Wall clock time and date at job start Tue Mar 31 2020 22:34:43 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 1.31633 * 1 3 3 Si 1.86796 * 119.99854 * 2 1 4 4 H 1.48496 * 109.47358 * 269.99964 * 3 2 1 5 5 H 1.48498 * 109.47273 * 30.00689 * 3 2 1 6 6 H 1.48505 * 109.46671 * 150.00078 * 3 2 1 7 7 C 1.38802 * 119.99688 * 180.02562 * 2 1 3 8 8 H 1.07998 * 120.00332 * 0.02562 * 7 2 1 9 9 S 1.76196 * 119.99637 * 179.97438 * 7 2 1 10 10 C 1.81003 * 99.99843 * 180.02562 * 9 7 2 11 11 C 1.50706 * 109.46851 * 180.02562 * 10 9 7 12 12 O 1.21274 * 120.00042 * 359.72049 * 11 10 9 13 13 N 1.34777 * 119.99766 * 179.97438 * 11 10 9 14 14 C 1.46496 * 120.00266 * 179.97438 * 13 11 10 15 15 H 1.09007 * 110.63969 * 34.30354 * 14 13 11 16 16 C 1.55154 * 110.72324 * 271.16199 * 14 13 11 17 17 C 1.54912 * 101.58394 * 206.13123 * 16 14 13 18 18 N 1.47420 * 104.83066 * 37.00976 * 17 16 14 19 19 C 1.34771 * 125.64997 * 155.83681 * 18 17 16 20 20 O 1.21288 * 120.00158 * 180.02562 * 19 18 17 21 21 C 1.50701 * 119.99919 * 0.02562 * 19 18 17 22 22 C 1.50701 * 109.47208 * 180.02562 * 21 19 18 23 23 N 1.33238 * 125.52701 * 89.99935 * 22 21 19 24 24 C 1.30835 * 109.82983 * 180.02562 * 23 22 21 25 25 N 1.34434 * 108.07504 * 359.97438 * 24 23 22 26 26 H 0.96995 * 126.81933 * 180.02562 * 25 24 23 27 27 N 1.30716 * 125.52576 * 269.69477 * 22 21 19 28 28 C 1.47329 * 108.73493 * 335.71532 * 18 17 16 29 29 H 0.97002 * 120.00245 * 359.97438 * 1 2 3 30 30 H 1.09000 * 109.47363 * 60.00062 * 10 9 7 31 31 H 1.09001 * 109.47208 * 299.99509 * 10 9 7 32 32 H 0.96999 * 120.00043 * 0.02562 * 13 11 10 33 33 H 1.08997 * 111.00426 * 324.20751 * 16 14 13 34 34 H 1.09009 * 111.00378 * 88.05826 * 16 14 13 35 35 H 1.08995 * 110.36820 * 155.84739 * 17 16 14 36 36 H 1.08996 * 110.36564 * 278.06258 * 17 16 14 37 37 H 1.09004 * 109.46821 * 300.00003 * 21 19 18 38 38 H 1.08993 * 109.46959 * 60.00041 * 21 19 18 39 39 H 1.08002 * 125.96199 * 179.97438 * 24 23 22 40 40 H 1.09001 * 110.06042 * 241.87098 * 28 18 17 41 41 H 1.09001 * 109.84840 * 120.61393 * 28 18 17 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 1.3163 0.0000 0.0000 3 14 2.2503 1.6177 0.0000 4 1 2.4978 2.0464 -1.4000 5 1 1.4478 2.6526 0.7002 6 1 3.5479 1.4401 0.7001 7 6 2.0103 -1.2021 -0.0005 8 1 1.4703 -2.1374 -0.0014 9 16 3.7722 -1.2021 -0.0012 10 6 4.0865 -2.9846 -0.0025 11 6 5.5730 -3.2326 -0.0026 12 8 6.3439 -2.2964 -0.0070 13 7 6.0457 -4.4948 -0.0030 14 6 7.4906 -4.7359 -0.0037 15 1 8.0086 -3.9681 0.5711 16 6 8.0364 -4.7970 -1.4548 17 6 9.2913 -5.6879 -1.2779 18 7 8.9024 -6.6919 -0.2709 19 6 9.4562 -7.9116 -0.1233 