Wall clock time and date at job start Tue Mar 31 2020 04:14:39 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 1.31516 * 1 3 3 Si 1.86798 * 120.00321 * 2 1 4 4 H 1.48506 * 109.46985 * 359.97438 * 3 2 1 5 5 H 1.48494 * 109.47276 * 119.99911 * 3 2 1 6 6 H 1.48498 * 109.47150 * 240.00121 * 3 2 1 7 7 C 1.37885 * 119.99913 * 180.02562 * 2 1 3 8 8 H 1.08000 * 119.99535 * 179.97438 * 7 2 1 9 9 S 1.76201 * 119.99870 * 359.97438 * 7 2 1 10 10 O 1.42104 * 106.40184 * 293.54149 * 9 7 2 11 11 O 1.42096 * 106.40178 * 66.46061 * 9 7 2 12 12 N 1.65602 * 107.21768 * 180.02562 * 9 7 2 13 13 C 1.46502 * 119.99790 * 64.99512 * 12 9 7 14 14 H 1.08996 * 109.52479 * 335.00685 * 13 12 9 15 15 C 1.53173 * 109.52294 * 214.87290 * 13 12 9 16 16 H 1.08997 * 109.54812 * 302.98727 * 15 13 12 17 17 O 1.42903 * 109.54282 * 63.25219 * 15 13 12 18 18 C 1.53192 * 109.03333 * 183.17779 * 15 13 12 19 19 H 1.08997 * 109.47120 * 296.98750 * 18 15 13 20 20 O 1.42896 * 109.57759 * 176.85513 * 18 15 13 21 21 C 1.53090 * 109.20905 * 56.88935 * 18 15 13 22 22 H 1.09002 * 109.48205 * 62.40794 * 21 18 15 23 23 C 1.53009 * 109.47956 * 182.43918 * 21 18 15 24 24 O 1.42898 * 109.46987 * 184.94445 * 23 21 18 25 25 O 1.42901 * 109.42001 * 302.42579 * 21 18 15 26 26 C 1.42902 * 114.09620 * 61.15375 * 25 21 18 27 27 H 1.09007 * 109.47823 * 178.86113 * 26 25 21 28 28 O 1.42899 * 109.48859 * 58.84077 * 26 25 21 29 29 H 0.97001 * 119.99646 * 359.97438 * 1 2 3 30 30 H 0.96997 * 120.00074 * 245.00699 * 12 9 7 31 31 H 0.96692 * 114.00057 * 179.97438 * 17 15 13 32 32 H 0.96699 * 114.00140 * 180.22312 * 20 18 15 33 33 H 1.08997 * 109.46718 * 304.94660 * 23 21 18 34 34 H 1.08998 * 109.46570 * 64.94275 * 23 21 18 35 35 H 0.96696 * 113.99756 * 180.02562 * 24 23 21 36 36 H 0.96698 * 114.00281 * 60.04567 * 28 26 25 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 1.3152 0.0000 0.0000 3 14 2.2492 1.6177 0.0000 4 1 1.2842 2.7465 -0.0006 5 1 3.1030 1.6963 1.2125 6 1 3.1030 1.6963 -1.2125 7 6 2.0046 -1.1941 -0.0005 8 1 3.0846 -1.1941 -0.0010 9 16 1.1235 -2.7200 -0.0005 10 8 0.4518 -2.7956 1.2495 11 8 0.4509 -2.7950 -1.2500 12 7 2.2483 -3.9355 -0.0005 13 6 3.1394 -4.1088 1.1493 14 1 3.2464 -3.1593 1.6736 15 6 4.5127 -4.5842 0.6655 16 1 4.3998 -5.5076 0.0976 17 8 5.1014 -3.5801 -0.1636 18 6 5.4102 -4.8380 1.8808 19 1 5.5642 -3.9035 2.4202 20 8 6.6708 -5.3519 1.4462 21 6 4.7335 -5.8555 2.8030 22 1 4.6165 -6.8024 2.2759 23 6 5.5962 -6.0679 4.0487 24 8 5.0241 -7.1006 4.8539 25 8 3.4489 -5.3642 3.1911 26 6 2.5504 -5.1545 2.0998 27 1 1.5922 -4.8009 2.4807 28 8 2.3592 -6.3838 1.3967 29 1 -0.4850 0.8401 0.0004 30 1 2.3172 -4.5325 -0.7619 31 1 5.9748 -3.8148 -0.5056 32 1 7.2886 -5.5388 2.1661 33 1 6.6032 -6.3573 3.7481 34 1 5.6402 -5.1421 4.6223 35 1 5.5197 -7.2889 5.6625 36 1 1.9880 -7.0933 1.9387 RHF calculation, no. of doubly occupied orbitals= 56 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 ZINC001192995150.mol2 36 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 04:14:39 Heat of formation + Delta-G solvation = -375.323671 kcal Electronic energy + Delta-G solvation = -26301.397974 eV Core-core repulsion = 22103.461704 eV Total energy + Delta-G solvation = -4197.936271 eV No. of doubly occupied orbitals = 56 Molecular weight (most abundant/longest-lived isotopes) = 313.085 amu Computer time = 0.77 seconds Orbital eigenvalues (eV) -41.59048 -38.50593 -38.18409 -37.42159 -36.94363 -36.20875 -36.16474 -35.45848 -35.10693 -31.74475 -30.47991 -28.25178 -27.14712 -24.60643 -23.11063 -21.82076 -20.97582 -19.47922 -19.25002 -19.15235 -18.61085 -18.17057 -18.08336 -17.33372 -17.09283 -16.89420 -16.38446 -16.03812 -15.85537 -15.53848 -15.25393 -15.07994 -14.84873 -14.35228 -14.04148 -13.98704 -13.61858 -13.32070 -12.99611 -12.97422 -12.74466 -12.54895 -12.52864 -12.47612 -12.31521 -12.04798 -11.91916 -11.59219 -11.22944 -11.08516 -10.98443 -10.94383 -10.77242 -10.28814 -8.75165 -7.47260 0.28387 1.33878 1.36707 1.49773 2.18837 2.33116 2.58341 2.76963 2.83971 2.91964 3.02248 3.22147 3.51876 3.68173 3.83425 3.88741 3.96392 4.13604 4.17975 4.32328 4.35492 4.42139 4.48829 4.60813 4.69944 4.80490 5.05500 5.30138 5.67618 5.92874 6.23719 6.61331 6.70962 6.79112 6.81534 6.91235 8.21513 Molecular weight = 313.08amu Principal moments of inertia in cm(-1) A = 0.018678 B = 0.005024 C = 0.004627 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1498.699817 B = 5571.465788 C = 6049.457005 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.893 5.893 2 C 0.071 3.929 3 Si 0.990 3.010 4 H -0.262 1.262 5 H -0.249 1.249 6 H -0.254 1.254 7 C -1.037 5.037 8 H 0.119 0.881 9 S 2.722 3.278 10 O -1.036 7.036 11 O -1.043 7.043 12 N -1.097 6.097 13 C 0.149 3.851 14 H 0.100 0.900 15 C 0.117 3.883 16 H 0.078 0.922 17 O -0.562 6.562 18 C 0.063 3.937 19 H 0.081 0.919 20 O -0.556 6.556 21 C 0.052 3.948 22 H 0.078 0.922 23 C 0.083 3.917 24 O -0.586 6.586 25 O -0.386 6.386 26 C 0.250 3.750 27 H 0.104 0.896 28 O -0.571 6.571 29 H 0.299 0.701 30 H 0.416 0.584 31 H 0.396 0.604 32 H 0.401 0.599 33 H 0.100 0.900 34 H 0.063 0.937 35 H 0.401 0.599 36 H 0.400 0.600 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 17.147 -11.660 8.584 22.443 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 -0.525 5.525 2 C -0.142 4.142 3 Si 0.808 3.192 4 H -0.186 1.186 5 H -0.173 1.173 6 H -0.177 1.177 7 C -1.171 5.171 8 H 0.137 0.863 9 S 2.822 3.178 10 O -1.025 7.025 11 O -1.033 7.033 12 N -0.855 5.855 13 C 0.039 3.961 14 H 0.118 0.882 15 C 0.056 3.944 16 H 0.096 0.904 17 O -0.370 6.370 18 C 0.002 3.998 19 H 0.099 0.901 20 O -0.366 6.366 21 C -0.006 4.006 22 H 0.096 0.904 23 C 0.005 3.995 24 O -0.395 6.395 25 O -0.306 6.306 26 C 0.151 3.849 27 H 0.121 0.879 28 O -0.382 6.382 29 H 0.109 0.891 30 H 0.250 0.750 31 H 0.246 0.754 32 H 0.253 0.747 33 H 0.117 0.883 34 H 0.081 0.919 35 H 0.252 0.748 36 H 0.251 0.749 Dipole moment (debyes) X Y Z Total from point charges 14.929 -10.887 7.545 19.959 hybrid contribution 1.302 0.137 0.597 1.438 sum 16.231 -10.751 8.141 21.102 Atomic orbital electron populations 1.69983 1.08690 1.32404 1.41411 1.26006 0.95375 1.05295 0.87511 0.85166 0.78777 0.74542 0.80694 1.18594 1.17269 1.17745 1.30851 1.07172 1.12375 1.66707 0.86298 0.99908 0.72395 0.73792 0.71656 1.93311 1.74303 1.88147 1.46763 1.93312 1.74778 1.88307 1.46953 1.55173 1.53903 1.49614 1.26764 1.21226 0.88934 0.98986 