Wall clock time and date at job start Tue Mar 31 2020 22:35:03 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 1.31625 * 1 3 3 Si 1.86802 * 120.00129 * 2 1 4 4 H 1.48492 * 109.47229 * 240.00234 * 3 2 1 5 5 H 1.48499 * 109.46903 * 0.02562 * 3 2 1 6 6 H 1.48498 * 109.46724 * 120.00348 * 3 2 1 7 7 C 1.38804 * 119.99988 * 180.02562 * 2 1 3 8 8 H 1.08003 * 120.00151 * 180.02562 * 7 2 1 9 9 S 1.76200 * 119.99728 * 359.97438 * 7 2 1 10 10 C 1.81011 * 99.99882 * 180.02562 * 9 7 2 11 11 C 1.50698 * 109.47042 * 180.02562 * 10 9 7 12 12 O 1.21280 * 119.99935 * 359.97438 * 11 10 9 13 13 N 1.34774 * 119.99682 * 180.02562 * 11 10 9 14 14 C 1.46506 * 119.99683 * 180.02562 * 13 11 10 15 15 C 1.50699 * 109.46624 * 179.97438 * 14 13 11 16 16 C 1.31003 * 119.99936 * 127.00764 * 15 14 13 17 17 C 1.50703 * 119.99737 * 7.55411 * 16 15 14 18 18 N 1.46501 * 109.46800 * 127.15817 * 17 16 15 19 19 C 1.34778 * 119.99827 * 179.97438 * 18 17 16 20 20 O 1.21283 * 120.00057 * 359.97438 * 19 18 17 21 21 C 1.50695 * 119.99991 * 180.02562 * 19 18 17 22 22 C 1.50706 * 109.47378 * 179.97438 * 21 19 18 23 23 N 1.33243 * 125.52724 * 269.69764 * 22 21 19 24 24 C 1.30836 * 109.82396 * 179.85153 * 23 22 21 25 25 N 1.34427 * 108.07914 * 0.40208 * 24 23 22 26 26 H 0.96996 * 126.82123 * 179.78728 * 25 24 23 27 27 N 1.30708 * 125.52373 * 89.99560 * 22 21 19 28 28 H 0.97006 * 120.00277 * 359.97438 * 1 2 3 29 29 H 1.09001 * 109.46824 * 60.00208 * 10 9 7 30 30 H 1.08996 * 109.46931 * 300.00419 * 10 9 7 31 31 H 0.97003 * 120.00101 * 359.97438 * 13 11 10 32 32 H 1.08996 * 109.46849 * 60.00044 * 14 13 11 33 33 H 1.08993 * 109.46916 * 299.99620 * 14 13 11 34 34 H 1.07997 * 120.00460 * 307.00061 * 15 14 13 35 35 H 1.08000 * 120.00114 * 187.56023 * 16 15 14 36 36 H 1.08997 * 109.47277 * 7.15687 * 17 16 15 37 37 H 1.09007 * 109.46867 * 247.15586 * 17 16 15 38 38 H 0.97001 * 120.00332 * 0.02562 * 18 17 16 39 39 H 1.09000 * 109.47327 * 300.00035 * 21 19 18 40 40 H 1.09006 * 109.47194 * 60.00235 * 21 19 18 41 41 H 1.07997 * 125.95670 * 180.12363 * 24 23 22 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 1.3162 0.0000 0.0000 3 14 2.2503 1.6177 0.0000 4 1 3.1040 1.6964 -1.2125 5 1 1.2853 2.7464 0.0006 6 1 3.1041 1.6962 1.2125 7 6 2.0103 -1.2021 -0.0005 8 1 3.0903 -1.2021 -0.0001 9 16 1.1292 -2.7280 -0.0005 10 6 2.5158 -3.8915 -0.0005 11 6 1.9873 -5.3028 -0.0012 12 8 0.7910 -5.5023 -0.0011 13 7 2.8440 -6.3432 -0.0008 14 6 2.3302 -7.7152 -0.0019 15 6 3.4847 -8.6838 -0.0018 16 6 3.5469 -9.6285 0.9036 17 6 2.3858 -9.8552 1.8371 18 7 1.9908 -11.2652 1.7917 19 6 0.9668 -11.7030 2.5508 20 8 