20 8 9.0546 -8.6592 0.7433 21 6 10.5746 -8.3468 -1.0349 22 6 11.0124 -9.7400 -0.6632 23 7 10.5122 -10.8685 -1.1649 24 6 11.1145 -11.8983 -0.6278 25 7 12.0291 -11.4387 0.2438 26 1 12.6283 -11.9696 0.7914 27 7 11.9484 -10.0373 0.1995 28 6 7.8100 -6.1406 0.5496 29 1 -0.4850 0.8400 0.0004 30 1 3.6433 -3.4311 -0.8926 31 1 3.6440 -3.4323 0.8874 32 1 5.4290 -5.2435 -0.0036 33 1 7.3152 -5.2663 -2.1240 34 1 8.3094 -3.8039 -1.8117 35 1 9.5471 -6.1741 -2.2193 36 1 10.1310 -5.0932 -0.9185 37 1 10.2254 -8.3393 -2.0674 38 1 11.4156 -7.6613 -0.9308 39 1 10.9122 -12.9364 -0.8464 40 1 8.1251 -6.0663 1.5905 41 1 6.9299 -6.7789 0.4713 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 ZINC001737003219.mol2 41 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 22:34:43 Heat of formation + Delta-G solvation = -8.133306 kcal Electronic energy + Delta-G solvation = -25410.162090 eV Core-core repulsion = 21452.112145 eV Total energy + Delta-G solvation = -3958.049945 eV No. of doubly occupied orbitals = 60 Molecular weight (most abundant/longest-lived isotopes) = 339.115 amu Computer time = 0.63 seconds Orbital eigenvalues (eV) -43.08626 -41.38023 -40.44392 -38.48284 -35.36425 -34.65696 -34.33425 -32.79024 -32.24662 -30.72552 -30.43260 -28.72653 -27.82282 -24.68383 -23.72712 -22.71614 -21.79882 -21.70283 -20.21930 -19.88938 -19.23649 -18.42080 -18.14897 -17.43584 -17.07888 -16.83007 -16.75464 -16.42022 -16.21530 -15.81455 -15.68887 -15.05263 -14.90124 -14.75709 -14.59660 -14.38135 -14.00361 -13.66267 -13.49435 -13.32920 -13.16592 -13.05841 -13.00761 -12.93620 -12.70859 -12.53241 -11.91821 -11.85286 -11.32611 -11.15568 -11.10286 -11.03122 -10.99672 -10.65813 -10.52377 -10.17941 -9.77160 -8.97466 -8.50147 -6.20803 0.62664 0.99453 1.33079 1.44314 1.50988 1.51868 1.55677 1.63004 1.84258 2.03099 2.25985 2.34911 2.73008 2.88240 3.14571 3.28874 3.54841 3.66202 3.76960 3.86034 4.03819 4.15106 4.17828 4.26020 4.30940 4.41253 4.49767 4.51182 4.60514 4.76123 4.79799 4.98959 5.10556 5.18313 5.22885 5.33962 5.43918 5.71817 6.12934 6.25150 6.34475 6.43368 6.94956 7.01386 7.08324 7.16539 8.62235 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.043384 B = 0.001671 C = 0.001641 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 645.243444 B =16756.849217 C =17063.867837 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.918 5.918 2 C 0.045 3.955 3 Si 0.916 3.084 4 H -0.261 1.261 5 H -0.261 1.261 6 H -0.235 1.235 7 C -0.531 4.531 8 H 0.061 0.939 9 S -0.171 6.171 10 C -0.114 4.114 11 C 0.543 3.457 12 O -0.555 6.555 13 N -0.706 5.706 14 C 0.137 3.863 15 