0.86911 0.88249 1.21872 0.89907 0.91738 0.90931 0.90432 1.86591 1.38428 1.43939 1.68024 1.22915 0.85398 0.96799 0.94670 0.90135 1.86441 1.24393 1.86822 1.38944 1.22986 0.83677 0.97350 0.96585 0.90367 1.22244 0.95167 0.91676 0.90388 1.86489 1.56619 1.57002 1.39432 1.88222 1.23862 1.85331 1.33177 1.23657 0.92643 0.85215 0.83349 0.87856 1.86512 1.86158 1.23103 1.42378 0.89060 0.74983 0.75371 0.74703 0.88254 0.91852 0.74832 0.74871 Number of geometries 1 Number of calculations of the screened coulomb radii 1 The total number of SCF iterations 20. 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 -54.09 13.19 21.45 0.28 -53.81 16 2 C 0.07 4.03 5.46 84.66 0.46 4.50 16 3 Si 0.99 42.26 29.54 68.60 2.03 44.29 16 4 H -0.26 -10.41 7.11 99.48 0.71 -9.70 16 5 H -0.25 -9.93 7.11 99.48 0.71 -9.22 16 6 H -0.25 -10.32 7.11 99.48 0.71 -9.61 16 7 C -1.04 -58.84 9.58 67.74 0.65 -58.19 16 8 H 0.12 6.25 7.81 -2.91 -0.02 6.23 16 9 S 2.72 150.53 4.93 -56.49 -0.28 150.25 16 10 O -1.04 -61.65 17.34 -128.00 -2.22 -63.87 16 11 O -1.04 -64.61 18.02 -128.00 -2.31 -66.91 16 12 N -1.10 -46.29 5.22 -169.02 -0.88 -47.17 16 13 C 0.15 5.42 2.31 45.08 0.10 5.52 16 14 H 0.10 3.93 7.85 -2.39 -0.02 3.91 16 15 C 0.12 3.38 2.66 30.72 0.08 3.46 16 16 H 0.08 2.22 7.82 -2.39 -0.02 2.20 16 17 O -0.56 -17.01 13.25 -143.20 -1.90 -18.91 16 18 C 0.06 1.36 2.82 30.69 0.09 1.45 16 19 H 0.08 1.74 8.14 -2.39 -0.02 1.72 16 20 O -0.56 -8.72 12.93 -143.20 -1.85 -10.57 16 21 C 0.05 1.13 2.49 30.63 0.08 1.21 16 22 H 0.08 1.79 7.56 -2.39 -0.02 1.77 16 23 C 0.08 1.17 6.57 71.99 0.47 1.64 16 24 O -0.59 -9.68 13.62 -144.36 -1.97 -11.64 16 25 O -0.39 -11.20 10.32 -123.01 -1.27 -12.47 16 26 C 0.25 8.25 4.20 72.01 0.30 8.55 16 27 H 0.10 3.88 7.70 -2.38 -0.02 3.86 16 28 O -0.57 -16.19 11.93 -126.21 -1.51 -17.70 16 29 H 0.30 16.27 8.31 -92.71 -0.77 15.50 16 30 H 0.42 15.98 8.84 -96.75 -0.86 15.12 16 31 H 0.40 8.55 8.73 -74.06 -0.65 7.90 16 32 H 0.40 2.37 7.36 -74.06 -0.55 1.83 16 33 H 0.10 0.58 6.61 -2.39 -0.02 0.56 16 34 H 0.06 0.84 8.14 -2.39 -0.02 0.82 16 35 H 0.40 2.41 9.12 -74.06 -0.68 1.74 16 36 H 0.40 8.13 9.12 -74.06 -0.68 7.45 16 Total: -1.00 -86.47 320.83 -11.83 -98.30 By element: Atomic # 1 Polarization: 44.28 SS G_CDS: -2.20 Total: 42.08 kcal Atomic # 6 Polarization: -34.10 SS G_CDS: 2.24 Total: -31.87 kcal Atomic # 7 Polarization: -100.38 SS G_CDS: -0.60 Total: -100.98 kcal Atomic # 8 Polarization: -189.06 SS G_CDS: -13.02 Total: -202.07 kcal Atomic # 14 Polarization: 42.26 SS G_CDS: 2.03 Total: 44.29 kcal Atomic # 16 Polarization: 150.53 SS G_CDS: -0.28 Total: 150.25 kcal Total: -86.47 -11.83 -98.30 kcal The number of atoms in the molecule is 36 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. ZINC001192995150.mol2 36 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 -277.022 kcal (2) G-P(sol) polarization free energy of solvation -86.468 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -363.491 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -11.833 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -98.301 kcal (6) G-S(sol) free energy of system = (1) + (5) -375.324 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.77 seconds