0.3726 -10.9297 3.2719 21 6 0.5608 -13.1535 2.5045 22 6 -0.5996 -13.3805 3.4389 23 7 -0.5042 -13.7219 4.7233 24 6 -1.6999 -13.8351 5.2423 25 7 -2.5995 -13.5717 4.2789 26 1 -3.5654 -13.5809 4.3672 27 7 -1.8630 -13.2797 3.1192 28 1 -0.4851 0.8401 0.0004 29 1 3.1243 -3.7315 0.8895 30 1 3.1244 -3.7314 -0.8905 31 1 3.8008 -6.1835 -0.0004 32 1 1.7225 -7.8747 -0.8926 33 1 1.7207 -7.8756 0.8873 34 1 4.2606 -8.5993 -0.7482 35 1 4.4304 -10.2448 0.9811 36 1 1.5456 -9.2324 1.5299 37 1 2.6800 -9.5928 2.8534 38 1 2.4667 -11.8839 1.2158 39 1 0.2664 -13.4162 1.4885 40 1 1.4013 -13.7760 2.8118 41 1 -1.9248 -14.0991 6.2651 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 ZINC001533385384.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 22:35:03 Heat of formation + Delta-G solvation = 1.001042 kcal Electronic energy + Delta-G solvation = -24517.077878 eV Core-core repulsion = 20559.424028 eV Total energy + Delta-G solvation = -3957.653850 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) -43.08320 -40.82209 -40.55430 -37.77507 -35.73991 -34.58967 -34.39026 -33.81222 -32.69133 -31.14498 -30.24279 -27.85326 -27.45443 -25.96645 -23.79088 -22.43022 -21.84087 -21.19528 -20.25440 -19.62429 -19.23977 -18.19714 -17.94680 -17.68762 -16.88887 -16.82447 -16.71405 -16.62956 -16.19237 -16.13124 -15.71142 -15.39200 -14.86309 -14.72730 -14.53452 -14.41799 -14.31008 -14.09669 -13.53716 -13.22186 -13.17564 -13.13561 -12.97121 -12.86084 -12.62702 -11.93443 -11.74198 -11.36691 -11.13125 -11.12380 -11.09559 -11.01469 -10.69768 -10.42938 -10.29090 -10.28278 -9.81618 -8.68134 -8.34625 -6.13568 0.62342 0.85120 1.28814 1.44216 1.47990 1.57507 1.58062 1.59063 1.74031 1.84484 2.27200 2.36132 2.52536 2.99354 3.16132 3.32710 3.64080 3.67185 3.87970 3.95559 4.03318 4.11705 4.17676 4.29409 4.41048 4.45155 4.50118 4.57216 4.67283 4.71746 4.96674 5.21555 5.30021 5.35724 5.37808 5.41163 5.49139 5.74020 6.19323 6.23820 6.50323 6.52418 7.06139 7.07437 7.22853 7.23528 8.74451 Molecular weight = 339.12amu Principal moments of inertia in cm(-1) A = 0.017290 B = 0.001603 C = 0.001501 Principal moments of inertia in units of 10**(-40)*gram-cm**2 A = 1619.049965 B =17458.683174 C =18649.410210 Net atomic charges, atomic populations, and dipole contributions calculated with CM2 Atom NO. Type Charge No. of electrons 1 N -0.912 5.912 2 C 0.012 3.988 3 Si 1.001 2.999 4 H -0.260 1.260 5 H -0.279 1.279 6 H -0.262 1.262 7 C -0.547 4.547 8 H 0.085 0.915 9 S -0.157 6.157 10 C -0.128 4.128 11 C 0.530 3.470 12 O -0.570 6.570 13 N -0.706 5.706 14 C 0.129 3.871 15 C -0.142 4.142 16 C -0.137 