 9 9 C 1.41397 * 119.99969 * 342.22606 * 7 2 1 10 10 C 1.40742 * 120.24118 * 335.27646 * 9 7 2 11 11 C 1.37599 * 119.74213 * 180.02562 * 10 9 7 12 12 C 1.38654 * 120.24782 * 359.72627 * 11 10 9 13 13 C 1.38615 * 120.50283 * 0.54883 * 12 11 10 14 14 S 1.76195 * 119.87887 * 179.72410 * 13 12 11 15 15 O 1.42099 * 106.40634 * 156.18828 * 14 13 12 16 16 O 1.42103 * 106.40250 * 23.26547 * 14 13 12 17 17 O 1.52204 * 107.21936 * 269.73275 * 14 13 12 18 18 C 1.35637 * 114.00168 * 74.99779 * 17 14 13 19 19 C 1.38695 * 120.15654 * 90.00383 * 18 17 14 20 20 C 1.38054 * 120.09427 * 179.97438 * 19 18 17 21 21 C 1.38573 * 120.39771 * 0.04182 * 20 19 18 22 22 C 1.37765 * 120.30667 * 359.97438 * 21 20 19 23 23 C 1.39758 * 119.90531 * 359.72557 * 22 21 20 24 24 C 1.47402 * 120.20080 * 180.29848 * 23 22 21 25 25 O 1.21508 * 120.00201 * 180.25560 * 24 23 22 26 26 O 1.34743 * 119.99792 * 0.24805 * 24 23 22 27 27 C 1.37641 * 120.24787 * 359.45007 * 13 12 11 28 28 H 0.96999 * 120.00074 * 0.02562 * 1 2 3 29 29 H 1.07996 * 120.12770 * 359.97438 * 10 9 7 30 30 H 1.07993 * 119.87157 * 180.02562 * 11 10 9 31 31 H 1.08005 * 119.75367 * 180.29517 * 12 11 10 32 32 H 1.08001 * 119.95680 * 359.97438 * 19 18 17 33 33 H 1.07999 * 119.80484 * 180.02562 * 20 19 18 34 34 H 1.08000 * 119.84277 * 179.97438 * 21 20 19 35 35 H 1.08001 * 120.04477 * 180.02562 * 22 21 20 36 36 H 0.96701 * 117.00167 * 180.02562 * 26 24 23 37 37 H 1.07998 * 120.13094 * 180.24739 * 27 13 12 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 1.3082 0.0000 0.0000 3 14 2.2423 1.6176 0.0000 4 1 3.0961 1.6964 -1.2125 5 1 1.2773 2.7464 0.0006 6 1 3.0960 1.6963 1.2125 7 6 2.0080 -1.2120 -0.0005 8 1 3.0493 -1.2342 -0.2861 9 6 1.3516 -2.4075 0.3727 10 6 0.2233 -2.3640 1.2130 11 6 -0.4072 -3.5337 1.5702 12 6 0.0616 -4.7514 1.1010 13 6 1.1753 -4.8065 0.2776 14 16 1.7612 -6.3633 -0.3033 15 8 2.4871 -6.0994 -1.4960 16 8 0.6557 -7.2544 -0.2473 17 8 2.7742 -6.8711 0.7129 18 6 2.2189 -7.3448 1.8562 19 6 1.8706 -8.6833 1.9591 20 6 1.3059 -9.1642 3.1235 21 6 1.0819 -8.3162 4.1963 22 6 1.4212 -6.9837 4.1119 23 6 1.9994 -6.4847 2.9415 24 6 2.3710 -5.0614 2.8464 25 8 2.8692 -4.6304 1.8254 26 8 2.1582 -4.2384 3.8918 27 6 1.8218 -3.6492 -0.0927 28 1 -0.4850 0.8400 -0.0004 29 1 -0.1456 -1.4164 1.5766 30 1 -1.2733 -3.5028 2.2145 31 1 -0.4423 -5.6642 1.3826 32 1 2.0413 -9.3505 1.1271 33 1 1.0369 -10.2074 3.1987 34 1 0.6392 -8.7018 5.1028 35 1 1.2451 -6.3266 4.9508 36 1 2.4179 -3.3133 3.7823 37 1 2.6869 -3.6940 -0.7376 RHF calculation, no. of doubly occupied orbitals= 60 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 ZINC001601077708.mol2 37 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED SCF FIELD WAS ACHIEVED Wall clock time and date at job start Wed Apr 1 2020 04:57:21 Heat of formation + Delta-G solvation = -149.445485 kcal Electronic energy + Delta-G solvation = -29581.402295 eV Core-core repulsion = 25381.317247 eV Total energy + Delta-G solvation = -4200.085048 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 348.059 amu Computer time = 0.94 seconds Orbital eigenvalues (eV) -42.52507 -40.72085 -39.36836 -38.98884 -38.46326 -37.22484 -36.89596 -35.65105 -32.63742 -31.89764 -31.60615 -31.45094 -27.35402 -25.92328 -24.47766 -23.89487 -22.87629 -22.70084 -21.39535 -20.14293 -19.19215 -19.07258 -18.84238 -18.13172 -17.97681 -17.26763 -16.81199 -16.62572 -16.40069 -16.34339 -15.83279 -15.37511 -15.19564 -15.09641 -14.43995 -14.32588 -14.26169 -14.13727 -13.68447 -13.45556 -13.41846 -13.30337 -13.19592 -13.13464 -12.98477 -12.87257 -12.61217 -12.36999 -12.29216 -12.06821 -11.56979 -11.54627 -11.29842 -11.11270 -10.25882 -10.07640 -9.61805 -9.47536 -8.72466 -6.43138 -1.01202 -0.32944 0.17362 0.38665 0.87987 1.35483 1.39774 1.45406 1.47977 1.68032 2.04620 2.17363 2.43626 2.57188 2.63113 3.09370 3.49908 3.55624 3.80941 3.94954 4.06560 4.20521 4.29032 4.38958 4.41751 4.78519 4.84549 4.91519 4.93503 5.02904 5.08917 5.19079 5.22107 5.29814 5.42222 5.59299 5.67520 5.73064 5.89339 5.94765 6.13505 6.54029 6.80510 6.87655 6.99441 8.25146 Molecular weight = 348.06amu Principal moments of inertia in cm(-1) A = 0.017220 B = 0.004456 C = 0.004011 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1625.614877 B = 6281.816197 C = 6979.060716 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.822 5.822 2 C 0.041 3.959 3 Si 0.982 3.018 4 H -0.267 1.267 5 H -0.263 1.263 6 H -0.257 1.257 7 C -0.498 4.498 8 H 0.069 0.931 9 C 0.074 3.926 10 C -0.136 4.136 11 C -0.110 4.110 12 C -0.157 4.157 13 C -0.629 4.629 14 S 2.692 3.308 15 O -0.980 6.980 16 O -0.972 6.972 17 O -0.658 6.658 18 C 0.081 3.919 19 C -0.119 4.119 20 C -0.059 4.059 21 C -0.097 4.097 22 C -0.049 4.049 23 C -0.137 4.137 24 C 0.497 3.503 25 O -0.506 6.506 26 O -0.501 6.501 27 C -0.093 4.093 28 H 0.292 0.708 29 H 0.114 0.886 30 H 0.127 0.873 31 H 0.124 0.876 32 H 0.156 0.844 33 H 0.190 0.810 34 H 0.190 0.810 35 H 0.170 0.830 36 H 0.424 0.576 37 H 0.087 0.913 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges -0.294 -13.899 14.012 19.738 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 -0.447 5.447 2 C -0.174 4.174 3 Si 0.802 3.198 4 H -0.191 1.191 5 H -0.187 1.187 6 H -0.181 1.181 7 C -0.527 4.527 8 H 0.088 0.912 9 C 0.071 3.929 10 C -0.156 4.156 11 C -0.130 4.130 12 C -0.178 4.178 13 C -0.719 4.719 14 S 2.791 3.209 15 O -0.978 6.978 16 O -0.970 6.970 17 O -0.617 6.617 18 C 0.039 3.961 19 C -0.140 4.140 20 C -0.077 4.077 21 C -0.115 4.115 22 C -0.068 4.068 23 C -0.140 4.140 24 C 0.341 3.659 25 O -0.395 6.395 26 O -0.314 6.314 27 C -0.114 4.114 28 H 0.103 0.897 29 H 0.132 0.868 30 H 0.144 0.856 31 H 0.142 0.858 32 H 0.174 0.826 33 H 0.207 0.793 34 H 0.208 0.792 35 H 0.187 0.813 36 H 0.284 0.716 37 H 0.105 0.895 Dipole moment (debyes) X Y Z Total from point charges -0.164 -14.579 13.259 19.707 hybrid contribution 0.665 2.568 -0.796 2.769 sum 0.500 -12.011 12.463 17.316 Atomic orbital electron populations 1.69808 1.08798 1.30999 1.35116 1.26674 0.95494 1.04221 0.91052 0.85257 0.78836 0.75660 0.80006 1.19121 1.18723 1.18129 1.19771 0.98222 0.92484 1.42272 0.91233 1.17865 0.92705 0.92058 0.90293 1.21497 0.98082 0.97433 0.98563 1.20988 0.99466 0.92189 1.00314 1.20277 0.97052 0.98279 1.02219 1.29905 1.08722 1.18359 1.14880 1.01600 0.72016 0.74238 0.73018 1.93505 1.72854 1.86380 1.45060 1.93518 1.53895 