H 0.095 0.905 16 C -0.141 4.141 17 C 0.099 3.901 18 N -0.614 5.614 19 C 0.537 3.463 20 O -0.582 6.582 21 C -0.039 4.039 22 C 0.230 3.770 23 N -0.575 5.575 24 C 0.274 3.726 25 N -0.475 5.475 26 H 0.458 0.542 27 N -0.341 5.341 28 C 0.109 3.891 29 H 0.276 0.724 30 H 0.115 0.885 31 H 0.112 0.888 32 H 0.416 0.584 33 H 0.087 0.913 34 H 0.091 0.909 35 H 0.115 0.885 36 H 0.095 0.905 37 H 0.148 0.852 38 H 0.143 0.857 39 H 0.271 0.729 40 H 0.071 0.929 41 H 0.076 0.924 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 27.261 -23.928 -4.610 36.564 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 -0.556 5.556 2 C -0.160 4.160 3 Si 0.737 3.263 4 H -0.186 1.186 5 H -0.185 1.185 6 H -0.159 1.159 7 C -0.679 4.679 8 H 0.079 0.921 9 S 0.056 5.944 10 C -0.265 4.265 11 C 0.329 3.671 12 O -0.432 6.432 13 N -0.360 5.360 14 C 0.031 3.969 15 H 0.113 0.887 16 C -0.180 4.180 17 C -0.023 4.023 18 N -0.348 5.348 19 C 0.326 3.674 20 O -0.461 6.461 21 C -0.081 4.081 22 C -0.054 4.054 23 N -0.304 5.304 24 C -0.024 4.024 25 N -0.195 5.195 26 H 0.306 0.694 27 N -0.171 5.171 28 C -0.015 4.015 29 H 0.086 0.914 30 H 0.133 0.867 31 H 0.130 0.870 32 H 0.254 0.746 33 H 0.105 0.895 34 H 0.110 0.890 35 H 0.133 0.867 36 H 0.113 0.887 37 H 0.166 0.834 38 H 0.161 0.839 39 H 0.287 0.713 40 H 0.090 0.910 41 H 0.094 0.906 Dipole moment (debyes) X Y Z Total from point charges 28.333 -22.235 -4.010 36.238 hybrid contribution -1.421 -1.278 0.622 2.010 sum 26.912 -23.512 -3.388 35.897 Atomic orbital electron populations 1.70024 1.07379 1.29008 1.49163 1.25585 0.95267 1.02325 0.92870 0.85849 0.80678 0.79479 0.80254 1.18577 1.18531 1.15929 1.22487 0.90460 0.96654 1.58259 0.92067 1.84651 1.06180 1.06022 1.97587 1.23286 0.95974 0.99711 1.07506 1.19843 0.89278 0.83119 0.74903 1.90693 1.59097 1.43585 1.49842 1.45681 1.07646 1.07138 1.75525 1.21916 0.80944 0.95928 0.98100 0.88658 1.23215 0.97616 1.01454 0.95708 1.22668 0.97507 0.89309 0.92785 1.48439 1.36376 1.14862 1.35136 1.20351 0.83208 0.79586 0.84284 1.90731 1.64495 1.53687 1.37210 1.19973 0.97951 0.88712 1.01463 1.23704 0.92334 0.96285 0.93063 1.70351 1.30608 0.97978 1.31458 1.27012 0.86416 1.01879 0.87068 1.48033 1.32195 1.04411 1.34860 0.69375 1.77863 1.24074 0.92043 1.23115 1.22013 0.91130 0.93104 0.95228 0.91413 0.86719 0.86996 0.74635 0.89460 0.89034 0.86736 0.88735 0.83436 0.83895 0.71329 0.91049 0.90580 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 -55.67 13.97 21.65 0.30 -55.36 16 2 C 0.04 2.61 5.50 84.86 0.47 3.08 16 3 Si 0.92 44.47 27.74 68.60 1.90 46.37 16 4 H -0.26 -12.33 7.11 99.48 0.71 -11.62 16 5 H -0.26 -11.94 7.11 99.48 0.71 -11.24 16 6 H -0.24 -11.36 6.74 99.48 0.67 -10.69 16 7 C -0.53 -30.58 10.04 67.96 0.68 -29.90 16 8 H 0.06 3.73 8.03 -2.91 -0.02 3.70 16 9 S -0.17 -8.39 18.55 -56.49 -1.05 -9.44 16 10 C -0.11 -4.08 6.16 71.24 0.44 -3.64 16 11 C 0.54 17.05 7.85 87.66 0.69 17.74 16 12 O -0.55 -21.65 15.55 -3.01 -0.05 -21.69 16 13 N -0.71 -14.88 5.19 -436.93 -2.27 -17.14 16 14 C 0.14 2.46 3.26 46.18 0.15 2.61 16 15 H 0.10 2.03 7.63 -2.38 -0.02 2.01 16 16 C -0.14 -1.90 6.77 31.99 0.22 -1.68 16 17 C 0.10 0.87 6.69 86.86 0.58 1.45 16 18 N -0.61 -9.50 3.33 -811.04 -2.70 -12.21 16 19 C 0.54 10.71 7.84 87.66 0.69 11.40 16 20 O -0.58 -17.48 16.36 -3.05 -0.05 -17.53 16 21 C -0.04 -0.53 5.33 29.10 0.16 -0.37 16 22 C 0.23 4.46 6.63 138.63 0.92 5.38 16 23 N -0.57 -10.69 11.19 -191.79 -2.15 -12.83 16 24 C 0.27 2.74 13.13 180.36 2.37 5.10 16 25 N -0.48 -5.22 7.45 -60.48 -0.45 -5.67 16 26 H 0.46 1.38 8.96 -213.10 -1.91 -0.53 16 27 N -0.34 -6.68 12.80 -51.33 -0.66 -7.34 16 28 C 0.11 1.88 6.64 86.67 0.58 2.46 16 29 H 0.28 15.51 8.31 -92.71 -0.77 14.74 16 30 H 0.11 3.75 8.14 -2.39 -0.02 3.73 16 31 H 0.11 3.73 8.14 -2.39 -0.02 3.71 16 32 H 0.42 6.61 8.34 -92.71 -0.77 5.83 16 33 H 0.09 1.14 8.14 -2.39 -0.02 1.13 16 34 H 0.09 1.37 8.14 -2.38 -0.02 1.36 16 35 H 0.11 0.38 7.47 -2.39 -0.02 0.36 16 36 H 0.09 0.60 8.14 -2.39 -0.02 0.58 16 37 H 0.15 1.17 7.85 -2.39 -0.02 1.15 16 38 H 0.14 1.13 8.14 -2.39 -0.02 1.11 16 39 H 0.27 -0.53 8.06 -2.91 -0.02 -0.55 16 40 H 0.07 1.37 8.14 -2.39 -0.02 1.35 16 41 H 0.08 1.33 7.70 -2.39 -0.02 1.31 16 Total: -1.00 -90.90 368.26 -0.86 -91.76 By element: Atomic # 1 Polarization: 9.08 SS G_CDS: -1.63 Total: 7.45 kcal Atomic # 6 Polarization: 5.71 SS G_CDS: 7.93 Total: 13.64 kcal Atomic # 7 Polarization: -102.63 SS G_CDS: -7.92 Total: -110.55 kcal Atomic # 8 Polarization: -39.12 SS G_CDS: -0.10 Total: -39.22 kcal Atomic # 14 Polarization: 44.47 SS G_CDS: 1.90 Total: 46.37 kcal Atomic # 16 Polarization: -8.39 SS G_CDS: -1.05 Total: -9.44 kcal Total: -90.90 -0.86 -91.76 kcal The number of atoms in the molecule is 41 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. ZINC001737003219.mol2 41 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 83.623 kcal (2) G-P(sol) polarization free energy of solvation -90.897 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system -7.274 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -0.859 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -91.756 kcal (6) G-S(sol) free energy of system = (1) + (5) -8.133 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.63 seconds