4.137 17 C 0.129 3.871 18 N -0.705 5.705 19 C 0.515 3.485 20 O -0.588 6.588 21 C -0.043 4.043 22 C 0.228 3.772 23 N -0.573 5.573 24 C 0.273 3.727 25 N -0.477 5.477 26 H 0.457 0.543 27 N -0.345 5.345 28 H 0.271 0.729 29 H 0.111 0.889 30 H 0.114 0.886 31 H 0.419 0.581 32 H 0.064 0.936 33 H 0.060 0.940 34 H 0.156 0.844 35 H 0.163 0.837 36 H 0.055 0.945 37 H 0.064 0.936 38 H 0.424 0.576 39 H 0.145 0.855 40 H 0.154 0.846 41 H 0.271 0.729 For the charges calculated by CM2: Dipole moment (debyes) X Y Z Total from point charges 9.045 -34.105 5.103 35.651 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 -0.549 5.549 2 C -0.193 4.193 3 Si 0.822 3.178 4 H -0.185 1.185 5 H -0.205 1.205 6 H -0.186 1.186 7 C -0.695 4.695 8 H 0.103 0.897 9 S 0.070 5.930 10 C -0.279 4.279 11 C 0.316 3.684 12 O -0.448 6.448 13 N -0.361 5.361 14 C 0.006 3.994 15 C -0.161 4.161 16 C -0.156 4.156 17 C 0.006 3.994 18 N -0.358 5.358 19 C 0.301 3.699 20 O -0.467 6.467 21 C -0.084 4.084 22 C -0.055 4.055 23 N -0.302 5.302 24 C -0.025 4.025 25 N -0.197 5.197 26 H 0.305 0.695 27 N -0.175 5.175 28 H 0.080 0.920 29 H 0.129 0.871 30 H 0.132 0.868 31 H 0.257 0.743 32 H 0.082 0.918 33 H 0.078 0.922 34 H 0.174 0.826 35 H 0.181 0.819 36 H 0.073 0.927 37 H 0.083 0.917 38 H 0.262 0.738 39 H 0.163 0.837 40 H 0.172 0.828 41 H 0.287 0.713 Dipole moment (debyes) X Y Z Total from point charges 6.582 -33.690 5.059 34.698 hybrid contribution 0.954 1.272 0.184 1.601 sum 7.536 -32.418 5.243 33.693 Atomic orbital electron populations 1.70188 1.08064 1.28681 1.47948 1.26170 0.95976 1.03441 0.93693 0.84973 0.77763 0.75508 0.79556 1.18467 1.20460 1.18649 1.23185 0.95402 0.91872 1.59001 0.89705 1.85651 1.10827 0.99472 1.97078 1.23364 1.03466 0.94026 1.07019 1.20163 0.86225 0.86889 0.75116 1.90704 1.17692 1.86159 1.50284 1.45663 1.10435 1.04564 1.75405 1.20590 0.96576 0.80278 1.01943 1.22932 0.98354 0.95751 0.99096 1.22963 0.98146 1.00425 0.94045 1.20494 0.96548 0.82508 0.99865 1.45648 1.34167 1.10640 1.45382 1.20811 0.79550 0.90537 0.78983 1.90761 1.55142 1.58798 1.42024 1.20029 0.95024 0.93237 1.00129 1.23838 0.92543 0.97206 0.91956 1.70348 1.26198 1.25085 1.08616 1.27018 0.83460 0.93570 0.98461 1.48041 1.11679 1.53067 1.06875 0.69478 1.77878 1.05635 1.25489 1.08483 0.92010 0.87100 0.86782 0.74292 0.91805 0.92208 0.82631 0.81931 0.92672 0.91746 0.73778 0.83724 0.82792 0.71328 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 -0.91 -57.07 13.22 21.65 0.29 -56.79 16 2 C 0.01 0.68 5.49 84.86 0.47 1.15 16 3 Si 1.00 44.03 29.55 68.60 2.03 46.06 16 4 H -0.26 -10.78 7.11 99.48 0.71 -10.08 16 5 H -0.28 -12.01 7.11 99.48 0.71 -11.30 16 6 H -0.26 -10.92 7.11 99.48 0.71 -10.21 16 7 C -0.55 -31.66 9.50 67.96 0.65 -31.02 16 8 H 0.08 4.51 7.80 -2.91 -0.02 4.49 16 9 S -0.16 -8.97 20.57 -56.49 -1.16 -10.13 16 10 C -0.13 -5.14 6.16 71.24 0.44 -4.70 16 11 C 0.53 20.24 7.85 87.66 0.69 20.93 16 12 O -0.57 -27.87 15.86 -3.03 -0.05 -27.91 16 13 N -0.71 -17.88 5.55 -466.79 -2.59 -20.47 16 14 C 0.13 2.91 5.76 85.63 0.49 3.41 16 15 C -0.14 -1.66 9.63 25.64 0.25 -1.41 16 16 C -0.14 -1.30 9.63 25.64 0.25 -1.05 16 17 C 0.13 2.21 5.76 85.63 0.49 2.71 16 18 N -0.70 -9.30 5.55 -466.78 -2.59 -11.89 16 19 C 0.52 10.52 7.82 87.66 0.69 11.21 16 20 O -0.59 -19.41 16.03 -3.04 -0.05 -19.46 16 21 C -0.04 -0.57 6.33 29.10 0.18 -0.38 16 22 C 0.23 4.82 6.63 138.63 0.92 5.74 16 23 N -0.57 -11.56 11.19 -191.80 -2.15 -13.70 16 24 C 0.27 3.34 13.13 180.36 2.37 5.71 16 25 N -0.48 -6.64 7.45 -60.49 -0.45 -7.09 16 26 H 0.46 2.87 8.96 -213.10 -1.91 0.96 16 27 N -0.34 -7.72 12.80 -51.33 -0.66 -8.38 16 28 H 0.27 15.76 8.31 -92.70 -0.77 14.98 16 29 H 0.11 4.00 8.14 -2.39 -0.02 3.98 16 30 H 0.11 4.04 8.14 -2.40 -0.02 4.02 16 31 H 0.42 7.21 8.46 -92.71 -0.78 6.43 16 32 H 0.06 1.61 8.14 -2.39 -0.02 1.59 16 33 H 0.06 1.65 5.30 -2.39 -0.01 1.63 16 34 H 0.16 0.97 8.06 -2.91 -0.02 0.95 16 35 H 0.16 0.44 8.06 -2.91 -0.02 0.41 16 36 H 0.06 1.33 5.30 -2.39 -0.01 1.31 16 37 H 0.06 1.30 8.14 -2.38 -0.02 1.28 16 38 H 0.42 1.76 8.46 -92.71 -0.78 0.98 16 39 H 0.14 1.11 8.14 -2.39 -0.02 1.09 16 40 H 0.15 1.00 8.14 -2.38 -0.02 0.99 16 41 H 0.27 0.04 8.06 -2.91 -0.02 0.02 16 Total: -1.00 -102.09 378.39 -1.87 -103.96 By element: Atomic # 1 Polarization: 15.88 SS G_CDS: -2.36 Total: 13.52 kcal Atomic # 6 Polarization: 4.41 SS G_CDS: 7.88 Total: 12.29 kcal Atomic # 7 Polarization: -110.17 SS G_CDS: -8.15 Total: -118.31 kcal Atomic # 8 Polarization: -47.28 SS G_CDS: -0.10 Total: -47.38 kcal Atomic # 14 Polarization: 44.03 SS G_CDS: 2.03 Total: 46.06 kcal Atomic # 16 Polarization: -8.97 SS G_CDS: -1.16 Total: -10.13 kcal Total: -102.09 -1.87 -103.96 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. ZINC001533385384.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 104.960 kcal (2) G-P(sol) polarization free energy of solvation -102.091 kcal (3) G-ENP(sol) elect.-nuc.-pol. free energy of system 2.868 kcal (4) G-CDS(sol) cavity-dispersion-solvent structure free energy -1.867 kcal (5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -103.958 kcal (6) G-S(sol) free energy of system = (1) + (5) 1.001 kcal 1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED Total computer time = 0.63 seconds