1.63356 1.86241 1.85680 1.57136 1.81038 1.37801 1.18634 1.00526 0.94489 0.82451 1.21673 0.98659 0.91599 1.02052 1.21890 0.92871 1.02979 0.89911 1.21940 0.97207 0.91610 1.00762 1.21800 0.92318 0.97657 0.94984 1.19478 1.07497 0.89829 0.97188 1.20780 0.77188 0.87359 0.80611 1.91120 1.40665 1.77322 1.30365 1.84334 1.79222 1.26305 1.41555 1.20518 0.99036 0.92371 0.99471 0.89706 0.86776 0.85553 0.85846 0.82610 0.79308 0.79249 0.81285 0.71594 0.89489 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 18. 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 -0.82 -41.81 10.97 21.83 0.24 -41.57 16 2 C 0.04 2.05 5.14 85.26 0.44 2.49 16 3 Si 0.98 37.98 29.59 68.60 2.03 40.01 16 4 H -0.27 -10.34 7.11 99.48 0.71 -9.63 16 5 H -0.26 -9.46 7.11 99.48 0.71 -8.75 16 6 H -0.26 -9.61 7.11 99.48 0.71 -8.90 16 7 C -0.50 -27.27 9.05 23.46 0.21 -27.06 16 8 H 0.07 3.80 7.91 -2.91 -0.02 3.78 16 9 C 0.07 4.02 5.56 -21.29 -0.12 3.91 16 10 C -0.14 -6.78 8.70 22.73 0.20 -6.59 16 11 C -0.11 -4.81 10.02 22.22 0.22 -4.59 16 12 C -0.16 -6.82 7.28 22.46 0.16 -6.66 16 13 C -0.63 -29.94 3.08 22.22 0.07 -29.87 16 14 S 2.69 118.04 5.33 -56.49 -0.30 117.73 16 15 O -0.98 -49.29 17.26 -118.78 -2.05 -51.34 16 16 O -0.97 -40.22 15.58 -118.78 -1.85 -42.07 16 17 O -0.66 -25.80 8.73 -55.72 -0.49 -26.29 16 18 C 0.08 2.56 4.81 22.86 0.11 2.67 16 19 C -0.12 -2.69 9.18 22.34 0.21 -2.49 16 20 C -0.06 -0.75 10.03 22.31 0.22 -0.53 16 21 C -0.10 -1.09 10.02 22.24 0.22 -0.87 16 22 C -0.05 -0.92 9.61 22.53 0.22 -0.70 16 23 C -0.14 -4.00 5.16 -20.02 -0.10 -4.10 16 24 C 0.50 17.42 6.15 70.24 0.43 17.86 16 25 O -0.51 -22.12 10.54 26.81 0.28 -21.84 16 26 O -0.50 -14.32 12.68 -56.54 -0.72 -15.04 16 27 C -0.09 -4.98 6.90 22.73 0.16 -4.82 16 28 H 0.29 13.37 8.30 -92.71 -0.77 12.60 16 29 H 0.11 5.81 6.18 -2.91 -0.02 5.80 16 30 H 0.13 4.64 8.06 -2.91 -0.02 4.62 16 31 H 0.12 4.75 7.59 -2.91 -0.02 4.73 16 32 H 0.16 3.05 8.06 -2.91 -0.02 3.02 16 33 H 0.19 0.68 8.06 -2.91 -0.02 0.65 16 34 H 0.19 0.36 8.06 -2.91 -0.02 0.34 16 35 H 0.17 2.43 7.61 -2.91 -0.02 2.41 16 36 H 0.42 10.81 9.11 -74.06 -0.67 10.14 16 37 H 0.09 4.88 7.60 -2.91 -0.02 4.86 16 Total: -1.00 -76.38 329.24 0.27 -76.11 By element: Atomic # 1 Polarization: 25.17 SS G_CDS: 0.48 Total: 25.65 kcal Atomic # 6 Polarization: -64.00 SS G_CDS: 2.65 Total: -61.35 kcal Atomic # 7 Polarization: -41.81 SS G_CDS: 0.24 Total: -41.57 kcal Atomic # 8 Polarization: -151.76 SS G_CDS: -4.82 Total: -156.58 kcal Atomic # 14 Polarization: 37.98 SS G_CDS: 2.03 Total: 40.01 kcal Atomic # 16 Polarization: 118.04 SS G_CDS: -0.30 Total: 117.73 kcal Total: -76.38 0.27 -76.11 kcal The number of atoms in the molecule is 37 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. ZINC001601077708.mol2 37 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 -73.338 kcal (2) G-P(sol) polarization free energy of solvation -76.380 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -149.718 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy 0.272 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -76.108 kcal (6) G-S(sol) free energy of system = (1) + (5) -149.445 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.94 seconds